Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 263 of 295
Found at i:90428075 original size:29 final size:31
Alignment explanation
Indices: 90428015--90428076 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
90428005 AGTTAACATA
* * * *
90428015 AATTTTGATTTAATGTGTAATTGTATACATG
1 AATTTTAATTTAATGTGTAATTATACAAATG
90428046 AATTTTAATTT-A-GTGTAATTATACAAATG
1 AATTTTAATTTAATGTGTAATTATACAAATG
90428075 AA
1 AA
90428077 ACTCTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.59
30 1 0.04
31 10 0.37
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (31 bp):
AATTTTAATTTAATGTGTAATTATACAAATG
Found at i:90432492 original size:24 final size:24
Alignment explanation
Indices: 90432458--90432510 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
90432448 ATTCATAGGT
* * *
90432458 TAAATAAATTATGCTGATAAATGC
1 TAAATAAATTATACTAATAAATAC
*
90432482 TAAATATATTATACTAATAAATAC
1 TAAATAAATTATACTAATAAATAC
90432506 TAAAT
1 TAAAT
90432511 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATAC
Found at i:90438485 original size:95 final size:95
Alignment explanation
Indices: 90438320--90438508 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 95
90438310 CATTCGGCCC
* * *
90438320 ACGCCTGTGTGGCTTGGGTGTGTGGGCACACACGGACTTAGTGTACGGCCGTGTCTTGCTTCTTT
1 ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGACTTAGTGCACGGCCGTGTCTTGCTTCTTT
*
90438385 CGCTTCTCCCACGCTCGTGTACATAGGTCT
66 CGCTTCTCCCACGCCCGTGTACATAGGTCT
* *
90438415 ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGCCTTAGTGCACGGCTGTGTCTTGCTT-TAT
1 ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGACTTAGTGCACGGCCGTGTCTTGCTTCT-T
*
90438479 TTGCTTCTCCCACGCCCGTGTACATAGGTC
65 TCGCTTCTCCCACGCCCGTGTACATAGGTC
90438509 CATACCTGTG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 1 0.01
95 85 0.99
ACGTcount: A:0.12, C:0.29, G:0.30, T:0.30
Consensus pattern (95 bp):
ACGCCCGTGTGGCTTGGGCGTGTGGGCACACACGGACTTAGTGCACGGCCGTGTCTTGCTTCTTT
CGCTTCTCCCACGCCCGTGTACATAGGTCT
Found at i:90444397 original size:40 final size:42
Alignment explanation
Indices: 90444347--90444436 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 42
90444337 CTACCCCAAT
90444347 ACCCAATACAGCCCAA-TGCAAA-CA-CAACCCAAA-CAAACTA
1 ACCCAATACAGCCCAACT--AAATCACCAACCCAAACCAAACTA
* *
90444387 ACCCATTACAGCCCAACTAAATCACCAACCCAAACCCAACTA
1 ACCCAATACAGCCCAACTAAATCACCAACCCAAACCAAACTA
90444429 ACCCAATA
1 ACCCAATA
90444437 GTCAAACTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
39 3 0.07
40 17 0.40
41 10 0.23
42 13 0.30
ACGTcount: A:0.47, C:0.40, G:0.03, T:0.10
Consensus pattern (42 bp):
ACCCAATACAGCCCAACTAAATCACCAACCCAAACCAAACTA
Found at i:90445497 original size:3 final size:3
Alignment explanation
Indices: 90445489--90445645 Score: 131
Period size: 3 Copynumber: 53.0 Consensus size: 3
90445479 TAATTATTTC
** * * *
90445489 TAT TAT TAT TAT TAT TAT TGC TAC TAT TAT CAT TAC TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * * *
90445535 TAC CAT TAT TAT TAC TAT TAT TTT TAT TTT TAT TAC TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
90445582 T-T TTT TAT TAC TAT TAT CAT TAT TAT TAT TAT TAT TAT TAC TAT T-G
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
90445628 TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
90445646 ATTTTCATCT
Statistics
Matches: 119, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
2 5 0.04
3 112 0.94
4 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:90445746 original size:3 final size:3
Alignment explanation
Indices: 90445738--90445922 Score: 61
Period size: 3 Copynumber: 62.7 Consensus size: 3
90445728 TTTATATTTC
*
90445738 TAT TAT TAT TA- TAT T-T TAT GTAT TAT ATCT CTAT T-T ATATT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT -TAT TAT -TA-T TAT
* * ** *
90445782 GTAT TAA TAT CAT TAT T-T TAT TAT TGC TAT TTT TA- TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
90445826 TAG CAT TA- TATT TAT TAT T-T T-T TAC TAT TGTT TAT TAT CT-T TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT -TAT TAT
* * * * * *
90445870 TAA CAT TAT TAC TGT CAT T-T TAT TAT TAT TAT TAT TAT TAC T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90445916 T-T TAT TA
1 TAT TAT TA
90445923 AATATTTTCT
Statistics
Matches: 130, Mismatches: 33, Indels: 38
0.65 0.16 0.19
Matches are distributed among these distances:
2 21 0.16
3 91 0.70
4 17 0.13
5 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:90445749 original size:17 final size:17
Alignment explanation
Indices: 90445712--90445763 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
90445702 ATTTGTCTAT
90445712 TTATATTTC-A-TATCTA
1 TTATATTTCTATTAT-TA
90445728 TTTATATTTCTATTATTA
1 -TTATATTTCTATTATTA
90445746 TTATATTT-TATGTATTA
1 TTATATTTCTAT-TATTA
90445763 T
1 T
90445764 ATCTCTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.09
17 23 0.72
18 3 0.09
19 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATTTCTATTATTA
Found at i:90445798 original size:26 final size:25
Alignment explanation
Indices: 90445742--90445803 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
90445732 TATTTCTATT
90445742 ATTA-TTATATTTTATGTATTATATC
1 ATTATTTATA-TTTATGTATTATATC
90445767 -TCTATTTATATTTATGTATTAATATC
1 AT-TATTTATATTTATGTATT-ATATC
90445793 ATTATTT-TATT
1 ATTATTTATATT
90445804 ATTGCTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 1 0.03
25 16 0.48
26 15 0.45
27 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
ATTATTTATATTTATGTATTATATC
Found at i:90445892 original size:29 final size:28
Alignment explanation
Indices: 90445866--90445922 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
90445856 TTTATTATCT
90445866 TTATTAACATTATTACTGTCATTTTATTA
1 TTATTAACATTATTACT-TCATTTTATTA
** *
90445895 TTATTATTATTATTACTTTATTTTATTA
1 TTATTAACATTATTACTTCATTTTATTA
90445923 AATATTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTAACATTATTACTTCATTTTATTA
Found at i:90457825 original size:181 final size:181
Alignment explanation
Indices: 90457394--90457831 Score: 617
Period size: 181 Copynumber: 2.4 Consensus size: 181
90457384 CGATGAATCC
* * *
90457394 ACAAGTCTTATCTCCCTAAAATTGCAGTGGAGCAGACTAAAGATAGCGAATCTTA-CTTCCCTGA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATC-TCCCTGA
* * * *
90457458 AGTTGCGGTGGAACAGATTGAAGCTATAAATTACAGATTTTATCTCTCTGAAGTTGCAGTAGAGC
65 AGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTTATCTATCTGAAGTTGCAGTAGAGC
* *
90457523 AGATCAAAACAAACCTTATCTCCCTGAGGTTGTAGTGGAGCAGGTTGAAATT
130 AGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATT
* ** * * * *
90457575 ATAAGTCTTATCTCCCTGAAGTTAAAGTGGACCAGACTGAAGATAGCGAATATTATTTCCCTCAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAA
* * *
90457640 GTTGCAATGGAACAAATTGAAGCTATAAATTATAGATCTTATTTATCTGAAGTTGCAGTAGAGCA
66 GTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTTATCTATCTGAAGTTGCAGTAGAGCA
*
90457705 GATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAATT
131 GATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATT
* * * * * * *
90457756 ACAAATCTCATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAATCCTATCTCCTTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAA
90457821 GTTGCAGTGGA
66 GTTGCAGTGGA
90457832 GTAGATTAAA
Statistics
Matches: 221, Mismatches: 35, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
181 221 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (181 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCCTGAA
GTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCTTATCTATCTGAAGTTGCAGTAGAGCA
GATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATT
Found at i:90457963 original size:44 final size:44
Alignment explanation
Indices: 90457689--90458206 Score: 235
Period size: 44 Copynumber: 11.7 Consensus size: 44
90457679 TATTTATCTG
* * ** *
90457689 AAGTTGCAGTAGAGCAGATCAAA---ACAAACCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTA
* * * * * *
90457730 AAGTTGCAGTGGAGTAGGTTGAAA-TTACAAATCTCATCTCCCTG
1 AAGTTGCAGTGGAGCAGATT-AAAGCTACAAGTCTTATCTCCCTA
* * * ** * * *
90457774 AAGTTGCAGCGGAGCAGACTGAAGAAAGCTAA-TCCTATCTCCTTG
1 AAGTTGCAGTGGAGCAGATTAAAGCTA-C-AAGTCTTATCTCCCTA
* * * * * *
90457819 AAGTTGCAGTGGAGTAGATTAAAACGACGAGTCTTATAC-CTCTG
1 AAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTAT-CTCCCTA
* * * * *
90457863 AAGTTGCAGTAGG-TCGGATCAAATCTACCATGGCAAATCTTATCAT-CCTA
1 AAGTTGCAGT-GGAGCAGATTAAAGCT---A---CAAGTCTTATC-TCCCTA
*
90457913 AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTA
* * * * * *
90457957 AAGTTGCAGAGGAGCAGACTGGATACAGCT--GA-TCTTTTCTCTCTG
1 AAGTTGCAGTGGAGCAGA-T---TAAAGCTACAAGTCTTATCTCCCTA
* * * **
90458002 AAGTTGCAGTAGAGCAAATCAAA---ACAAACCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTA
* * *
90458043 AAGTTACAGTGGAGCAGGTTGAAA-TTACAAGTCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATT-AAAGCTACAAGTCTTATCTCCCTA
* * *
90458087 AAGTTGCAGTGGAGTAGACTAAAGATACCAA-TCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTAAAGCTA-CAAGTCTTATCTCCCTA
* * * * *
90458131 AAGTTACAGCGGAGCAGATTGAAGCTACTAA-TCCTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGCTAC-AAGTCTTATCTCCCTA
* *
90458175 AAGTTGCAGTGGAGC-GAATTAAGGCGACAAGT
1 AAGTTGCAGTGGAGCAG-ATTAAAGCTACAAGT
90458207 TCTATACCTC
Statistics
Matches: 358, Mismatches: 85, Indels: 65
0.70 0.17 0.13
Matches are distributed among these distances:
40 1 0.00
41 42 0.12
42 6 0.02
43 11 0.03
44 194 0.54
45 63 0.18
46 3 0.01
47 2 0.01
48 5 0.01
49 3 0.01
50 28 0.08
