Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold167
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: 4199719
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 197959 characters in sequence are not A, C, G, or T
File 13 of 22
Found at i:1988211 original size:271 final size:270
Alignment explanation
Indices: 1987729--1988235 Score: 978
Period size: 271 Copynumber: 1.9 Consensus size: 270
1987719 CTCTCTTAAC
1987729 ACGAAGCTTTTCTATCCTCATATAAGAAAATTTAATTGACTGATGAAAATTGCAGTTCTTTGTCA
1 ACGAAGCTTTTCTATCCTCATATAAGAAAATTTAATTGACTGATGAAAATTGCAGTTCTTTGTCA
* *
1987794 CAGCTGGAGCCTAAAAACTGGCGTCATCTGTCATTTATTCTTGCATTCTCGCCGTTGTCTTATTT
66 CAGCTGGAGCCTAAAAACTGGCGTCATCTGTCATTGATTCTTGCATTCTCGCCGTTGTCTTATTC
1987859 GATGCTCTTTTCTGGTTTCATTTTGTTGGGGTTTAAGTTTCCCGTTCGTCTTCTTCTGACCTACC
131 GATGCTCTTTTCTGGTTTCATTTTGTTGGGGTTTAAGTTTCCCGTTCGTCTTCTTCTGACCTACC
*
1987924 GCTTTCTGTTAACATAGTGTAGAGAAACAAATATGATTTAATTGACTGATTGAAAATTTAACACG
196 GCTTTCTGTTAACATAGTGTAAAGAAACAAATATGATTTAATTGACTGATTGAAAATTTAACACG
1987989 AAGCTTAAAA
261 AAGCTTAAAA
1987999 ACGAAGCTTTTCTATCCTCATATAAGAAAATTTAATTGACTGATTGAAAATTGCAGTTCTTTGTC
1 ACGAAGCTTTTCTATCCTCATATAAGAAAATTTAATTGACTGA-TGAAAATTGCAGTTCTTTGTC
1988064 ACAGCTGGAGCCTAAAAACTGGCGTCATCTGTCATTGATTCTTGCATTCTCGCCGTTGTCTTATT
65 ACAGCTGGAGCCTAAAAACTGGCGTCATCTGTCATTGATTCTTGCATTCTCGCCGTTGTCTTATT
1988129 CGATGCTCTTTTCTGGTTTCATTTTGTTGGGGTTTAAGTTTCCCGTTCGTCTTCTTCTGACCTAC
130 CGATGCTCTTTTCTGGTTTCATTTTGTTGGGGTTTAAGTTTCCCGTTCGTCTTCTTCTGACCTAC
1988194 CGCTTTCTGTTAACATAGTGTAAAGAAACAAATATGATTTAA
195 CGCTTTCTGTTAACATAGTGTAAAGAAACAAATATGATTTAA
1988236 ATAAGTGTAG
Statistics
Matches: 233, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
270 43 0.18
271 190 0.82
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (270 bp):
ACGAAGCTTTTCTATCCTCATATAAGAAAATTTAATTGACTGATGAAAATTGCAGTTCTTTGTCA
CAGCTGGAGCCTAAAAACTGGCGTCATCTGTCATTGATTCTTGCATTCTCGCCGTTGTCTTATTC
GATGCTCTTTTCTGGTTTCATTTTGTTGGGGTTTAAGTTTCCCGTTCGTCTTCTTCTGACCTACC
GCTTTCTGTTAACATAGTGTAAAGAAACAAATATGATTTAATTGACTGATTGAAAATTTAACACG
AAGCTTAAAA
Found at i:1988263 original size:2 final size:2
Alignment explanation
Indices: 1988256--1988306 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
1988246 CCGTTGAAGA
* *
1988256 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1988298 AT AT AT AT A
1 AT AT AT AT A
1988307 AGAGATAGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1988279 original size:16 final size:16
Alignment explanation
Indices: 1988258--1988304 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
1988248 GTTGAAGAAT
1988258 ATATATATATATATAC
1 ATATATATATATATAC
1988274 ATATATATATATATAC
1 ATATATATATATATAC
1988290 ATATATATATATATA
1 ATATATATATATATA
1988305 TAAGAGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATATATATATAC
Found at i:1989635 original size:2 final size:2
Alignment explanation
Indices: 1989628--1989660 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1989618 AATAGCTAAT
1989628 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1989661 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1997598 original size:2 final size:2
Alignment explanation
Indices: 1997585--1997615 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1997575 TGCAGCAAGC
*
1997585 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1997616 CTTGGCCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2002927 original size:22 final size:22
Alignment explanation
Indices: 2002876--2002922 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2002866 AAAATATTTT
*
2002876 TATTTAAATTTAATATAAAATA
1 TATTTAAATGTAATATAAAATA
*
2002898 TATATAAATGT-ATATAAAA-A
1 TATTTAAATGTAATATAAAATA
2002918 TATTT
1 TATTT
2002923 TTAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 8 0.36
22 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTTAAATGTAATATAAAATA
Found at i:2003283 original size:11 final size:11
Alignment explanation
Indices: 2003249--2003293 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
2003239 TAATATTTTA
*
2003249 AATATAATTAT
1 AATATAAATAT
* *
2003260 AATACAAAAAT
1 AATATAAATAT
2003271 AATATAAATAT
1 AATATAAATAT
*
2003282 AACATAAATAT
1 AATATAAATAT
2003293 A
1 A
2003294 TTAATTATCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
AATATAAATAT
Found at i:2010480 original size:18 final size:18
Alignment explanation
Indices: 2010457--2010499 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2010447 TTTATTATTT
*
2010457 TTATTTTTATTTAATATA
1 TTATTTTTATTAAATATA
* *
2010475 TTATTTTTATTAAATTTT
1 TTATTTTTATTAAATATA
2010493 TTATTTT
1 TTATTTT
2010500 AATATCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTTATTAAATATA
Found at i:2010510 original size:17 final size:16
Alignment explanation
Indices: 2010458--2010510 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
2010448 TTATTATTTT
2010458 TATTTTTA-TTTAATA
1 TATTTTTATTTTAATA
2010473 TATTATTT-TTATTAA-A
1 TATT-TTTATT-TTAATA
2010489 T-TTTTTATTTTAATA
1 TATTTTTATTTTAATA
2010504 TCATTTT
1 T-ATTTT
2010511 AATCAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 7 0.23
15 10 0.32
16 6 0.19
17 8 0.26
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTATTTTAATA
Found at i:2011220 original size:14 final size:15
Alignment explanation
Indices: 2011186--2011246 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 15
2011176 AAAATTGAGA
*
2011186 TTTAAATTTTAAATTT
1 TTTAAATATT-AATTT
*
2011202 ATTAAATATT-ATTT
1 TTTAAATATTAATTT
2011216 TTTAAA-ATTAATTT
1 TTTAAATATTAATTT
*
2011230 TATAAATTAATTAATTT
1 TTTAAA-T-ATTAATTT
2011247 AAATCTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.08
14 18 0.49
16 8 0.22
17 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAAATATTAATTT
Found at i:2012591 original size:2 final size:2
Alignment explanation
Indices: 2012586--2012618 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2012576 TTTTTTCTTA
*
2012586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2012619 ACTCTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2012755 original size:22 final size:22
Alignment explanation
Indices: 2012706--2012755 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
2012696 TTCTTTAACC
* *
2012706 ATAATCATTATGCATAGATTTT
1 ATAATTATTATGCATAGATTTG
2012728 ATAATTATTATGCATAGATTTG
1 ATAATTATTATGCATAGATTTG
2012750 ATAATT
1 ATAATT
2012756 TGAATATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (22 bp):
ATAATTATTATGCATAGATTTG
Found at i:2012792 original size:21 final size:23
Alignment explanation
Indices: 2012758--2012900 Score: 64
Period size: 23 Copynumber: 6.1 Consensus size: 23
2012748 TGATAATTTG
2012758 AATATGATACATATAAAATTAT-TA
1 AATAT-ATA-ATATAAAATTATATA
* * *
2012782 AA-ATATGATATAATATAATATA
1 AATATATAATATAAAATTATATA
* *
2012804 AATATATAATTTAAAATT-TATTT
1 AATATATAATATAAAATTATA-TA
* *
2012827 AATATAAAATATTAATATTATA-A
1 AATATATAATA-TAAAATTATATA
* *
2012850 AATTAATATAAATTTAAAA-TATTTA
1 AA-T-ATAT-AATATAAAATTATATA
* * *
2012875 AA-ATATGATTATAATATTAAATA
1 AATATAT-AATATAAAATTATATA
2012898 AAT
1 AAT
2012901 TAACAAATCT
Statistics
Matches: 86, Mismatches: 22, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
21 10 0.12
22 18 0.21
23 31 0.36
24 12 0.14
25 12 0.14
26 3 0.03
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (23 bp):
AATATATAATATAAAATTATATA
Found at i:2012839 original size:14 final size:13
Alignment explanation
Indices: 2012793--2012861 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 13