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTA
Found at i:90457963 original size:183 final size:173
Alignment explanation
Indices: 90457685--90458237 Score: 473
Period size: 183 Copynumber: 3.1 Consensus size: 173
90457675 ATCTTATTTA
* * *
90457685 TCTGAAGTTGCAGTAGAG-CAGATCAAA--ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAG
1 TCTGAAGTTGCAGTAG-GTCGGATCAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAG
* * * *
90457747 GTTGAAA-TTACAAATCTCATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAATCCTA
65 ATT-AAAGATAC-AATCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAATCCTA
90457811 TCTCCTTGAAGTTGCAGTGGAGTAGATTAAAACGACGAGTCTTATACC
128 TCTCCTTGAAGTTGCAGTGGAG-AGATTAAAACGAC-AGTCTTATACC
90457859 TCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCAAATCTTATCAT-CCTAAAGTTGCAGT
1 TCTGAAGTTGCAGTAGGTCGGATCAAAT-T---A---CAAATCTTATC-TCCCTAAAGTTGCAGT
* ** * * * * *
90457923 GGAGCAGATTAAAGCCACAAGTCTTATCTCCCTAAAGTTGCAGAGGAGCAGACTGGATACAGCTG
58 GGAGTAGATTAAAGATACAA-TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGAAAGCTA
* * * * * **
90457988 ATCTTTTCT-CTCTGAAGTTGCAGTAGAGCAAATCAAAAC-A-AACCTTAT-CTC
122 ATCCTATCTCCT-TGAAGTTGCAGTGGAG-AGATTAAAACGACAGTCTTATAC-C
* * * * * * *
90458039 CCTAAAGTTACAGT-GGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTA
1 TCTGAAGTTGCAGTAGG-TC-GGATCAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTA
* * * **
90458103 GACTAAAGATACCAATCTTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGCTA-CTAATCCTA
64 GATTAAAGATA-CAATCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAATCCTA
* * **
90458167 TCTCCCTGAAGTTGCAGTGGAGCGAATTAAGGCGACAAGT-TCTATACC
128 TCTCCTTGAAGTTGCAGTGGAGAG-ATTAAAACGAC-AGTCT-TATACC
90458215 TCTGAAGTTGCAGTAGGTCGGAT
1 TCTGAAGTTGCAGTAGGTCGGAT
90458238 TAAAGCTAAA
Statistics
Matches: 295, Mismatches: 57, Indels: 53
0.73 0.14 0.13
Matches are distributed among these distances:
173 31 0.11
174 96 0.33
175 7 0.02
176 17 0.06
177 4 0.01
179 3 0.01
180 21 0.07
181 7 0.02
182 8 0.03
183 100 0.34
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (173 bp):
TCTGAAGTTGCAGTAGGTCGGATCAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA
TTAAAGATACAATCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAATCCTATCT
CCTTGAAGTTGCAGTGGAGAGATTAAAACGACAGTCTTATACC
Found at i:90459703 original size:3 final size:3
Alignment explanation
Indices: 90459695--90460124 Score: 100
Period size: 3 Copynumber: 145.0 Consensus size: 3
90459685 TTTAGTCATT
** * *
90459695 TTA TTA TTA AAA TTAA TTAA TTTA TTA TT- TCTA TTA TTA TTA TTG CTA
1 TTA TTA TTA TTA TT-A TT-A TT-A TTA TTA T-TA TTA TTA TTA TTA TTA
* * * ** ** *
90459743 CTA TTA TCA TTA CTA TTTA TTA TTA CCA TTA TTA TTA CAA TTA TTT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
90459789 TTA TTT TTA TTA CCA TTA CTA -TA TTA TT- TT- TTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
90459832 CTA CTA CTA CTA CTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
90459879 TT- TTCA TCTA -TA TTTA TT- TTC TTA TT- CTA GTA CTA TTA TTA TTTA
1 TTA TT-A T-TA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
90459924 TT- TATA TT- TCTG TTA TTA TTA -TA TT- TTA TGTA TTA TATC TCTA
1 TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA T-TA
* * * * *
90459967 TT- TATA TTTA TATA TTA ATA TCA TTA TT- TTA CTA TTG CTA TT- TT-
1 TTA T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
90460011 TTA -TA TTA TTA TTA TCA GCA TTA -TA GTTA TTA TT- TTT TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * ** * * *
90460054 TTGT TTA TTA TCT- TTA CTA ACA TTA TTA CTA TCA TT- TT- TTA CTA
1 TT-A TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
90460098 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
90460125 AATATTTTCT
Statistics
Matches: 316, Mismatches: 73, Indels: 76
0.68 0.16 0.16
Matches are distributed among these distances:
2 44 0.14
3 231 0.73
4 39 0.12
5 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:90459994 original size:26 final size:26
Alignment explanation
Indices: 90459938--90459995 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
90459928 TATTTCTGTT
*
90459938 ATTA-TTATATTTTATGTATTATATC
1 ATTATTTATATTTTATATATTATATC
90459963 -TCTATTTATA-TTTATATATTAATATC
1 AT-TATTTATATTTTATATATT-ATATC
90459989 ATTATTT
1 ATTATTT
90459996 TACTATTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTATTTATATTTTATATATTATATC
Found at i:90463438 original size:28 final size:28
Alignment explanation
Indices: 90463385--90463447 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
90463375 AGAAAATTTA
*
90463385 AAATTAAAACTAAGAAATGAAGAAAATT
1 AAATTAAAACTAAGAAATGAAAAAAATT
90463413 AAATTGAAAACT-AGCAAA-GAAAAAAA-T
1 AAATT-AAAACTAAG-AAATGAAAAAAATT
90463440 -AATTAAAA
1 AAATTAAAA
90463448 TTGGGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 4 0.12
26 4 0.12
27 1 0.03
28 14 0.44
29 9 0.28
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.19
Consensus pattern (28 bp):
AAATTAAAACTAAGAAATGAAAAAAATT
Found at i:90463944 original size:23 final size:23
Alignment explanation
Indices: 90463917--90463962 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
90463907 AGAACACTTC
*
90463917 GATCTCACAAACTTTATAGAATT
1 GATCTCACAAACTTTATAAAATT
*
90463940 GATCTCACAAATTTTATAAAATT
1 GATCTCACAAACTTTATAAAATT
90463963 AAACTCCGAA
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:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (23 bp):
GATCTCACAAACTTTATAAAATT
Found at i:90469702 original size:16 final size:15
Alignment explanation
Indices: 90469681--90469732 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
90469671 TTCGTACGAT
90469681 TAAATTTAATATTTTA
1 TAAATTT-ATATTTTA
90469697 TAAATTTATGATTTATA
1 TAAATTTAT-ATTT-TA
**
90469714 TTATTTTTATATTTTA
1 -TAAATTTATATTTTA
90469730 TAA
1 TAA
90469733 TTGGAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.13
16 13 0.43
17 6 0.20
18 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TAAATTTATATTTTA
Found at i:90482505 original size:47 final size:47
Alignment explanation
Indices: 90482451--90482723 Score: 191
Period size: 47 Copynumber: 5.7 Consensus size: 47
90482441 GGTAAGATGC
*
90482451 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTTATATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCAAGT
* ** ** *
90482498 CGATGCCATGTCCCAGACATTGTCTTACACTAAC-TATCATCATCGGGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTAT-ATC-TCAAGT
* * * ** *
90482546 CTGACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATACCCGTGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATAT-CTCAAGT
* * * * *
90482597 CAATGCCATGTCCCAGACACGGTCTTACACTGGC--ACATTTCGTAG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTC-AAGT
* * * * *
90482642 CTGATG-CATGTCCCAGACAT-ATCTTACAGTAGCACT-TGTCTCAATGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTATATCTCAA-GT
*
90482689 CGATGCCATGTCCCATACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
90482724 CTCATAATGT
Statistics
Matches: 174, Mismatches: 36, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 19 0.11
47 47 0.27
48 14 0.08
49 29 0.17
50 30 0.17
51 7 0.04
52 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCAAGT
Found at i:90488969 original size:47 final size:48
Alignment explanation
Indices: 90488913--90489329 Score: 285
Period size: 47 Copynumber: 8.8 Consensus size: 48
90488903 TGGGTAAGAT
* *
90488913 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAG
* * *** *
90488960 GTCGATGCCATGTCCCAGACATTGTCTTACACTAAAT-ATCATCATCGGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TC-AG
*
90489009 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCA-CATACCCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-T--CAG
* * * ** *
90489058 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGGCACATTTTGT-A-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAG
* * * * * ** *
90489105 GCTGATG-CATGTCCCAGACAT-GTCTTATAGTAGCAC-TTGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AG
* **
90489151 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAG
* * *
90489199 GCCGATG-CATGTCCCTGACATGGTCTTACATTGGCTC-TCATAAT-ATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCA-G
* * * *
90489246 GTCGATG-CATGTCCCTGACATGGTCTTACATTGGCTC-TCATAAT-ATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCA-G
* *
90489293 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
90489330 CACAAATGAC
Statistics
Matches: 308, Mismatches: 45, Indels: 34
0.80 0.12 0.09
Matches are distributed among these distances:
43 4 0.01
44 12 0.04
45 14 0.05
46 26 0.08
47 152 0.49
48 25 0.08
49 37 0.12
50 36 0.12
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAG
Found at i:90489257 original size:94 final size:95
Alignment explanation
Indices: 90488913--90489328 Score: 370
Period size: 94 Copynumber: 4.4 Consensus size: 95
90488903 TGGGTAAGAT
* * *
90488913 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATC-TCA-AGTCGATGCCATGTCC
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCATCAT-ATGGCCGATGCCATGTCC
* *** * * *
90488975 CAGACATTGTCTTACACTAAATATCATCATCGGG
63 CAGACATGGTCTTACACTGGCTCTCATAAT-GTG
* *
90489009 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CATACCCGTGCCAATGCCATGTC
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCATA--TG-GCCGATGCCATGTC
* * ** *
90489073 CTAGACATGGTCTTACACTGG--CACATTTTGTA
62 CCAGACATGGTCTTACACTGGCTCTCATAATGTG
* * * * *