2012783 AATATGATAT
2012793 AATA-TAATAT-A
1 AATATTAATATAA
*
2012804 AATATATAATTTAA
1 AATAT-TAATATAA
2012818 AATTTATTTAATATAA
1 AA--TA-TTAATATAA
2012834 AATATTAATATTATA
1 AATATTAATA-TA-A
2012849 AA-ATTAATATAA
1 AATATTAATATAA
2012861 A
1 A
2012862 TTTAAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
11 4 0.08
12 2 0.04
13 13 0.27
14 14 0.29
15 3 0.06
16 11 0.23
17 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATATTAATATAA
Found at i:2013132 original size:14 final size:14
Alignment explanation
Indices: 2013113--2013162 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
2013103 ATTTAATAAT
2013113 TTTAAATATAATTA
1 TTTAAATATAATTA
*
2013127 TTTAAATATGA-TA
1 TTTAAATATAATTA
* * *
2013140 TATATATAAAATTA
1 TTTAAATATAATTA
2013154 TTTAAATAT
1 TTTAAATAT
2013163 GATATGATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TTTAAATATAATTA
Found at i:2013172 original size:380 final size:376
Alignment explanation
Indices: 2012622--2013369 Score: 964
Period size: 380 Copynumber: 2.0 Consensus size: 376
2012612 ATTTATAACT
*
2012622 CTTAAAATCTAGACAATACATTCTATGAAGTAAAAGAAAAACCAAAGCAAAATGTGTTACACAAA
1 CTTAAAATCTAGACAATACAATCTATGAAGTAAAAGAAAAACCAAAGCAAAATGTGTTACACAAA
* * * * *
2012687 AACCTTATGTTCTTTAACCATAATCATTATGCATAGATTTTATAATTATTATGCATAGATTTGAT
66 AACCTTATGTTCTTCAACCATAATCATTATGCATAAATTTAATAATTATTAT-CATAGATATAAT
*
2012752 AATTTGAATATGATACATATAAAATTATTAAAATATGATATAATATAATATAAATATATAATTTA
130 AATTTAAATATGATACATATAAAATTATTAAAATATG-----ATATAATATAAATATATAATTTA
* **
2012817 AAATTTATTTAATATAAAATATTAATATTAT-AAAATTAATATAAATTTAAAATAT-TTAAAATA
190 AAATTTATATAATATAAAATATTAATA-TATCAAAATTAATATAAATAAAAAATATATTAAAATA
* * * *
2012880 TGATTATAA-T-ATTAAATAAATTAACAAATCTAATTATAAATAGTGAA-ATTAGTTGGTCCATG
254 TGATTATAAGTAAATAAATAAATTAACAAATATAATTATAAATAGTAAACATTAGTTGGTCAATG
* *
2012942 TGCATTATATTTTTCA-GTTAGCTATGACAGGTCCTTTTCGATTTTCATACATAGAACC
319 TGCATTATATTTTTCACCTT-GCTATGACAGGTCCTTTTCCATTTTCATACATAGAACC
* * * *
2013000 CTTAAAATCTGGACAATAGAATCTATGATGTAAAAGAAAAGGCCAAA-CAAAAATGTGTTACACA
1 CTTAAAATCTAGACAATACAATCTATGAAGTAAAAGAAAA-ACCAAAGC-AAAATGTGTTACACA
* **
2013064 AAATCCTTCATGTTCTTCGTCCATAATCATTATGCATAAATTTAATAA-T-TT-T-A-A-ATATA
64 AAAACCTT-ATGTTCTTCAACCATAATCATTATGCATAAATTTAATAATTATTATCATAGATATA
* *
2013123 ATTATTTAAATATGATATATATATAAAATTATTTAAATATGATATGATATAATATAAATATATAA
128 ATAATTTAAATATG--ATACATATAAAATTA-TT-AA-A--ATATGATATAATATAAATATATAA
*
2013188 TTTAAAATTTATATAATATAAATTATTAATATATCAAAATTAATATAAATAAAAAATATATTAAA
186 TTTAAAATTTATATAATATAAAATATTAATATATCAAAATTAATATAAATAAAAAATATATTAAA
* * *
2013253 ATATGATTGTAATGTAAATAAATAAATTAACAAATATAGTTATAAATAGTAAACATTATTTGGTC
251 ATATGATTATAA-GTAAATAAATAAATTAACAAATATAATTATAAATAGTAAACATTAGTTGGTC
*
2013318 AATGTGCATTATATTTTTCACCTTGCTTTGACAGGTCCTTTTCCATTTTCAT
315 AATGTGCATTATATTTTTCACCTTGCTATGACAGGTCCTTTTCCATTTTCAT
2013370 TCATTCCTTG
Statistics
Matches: 323, Mismatches: 30, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
373 15 0.05
374 4 0.01
375 85 0.26
376 18 0.06
377 3 0.01
378 41 0.13
379 61 0.19
380 94 0.29
381 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (376 bp):
CTTAAAATCTAGACAATACAATCTATGAAGTAAAAGAAAAACCAAAGCAAAATGTGTTACACAAA
AACCTTATGTTCTTCAACCATAATCATTATGCATAAATTTAATAATTATTATCATAGATATAATA
ATTTAAATATGATACATATAAAATTATTAAAATATGATATAATATAAATATATAATTTAAAATTT
ATATAATATAAAATATTAATATATCAAAATTAATATAAATAAAAAATATATTAAAATATGATTAT
AAGTAAATAAATAAATTAACAAATATAATTATAAATAGTAAACATTAGTTGGTCAATGTGCATTA
TATTTTTCACCTTGCTATGACAGGTCCTTTTCCATTTTCATACATAGAACC
Found at i:2013186 original size:375 final size:381
Alignment explanation
Indices: 2012622--2013369 Score: 1036
Period size: 375 Copynumber: 2.0 Consensus size: 381
2012612 ATTTATAACT
*
2012622 CTTAAAATCTAGACAATACATTCTATGAAGTAAAAGAAAAACCAAAGCAAAATGTGTTACACAAA
1 CTTAAAATCTAGACAATACAATCTATGAAGTAAAAGAAAAACCAAAGCAAAATGTGTTACACAAA
* * * * *
2012687 AACCTTATGTTCTTTAACCATAATCATTATGCATAGATTTTATAATTATTATGCATAGATTTGAT
66 AACCTTATGTTCTTCAACCATAATCATTATGCATAAATTTAATAATTATTAT-CATAGATATAAT
*
2012752 AATTTGAATATGATACATATAAAATTATTAAAATATGATATAATATAATATAAATATATAATTTA
130 AATTTAAATATGATACATATAAAATTATTAAAATATGATATAATATAATATAAATATATAATTTA
* **
2012817 AAATTTATTTAATATAAAATATTAATATTAT-AAAATTAATATAAATTTAAAATAT-TTAAAATA
195 AAATTTATATAATATAAAATATTAATA-TATCAAAATTAATATAAATAAAAAATATATTAAAATA
* * * *
2012880 TGATTATAA-T-ATTAAATAAATTAACAAATCTAATTATAAATAGTGAA-ATTAGTTGGTCCATG
259 TGATTATAAGTAAATAAATAAATTAACAAATATAATTATAAATAGTAAACATTAGTTGGTCAATG
* *
2012942 TGCATTATATTTTTCA-GTTAGCTATGACAGGTCCTTTTCGATTTTCATACATAGAACC
324 TGCATTATATTTTTCACCTT-GCTATGACAGGTCCTTTTCCATTTTCATACATAGAACC
* * * *
2013000 CTTAAAATCTGGACAATAGAATCTATGATGTAAAAGAAAAGGCCAAA-CAAAAATGTGTTACACA
1 CTTAAAATCTAGACAATACAATCTATGAAGTAAAAGAAAA-ACCAAAGC-AAAATGTGTTACACA
* **
2013064 AAATCCTTCATGTTCTTCGTCCATAATCATTATGCATAAATTTAATAA-T-TT-T-A-A-ATATA
64 AAAACCTT-ATGTTCTTCAACCATAATCATTATGCATAAATTTAATAATTATTATCATAGATATA
* * * *
2013123 ATTATTTAAATATGATATATATATAAAATTATTTAAATATGATATGATATAATATAAATATATAA
128 ATAATTTAAATATG--ATACATATAAAATTATTAAAATATGATATAATATAATATAAATATATAA
*
2013188 TTTAAAATTTATATAATATAAATTATTAATATATCAAAATTAATATAAATAAAAAATATATTAAA
191 TTTAAAATTTATATAATATAAAATATTAATATATCAAAATTAATATAAATAAAAAATATATTAAA
* * *
2013253 ATATGATTGTAATGTAAATAAATAAATTAACAAATATAGTTATAAATAGTAAACATTATTTGGTC
256 ATATGATTATAA-GTAAATAAATAAATTAACAAATATAATTATAAATAGTAAACATTAGTTGGTC
*
2013318 AATGTGCATTATATTTTTCACCTTGCTTTGACAGGTCCTTTTCCATTTTCAT
320 AATGTGCATTATATTTTTCACCTTGCTATGACAGGTCCTTTTCCATTTTCAT
2013370 TCATTCCTTG
Statistics
Matches: 326, Mismatches: 32, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
373 15 0.05
374 4 0.01
375 98 0.30
376 16 0.05
377 1 0.00
378 40 0.12
379 61 0.19
380 89 0.27
381 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (381 bp):
CTTAAAATCTAGACAATACAATCTATGAAGTAAAAGAAAAACCAAAGCAAAATGTGTTACACAAA
AACCTTATGTTCTTCAACCATAATCATTATGCATAAATTTAATAATTATTATCATAGATATAATA
ATTTAAATATGATACATATAAAATTATTAAAATATGATATAATATAATATAAATATATAATTTAA
AATTTATATAATATAAAATATTAATATATCAAAATTAATATAAATAAAAAATATATTAAAATATG
ATTATAAGTAAATAAATAAATTAACAAATATAATTATAAATAGTAAACATTAGTTGGTCAATGTG
CATTATATTTTTCACCTTGCTATGACAGGTCCTTTTCCATTTTCATACATAGAACC
Found at i:2013205 original size:29 final size:32
Alignment explanation
Indices: 2013169--2013240 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 32
2013159 ATATGATATG
*
2013169 ATATAATATAAA-TATATAAT-T-T-AAAATTT
1 ATATAATATAAATTAT-TAATATATCAAAATTA
2013198 ATATAATATAAATTATTAATATATCAAAATTA
1 ATATAATATAAATTATTAATATATCAAAATTA
2013230 ATATAA-ATAAA
1 ATATAATATAAA
2013241 AAATATATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
29 16 0.42
30 4 0.11
31 6 0.16
32 12 0.32
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (32 bp):
ATATAATATAAATTATTAATATATCAAAATTA
Found at i:2013245 original size:27 final size:27
Alignment explanation
Indices: 2013201--2013254 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2013191 AAAATTTATA
* **
2013201 TAATATAAATTATTAATATATCAAAAT
1 TAATATAAATAAAAAATATATCAAAAT
*
2013228 TAATATAAATAAAAAATATATTAAAAT
1 TAATATAAATAAAAAATATATCAAAAT
2013255 ATGATTGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
TAATATAAATAAAAAATATATCAAAAT
Found at i:2014863 original size:18 final size:19
Alignment explanation
Indices: 2014832--2014878 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
2014822 TGTTTATATT
2014832 ATATATTAATATAAATTT-TA
1 ATATATT-ATAT-AATTTATA