90489105 GCTGATGCATGTCCCAGACAT-GTCTTATAGTAGCACTTGTC-TCA-AT-GCCGATGCCATGTCC
1 GCCGATGCATGTCCCAGACATGGTCTTACACT-G-GC-TCTCATCATATGGCCGATGCCATGTCC
90489166 CAGACATGGTCTTACACTGGCTCTCATAATGTG
63 CAGACATGGTCTTACACTGGCTCTCATAATGTG
* * * * *
90489199 GCCGATGCATGTCCCTGACATGGTCTTACATTGGCTCTCATAATATGGTCGATG-CATGTCCCTG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATATGGCCGATGCCATGTCCCAG
* *
90489263 ACATGGTCTTACATTGGCTCTCATAATATG
66 ACATGGTCTTACACTGGCTCTCATAATGTG
* *
90489293 GTCGATGCATGTCCCAGACAT-GTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTC
90489329 ACACAAATGA
Statistics
Matches: 263, Mismatches: 41, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
92 36 0.14
93 16 0.06
94 93 0.35
95 32 0.12
96 48 0.18
97 9 0.03
99 29 0.11
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATATGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:90489272 original size:142 final size:141
Alignment explanation
Indices: 90489009--90489273 Score: 342
Period size: 142 Copynumber: 1.9 Consensus size: 141
90488999 CATCATCGGG
*
90489009 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATACCCGTGCCAATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATACACGTGCCAATGCCATGTCC
** *
90489074 TAGACATGGTCTTACACTGGCACATTTTGTAGCTGATGCATGTCCCAGACATGTCTTATAGTAGC
65 TAGACATGGTCTTACACTGGCACATAATATAGCTGATGCATGTCCCAGACATGTCTTATAGTAGC
90489139 ACTTGTCTCAAT
130 ACTTGTCTCAAT
* *
90489151 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATA-ATGTGGCCGATG-CATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATACACGT-GCCAATGCCATGT-C
* * * *
90489213 CT-GACATGGTCTTACATTGGCTCTCATAATAT-GGTCGATGCATGTCCCTGACATGGTCTTA
64 CTAGACATGGTCTTACACTGG--CACATAATATAGCT-GATGCATGTCCCAGACAT-GTCTTA
90489274 CATTGGCTCT
Statistics
Matches: 107, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
139 24 0.22
140 15 0.14
141 23 0.21
142 45 0.42
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATACACGTGCCAATGCCATGTCCT
AGACATGGTCTTACACTGGCACATAATATAGCTGATGCATGTCCCAGACATGTCTTATAGTAGCA
CTTGTCTCAAT
Found at i:90494747 original size:18 final size:18
Alignment explanation
Indices: 90494721--90494764 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
90494711 CATAGTTTGA
* *
90494721 CAAATTAATTCAGCTCAC
1 CAAATTAATACAGATCAC
*
90494739 CATATTAATACAGATCAC
1 CAAATTAATACAGATCAC
90494757 CAAATTAA
1 CAAATTAA
90494765 CACAATTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAGATCAC
Found at i:90496469 original size:23 final size:23
Alignment explanation
Indices: 90496426--90496469 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
90496416 TCTAATTATT
*
90496426 TTAATAATTTATTATATTAATTC
1 TTAATAATTTATTATACTAATTC
*
90496449 TTAATCATTTAATTAT-CTAAT
1 TTAATAATTT-ATTATACTAAT
90496470 CTAATTACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAATAATTTATTATACTAATTC
Found at i:90522181 original size:18 final size:17
Alignment explanation
Indices: 90522156--90522232 Score: 52
Period size: 18 Copynumber: 4.4 Consensus size: 17
90522146 AATATATTAA
*
90522156 ATTATTATT-TATTATT
1 ATTATTTTTATATTATT
*
90522172 A-TAGTTTTATATTAAATT
1 ATTATTTTTATATT--ATT
*
90522190 ATTATTTTTATTGTTATT
1 ATTATTTTTA-TATTATT
90522208 ATTATTTAATTGATATTA-T
1 ATTATTT--TT-ATATTATT
90522227 ATTATT
1 ATTATT
90522233 AAATTAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
15 5 0.10
16 5 0.10
18 14 0.29
19 14 0.29
20 9 0.19
21 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
ATTATTTTTATATTATT
Found at i:90523498 original size:51 final size:48
Alignment explanation
Indices: 90523438--90523533 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 48
90523428 GACTATTCCG
*
90523438 GATTTGTTCCGAAGAGGTACTCCGTATCTGACTGTTACTGTTACTGTTTCA
1 GATTTGTTCCGAAGAGGTACTCCGT-T-T-ACTGCTACTGTTACTGTTTCA
* **
90523489 GATTTGTTCCGATGAGGTACTTTGTTTACTGCTACTGTTACTGTT
1 GATTTGTTCCGAAGAGGTACTCCGTTTACTGCTACTGTTACTGTT
90523534 ACCCTTACGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 17 0.41
49 1 0.02
50 1 0.02
51 22 0.54
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (48 bp):
GATTTGTTCCGAAGAGGTACTCCGTTTACTGCTACTGTTACTGTTTCA
Found at i:90528624 original size:3 final size:3
Alignment explanation
Indices: 90528616--90528693 Score: 53
Period size: 3 Copynumber: 27.3 Consensus size: 3
90528606 AATATATTAA
*
90528616 ATT ATT ATT ATTT ATT ATT A-T AGTT -TT A-T ATT A-A ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* *
90528659 ATT GTT ATT ATT ATT -TA ATT GA-T ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A
90528694 AATTAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
2 11 0.19
3 43 0.73
4 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:90528676 original size:27 final size:24
Alignment explanation
Indices: 90528627--90528701 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
90528617 TTATTATTAT
90528627 TTATTATTATAGTTTTATATTAAA
1 TTATTATTATAGTTTTATATTAAA
* *
90528651 TTATTATTATTGTTATTATTATTTAA
1 TTATTATTATAGTT-TTA-TATTAAA
*
90528677 TTGA-TATTATA-TTATTAAATTAAA
1 TT-ATTATTATAGTT-TTATATTAAA
90528701 T
1 T
90528702 AAATTAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 19 0.44
25 9 0.21
26 14 0.33
27 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATTATTATAGTTTTATATTAAA
Found at i:90528832 original size:21 final size:21
Alignment explanation
Indices: 90528790--90528833 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
90528780 ATGTTTACTT
*
90528790 ATTATATAAGTATATTATTAA
1 ATTATATAAGTATATTAGTAA
*
90528811 ATTATATTA-TATATATAGTAA
1 ATTATATAAGTATAT-TAGTAA
90528832 AT
1 AT
90528834 AAATGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
ATTATATAAGTATATTAGTAA
Found at i:90546050 original size:21 final size:20
Alignment explanation
Indices: 90546026--90546070 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
90546016 TTTGTATTTG
90546026 TTTACCTATTATTATTATTC
1 TTTACCTATTATTATTATTC
*
90546046 ATTTATCTATTATTATTATTC
1 -TTTACCTATTATTATTATTC
90546067 TTTA
1 TTTA
90546071 TATTACAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTACCTATTATTATTATTC
Found at i:90550947 original size:9 final size:9
Alignment explanation
Indices: 90550933--90550965 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
90550923 GTTAAACGAA
90550933 TCGAGTTAT
1 TCGAGTTAT
*
90550942 TCGAGTTAA
1 TCGAGTTAT
90550951 TCGAGTTAT
1 TCGAGTTAT
90550960 TCGAGT
1 TCGAGT
90550966 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:90550954 original size:18 final size:18
Alignment explanation
Indices: 90550931--90550965 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
90550921 GAGTTAAACG
90550931 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
90550949 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
90550966 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:90551009 original size:9 final size:9
Alignment explanation
Indices: 90550992--90551028 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
90550982 TCGAATTTCG
90550992 AATTCGAAT
1 AATTCGAAT
*
90551001 AACTCGAAT
1 AATTCGAAT
90551010 AATTCGAAT
1 AATTCGAAT
90551019 AATTCGAAT
1 AATTCGAAT
90551028 A
1 A
90551029 TCAAACTATA
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:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:90552060 original size:5 final size:5
Alignment explanation
Indices: 90552050--90552090 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
90552040 CTCGAAAATT
**
90552050 TTCGA TTCGA TTCGA TTCGA TTCGA TTTAA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
90552091 CGAATGCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (5 bp):
TTCGA
Found at i:90552945 original size:8 final size:9
Alignment explanation
Indices: 90552926--90552959 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
90552916 ACATTTAATA
90552926 TTTAATTTT
1 TTTAATTTT
*
90552935 TTTTATTTT
1 TTTAATTTT
90552944 TTTAATTTT
1 TTTAATTTT
*
90552953 TCTAATT
1 TTTAATT
90552960 ATCAAATAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTAATTTT
Found at i:90555590 original size:13 final size:13
Alignment explanation
Indices: 90555581--90555610 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
90555571 TTTTTTTCTT
90555581 TTTTACTTTTTTA
1 TTTTACTTTTTTA
*
90555594 TTTTACTTTTTTC
1 TTTTACTTTTTTA
90555607 TTTT
1 TTTT
90555611 TCCCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTACTTTTTTA
Found at i:90555617 original size:28 final size:30
Alignment explanation
Indices: 90555572--90555628 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
90555562 TTTCTCTGTT
*
90555572 TTTTTTCTTTTTTAC-TT-TTTTATTTTAC
1 TTTTTTCTTTTTCACTTTATTTTATTTTAC
*
90555600 TTTTTTCTTTTTCCCTTTATTTTATTTTA
1 TTTTTTCTTTTTCACTTTATTTTATTTTA
90555629 TTTATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.52
29 2 0.08
30 10 0.40
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTTTTCTTTTTCACTTTATTTTATTTTAC
Found at i:90555725 original size:30 final size:31
Alignment explanation
Indices: 90555667--90555752 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 31
90555657 TTTGAAATAT
90555667 ATATTTGAAATATTTTATTAATATATATTTTGAATTTA
1 ATATTT-AAATATTTTA--AATAT-TA--TT-AATTTA
* **
90555705 ATTTTTAAA-ATTTTAAATATTATTTTTTTA
1 ATATTTAAATATTTTAAATATTATTAATTTA
90555735 ATATTTAAATATTTTAAA
1 ATATTTAAATATTTTAAA
90555753 CTTTCAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
30 12 0.28
31 10 0.23
33 2 0.05
34 5 0.12
36 6 0.14
37 3 0.07
38 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (31 bp):
ATATTTAAATATTTTAAATATTATTAATTTA