2014852 ATATATTA-ATAATTTATA
1 ATATATTATATAATTTATA
*
2014870 TTATATTAT
1 ATATATTAT
2014879 CATATCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.21
18 11 0.46
19 1 0.04
20 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATTATATAATTTATA
Found at i:2014875 original size:20 final size:19
Alignment explanation
Indices: 2014810--2014875 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
2014800 TCGTATACTC
*
2014810 ATATTATA-ATT-ATGTTT
1 ATATTATATATTAATATTT
**
2014827 ATATTATATATTAATATAA
1 ATATTATATATTAATATTT
*
2014846 ATTTTAATATATTAATAATTT
1 ATATT-ATATATTAAT-ATTT
2014867 ATATTATAT
1 ATATTATAT
2014876 TATCATATCT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 8 0.21
18 3 0.08
19 7 0.18
20 14 0.37
21 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATATTATATATTAATATTT
Found at i:2015269 original size:18 final size:17
Alignment explanation
Indices: 2015247--2015298 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
2015237 TAAGATATTA
2015247 TATATTTATATAAATTT
1 TATATTTATATAAATTT
2015264 TGATATATTA-AT-AA-TT
1 T-ATAT-TTATATAAATTT
2015280 TATA-TTATATAAATTT
1 TATATTTATATAAATTT
2015296 TAT
1 TAT
2015299 CATAATCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
13 3 0.10
14 2 0.07
15 5 0.17
16 8 0.27
17 3 0.10
18 6 0.20
19 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATATTTATATAAATTT
Found at i:2015314 original size:33 final size:32
Alignment explanation
Indices: 2015242--2015322 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 32
2015232 ATATTTAAGA
*
2015242 TATTATATATTTATATAAATTTTGATATATTAAT
1 TATT-TATA-TTATATAAATTTTGATATAATAAT
* *
2015276 AATTTATATTATATAAATTTT-ATCATAATCAT
1 TATTTATATTATATAAATTTTGAT-ATAATAAT
*
2015308 GTATTTATATCATAT
1 -TATTTATATTATAT
2015323 TCGTATTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 2 0.05
32 19 0.47
33 16 0.40
34 3 0.08
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (32 bp):
TATTTATATTATATAAATTTTGATATAATAAT
Found at i:2015876 original size:25 final size:24
Alignment explanation
Indices: 2015845--2015904 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
2015835 GAATATCGAT
2015845 TAAAAATTAAGATATTTAAATATAA
1 TAAAAATTAAGATATTTAAATAT-A
**
2015870 TAAAAATATAA-ATATTTATCTATA
1 TAAAAAT-TAAGATATTTAAATATA
2015894 TAAAAA-TAAGA
1 TAAAAATTAAGA
2015905 AACTTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 3 0.10
23 1 0.03
24 7 0.23
25 17 0.55
26 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (24 bp):
TAAAAATTAAGATATTTAAATATA
Found at i:2017039 original size:12 final size:11
Alignment explanation
Indices: 2017024--2017087 Score: 55
Period size: 12 Copynumber: 5.9 Consensus size: 11
2017014 AATGTTATCC
2017024 AAAATTATATAA
1 AAAATTATAT-A
2017036 AAAATTAT-T-
1 AAAATTATATA
2017045 AAAATTATATTA
1 AAAATTATA-TA
2017057 AAAATTAT-T-
1 AAAATTATATA
*
2017066 GAAATTATATTA
1 AAAATTATA-TA
*
2017078 AAAGTTATAT
1 AAAATTATAT
2017088 CATATTAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
9 15 0.35
10 1 0.02
11 4 0.09
12 23 0.53
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAATTATATA
Found at i:2017050 original size:21 final size:21
Alignment explanation
Indices: 2017024--2017134 Score: 97
Period size: 21 Copynumber: 5.5 Consensus size: 21
2017014 AATGTTATCC
*
2017024 AAAATTATATAAAAAATTATT
1 AAAATTATATTAAAAATTATT
2017045 AAAATTATATTAAAAATTATT
1 AAAATTATATTAAAAATTATT
* *
2017066 GAAATTATATTAAAAGTTA-T
1 AAAATTATATTAAAAATTATT
* * **
2017086 ---ATCATATTAAAGACGATT
1 AAAATTATATTAAAAATTATT
* *
2017104 AAAATCATA-TAAAAATTATC
1 AAAATTATATTAAAAATTATT
*
2017124 AAAAATATATT
1 AAAATTATATT
2017135 TAAAGTTTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
17 11 0.15
18 1 0.01
20 15 0.21
21 44 0.62
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATTATATTAAAAATTATT
Found at i:2023872 original size:5 final size:5
Alignment explanation
Indices: 2023862--2023892 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
2023852 TGATATCTTA
2023862 ATACC ATACC ATACC ATACC ATACC ATACC A
1 ATACC ATACC ATACC ATACC ATACC ATACC A
2023893 GATTATTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (5 bp):
ATACC
Found at i:2024835 original size:29 final size:28
Alignment explanation
Indices: 2024792--2024851 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 28
2024782 AATCCGAATT
*
2024792 CCACCTTAATGGACCAAACAAAAAATAAC
1 CCACCTTAATAGACCAAACAAAAAAT-AC
2024821 CCACCTTAATAGACCAAACAAAAAATAC
1 CCACCTTAATAGACCAAACAAAAAATAC
2024849 CCA
1 CCA
2024852 AAACTGACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.52, C:0.30, G:0.05, T:0.13
Consensus pattern (28 bp):
CCACCTTAATAGACCAAACAAAAAATAC
Found at i:2025168 original size:50 final size:50
Alignment explanation
Indices: 2025108--2025395 Score: 459
Period size: 50 Copynumber: 5.8 Consensus size: 50
2025098 GATGGAAAGT
* ** *
2025108 ACCTTTGACAATAAAAAGAGGTGGCTATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* *
2025158 ACTTTTGACAATAGAGGGAGGTGGCAATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* *
2025208 ACCTTTGATAATAGATGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
*
2025258 ACCTTTGACAATAGAGGGAGGTAGCCATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* *
2025308 ACCTTTGACAATAGAGGGAGGTAGCCATAATTGTTGACGATTCTTTACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
**
2025358 ACCTTTGACAATAGAGAAAGGTGGCCATAATTGTTGAC
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
2025396 TCTAAGTATA
Statistics
Matches: 222, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 222 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (50 bp):
ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
Found at i:2029839 original size:50 final size:50
Alignment explanation
Indices: 2029764--2030051 Score: 441
Period size: 50 Copynumber: 5.8 Consensus size: 50
2029754 GATGAAAAGT
* * *
2029764 ACCTTTGACAATAGAGAGAGGTGGCCATAATTATTGACGATTCTTCACTA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
*
2029814 ACCTTTGGCAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* * *
2029864 ACCTTTGATAATAGAGGGAGGTGGCCACAATTGTTGACGATTATTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
*
2029914 ACCTTTGACAATAGAGGGAGGTGGCCACAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* * * *
2029964 ATCTTTGACAATAAAGGGAGGTGGCTATAATTGTTGATGATTCTTCACCA
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* **
2030014 ATCTTTGACAATAGAGAAAGGTGGCCATAATTGTTGAC
1 ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGAC
2030052 TCTAAGTATA
Statistics
Matches: 218, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 218 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (50 bp):
ACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTCTTCACCA
Found at i:2030556 original size:16 final size:16
Alignment explanation
Indices: 2030537--2030578 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2030527 TGATCTAAAT
2030537 CTAAAATAAATTGAAA
1 CTAAAATAAATTGAAA
* *
2030553 CTAAAATAACTTGAAC
1 CTAAAATAAATTGAAA
2030569 CTACAAATAA
1 CTA-AAATAA
2030579 TCTAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (16 bp):
CTAAAATAAATTGAAA
Found at i:2032123 original size:16 final size:16
Alignment explanation
Indices: 2032104--2032134 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2032094 GTTTTAGATA
*
2032104 TTTTATTTTTTTTAAC
1 TTTTATTTTTATTAAC
2032120 TTTTATTTTTATTAA
1 TTTTATTTTTATTAA
2032135 TTCAAGTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATTTTTATTAAC
Found at i:2033720 original size:17 final size:17
Alignment explanation
Indices: 2033698--2033730 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2033688 TTCATAATAT
*
2033698 AAAATAATTAGAATTAA
1 AAAATAATTAAAATTAA
2033715 AAAATAATTAAAATTA
1 AAAATAATTAAAATTA
2033731 GATAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAATAATTAAAATTAA
Found at i:2034527 original size:2 final size:2
Alignment explanation
Indices: 2034520--2034552 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2034510 CAGATTTTTC
2034520 AT 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 AT A
2034553 ATAATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2036107 original size:7 final size:7
Alignment explanation
Indices: 2036095--2036121 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2036085 CATGTTCAAT
2036095 AAATTTA
1 AAATTTA
2036102 AAATTTA
1 AAATTTA
2036109 AAATTTA
1 AAATTTA
2036116 AAATTT
1 AAATTT
2036122 TGACTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:2038714 original size:10 final size:10
Alignment explanation
Indices: 2038699--2038731 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
2038689 ATTAAGAAGG
2038699 ATATATACAT
1 ATATATACAT
2038709 ATATATACAT
1 ATATATACAT
*
2038719 ATATATATAT
1 ATATATACAT
2038729 ATA
1 ATA
2038732 AAGGCACCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATACAT
Found at i:2039260 original size:2 final size:2
Alignment explanation
Indices: 2039241--2039279 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2039231 AAATATATTC
* *
2039241 AT AT AC AT AT AA 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 AT AT AT AT A
2039280 AATACACACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2039594 original size:2 final size:2
Alignment explanation
Indices: 2039581--2039622 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2039571 TTAAAAGGTA
* *
2039581 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2039623 GGGAGCCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2040155 original size:18 final size:18
Alignment explanation
Indices: 2040125--2040177 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
2040115 ATTTTAATTT
2040125 AAAT-TTAATTATAAATAA
1 AAATATTAA-TATAAATAA
2040143 AAATATTAATATAAA-AA
1 AAATATTAATATAAATAA
*
2040160 ATATATTAA-AT-AATAA
1 AAATATTAATATAAATAA
2040176 AA
1 AA
2040178 CAAGTATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 5 0.16
17 10 0.32
18 10 0.32
19 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATATTAATATAAATAA
Found at i:2044943 original size:19 final size:19
Alignment explanation
Indices: 2044921--2044958 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2044911 CTTAAATTTT
2044921 AATATAAATATTAA-ATAAA
1 AATATAAAT-TTAATATAAA
*
2044940 AATATATATTTAATATAAA
1 AATATAAATTTAATATAAA
2044959 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATATAAATTTAATATAAA
Found at i:2044954 original size:17 final size:17
Alignment explanation
Indices: 2044928--2044961 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2044918 TTTAATATAA
2044928 ATATTAAATAAAAATAT
1 ATATTAAATAAAAATAT
* *
2044945 ATATTTAATATAAATAT
1 ATATTAAATAAAAATAT
2044962 TTTAAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATTAAATAAAAATAT
Found at i:2046048 original size:3 final size:3
Alignment explanation
Indices: 2046035--2046066 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
2046025 AAAAATCTTC
2046035 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA A
2046067 AAGATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2046959 original size:18 final size:17
Alignment explanation
Indices: 2046923--2046999 Score: 56
Period size: 17 Copynumber: 4.6 Consensus size: 17
2046913 ATTATATTTA
* * *
2046923 AAATATTATATATTTAT
1 AAATTTTATATGTTCAT
2046940 AAATTTTAATATGTTCAT
1 AAATTTT-ATATGTTCAT
2046958 -AA-TTTATAT-TAT-AT
1 AAATTTTATATGT-TCAT
2046972 AAATTTTTATATGTTCAT
1 AAA-TTTTATATGTTCAT
*
2046990 ATA-TTTATAT
1 AAATTTTATAT
2047000 TATTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.06
15 7 0.14
16 10 0.20
17 16 0.33
18 13 0.27
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
AAATTTTATATGTTCAT
Found at i:2047000 original size:33 final size:33
Alignment explanation
Indices: 2046925--2047002 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
2046915 TATATTTAAA
2046925 ATATTATATATT-TATAAATTTTAATATGTTCAT
1 ATATT-TATATTATATAAATTTTAATATGTTCAT
*
2046958 A-ATTTATATTATATAAATTTTTATATGTTCAT
1 ATATTTATATTATATAAATTTTAATATGTTCAT
2046990 ATATTTATATTAT
1 ATATTTATATTAT
2047003 TATTTTTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 6 0.14
32 24 0.57
33 12 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (33 bp):
ATATTTATATTATATAAATTTTAATATGTTCAT
Found at i:2047015 original size:33 final size:33
Alignment explanation
Indices: 2046948--2047046 Score: 98
Period size: 33 Copynumber: 3.0 Consensus size: 33
2046938 ATAAATTTTA
**
2046948 ATATGTTCATA-ATTTATATTATATAAATTT-TT
1 ATATGTTCATATATTTATATTAT-TATTTTTATT
2046980 ATATGTTCATATATTTATATTATTATTTTTATT
1 ATATGTTCATATATTTATATTATTATTTTTATT
* * *
2047013 ATATCTT-ATATAATTTTTAATTATT-TTTTGATT
1 ATATGTTCATAT-ATTTAT-ATTATTATTTTTATT
2047046 A
1 A
2047047 GTTTCAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
32 20 0.34
33 32 0.55
34 6 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (33 bp):
ATATGTTCATATATTTATATTATTATTTTTATT
Found at i:2048501 original size:2 final size:2
Alignment explanation
Indices: 2048494--2048519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2048484 AATTGTGAGC
2048494 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2048520 TATTCCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2048926 original size:2 final size:2
Alignment explanation
Indices: 2048919--2048952 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2048909 ATTCGTCCAA
2048919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2048953 TTACTTCGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2050823 original size:20 final size:20
Alignment explanation
Indices: 2050798--2050838 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2050788 AAAGGCAGTC
2050798 GCTGGCCTCTTCAGAACTGT
1 GCTGGCCTCTTCAGAACTGT
2050818 GCTGGCCTCTTCAGAACTGT
1 GCTGGCCTCTTCAGAACTGT
2050838 G
1 G
2050839 GAGCGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (20 bp):
GCTGGCCTCTTCAGAACTGT
Found at i:2051219 original size:17 final size:17
Alignment explanation
Indices: 2051183--2051215 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2051173 AACAACTTTT
2051183 TAATAAATATTATAAAA
1 TAATAAATATTATAAAA
2051200 TAATAAA-ATTATAAAA
1 TAATAAATATTATAAAA
2051216 ATAAAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATAAATATTATAAAA
Found at i:2051398 original size:22 final size:21
Alignment explanation
Indices: 2051372--2051417 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2051362 ATATTTAATT
2051372 ATTTTTAAAATTTTTAAAAATA
1 ATTTTTAAAA-TTTTAAAAATA
* *
2051394 ATTTTTTATATTTTAAAAATA
1 ATTTTTAAAATTTTAAAAATA
2051415 ATT
1 ATT
2051418 ATTGATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTTAAAATTTTAAAAATA
Found at i:2058016 original size:2 final size:2
Alignment explanation
Indices: 2058011--2058049 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2058001 TCTCTCTCTC
2058011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2058050 GCATGTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2059673 original size:121 final size:121
Alignment explanation