Found at i:90556057 original size:18 final size:17
Alignment explanation
Indices: 90556026--90556064 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
90556016 TTTTTCTTGT
*
90556026 TTTATTTTGTTTATTTA
1 TTTATTTTGTTTATTAA
*
90556043 TTTATTTTTTGTTATTAA
1 TTTATTTTGT-TTATTAA
90556061 TTTA
1 TTTA
90556065 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTATTTTGTTTATTAA
Found at i:90556128 original size:20 final size:23
Alignment explanation
Indices: 90556079--90556128 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
90556069 AATTAAAATG
*
90556079 TATA-TTTGAAATGTTTATAATA
1 TATATTTTTAAATGTTTATAATA
90556101 TATATTTTTAAAT-TTTA-AATA
1 TATATTTTTAAATGTTTATAATA
90556122 T-TATTTT
1 TATATTTT
90556129 AATTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 5 0.19
22 8 0.31
23 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TATATTTTTAAATGTTTATAATA
Found at i:90556143 original size:31 final size:32
Alignment explanation
Indices: 90556096--90556159 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
90556086 GAAATGTTTA
90556096 TAATATATATTTTTAAATTTTAAATATTATTT
1 TAATATATATTTTTAAATTTTAAATATTATTT
* *
90556128 TAATTTAT-TTTTTAAATTTTGAATATTATTT
1 TAATATATATTTTTAAATTTTAAATATTATTT
90556159 T
1 T
90556160 TTTAAACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (32 bp):
TAATATATATTTTTAAATTTTAAATATTATTT
Found at i:90556158 original size:21 final size:20
Alignment explanation
Indices: 90556124--90556190 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 20
90556114 TTTAAATATT
90556124 ATTTTAAT-TTATTTTTTAA
1 ATTTTAATATTATTTTTTAA
90556143 ATTTTGAATATTATTTTTTTAA
1 ATTTT-AATATTA-TTTTTTAA
* *
90556165 ACATTAAATATATATTTTTTAA
1 A-TTTTAATAT-TATTTTTTAA
90556187 ATTT
1 ATTT
90556191 GTTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.12
20 3 0.08
21 5 0.12
22 23 0.57
23 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (20 bp):
ATTTTAATATTATTTTTTAA
Found at i:90556289 original size:17 final size:18
Alignment explanation
Indices: 90556233--90556280 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
90556223 TCTATGACAT
* *
90556233 TTTTTATTTTTTTCTTTA
1 TTTTTATTTATTTATTTA
*
90556251 TCTTTATTTATTTATTTA
1 TTTTTATTTATTTATTTA
90556269 TTTTTATTTATT
1 TTTTTATTTATT
90556281 ATTACTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATTTATTTATTTA
Found at i:90556323 original size:44 final size:46
Alignment explanation
Indices: 90556275--90556362 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 46
90556265 TTTATTTTTA
* *
90556275 TTTATTAT-TACTTTTAAAAAACTTGAA-ATATATATTTGAAATGT
1 TTTATAATATACTTTTAAAAAACTTAAATATATATATTTGAAATGT
* * **
90556319 TTTATAATATATTTTTTAAAATTTTAAATATATATATTTGAAAT
1 TTTATAATATACTTTTAAAAAACTTAAATATATATATTTGAAAT
90556363 TATTTTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 7 0.19
45 14 0.39
46 15 0.42
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (46 bp):
TTTATAATATACTTTTAAAAAACTTAAATATATATATTTGAAATGT
Found at i:90556348 original size:21 final size:21
Alignment explanation
Indices: 90556300--90556444 Score: 60
Period size: 22 Copynumber: 6.6 Consensus size: 21
90556290 AAAAAACTTG
* * *
90556300 AAATATATATTTGAAATGTTTT
1 AAATATATTTTTTAAA-ATTTT
90556322 ATAATATATTTTTTAAAATTTT
1 A-AATATATTTTTTAAAATTTT
* *
90556344 AAATATATATATTTGAAATTATT
1 AAATATAT-TTTTTAAAATT-TT
*** * * *
90556367 TTTTAAAATTTTAAATATTATTTTT
1 AAATATATTTTTTAA-A--A-TTTT
* * *
90556392 AAAT-CATTGTTTAAAAATTT
1 AAATATATTTTTTAAAATTTT
*
90556412 AAATATTATTTTTT-AAATATT
1 AAATA-TATTTTTTAAAATTTT
90556433 AAATATATTTTT
1 AAATATATTTTT
90556445 AATAATATAA
Statistics
Matches: 89, Mismatches: 25, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
20 14 0.16
21 18 0.20
22 25 0.28
23 20 0.22
24 6 0.07
25 4 0.04
26 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
AAATATATTTTTTAAAATTTT
Found at i:90556374 original size:35 final size:33
Alignment explanation
Indices: 90556328--90556423 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
90556318 TTTTATAATA
90556328 TATTTTTTAAAATTTTAAATATATATATTTGAAAT
1 TATTTTTTAAAATTTTAAATAT-TAT-TTTGAAAT
*
90556363 TATTTTTTAAAATTTTAAATATTATTTTTAAAT
1 TATTTTTTAAAATTTTAAATATTATTTTGAAAT
* * *
90556396 CATTGTTTAAAAATTTAAATATTATTTT
1 TATTTTTTAAAATTTTAAATATTATTTT
90556424 TTAAATATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 32 0.56
34 3 0.05
35 22 0.39
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (33 bp):
TATTTTTTAAAATTTTAAATATTATTTTGAAAT
Found at i:90556451 original size:21 final size:21
Alignment explanation
Indices: 90556405--90556452 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
90556395 TCATTGTTTA
90556405 AAAAT-TTAAATATTATTTTT
1 AAAATATTAAATATTATTTTT
*
90556425 TAAATATTAAATA-TATTTTT
1 AAAATATTAAATATTATTTTT
90556445 AATAATAT
1 AA-AATAT
90556453 AAAACATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAAATATTAAATATTATTTTT
Found at i:90556553 original size:14 final size:14
Alignment explanation
Indices: 90556527--90556567 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
90556517 ATGTATATTT
90556527 TAATTTTTT--TTA
1 TAATTTTTTAATTA
90556539 TAATTTTTTAATTA
1 TAATTTTTTAATTA
* *
90556553 TGATTTTTAAATTA
1 TAATTTTTTAATTA
90556567 T
1 T
90556568 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 9 0.36
14 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (14 bp):
TAATTTTTTAATTA
Found at i:90556559 original size:13 final size:13
Alignment explanation
Indices: 90556543--90556583 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
90556533 TTTTTATAAT
90556543 TTTTTAATTATGA
1 TTTTTAATTATGA
*
90556556 TTTTTAA--ATTA
1 TTTTTAATTATGA
*
90556567 TTTTAAATTATGA
1 TTTTTAATTATGA
90556580 TTTT
1 TTTT
90556584 GAAATTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 9 0.39
13 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (13 bp):
TTTTTAATTATGA
Found at i:90556561 original size:33 final size:33
Alignment explanation
Indices: 90556496--90556575 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 33
90556486 CAAATTTATT
*
90556496 ATTAGTTTTATAATATTTTAAATGTATATTTTAA
1 ATTA-TTTTATAATTTTTTAAATGTATATTTTAA
* *
90556530 TTTTTTTTATAATTTTTT-AAT-TATGATTTTTAA
1 ATTATTTTATAATTTTTTAAATGTAT-A-TTTTAA
90556563 ATTATTTTA-AATT
1 ATTATTTTATAATT
90556576 ATGATTTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 3 0.08
32 8 0.21
33 26 0.67
34 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTATTTTATAATTTTTTAAATGTATATTTTAA
Found at i:90556570 original size:24 final size:24
Alignment explanation
Indices: 90556533--90556612 Score: 101
Period size: 24 Copynumber: 3.3 Consensus size: 24
90556523 ATTTTAATTT
90556533 TTTTTATAATT-TTTT-AATTATGA
1 TTTTTA-AATTATTTTAAATTATGA
90556556 TTTTTAAATTATTTTAAATTATGA
1 TTTTTAAATTATTTTAAATTATGA
* * *
90556580 TTTTGAAATTATTTAAAATATATTA
1 TTTTTAAATTATTTTAAAT-TATGA
90556605 TTTTTAAA
1 TTTTTAAA
90556613 GATATGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.08
23 10 0.20
24 25 0.50
25 11 0.22
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTTAAATTATTTTAAATTATGA
Found at i:90556590 original size:14 final size:13
Alignment explanation
Indices: 90556543--90556591 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
90556533 TTTTTATAAT
*
90556543 TTTTTAATTATGA
1 TTTTAAATTATGA
90556556 TTTTTAAA-T-T-A
1 -TTTTAAATTATGA
90556567 TTTTAAATTATGA
1 TTTTAAATTATGA
90556580 TTTTGAAATTAT
1 TTTT-AAATTAT
90556592 TTAAAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 7 0.23
11 2 0.07
12 2 0.07
13 6 0.20
14 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (13 bp):
TTTTAAATTATGA
Found at i:90556683 original size:12 final size:13
Alignment explanation
Indices: 90556666--90556715 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
90556656 ATATTTTTTA
90556666 AATTTTAAATA-T
1 AATTTTAAATATT
90556678 AATTTTTATAAATTATT
1 AA--TTT-TAAA-TATT
90556695 AATTTTAAA-ATT
1 AATTTTAAATATT
90556707 AATTTTAAA
1 AATTTTAAA
90556716 GATATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 14 0.42
14 7 0.21
15 7 0.21
16 2 0.06
17 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAATATT
Found at i:90557007 original size:8 final size:8
Alignment explanation
Indices: 90556983--90557034 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
90556973 ATAAATAAAC
90556983 AAAGTAAAA
1 AAAG-AAAA
*
90556992 CAAG-AAA
1 AAAGAAAA
90556999 AAAGAAAA
1 AAAGAAAA
**
90557007 AACTTAAAA
1 AA-AGAAAA
90557016 AAAGAAAA
1 AAAGAAAA
90557024 AAAGAAAA
1 AAAGAAAA
90557032 AAA
1 AAA
90557035 ATTAAAGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 6 0.17
8 20 0.57
9 9 0.26
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.06
Consensus pattern (8 bp):
AAAGAAAA
Found at i:90557020 original size:24 final size:25
Alignment explanation
Indices: 90556987--90557033 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
90556977 ATAAACAAAG
*
90556987 TAAAACAAG-AAAAAAGAAAAAACT
1 TAAAAAAAGAAAAAAAGAAAAAACT
90557011 TAAAAAAAGAAAAAAAGAAAAAA
1 TAAAAAAAGAAAAAAAGAAAAAA
90557034 AATTAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.81, C:0.04, G:0.09, T:0.06
Consensus pattern (25 bp):
TAAAAAAAGAAAAAAAGAAAAAACT
Found at i:90557034 original size:16 final size:16
Alignment explanation
Indices: 90556983--90557034 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
90556973 ATAAATAAAC
*
90556983 AAAGTAAAACAAG-AAA
1 AAAG-AAAAAAAGAAAA
**
90556999 AAAGAAAAAACTTAAAA
1 AAAGAAAAAA-AGAAAA
90557016 AAAGAAAAAAAGAAAA
1 AAAGAAAAAAAGAAAA