Indices: 2059524--2059764 Score: 421
Period size: 121 Copynumber: 2.0 Consensus size: 121
2059514 CGTTCCGTTC
* *
2059524 TCTGTCCTAAATTTCCTTTTAGGAAGTTTATCAGCCATTGATGAGAATGTTGCATGGCATTTTTT
1 TCTGTCCTAAATTTCCTTTTAGAAAGTTTATCAGCCATTGATGAGAATGTTGCATGGCAGTTTTT
*
2059589 TGTATTCTAGCTGCTA-CCTCCTTGATGGAGGTGAGATACGGCTACCATCAGGTTGT
66 TATATTCTAGCTGC-AGCCTCCTTGATGGAGGTGAGATACGGCTACCATCAGGTTGT
2059645 TCTGTCCTAAATTTCCTTTTAGAAAGTTTATCAGCCATTGATGAGAATGTTGCATGGCAGTTTTT
1 TCTGTCCTAAATTTCCTTTTAGAAAGTTTATCAGCCATTGATGAGAATGTTGCATGGCAGTTTTT
* *
2059710 TATTTTCTAGCTGCAGCCTCCTTGATGGAGGTGAGGTACGGCTACCATCAGGTTG
66 TATATTCTAGCTGCAGCCTCCTTGATGGAGGTGAGATACGGCTACCATCAGGTTG
2059765 CTATCTTAAC
Statistics
Matches: 114, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 1 0.01
121 113 0.99
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (121 bp):
TCTGTCCTAAATTTCCTTTTAGAAAGTTTATCAGCCATTGATGAGAATGTTGCATGGCAGTTTTT
TATATTCTAGCTGCAGCCTCCTTGATGGAGGTGAGATACGGCTACCATCAGGTTGT
Found at i:2068070 original size:130 final size:130
Alignment explanation
Indices: 2067830--2068221 Score: 488
Period size: 130 Copynumber: 3.0 Consensus size: 130
2067820 TTTTGGCTTC
* * * * *
2067830 AGTGCTTTGTCACTTGATAATTGTCATTTTTAGGATTCTGCAATTTTAATCTGTGTTGCTTGCTC
1 AGTGCTTTGTCACTGGATAATTGTTATTTTTAGGAATCTGCAATTTTAATCTATGTTGCTTGCAC
* * * * *
2067895 TCA-GGTACAGGTGT-TGGGTT-TTGGTATGTATCTAAGTGTCGAACATGTCAACTACTCTAAAT
66 T-AGGGGA-TGG-GTATGGGTTATTAGTATGTATCTAAGTGTCAAACATGTCAACTACCCTAAAT
2067957 CTA
128 CTA
*
2067960 AGTGCTTTATCACTGGATAATTGTTATTTTTAGGAATCTGCAATTTTAATCTATGTTGCTTGCAC
1 AGTGCTTTGTCACTGGATAATTGTTATTTTTAGGAATCTGCAATTTTAATCTATGTTGCTTGCAC
* ** * * * *
2068025 TTGGGGATGGGTATGGGTTATTAGTATGCGTGTAAATGTCAAACATGTTAACTGCCCTAAATCTA
66 TAGGGGATGGGTATGGGTTATTAGTATGTATCTAAGTGTCAAACATGTCAACTACCCTAAATCTA
* *
2068090 AGTGCTTTGTCACTGGATAAATGTTATTTTTAGGAATCTGCAATTTTAATCGATGTTGCTTGCAC
1 AGTGCTTTGTCACTGGATAATTGTTATTTTTAGGAATCTGCAATTTTAATCTATGTTGCTTGCAC
* ** *
2068155 TCAGGTG-TGCATATCGAG-TATTAGTATGTATCTAAGTGTCAAACATGTCAACTACCCTAAATC
66 T-AGGGGATGGGTAT-GGGTTATTAGTATGTATCTAAGTGTCAAACATGTCAACTACCCTAAATC
2068218 TA
129 TA
2068220 AG
1 AG
2068222 ATACAGGCAT
Statistics
Matches: 225, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
128 2 0.01
129 8 0.04
130 210 0.93
131 5 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (130 bp):
AGTGCTTTGTCACTGGATAATTGTTATTTTTAGGAATCTGCAATTTTAATCTATGTTGCTTGCAC
TAGGGGATGGGTATGGGTTATTAGTATGTATCTAAGTGTCAAACATGTCAACTACCCTAAATCTA
Found at i:2080480 original size:41 final size:43
Alignment explanation
Indices: 2080400--2080481 Score: 100
Period size: 41 Copynumber: 2.0 Consensus size: 43
2080390 TATTTTCATT
*
2080400 ATATAAAATAAATATTAAATTTTATATTAATATTTATAATTAA
1 ATATAAAATAAATATTAAATTTTATATTAATATTAATAATTAA
*
2080443 ATAT-AAATAAA-ATTAATTTTTATTATTTAA-A-TAATAATT
1 ATATAAAATAAATATTAAATTTTA-TA-TTAATATTAATAATT
2080482 TAAGATGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
41 17 0.49
42 10 0.29
43 8 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (43 bp):
ATATAAAATAAATATTAAATTTTATATTAATATTAATAATTAA
Found at i:2082030 original size:2 final size:2
Alignment explanation
Indices: 2082023--2082052 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2082013 GATCATTAAG
2082023 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
2082053 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2082057 original size:2 final size:2
Alignment explanation
Indices: 2082052--2082086 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2082042 ATATATATAT
2082052 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2082087 AGGGGATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2082108 original size:3 final size:3
Alignment explanation
Indices: 2082100--2082136 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2082090 GGATATAGTG
* *
2082100 TAT TAT TAT TAT TAG TAT TAT TAG TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2082137 CAGTCAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2082509 original size:3 final size:3
Alignment explanation
Indices: 2082491--2082537 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
2082481 TATACTTCTA
* *
2082491 ATT ATT ATC ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2082538 CATTTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:2083430 original size:19 final size:17
Alignment explanation
Indices: 2083406--2083457 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
2083396 TTATGAATAT
2083406 ATTTTTATAAATATATAAA
1 ATTTTTATAAA-A-ATAAA
*
2083425 ATTTTTTTAAAAATAAA
1 ATTTTTATAAAAATAAA
* *
2083442 ATATTGATATAAAATA
1 ATTTTTATA-AAAATA
2083458 TGTACATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 11 0.39
18 7 0.25
19 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTTTTATAAAAATAAA
Found at i:2085900 original size:30 final size:30
Alignment explanation
Indices: 2085829--2085922 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 30
2085819 TTGAGGCTTG
* **
2085829 TTTAAATATAAATTTAATTTTAAAAAATTA
1 TTTAAATATAAATTAAAAATTAAAAAATTA
** *
2085859 TTTGGATATAAATTAAAAATTAAAAATTTA
1 TTTAAATATAAATTAAAAATTAAAAAATTA
* * * * *
2085889 TTTAAAAATAAAATAAAAGTTAATAACTTA
1 TTTAAATATAAATTAAAAATTAAAAAATTA
2085919 TTTA
1 TTTA
2085923 TTTACAATAA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (30 bp):
TTTAAATATAAATTAAAAATTAAAAAATTA
Found at i:2086724 original size:21 final size:21
Alignment explanation
Indices: 2086690--2086729 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2086680 AAATTATTTT
*
2086690 TATTTAAATTTATTATAAAAA
1 TATTTAAATATATTATAAAAA
* *
2086711 TATTTTAATATATTTTAAA
1 TATTTAAATATATTATAAA
2086730 CAGTAAAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTAAATATATTATAAAAA
Found at i:2090018 original size:18 final size:18
Alignment explanation
Indices: 2089987--2090035 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
2089977 AATTATCTAT
2089987 TTATTTATTATTTAAAAAA
1 TTATTTA-TATTTAAAAAA
* *
2090006 TTATTTATATTTAATATA
1 TTATTTATATTTAAAAAA
*
2090024 TTATTTGTATTT
1 TTATTTATATTT
2090036 TATTAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTATTTATATTTAAAAAA
Found at i:2093120 original size:2 final size:2
Alignment explanation
Indices: 2093108--2093139 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
2093098 GATTACACAA
2093108 AT AT AT CAT 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
2093140 AGCAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2093196 original size:31 final size:30
Alignment explanation
Indices: 2093161--2093228 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
2093151 TTTGTATGTT
*
2093161 AATATA-AGTAATTTTTACTTATTTTTGAAAA
1 AATATATA-TAATTTTTAATTATTTTT-AAAA
* *
2093192 AATATATATTATTTTTAATTCTTTTTAAAA
1 AATATATATAATTTTTAATTATTTTTAAAA
2093222 AATATAT
1 AATATAT
2093229 TATTTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 11 0.33
31 21 0.64
32 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (30 bp):
AATATATATAATTTTTAATTATTTTTAAAA
Found at i:2093224 original size:30 final size:31
Alignment explanation
Indices: 2093171--2093228 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2093161 AATATAAGTA
*
2093171 ATTTTTACTTATTTTTGAAAAAATATATATT
1 ATTTTTAATTATTTTTGAAAAAATATATATT
*
2093202 ATTTTTAATTCTTTTT-AAAAAATATAT
1 ATTTTTAATTATTTTTGAAAAAATATAT
2093229 TATTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (31 bp):
ATTTTTAATTATTTTTGAAAAAATATATATT