90557032 AAA
1 AAA
90557035 ATTAAAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.17
16 11 0.38
17 13 0.45
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAAAGAAAA
Found at i:90557034 original size:17 final size:17
Alignment explanation
Indices: 90556996--90557035 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
90556986 GTAAAACAAG
***
90556996 AAAAAAGAAAAAACTTA
1 AAAAAAGAAAAAAAGAA
90557013 AAAAAAGAAAAAAAGAA
1 AAAAAAGAAAAAAAGAA
90557030 AAAAAA
1 AAAAAA
90557036 TTAAAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.03, G:0.07, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAAAGAA
Found at i:90557064 original size:30 final size:28
Alignment explanation
Indices: 90556996--90557070 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 28
90556986 GTAAAACAAG
*
90556996 AAAAAAG--AAAAAACTTAA-AAAAAGA
1 AAAAAAGAAAAAAAACTAAAGAAAAAGA
*
90557021 AAAAAAGAAAAAAAATTAAAGAAAAAGA
1 AAAAAAGAAAAAAAACTAAAGAAAAAGA
* *
90557049 CAAAAGATAATAAAAAACTAAA
1 -AAAAAAGAA-AAAAAACTAAA
90557071 ATTTACAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 7 0.17
27 9 0.22
28 7 0.17
29 7 0.17
30 10 0.25
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.09
Consensus pattern (28 bp):
AAAAAAGAAAAAAAACTAAAGAAAAAGA
Found at i:90557290 original size:8 final size:9
Alignment explanation
Indices: 90557207--90557328 Score: 59
Period size: 8 Copynumber: 13.9 Consensus size: 9
90557197 AAAAATTATC
90557207 ATTTAAAAT
1 ATTTAAAAT
90557216 ATTATAAAAT
1 ATT-TAAAAT
*
90557226 AAATTAAATAAT
1 --ATTTAA-AAT
*
90557238 ATTTAAATT
1 ATTTAAAAT
90557247 ATTATAAAACT
1 ATT-TAAAA-T
*
90557258 A-ATAATAA-
1 ATTTAA-AAT
*
90557266 ATTTGAAAT
1 ATTTAAAAT
90557275 -TTTAAAAT
1 ATTTAAAAT
90557283 ATTT-AAAT
1 ATTTAAAAT
90557291 ATTT-AAAT
1 ATTTAAAAT
90557299 A-TTAAAA-
1 ATTTAAAAT
90557306 A---AATAAT
1 ATTTAA-AAT
90557313 ATTTAAAAT
1 ATTTAAAAT
90557322 -TTTAAAA
1 ATTTAAAA
90557329 AGTAAATTCA
Statistics
Matches: 89, Mismatches: 8, Indels: 33
0.68 0.06 0.25
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 4 0.04
8 33 0.37
9 19 0.21
10 19 0.21
11 4 0.04
12 6 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:90557329 original size:23 final size:22
Alignment explanation
Indices: 90557231--90557329 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 22
90557221 AAAATAAATT
90557231 AAATAATATTTAAATTATTATAAA
1 AAATAATATTTAAATT-TTA-AAA
90557255 ACTAATAATAAATTTGAAATTTTAAAA
1 A--AATAAT--ATTT-AAATTTTAAAA
** *
90557282 TATTTAAATATTTAAATATTAAAA
1 -AAAT-AATATTTAAATTTTAAAA
90557306 AAATAATATTTAAAATTTTAAAA
1 AAATAATATTT-AAATTTTAAAA
90557329 A
1 A
90557330 GTAAATTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
22 7 0.11
23 13 0.21
24 11 0.18
25 4 0.07
26 7 0.11
27 6 0.10
28 8 0.13
29 5 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (22 bp):
AAATAATATTTAAATTTTAAAA
Found at i:90557455 original size:29 final size:30
Alignment explanation
Indices: 90557400--90557456 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
90557390 TAATAATAAT
* *
90557400 AAATAAAATAAAGAGAAAAAGACAAAAGCA
1 AAATAAAATAAAGAGAAAAAAAAAAAAGCA
90557430 AAATAAAA-AAAGTA-AAAAAAAAAAAAG
1 AAATAAAATAAAG-AGAAAAAAAAAAAAG
90557457 AGAAAGTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.07
Consensus pattern (30 bp):
AAATAAAATAAAGAGAAAAAAAAAAAAGCA
Found at i:90558934 original size:25 final size:25
Alignment explanation
Indices: 90558905--90558977 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
90558895 TCCTTAAATC
90558905 AATAATATATATAAAAATAAATATA
1 AATAATATATATAAAAATAAATATA
90558930 AATAATAT-TATTAAGAACATAAATA-A
1 AATAATATATA-TAA-AA-ATAAATATA
* *
90558956 AATAATTTA-AGAAAAA-AAATAT
1 AATAATATATATAAAAATAAATAT
90558978 CACAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
22 5 0.12
23 1 0.02
24 4 0.10
25 13 0.32
26 11 0.27
27 7 0.17
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (25 bp):
AATAATATATATAAAAATAAATATA
Found at i:90558968 original size:22 final size:21
Alignment explanation
Indices: 90558927--90558968 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90558917 AAAAATAAAT
* *
90558927 ATAAATAATATTATTAAGAAC
1 ATAAATAAAATAATTAAGAAC
90558948 ATAAATAAAATAATTTAAGAA
1 ATAAATAAAATAA-TTAAGAA
90558969 AAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
ATAAATAAAATAATTAAGAAC
Found at i:90562397 original size:19 final size:19
Alignment explanation
Indices: 90562370--90562422 Score: 52
Period size: 23 Copynumber: 2.6 Consensus size: 19
90562360 TTAAAGTAAG
*
90562370 TAATATAAAAAATATACAT
1 TAATTTAAAAAATATACAT
90562389 TAATTTAAACAAATAATATACAT
1 TAATTT--A-AAA-AATATACAT
*
90562412 AAATTTAAAAA
1 TAATTTAAAAA
90562423 TAATTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 6 0.21
20 3 0.11
21 2 0.07
22 3 0.11
23 14 0.50
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATTTAAAAAATATACAT
Found at i:90562425 original size:21 final size:22
Alignment explanation
Indices: 90562376--90562426 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
90562366 TAAGTAATAT
*
90562376 AAAA-AATATACATTAATTTAA
1 AAAATAATATACATAAATTTAA
90562397 ACAAATAATATACATAAATTT-A
1 A-AAATAATATACATAAATTTAA
90562419 AAAATAAT
1 AAAATAAT
90562427 TTAATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 8 0.30
22 5 0.19
23 14 0.52
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATATACATAAATTTAA
Found at i:90562439 original size:26 final size:29
Alignment explanation
Indices: 90562402--90562455 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 29
90562392 TTTAAACAAA
*
90562402 TAATATACATAA-AT-T-TAAAAATAATT
1 TAATATAAATAACATATATAAAAATAATT
90562428 TAATATAAATAACATATATAAAAATAAT
1 TAATATAAATAACATATATAAAAATAAT
90562456 AATGTATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 11 0.46
27 2 0.08
28 1 0.04
29 10 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (29 bp):
TAATATAAATAACATATATAAAAATAATT
Found at i:90562679 original size:26 final size:26
Alignment explanation
Indices: 90562650--90562715 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
90562640 AACGGTTTTT
*
90562650 TTAAAAAAAACTAAGTAA-TAAATAAA
1 TTAAAAAAAACAAAG-AATTAAATAAA
* *
90562676 TTAAAAGAAACAAAGAATTACATAAA
1 TTAAAAAAAACAAAGAATTAAATAAA
* *
90562702 CTAAAATAAACAAA
1 TTAAAAAAAACAAA
90562716 CTCAATTGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.20
Consensus pattern (26 bp):
TTAAAAAAAACAAAGAATTAAATAAA
Found at i:90563483 original size:18 final size:18
Alignment explanation
Indices: 90563456--90563494 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90563446 ACACCGGAGT
90563456 AAAATAAAAAAAAACTTGA
1 AAAATAAAAAAAAAC-TGA
*
90563475 AAAAT-AAAACAAACTGA
1 AAAATAAAAAAAAACTGA
90563492 AAA
1 AAA
90563495 TCACCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 8 0.42
19 5 0.26
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAAAAACTGA
Found at i:90565776 original size:25 final size:24
Alignment explanation
Indices: 90565717--90565810 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
90565707 TAATATACAG
*
90565717 GTGATTCGCATGTAATAACAATAAA
1 GTGACTCGCATGTAATAACAAT-AA
** *
90565742 G-GGTTTGCATGTAATAACAGATAA
1 GTGACTCGCATGTAATAACA-ATAA
*
90565766 GTGACTCGCATGTAATAACATATAT
1 GTGACTCGCATGTAATAACA-ATAA
* *
90565791 TTGACTCGCATGTAGTAACA
1 GTGACTCGCATGTAATAACA
90565811 TATCATTGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
24 19 0.33
25 39 0.67
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (24 bp):
GTGACTCGCATGTAATAACAATAA
Found at i:90565811 original size:25 final size:24
Alignment explanation
Indices: 90565748--90565823 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 24
90565738 TAAAGGGTTT
* *
90565748 GCATGTAATAACAGATAAGTGACTC
1 GCATGTAATAACATAT-ATTGACTC
90565773 GCATGTAATAACATATATTTGACTC
1 GCATGTAATAACATATA-TTGACTC
*
90565798 GCATGTAGTAACATATCATTGACTC
1 GCATGTAATAACATAT-ATTGACTC
90565823 G
1 G
90565824 TAGAAACGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (24 bp):
GCATGTAATAACATATATTGACTC
Found at i:90565883 original size:60 final size:60
Alignment explanation
Indices: 90565789--90566143 Score: 391
Period size: 60 Copynumber: 6.0 Consensus size: 60
90565779 AATAACATAT
* * * **
90565789 ATTTGACTCGCATGTAGTAACATATCATTGACTCGTAGAAACGGTGGTTCACATGTAATA
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * * *
90565849 ATTTGACTCGCATGTACTAGCATATCATTTACTCGCATAAATAGTGATTCACATGTAAT-
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * *
90565908 ATTGTGATTCGTATGTAATAACATATCATTGCCTCGCATAAATAGTGGTTCACATGTAATA
1 ATT-TGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * * * * *
90565969 ATGTGACTCGCATGTAATAACATATTATTGACTAGCATAAACAATGATTCACATGTAATA
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * * * *
90566029 ATGTGACTTGCATATAATAACATATCATTGACTCACATTAATAGTGGTTCACATGTAATA
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
* * * * * *
90566089 A-TGGACTCGCATG---T--CATATCATTGACTTGCATGAACAATGGTTCACGTGTAATA
1 ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
90566143 A
1 A
90566144 CATATACTTG
Statistics
Matches: 250, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
54 35 0.14
56 1 0.00
59 11 0.04
60 201 0.80
61 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (60 bp):
ATTTGACTCGCATGTAATAACATATCATTGACTCGCATAAATAGTGGTTCACATGTAATA
Found at i:90566158 original size:180 final size:182
Alignment explanation
Indices: 90565774--90566161 Score: 432
Period size: 180 Copynumber: 2.1 Consensus size: 182