Found at i:2093243 original size:28 final size:30
Alignment explanation
Indices: 2093182--2093243 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
2093172 TTTTTACTTA
*
2093182 TTTTTGAAAAAATATATATTATTTTTAATTC
1 TTTTTGAAAAAATATATATTATTATTAA-TC
2093213 TTTTT-AAAAAATATATTATT-TTATTAA-C
1 TTTTTGAAAAAATATA-TATTATTATTAATC
2093241 TTT
1 TTT
2093244 ATTTTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.14
30 16 0.55
31 9 0.31
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTTTGAAAAAATATATATTATTATTAATC
Found at i:2095733 original size:7 final size:7
Alignment explanation
Indices: 2095711--2095753 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
2095701 AAAAAATAAT
*
2095711 ATTTAAA
1 ATTTTAA
2095718 ATATTTAA
1 AT-TTTAA
2095726 ATTTTAA
1 ATTTTAA
2095733 ATTTTAA
1 ATTTTAA
2095740 TATTTATAA
1 -ATTT-TAA
2095749 ATTTT
1 ATTTT
2095754 TTTCTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 15 0.47
8 14 0.44
9 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTTTAA
Found at i:2095749 original size:16 final size:16
Alignment explanation
Indices: 2095707--2095753 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
2095697 TTTTAAAAAA
2095707 TAATATTTA-AAATATT
1 TAATATTTATAAAT-TT
2095723 TAA-ATTT-TAAATTT
1 TAATATTTATAAATTT
2095737 TAATATTTATAAATTT
1 TAATATTTATAAATTT
2095753 T
1 T
2095754 TTTCTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.18
15 12 0.43
16 11 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTTATAAATTT
Found at i:2097272 original size:32 final size:33
Alignment explanation
Indices: 2097212--2097278 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
2097202 TTATTTTTAA
* *
2097212 AATATTTTATATTTATATAAATAATAATATATT
1 AATAATTTATATTTATAAAAATAATAATATATT
**
2097245 AATAATTTATA-TTATAAAAATTTTAATATATT
1 AATAATTTATATTTATAAAAATAATAATATATT
2097277 AA
1 AA
2097279 ATTTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
AATAATTTATATTTATAAAAATAATAATATATT
Found at i:2097290 original size:14 final size:15
Alignment explanation
Indices: 2097262--2097290 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2097252 TATATTATAA
2097262 AAATTTTAATATATT
1 AAATTTTAATATATT
2097277 AAATTTTAAT-TATT
1 AAATTTTAATATATT
2097291 TTTTATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTTAATATATT
Found at i:2097720 original size:21 final size:22
Alignment explanation
Indices: 2097694--2097766 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 22
2097684 CATTATACGA
2097694 AAAATAATTAAAATATA-ATAT
1 AAAATAATTAAAATATATATAT
*
2097715 AAAATAA--AAAATATATACAT
1 AAAATAATTAAAATATATATAT
* *
2097735 AATATAAATATATAAATATATATTT
1 AAAAT-AAT-TA-AAATATATATAT
2097760 AAAATAA
1 AAAATAA
2097767 ATTATTAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 8 0.20
20 7 0.17
21 9 0.22
24 3 0.07
25 14 0.34
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATAATTAAAATATATATAT
Found at i:2097736 original size:25 final size:27
Alignment explanation
Indices: 2097708--2097757 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
2097698 TAATTAAAAT
2097708 ATAATATAAA-ATA-AAAAATATATAC
1 ATAATATAAATATATAAAAATATATAC
*
2097733 ATAATATAAATATATAAATATATAT
1 ATAATATAAATATATAAAAATATAT
2097758 TTAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAATATAAATATATAAAAATATATAC
Found at i:2097766 original size:25 final size:24
Alignment explanation
Indices: 2097694--2097777 Score: 65
Period size: 25 Copynumber: 3.8 Consensus size: 24
2097684 CATTATACGA
*
2097694 AAAAT-AATTA-AAATATA-ATAT
1 AAAATAAATTATAAATATATACAT
2097715 AAAAT-AA--A-AAATATATACAT
1 AAAATAAATTATAAATATATACAT
* **
2097735 AATATAAATATATAAATATATATTT
1 AAAATAAAT-TATAAATATATACAT
*
2097760 AAAATAAATTATTAATAT
1 AAAATAAATTATAAATAT
2097778 GATAAAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 8 0.16
20 7 0.14
21 9 0.18
24 9 0.18
25 18 0.35
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAATTATAAATATATACAT
Found at i:2097802 original size:20 final size:22
Alignment explanation
Indices: 2097779--2097827 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2097769 TATTAATATG
*
2097779 ATAAAATTT-ATTATAATTAT-
1 ATAAAATTTAAATATAATTATA
*
2097799 ATAATATTTTAAATATAATTATA
1 ATAA-AATTTAAATATAATTATA
2097822 ATAAAA
1 ATAAAA
2097828 AAATAACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 11 0.48
23 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAATTTAAATATAATTATA
Found at i:2098475 original size:2 final size:2
Alignment explanation
Indices: 2098468--2098496 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2098458 TACCTTTTTC
2098468 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 A
2098497 AATGCCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2101505 original size:61 final size:61
Alignment explanation
Indices: 2101420--2101606 Score: 347
Period size: 61 Copynumber: 3.1 Consensus size: 61
2101410 ATATATTAGC
2101420 TTTTAGTTTTGCATGTGAATTCAAGAAAAGAAAGCCTCAGAATCAAATTTTATATATTTTT
1 TTTTAGTTTTGCATGTGAATTCAAGAAAAGAAAGCCTCAGAATCAAATTTTATATATTTTT
2101481 TTTTAGTTTTGCATGTGAATTCAAGAAAAGAAAGCCTCAGAATCAAATTTTATATATTTTT
1 TTTTAGTTTTGCATGTGAATTCAAGAAAAGAAAGCCTCAGAATCAAATTTTATATATTTTT
* * *
2101542 TTTTAGTTTTGCATGTGAATTCAAGAAAAGAAAGTCTCAGAATCAAATTTTAGATTTTTTT
1 TTTTAGTTTTGCATGTGAATTCAAGAAAAGAAAGCCTCAGAATCAAATTTTATATATTTTT
2101603 TTTT
1 TTTT
2101607 TGTAATGTGA
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 123 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (61 bp):
TTTTAGTTTTGCATGTGAATTCAAGAAAAGAAAGCCTCAGAATCAAATTTTATATATTTTT
Found at i:2101831 original size:2 final size:2
Alignment explanation
Indices: 2101773--2101812 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2101763 TGTCTTTGAA
2101773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2101813 GGTCAGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2102035 original size:15 final size:15
Alignment explanation
Indices: 2102017--2102077 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
2102007 TAAATATTTT
2102017 TATTATATTATTTAA
1 TATTATATTATTTAA
*
2102032 TATTATAATTTTTTTTAA
1 TATTAT-A--TTATTTAA
2102050 TATT-T-TTATTTAA
1 TATTATATTATTTAA
* *
2102063 AATAATATTATTTAA
1 TATTATATTATTTAA
2102078 CTCATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 14 0.38
16 1 0.03
17 1 0.03
18 11 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATTATTTAA
Found at i:2102060 original size:18 final size:20
Alignment explanation
Indices: 2102009--2102061 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
2101999 AAAAAATATA
2102009 AATATTTTTATTATATTATTT
1 AATATTTTTATT-TATTATTT
* *
2102030 AATATTATAATTT-TT-TTT
1 AATATTTTTATTTATTATTT
2102048 AATATTTTTATTTA
1 AATATTTTTATTTA
2102062 AAATAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 14 0.52
19 2 0.07
20 1 0.04
21 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
AATATTTTTATTTATTATTT
Found at i:2102372 original size:2 final size:2
Alignment explanation
Indices: 2102367--2102391 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2102357 AATTTTTTAA
2102367 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 A
2102392 CAATAATTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2105419 original size:2 final size:2
Alignment explanation
Indices: 2105412--2105437 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2105402 TTCTATTTAC
2105412 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2105438 GAATTTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2105795 original size:16 final size:17