90565764 AAGTGACTCG
* * * ** *
90565774 CATGTAATAACATATATTTGACTCGCATGTAGTAACATATCATTGACTCGTAGAAACGGTGGTTC
1 CATGTAATAACATATA-TTGACTCGCATGTAATAACATATCATTGACTAGCAGAAACAATGATTC
* * * * * *
90565839 ACATGTAATAATTTGACTCGCATGTACTAGCATATCATTTACTCGCATAAATAGTGATTCACATG
65 ACATGTAATAATGTGACTCGCATATAATAACATATCATTGACTCACATAAATAGTGATTCACATG
* * * * * *
90565904 TAATATTGTGATTCGTATGTAATAACATATCATTGCCTCGCATAAATAGTGGTTCA
130 TAATAATGTGACTCGCATG--AT-ACATATCATTGACTCGCATAAACAATGGTTCA
* * *
90565960 CATGTAAT---A-AT-GTGACTCGCATGTAATAACATATTATTGACTAGCATAAACAATGATTCA
1 CATGTAATAACATATATTGACTCGCATGTAATAACATATCATTGACTAGCAGAAACAATGATTCA
* * *
90566020 CATGTAATAATGTGACTTGCATATAATAACATATCATTGACTCACATTAATAGTGGTTCACATGT
66 CATGTAATAATGTGACTCGCATATAATAACATATCATTGACTCACATAAATAGTGATTCACATGT
* *
90566085 AATAATG-GACTCGCATG-T-CATATCATTGACTTGCATGAACAATGGTTCA
131 AATAATGTGACTCGCATGATACATATCATTGACTCGCATAAACAATGGTTCA
*
90566134 CGTGTAATAACATATACTTGACTCGCAT
1 CATGTAATAACATATA-TTGACTCGCAT
90566162 AAACAATGGT
Statistics
Matches: 168, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
174 33 0.20
176 1 0.01
177 1 0.01
178 2 0.01
179 8 0.05
180 112 0.67
182 2 0.01
183 1 0.01
186 8 0.05
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
CATGTAATAACATATATTGACTCGCATGTAATAACATATCATTGACTAGCAGAAACAATGATTCA
CATGTAATAATGTGACTCGCATATAATAACATATCATTGACTCACATAAATAGTGATTCACATGT
AATAATGTGACTCGCATGATACATATCATTGACTCGCATAAACAATGGTTCA
Found at i:90568519 original size:45 final size:45
Alignment explanation
Indices: 90568454--90568595 Score: 176
Period size: 45 Copynumber: 3.1 Consensus size: 45
90568444 TCCCATCTAC
*
90568454 GGTCTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTTTCAACTAT
*
90568499 GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTTTCAATTAT
1 GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTTTCAACTAT
* * * ** * * * *
90568544 GGTCTTACTCATTTTCTATCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTTATCTTAGA-CATGATGCCATAGTGTCTTTCAACTAT
90568590 GGTCTT
1 GGTCTT
90568596 GTTCATTTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 56 0.67
46 28 0.33
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (45 bp):
GGTCTTATTTATCTTAGACATGATGCCATAGTGTCTTTCAACTAT
Found at i:90568749 original size:46 final size:46
Alignment explanation
Indices: 90568522--90568749 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
90568512 TTAGACATGA
* * ** * *
90568522 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
90568568 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
90568614 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
90568660 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90568706 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
90568750 AAAGCACACT
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 163 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:90571817 original size:18 final size:17
Alignment explanation
Indices: 90571780--90571824 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
90571770 TGTCCTATTC
**
90571780 TTTTTCTTTTTTTTTTG
1 TTTTTCTTTTTTTTAAG
90571797 TTTTTACTTTTTTTTAAG
1 TTTTT-CTTTTTTTTAAG
90571815 TTTTGTCTTT
1 TTTT-TCTTT
90571825 CTCATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 18 0.75
19 1 0.04
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTTTAAG
Found at i:90571848 original size:14 final size:15
Alignment explanation
Indices: 90571828--90571868 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
90571818 TGTCTTTCTC
90571828 ATTATTTATTTTATT
1 ATTATTTATTTTATT
90571843 -TTATTTATTTT-TT
1 ATTATTTATTTTATT
*
90571856 ATTATTAATTTTA
1 ATTATTTATTTTA
90571869 AAAAACTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTATTTATTTTATT
Found at i:90571933 original size:21 final size:21
Alignment explanation
Indices: 90571907--90572035 Score: 64
Period size: 21 Copynumber: 6.4 Consensus size: 21
90571897 TTTATAGTAT
90571907 ATATATTTTTTTAAAATTTAA
1 ATATATTTTTTTAAAATTTAA
*
90571928 ATATA------TATA-TTTGAA
1 ATATATTTTTTTAAAATTT-AA
* *
90571943 AT-TATTTTTTAAAATTTTAA
1 ATATATTTTTTTAAAATTTAA
**
90571963 ATATTATTTTTAAAAAATTTAA
1 ATA-TATTTTTTTAAAATTTAA
* *
90571985 AAAT-TATTTTTTAAATTTTAA
1 ATATAT-TTTTTTAAAATTTAA
*
90572006 A-A-ATTATTTTTTAAATATTAA
1 ATATATT-TTTTTAAAAT-TTAA
90572027 ATATATTTT
1 ATATATTTT
90572036 AATAATATAA
Statistics
Matches: 81, Mismatches: 11, Indels: 31
0.66 0.09 0.25
Matches are distributed among these distances:
14 5 0.06
15 7 0.09
19 1 0.01
20 17 0.21
21 27 0.33
22 21 0.26
23 3 0.04
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
ATATATTTTTTTAAAATTTAA
Found at i:90571971 original size:22 final size:21
Alignment explanation
Indices: 90571941--90572035 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
90571931 TATATATTTG
90571941 AAATTATTTTTTAAAATTTTAA
1 AAATTATTTTTT-AAATTTTAA
* * *
90571963 ATATTATTTTTAAAAAATTTAA
1 AAATTATTTTT-TAAATTTTAA
90571985 AAATTATTTTTTAAATTTTAA
1 AAATTATTTTTTAAATTTTAA
*
90572006 AAATTATTTTTTAAATATTAA
1 AAATTATTTTTTAAATTTTAA
*
90572027 ATA-TATTTT
1 AAATTATTTT
90572036 AATAATATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.09
21 30 0.47
22 28 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTATTTTTTAAATTTTAA
Found at i:90572132 original size:21 final size:22
Alignment explanation
Indices: 90572101--90572151 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
90572091 GTTTTATAAT
*
90572101 ATTTATAATA-TTTATAATT-TG
1 ATTTTTAATATTTTA-AATTATG
*
90572122 TTTTTTAATATTTTAAATTATG
1 ATTTTTAATATTTTAAATTATG
90572144 ATTTTTAA
1 ATTTTTAA
90572152 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
ATTTTTAATATTTTAAATTATG
Found at i:90572135 original size:9 final size:9
Alignment explanation
Indices: 90572093--90572118 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
90572083 TATTATTAGT
90572093 TTTATAATA
1 TTTATAATA
90572102 TTTATAATA
1 TTTATAATA
90572111 TTTATAAT
1 TTTATAAT
90572119 TTGTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTATAATA
Found at i:90572148 original size:22 final size:21
Alignment explanation
Indices: 90572101--90572151 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
90572091 GTTTTATAAT
*
90572101 ATTTATAATATTTATAATTTG
1 ATTTTTAATATTTATAATTTG
*
90572122 TTTTTTAATATTT-TAAATTATG
1 ATTTTTAATATTTAT-AATT-TG
90572144 ATTTTTAA
1 ATTTTTAA
90572152 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 15 0.60
22 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTTTTAATATTTATAATTTG
Found at i:90572301 original size:14 final size:14
Alignment explanation
Indices: 90572282--90572324 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
90572272 ATGAATTTAT
90572282 TTAAAAAATATATA
1 TTAAAAAATATATA
* *
90572296 TTAAAAAATAAAAA
1 TTAAAAAATATATA
*
90572310 AT-AAAAATATATA
1 TTAAAAAATATATA
90572323 TT
1 TT
90572325 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAAATATATA
Found at i:90572319 original size:27 final size:28
Alignment explanation
Indices: 90572285--90572385 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 28
90572275 AATTTATTTA
90572285 AAAAATATATATTAAAAAATAAAAA-A-T
1 AAAAATATATA-TAAAAAATAAAAATATT
** *
90572312 AAAAATATATATTTTAAATTAAAAATATT
1 AAAAATATATA-TAAAAAATAAAAATATT
90572341 AAAAATACTATA-AAACAAATTAAAAATATT
1 AAAAATA-TATATAAA-AAA-TAAAAATATT
90572371 AAAAATAT-TATAAAA
1 AAAAATATATATAAAA
90572386 CTAATAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
27 22 0.35
28 5 0.08
29 14 0.23
30 21 0.34
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATATATATAAAAAATAAAAATATT
Found at i:90572343 original size:9 final size:9
Alignment explanation
Indices: 90572329--90572385 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
90572319 TATATTTTAA
90572329 ATTAAAAAT
1 ATTAAAAAT
90572338 ATTAAAAAT
1 ATTAAAAAT
*
90572347 ACTATAAAACAA
1 A-T-TAAAA-AT
90572359 ATTAAAAAT
1 ATTAAAAAT
90572368 ATTAAAAAT
1 ATTAAAAAT
90572377 ATTATAAAA
1 ATTA-AAAA
90572386 CTAATAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 24 0.57
10 10 0.24
11 6 0.14
12 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:90572343 original size:29 final size:29
Alignment explanation
Indices: 90572285--90572385 Score: 113
Period size: 30 Copynumber: 3.6 Consensus size: 29
90572275 AATTTATTTA
*
90572285 AAAAATATATATTAAAAAATAAAAA-A-T
1 AAAAATATATATTAAAAATTAAAAATATT
**
90572312 AAAAATATATATTTTAAATTAAAAATATT
1 AAAAATATATATTAAAAATTAAAAATATT
*
90572341 AAAAATACTATA-AAACAAATTAAAAATATT
1 AAAAATA-TATATTAA-AAATTAAAAATATT
90572371 AAAAATAT-TA-TAAAA
1 AAAAATATATATTAAAA
90572386 CTAATAATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
27 24 0.38
28 5 0.08
29 9 0.14
30 25 0.40
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAATATATATTAAAAATTAAAAATATT
Found at i:90572522 original size:21 final size:19
Alignment explanation
Indices: 90572443--90572520 Score: 102
Period size: 21 Copynumber: 3.8 Consensus size: 19
90572433 TATATTATTA
90572443 AAAAATATATTTAAAATTTT
1 AAAAATA-ATTTAAAATTTT
90572463 AAAAATAATATGTAAAATTTT
1 AAAAATAAT-T-TAAAATTTT
90572484 AAAAATAATTTTAAAAATTTT
1 AAAAATAA-TTT-AAAATTTT
90572505 AAAAAATAATTTAAAA
1 -AAAAATAATTTAAAA
90572521 ATAATATTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.04
20 13 0.25
21 29 0.55
22 9 0.17
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (19 bp):
AAAAATAATTTAAAATTTT
Found at i:90572570 original size:35 final size:33
Alignment explanation
Indices: 90572481--90572580 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
90572471 TATGTAAAAT
90572481 TTTAAAAATAAT-TTTAAAAATTTTAAAAAATAA
1 TTTAAAAATAATATTT-AAAATTTTAAAAAATAA
90572514 TTTAAAAATAATATTTAAAATTTTAAAAAATAA
1 TTTAAAAATAATATTTAAAATTTTAAAAAATAA
* *
90572547 TTTCAGAAATATATATTTAAAATTTTTAAAAATA
1 TTT-AAAAATA-ATATTTAAAATTTTAAAAAATA
90572581 TATACTATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
33 32 0.52
34 9 0.15
35 21 0.34
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (33 bp):
TTTAAAAATAATATTTAAAATTTTAAAAAATAA
Found at i:90572581 original size:54 final size:55
Alignment explanation
Indices: 90572442--90572583 Score: 159
Period size: 54 Copynumber: 2.6 Consensus size: 55
90572432 TTATATTATT
*
90572442 AAAAA-ATATATTTAAAA-TTTTAAAAATAATATGTAAAATTTTAAAAATAATTTT
1 AAAAATATATATTTAAAATTTTTAAAAAT-ATATGTAAAATTTTAAAAATAATTTC
** * *
90572496 AAAAAT-T-T-TAAAAAATAATTTAAAAATAATATTTAAAATTTTAAAAAATAATTTC
1 AAAAATATATATTTAAAAT-TTTTAAAAAT-ATATGTAAAATTTT-AAAAATAATTTC
*
90572551 AGAAATATATATTTAAAATTTTTAAAAATATAT
1 AAAAATATATATTTAAAATTTTTAAAAATATAT
90572584 ACTATAAAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
52 5 0.07
53 1 0.01
54 29 0.40
55 16 0.22
56 5 0.07
57 10 0.14
58 6 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (55 bp):
AAAAATATATATTTAAAATTTTTAAAAATATATGTAAAATTTTAAAAATAATTTC
Found at i:90572583 original size:21 final size:21
Alignment explanation
Indices: 90572443--90572583 Score: 89
Period size: 21 Copynumber: 6.5 Consensus size: 21
90572433 TATATTATTA
90572443 AAAAATATATTTAAAA-TTTT
1 AAAAATATATTTAAAATTTTT
*
90572463 AAAAATAATATGTAAAA-TTTT
1 AAAAAT-ATATTTAAAATTTTT
*
90572484 AAAAATA-ATTTTAAAAATTTT
1 AAAAATATA-TTTAAAATTTTT
90572505 AAAAA-ATAATTTAAAAATAATATTT
1 AAAAATAT-ATTT-AAAAT--T-TTT
* *
90572530 -AAAAT-T-TTAAAAAATAATTTC
1 AAAAATATATT-TAAAAT--TTTT
90572551 AGAAATATATATTTAAAATTTTT
1 A-AAA-ATATATTTAAAATTTTT
90572574 AAAAATATAT
1 AAAAATATAT
90572584 ACTATAAAAC
Statistics
Matches: 98, Mismatches: 7, Indels: 31
0.72 0.05 0.23
Matches are distributed among these distances:
19 1 0.01
20 14 0.14
21 39 0.40
22 18 0.18
23 7 0.07
24 8 0.08
25 9 0.09
26 2 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
AAAAATATATTTAAAATTTTT
Found at i:90572649 original size:12 final size:12
Alignment explanation
Indices: 90572634--90572658 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90572624 AATTAATAAT
90572634 AAAAAATAAATA
1 AAAAAATAAATA
90572646 AAAAAATAAATA
1 AAAAAATAAATA
90572658 A
1 A
90572659 GGACAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAATAAATA
Found at i:90572748 original size:45 final size:47
Alignment explanation
Indices: 90572676--90572771 Score: 151
Period size: 45 Copynumber: 2.1 Consensus size: 47
90572666 GATAAAACAT
*
90572676 AAAAGAAGTAAAAAAGAAGAAGAAGAAAGAATAGGACAAAAGTTAAA
1 AAAAAAAGTAAAAAAGAAGAAGAAGAAAGAATAGGACAAAAGTTAAA
* *
90572723 AAAAAAAGT-AAAAA-AAGAAGCAGAAAGAATAGGATAAAAGTTAAA
1 AAAAAAAGTAAAAAAGAAGAAGAAGAAAGAATAGGACAAAAGTTAAA
90572768 AAAA
1 AAAA
90572772 GTAATTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 33 0.72
46 5 0.11
47 8 0.17
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (47 bp):
AAAAAAAGTAAAAAAGAAGAAGAAGAAAGAATAGGACAAAAGTTAAA
Found at i:90572782 original size:45 final size:44
Alignment explanation
Indices: 90572666--90572783 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 44
90572656 TAAGGACAAA
** *
90572666 GATAAAACATAAAAGAAGTAA-AAAAGAAGAAGAAGAAAGAATAG
1 GATAAAAGTTAAAAAAAGTAATAAAA-AAGAAGAAGAAAGAATAG
* * *
90572710 GACAAAAGTTAAAAAAA-AAAGTAAAAAAAGAAGCAGAAAGAATAG
1 GATAAAAGTTAAAAAAAGTAA-T-AAAAAAGAAGAAGAAAGAATAG
90572755 GATAAAAGTTAAAAAAAGTAATTAAAAAA
1 GATAAAAGTTAAAAAAAGTAA-TAAAAAA
90572784 AACAAACAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 2 0.03
44 13 0.21
45 39 0.64
46 7 0.11
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.12
Consensus pattern (44 bp):
GATAAAAGTTAAAAAAAGTAATAAAAAAGAAGAAGAAAGAATAG
Found at i:90573097 original size:11 final size:11
Alignment explanation
Indices: 90573077--90573105 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
90573067 AATTAATTAA
90573077 TTTT-TTTACT
1 TTTTCTTTACT
90573087 TTTTCTTTACT
1 TTTTCTTTACT
90573098 TTTTCTTT
1 TTTTCTTT
90573106 CTCTCTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTACT
Found at i:90577444 original size:6 final size:6
Alignment explanation
Indices: 90577433--90577486 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
90577423 CTAGCAATAC
90577433 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
90577481 AATATA
1 AATATA
90577487 TATTCAACTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:90583364 original size:46 final size:46
Alignment explanation
Indices: 90583297--90583474 Score: 195
Period size: 46 Copynumber: 3.8 Consensus size: 46
90583287 TGTAACCCGC
*
90583297 CCATAAGCT-AACTCGAACTCAACTCAACGAGCTCTGG-TGTTCGCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGCTC-GGATGTTCGCAT
* **
90583343 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG--T--TCGCAT
* * **
90583393 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
90583436 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
90583475 CCAAAATATC
Statistics
Matches: 108, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 6 0.06
46 61 0.56
47 28 0.26
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:90583414 original size:93 final size:93
Alignment explanation
Indices: 90583306--90583476 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
90583296 CCCATAAGCT
**
90583306 AACTCGAACTCAACTCAACGAGCTCTGG-TGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 AACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
90583370 CGAGCTCGGATGCCTAGTTACATCTCACG
65 CGAGCTCGGATGCCTAGTTACATCTCACG
* *
90583399 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
90583464 GAGCTCGGATGCC
66 GAGCTCGGATGCC
90583477 AAAATATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:90585954 original size:33 final size:33
Alignment explanation
Indices: 90585917--90585983 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
90585907 TCCGGTAGCT
90585917 TTATGTCATCCTATTTCTAAGATTGCAATCAAC
1 TTATGTCATCCTATTTCTAAGATTGCAATCAAC
* *
90585950 TTATGTCGTCCTATTTCTAGGATTGCAATCAAC
1 TTATGTCATCCTATTTCTAAGATTGCAATCAAC
90585983 T
1 T
90585984 CAGCTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (33 bp):
TTATGTCATCCTATTTCTAAGATTGCAATCAAC
Found at i:90588257 original size:6 final size:6
Alignment explanation
Indices: 90588239--90588291 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
90588229 ATATAAAGAC
* * *
90588239 AAAATA AACATA AAAATAA TAATAATA AAGATA AAAATA AAAATA AATATA
1 AAAATA AAAATA AAAAT-A -AA-AATA AAAATA AAAATA AAAATA AAAATA
90588290 AA
1 AA
90588292 TATAGATGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 30 0.77
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:90588266 original size:21 final size:21
Alignment explanation
Indices: 90588241--90588284 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
90588231 ATAAAGACAA
*
90588241 AATAAACATAAAAATAATAAT
1 AATAAACATAAAAATAAAAAT
*
90588262 AATAAAGATAAAAATAAAAAT
1 AATAAACATAAAAATAAAAAT
90588283 AA
1 AA
90588285 ATATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATAAACATAAAAATAAAAAT
Found at i:90588277 original size:18 final size:18
Alignment explanation
Indices: 90588239--90588291 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 18
90588229 ATATAAAGAC
*
90588239 AAAATAAACATAAAAATAA
1 AAAATAAAGATAAAAAT-A
90588258 TAATAATAAAGATAAAAATA
1 -AA-AATAAAGATAAAAATA
*
90588278 AAAATAAATATAAA
1 AAAATAAAGATAAA
90588292 TATAGATGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 3 0.10
21 14 0.47
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAATAAAGATAAAAATA
Found at i:90589973 original size:11 final size:11
Alignment explanation
Indices: 90589957--90589982 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90589947 CACAATAATC
90589957 ATAAAGAAATA
1 ATAAAGAAATA
90589968 ATAAAGAAATA
1 ATAAAGAAATA
90589979 ATAA
1 ATAA
90589983 GAATGATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
ATAAAGAAATA
Found at i:90590006 original size:9 final size:9
Alignment explanation
Indices: 90589964--90590014 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
90589954 ATCATAAAGA
90589964 AATAATAAAG
1 AATAAT-AAG
90589974 AAATAATAAG
1 -AATAATAAG
*
90589984 AATGATAATG
1 AATAATAA-G
*
90589994 -ATAATAAC
1 AATAATAAG
90590002 AATAATAAG
1 AATAATAAG
90590011 AATA
1 AATA
90590015 GCAATAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 24 0.71
10 4 0.12
11 6 0.18
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.24
Consensus pattern (9 bp):
AATAATAAG
Found at i:90594176 original size:30 final size:30
Alignment explanation
Indices: 90594142--90594199 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90594132 TAGGCACCTC
*
90594142 CACACGGGTAATCCACACACCCGTGTGTGA
1 CACACGGGTAAGCCACACACCCGTGTGTGA
* *
90594172 CACACGGGTAGGCCACACACCTGTGTGT
1 CACACGGGTAAGCCACACACCCGTGTGT
90594200 CATGGCCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (30 bp):
CACACGGGTAAGCCACACACCCGTGTGTGA
Found at i:90613027 original size:39 final size:39
Alignment explanation
Indices: 90612984--90613061 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
90612974 TAATAAACAT
* * *
90612984 CTTGCACTAAAACAGTTTTGGACAGCAGTAGTAAGCTAA
1 CTTGCACTAAAACAATTTTGAACAGCAGCAGTAAGCTAA
* *
90613023 CTTGCACTAAAATAATTTTGAACAGTAGCAGTAAGCTAA