Alignment explanation
Indices: 2105774--2105805 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2105764 GTAATTAAAA
2105774 TATTATTTTA-TAATAT
1 TATTATTTTATTAATAT
2105790 TATTATTTTATTAATA
1 TATTATTTTATTAATA
2105806 AAATGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTTATTAATAT
Found at i:2111522 original size:2 final size:2
Alignment explanation
Indices: 2111515--2111563 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2111505 AGTCGTTCTT
2111515 TA TA TA 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 TA TA TA
2111557 TA TA TA T
1 TA TA TA T
2111564 TATGAAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2111891 original size:23 final size:24
Alignment explanation
Indices: 2111841--2111897 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
2111831 AATAATTATA
*
2111841 TATAAAA-TATAATATTTAATAAT
1 TATAAAATTTTAATATTTAATAAT
2111864 TATAAAATTTTAAT-TTTAAT-AT
1 TATAAAATTTTAATATTTAATAAT
*
2111886 TAATAATATTTT
1 T-ATAAAATTTT
2111898 TTGGTATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.10
23 22 0.73
24 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TATAAAATTTTAATATTTAATAAT
Found at i:2112257 original size:7 final size:8
Alignment explanation
Indices: 2112232--2112279 Score: 55
Period size: 7 Copynumber: 6.0 Consensus size: 8
2112222 ATTTTAACAA
*
2112232 AATATTAT
1 AATATTTT
2112240 AATATTTTT
1 AATA-TTTT
2112249 AA-ATTTT
1 AATATTTT
2112256 AA-ATTTT
1 AATATTTT
2112263 AATATTTAT
1 AATATTT-T
2112272 AATATTTT
1 AATATTTT
2112280 TTATTATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
7 13 0.36
8 10 0.28
9 13 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATATTTT
Found at i:2112512 original size:21 final size:20
Alignment explanation
Indices: 2112488--2112529 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
2112478 ATATTTTATT
2112488 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAA-ATA
*
2112509 TAAATATTTATATAAAAATA
1 TAAATATTAATATAAAAATA
2112529 T
1 T
2112530 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATATTAATATAAAAATA
Found at i:2112999 original size:3 final size:3
Alignment explanation
Indices: 2112991--2113016 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2112981 TTTGTTATTA
2112991 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2113017 ATTATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2114363 original size:2 final size:2
Alignment explanation
Indices: 2114356--2114412 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
2114346 TGGATTGAAC
2114356 TA TA TA 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 TA TA TA
2114398 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
2114413 CCTACATGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2114576 original size:30 final size:31
Alignment explanation
Indices: 2114542--2114621 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 31
2114532 ATTGTATTTG
* *
2114542 AATAACTTCTTAATTTTTAATTTACA-TTAA
1 AATAAATTCTTAACTTTTAATTTACATTTAA
*
2114572 AATAAATTCTTAACTTTTAATTTATATTTAA
1 AATAAATTCTTAACTTTTAATTTACATTTAA
* *
2114603 AA-AAA-TATTAACTTCTAAT
1 AATAAATTCTTAACTTTTAAT
2114622 CTATACCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 12 0.27
30 26 0.59
31 6 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (31 bp):
AATAAATTCTTAACTTTTAATTTACATTTAA
Found at i:2114621 original size:29 final size:30
Alignment explanation
Indices: 2114559--2114626 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
2114549 TCTTAATTTT
* * *
2114559 TAATTTACATTAAAATAAATTCTTAACTTT
1 TAATTTATATTAAAATAAATTATTAACTTC
2114589 TAATTTATATTTAAAA-AAA-TATTAACTTC
1 TAATTTATA-TTAAAATAAATTATTAACTTC
*
2114618 TAATCTATA
1 TAATTTATA
2114627 CCTAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.48
30 11 0.33
31 6 0.18
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (30 bp):
TAATTTATATTAAAATAAATTATTAACTTC
Found at i:2115380 original size:2 final size:2
Alignment explanation
Indices: 2115373--2115407 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2115363 CAAAAGTATT
2115373 TA TA TA TA TA TA TA T- 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
2115408 CACAAGCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2115547 original size:7 final size:7
Alignment explanation
Indices: 2115535--2115612 Score: 61
Period size: 7 Copynumber: 10.7 Consensus size: 7
2115525 ATTTACATAA
2115535 ATAAAAT
1 ATAAAAT
2115542 ATAAAAT
1 ATAAAAT
2115549 ATAAAA-
1 ATAAAAT
*
2115555 ATTAAAT
1 ATAAAAT
*
2115562 -TAAATT
1 ATAAAAT
*
2115568 AAATAAAT
1 ATA-AAAT
2115576 ATAAATTAT
1 ATAAA--AT
2115585 ATAAAATT
1 ATAAAA-T
2115593 ATAAAAAT
1 AT-AAAAT
*
2115601 ATAAAAA
1 ATAAAAT
2115608 ATAAA
1 ATAAA
2115613 TTTATTCTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
6 9 0.16
7 26 0.46
8 11 0.19
9 11 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAAAAT
Found at i:2115566 original size:25 final size:25
Alignment explanation
Indices: 2115532--2115613 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
2115522 ATAATTTACA
2115532 TAAATAAAATATAAAATATAAAAAT
1 TAAATAAAATATAAAATATAAAAAT
* * *
2115557 TAAATTAAAT-TAAATAAATATAAAT
1 TAAATAAAATATAAA-ATATAAAAAT
* *
2115582 TATATAAAATTATAAAAATATAAAAAA
1 TAAATAAAA-TAT-AAAATATAAAAAT
2115609 TAAAT
1 TAAAT
2115614 TTATTCTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 4 0.09
25 24 0.55
26 1 0.02
27 12 0.27
28 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAATAAAATATAAAATATAAAAAT
Found at i:2115610 original size:34 final size:32
Alignment explanation
Indices: 2115537--2115610 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 32
2115527 TTACATAAAT
2115537 AAAATATAAAATATAAAAATTAAATTAAATTAA
1 AAAATATAAAATATAAAAATTAAA-TAAATTAA
*
2115570 ATAAATATAAATTATATAAAATTATAA-AAATATAA
1 A-AAATATAAAATATA-AAAATTA-AATAAAT-TAA
2115605 AAAATA
1 AAAATA
2115611 AATTTATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 1 0.03
34 22 0.61
35 11 0.31
36 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (32 bp):
AAAATATAAAATATAAAAATTAAATAAATTAA
Found at i:2119507 original size:18 final size:18
Alignment explanation
Indices: 2119484--2119518 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2119474 TTAAAAAATA
2119484 ATAAAAATAA-AATACAAT
1 ATAAAAA-AATAATACAAT
2119502 ATAAAAAAATAATACAA
1 ATAAAAAAATAATACAA
2119519 ACATGACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAAAATAATACAAT
Found at i:2124721 original size:19 final size:21
Alignment explanation
Indices: 2124679--2124729 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
2124669 TATAATTTTT
2124679 AATTATTATTTTAATCGATAAA
1 AATTATTATTTTAATC-ATAAA
*
2124701 AATTATTTTTTTAAT-ATAAA
1 AATTATTATTTTAATCATAAA
2124721 AA-TATTATT
1 AATTATTATT
2124730 ATAAATAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 6 0.22
20 7 0.26
22 14 0.52
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTATTATTTTAATCATAAA
Found at i:2127832 original size:44 final size:44
Alignment explanation
Indices: 2127762--2127850 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
2127752 TTTTCAGAAT
*
2127762 ACCATATGGATTGTATATGTTGCAAGCTGATAAATATTAAATTG
1 ACCACATGGATTGTATATGTTGCAAGCTGATAAATATTAAATTG
* *
2127806 ACCACATGGATTGTATATGTTTCAAGCTGATAAATATTGAATTG
1 ACCACATGGATTGTATATGTTGCAAGCTGATAAATATTAAATTG
2127850 A
1 A
2127851 TTTTTCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (44 bp):
ACCACATGGATTGTATATGTTGCAAGCTGATAAATATTAAATTG
Found at i:2154690 original size:2 final size:2