1 CTTGCACTAAAACAATTTTGAACAGCAGCAGTAAGCTAA
90613062 TTTTGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (39 bp):
CTTGCACTAAAACAATTTTGAACAGCAGCAGTAAGCTAA
Found at i:90614224 original size:39 final size:39
Alignment explanation
Indices: 90614179--90614315 Score: 184
Period size: 39 Copynumber: 3.5 Consensus size: 39
90614169 CTGATGAGCA
* * *
90614179 TCAGTTAGTCTTCGGGCTTCTGTTTAGCACTTTTGTGTT
1 TCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGTGCT
* * *
90614218 TCAGTTAGCCTTTGGGCTTTTGTTTAGCACTTGTGTGCT
1 TCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGTGCT
* *
90614257 TCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCT
1 TCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGTGCT
* *
90614296 TCAGCTAGACTTCGGGCTTC
1 TCAGTTAGCCTTCGGGCTTC
90614316 AGATCACGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.42
Consensus pattern (39 bp):
TCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGTGCT
Found at i:90616984 original size:35 final size:35
Alignment explanation
Indices: 90616938--90617006 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
90616928 GTCTTCTCCA
90616938 TTGGTTTTCCAAAAGTATTTTCCAACTTTCATCTT
1 TTGGTTTTCCAAAAGTATTTTCCAACTTTCATCTT
90616973 TTGGTTTTCCAAAAGTATTTTCCAACTTTCATCT
1 TTGGTTTTCCAAAAGTATTTTCCAACTTTCATCT
90617007 CTGTCTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (35 bp):
TTGGTTTTCCAAAAGTATTTTCCAACTTTCATCTT
Found at i:90618505 original size:15 final size:15
Alignment explanation
Indices: 90618485--90618521 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
90618475 GTGTTACACT
90618485 CACTTCGGGTTTTAC
1 CACTTCGGGTTTTAC
90618500 CACTTCGGGTTTTAC
1 CACTTCGGGTTTTAC
*
90618515 CTCTTCG
1 CACTTCG
90618522 TCCTTTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.41
Consensus pattern (15 bp):
CACTTCGGGTTTTAC
Found at i:90625857 original size:11 final size:11
Alignment explanation
Indices: 90625841--90625868 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
90625831 GGAAAGAATC
90625841 CACCTAGACTT
1 CACCTAGACTT
90625852 CACCTAGACTT
1 CACCTAGACTT
90625863 CACCTA
1 CACCTA
90625869 TTATTCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.39, G:0.07, T:0.25
Consensus pattern (11 bp):
CACCTAGACTT
Found at i:90626047 original size:58 final size:58
Alignment explanation
Indices: 90625957--90626072 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
90625947 TTCGAGAGTA
* *
90625957 AGAACAACTGACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACCGCTATTG
1 AGAACAACTGACTCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTATTG
90626015 AGAACAACTGACTCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTATTG
1 AGAACAACTGACTCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTATTG
90626073 TTGTATTAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (58 bp):
AGAACAACTGACTCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTATTG
Found at i:90628152 original size:56 final size:51
Alignment explanation
Indices: 90627965--90628163 Score: 217
Period size: 50 Copynumber: 3.8 Consensus size: 51
90627955 GATAATAACA
* * **
90627965 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGA--TGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTC-TGATCTGG
* *
90628016 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTC--ATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCTGATCT-GG
*
90628066 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC-TGATC-T--GG
* *
90628121 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
90628164 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
47 1 0.01
49 1 0.01
50 46 0.37
51 33 0.26
53 3 0.02
54 1 0.01
55 2 0.02
56 39 0.31
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCTGATCTGG
Found at i:90628279 original size:13 final size:13
Alignment explanation
Indices: 90628258--90628289 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90628248 GCTTGGATCA
*
90628258 TCATCAAATAAAT
1 TCATAAAATAAAT
90628271 TCATAAAATAAAT
1 TCATAAAATAAAT
90628284 TCATAA
1 TCATAA
90628290 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:90628536 original size:30 final size:30
Alignment explanation
Indices: 90628501--90628558 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90628491 CCTCGACTCT
*
90628501 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
90628531 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
90628559 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:90635629 original size:50 final size:50
Alignment explanation
Indices: 90635505--90635753 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
90635495 GATAATAACA
* * ** * *
90635505 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
90635556 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
90635606 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
90635656 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
90635711 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
90635754 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:90635683 original size:100 final size:104
Alignment explanation
Indices: 90635504--90635753 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
90635494 TGATAATAAC
**
90635504 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
90635569 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
90635606 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
90635669 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
90635711 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
90635754 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:90635869 original size:13 final size:13
Alignment explanation
Indices: 90635848--90635879 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90635838 GCTTGGATCA
*
90635848 TCATCAAATAAAT
1 TCATAAAATAAAT
90635861 TCATAAAATAAAT
1 TCATAAAATAAAT
90635874 TCATAA
1 TCATAA
90635880 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:90636126 original size:30 final size:30
Alignment explanation
Indices: 90636091--90636148 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90636081 CCTCGACTCT
*
90636091 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
90636121 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
90636149 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:90639395 original size:13 final size:14
Alignment explanation
Indices: 90639374--90639404 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
90639364 CCCTGAACGG
90639374 TTTATTTTTAGAGT
1 TTTATTTTTAGAGT
90639388 TTTA-TTTTAGAGT
1 TTTATTTTTAGAGT
90639401 TTTA
1 TTTA
90639405 CAATTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (14 bp):
TTTATTTTTAGAGT
Found at i:90639458 original size:30 final size:30
Alignment explanation
Indices: 90639377--90639458 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
90639367 TGAACGGTTT
*
90639377 ATTTTTAG-AGTTTTATTTTAGAGTTTTACA
1 ATTTTTAGTA-TTTTATTTTAGTGTTTTACA
* *
90639407 ATTTTTAGTGTTTTATGTTAGTGTTTTACA
1 ATTTTTAGTATTTTATTTTAGTGTTTTACA
90639437 ATTTTTAGTATTTTATTTTAGT
1 ATTTTTAGTATTTTATTTTAGT
90639459 CCCTGGATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.23, C:0.02, G:0.13, T:0.61
Consensus pattern (30 bp):
ATTTTTAGTATTTTATTTTAGTGTTTTACA
Found at i:90640111 original size:16 final size:17
Alignment explanation
Indices: 90640090--90640128 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
90640080 GAATTGTGAT
90640090 TTATTCTA-TGGATTGA
1 TTATTCTACTGGATTGA
*
90640106 TTATTCTACTTGATTGA
1 TTATTCTACTGGATTGA
90640123 TCTATT
1 T-TATT
90640129 GTTTGCTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (17 bp):
TTATTCTACTGGATTGA
Found at i:90641493 original size:45 final size:45
Alignment explanation
Indices: 90641420--90641594 Score: 210
Period size: 45 Copynumber: 3.9 Consensus size: 45
90641410 TACTACGTGT
*
90641420 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACTGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
** * ** *
90641465 ACTGGGTACCATTGATTATAAAGGTGGTTGCTATGTGAGGACTCC
1 ACTGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
** *
90641510 ACTGGAA-ATCATTGAAAATAAATGTGGTTGCTATGTGCTGATTCC
1 ACT-GAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * *
90641555 ACCGAATATAATTGATTATAAGGGTGG-TGCTATGTGCTGA
1 ACTGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGA
90641595 CCCACCGTGT
Statistics
Matches: 108, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 16 0.15
45 91 0.84
46 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (45 bp):
ACTGAATATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:90641581 original size:90 final size:89
Alignment explanation
Indices: 90641427--90641590 Score: 238
Period size: 90 Copynumber: 1.8 Consensus size: 89
90641417 TGTACTGAGT
** * ** *
90641427 ATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACTGGGTACCATTGATTATAAAGGTGG
1 ATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACAATTGATTATAAAGGTGG
90641492 TTGCTATGTGAGGACTCCACTGGAA
66 -TGCTATGTGAGGACTCCACTGGAA
* * *
90641517 ATCATTGAAAATAAATGTGGTTGCTATGTGCTGATTCCACCGAATATAATTGATTATAAGGGTGG
1 ATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACAATTGATTATAAAGGTGG
90641582 TGCTATGTG
66 TGCTATGTG
90641591 CTGACCCACC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 9 0.14
90 56 0.86
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (89 bp):
ATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACAATTGATTATAAAGGTGG
TGCTATGTGAGGACTCCACTGGAA
Done.