Alignment explanation
Indices: 2154683--2154724 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
2154673 CTATGTTAGC
*
2154683 AT AT AT AT AT AT AT AT AT AT GT AT AT -T AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2154723 AT
1 AT
2154725 TATGTCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2159246 original size:4 final size:4
Alignment explanation
Indices: 2159239--2159347 Score: 77
Period size: 4 Copynumber: 28.8 Consensus size: 4
2159229 TGATGATTTG
* * * *
2159239 ATAC ATAC ATAC ATAT ATAT ATAT ATAT ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
2159285 ATAC AT-- ATAT ATAT ATAT ATAC ATAC AT-- ATAC ATAC ATAT ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
2159329 ATAT ATAT ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATA
2159348 TACATATATA
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
2 6 0.06
4 88 0.94
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (4 bp):
ATAC
Found at i:2159262 original size:6 final size:6
Alignment explanation
Indices: 2159251--2159369 Score: 130
Period size: 6 Copynumber: 19.8 Consensus size: 6
2159241 ACATACATAC
* * * * *
2159251 ATATAT ATATAT ATATAT ACATAC ATATAC ATACAT ACATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * *
2159299 ATATAT ACATAC ATATAC ATACAT ATATAT ATATAT ATATAC ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
2159347 ATACAT ATATAT ATATAT ATATA
1 ATATAT ATATAT ATATAT ATATA
2159370 GTTATAGTTA
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 95 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAT
Found at i:2159266 original size:10 final size:10
Alignment explanation
Indices: 2159247--2159369 Score: 147
Period size: 10 Copynumber: 12.3 Consensus size: 10
2159237 TGATACATAC
2159247 ATACATATAT
1 ATACATATAT
*
2159257 ATATATATAT
1 ATACATATAT
*
2159267 ATACATACAT
1 ATACATATAT
*
2159277 ATACATACAT
1 ATACATATAT
* *
2159287 ACATATATAT
1 ATACATATAT
* *
2159297 ATATATATAC
1 ATACATATAT
*
2159307 ATACATATAC
1 ATACATATAT
2159317 ATACATATAT
1 ATACATATAT
*
2159327 ATATATATAT
1 ATACATATAT
*
2159337 ATACATACAT
1 ATACATATAT
2159347 ATACATATAT
1 ATACATATAT
*
2159357 ATATATATAT
1 ATACATATAT
2159367 ATA
1 ATA
2159370 GTTATAGTTA
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 98 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (10 bp):
ATACATATAT
Found at i:2159283 original size:34 final size:34
Alignment explanation
Indices: 2159243--2159369 Score: 227
Period size: 34 Copynumber: 3.7 Consensus size: 34
2159233 GATTTGATAC
2159243 ATACATACATATATATATATATATATACATACAT
1 ATACATACATATATATATATATATATACATACAT
2159277 ATACATACATACATATATATATATATATACATACAT
1 ATACATACAT--ATATATATATATATATACATACAT
2159313 ATACATACATATATATATATATATATACATACAT
1 ATACATACATATATATATATATATATACATACAT
*
2159347 ATACATATATATATATATATATA
1 ATACATACATATATATATATATA
2159370 GTTATAGTTA
Statistics
Matches: 90, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
34 56 0.62
36 34 0.38
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (34 bp):
ATACATACATATATATATATATATATACATACAT
Found at i:2159358 original size:4 final size:4
Alignment explanation
Indices: 2159251--2159369 Score: 130
Period size: 4 Copynumber: 29.8 Consensus size: 4
2159241 ACATACATAC
* * * * *
2159251 ATAT ATAT ATAT ATAT ATAC ATAC ATAT ACAT ACAT ACAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * *
2159299 ATAT ATAC ATAC ATAT ACAT ACAT ATAT ATAT ATAT ATAT ACAT ACAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
2159347 ATAC ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATA
2159370 GTTATAGTTA
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 103 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.39
Consensus pattern (4 bp):
ATAT
Found at i:2162486 original size:18 final size:19
Alignment explanation
Indices: 2162448--2162486 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2162438 AACCAGACGC
*
2162448 GGAAGAAAGGGAAAGCTCT
1 GGAAGAAAGGGAAAGCACT
*
2162467 GGAAGAAGGGGAAAG-ACT
1 GGAAGAAAGGGAAAGCACT
2162485 GG
1 GG
2162487 TATCGGTGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.41, C:0.08, G:0.44, T:0.08
Consensus pattern (19 bp):
GGAAGAAAGGGAAAGCACT
Found at i:2167216 original size:20 final size:20
Alignment explanation
Indices: 2167191--2167235 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
2167181 TGAACAGAAT
2167191 GCTTGCAGGAATGTTAGTTA
1 GCTTGCAGGAATGTTAGTTA
2167211 GCTTGCAGGAATGTTAGTTA
1 GCTTGCAGGAATGTTAGTTA
2167231 GCTTG
1 GCTTG
2167236 TTTCTTGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (20 bp):
GCTTGCAGGAATGTTAGTTA
Found at i:2169036 original size:2 final size:2
Alignment explanation
Indices: 2169029--2169057 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2169019 TATAGAATTC
2169029 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2169058 AAAGGAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2169319 original size:3 final size:3
Alignment explanation
Indices: 2169311--2169357 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
2169301 ATTTAGACAC
2169311 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA TATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA ATA ATA ATA
2169357 A
1 A
2169358 AAAAATTACC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2169437 original size:17 final size:17
Alignment explanation
Indices: 2169415--2169448 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2169405 ACATATTTTT
2169415 AAATAAAATAA-AAATTA
1 AAAT-AAATAATAAATTA
2169432 AAATAAATAATAAATTA
1 AAATAAATAATAAATTA
2169449 TTAATACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAATAATAAATTA
Found at i:2169828 original size:16 final size:15
Alignment explanation
Indices: 2169807--2169844 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
2169797 TTATTTGATG
*
2169807 AATTTAATTTTAATTT
1 AATTTAATTTT-ATAT
2169823 AATTTAATTTTATAT
1 AATTTAATTTTATAT
2169838 AATTTAA
1 AATTTAA
2169845 AATATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTTAATTTTATAT
Found at i:2170157 original size:16 final size:17
Alignment explanation
Indices: 2170136--2170174 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
2170126 GTCTCAAAAT
*
2170136 TAAATTTT-AAATTTTA
1 TAAATTTTAAAATTATA
2170152 TAAATTTTCAAAATTATA
1 TAAATTTT-AAAATTATA
2170170 TAAAT
1 TAAAT
2170175 ATATTCAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTTTAAAATTATA
Found at i:2171167 original size:7 final size:7
Alignment explanation
Indices: 2171155--2171187 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2171145 TAATTAGTTT
2171155 AAATAAA
1 AAATAAA
2171162 AAATAAA
1 AAATAAA
2171169 AAATAAA
1 AAATAAA
*
2171176 ATA-AAA
1 AAATAAA
2171182 AAATAA
1 AAATAA
2171188 CTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:2171182 original size:13 final size:13
Alignment explanation
Indices: 2171155--2171197 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2171145 TAATTAGTTT
*
2171155 AAATAAAAAATAAA
1 AAATAAAATA-AAA
2171169 AAATAAAATAAAA
1 AAATAAAATAAAA
**
2171182 AAATAACTTAAAA
1 AAATAAAATAAAA
2171195 AAA
1 AAA
2171198 AATGGATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:2171593 original size:27 final size:26
Alignment explanation
Indices: 2171550--2171601 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
2171540 AACTATATCT
*
2171550 TTTTAAAGGTTATAATTAAAAATTTTA
1 TTTTAAAGCTTATAATT-AAAATTTTA
2171577 TTTTAAAGTCTTA-AATTAAAATTTT
1 TTTTAAAG-CTTATAATTAAAATTTT
2171602 GAAATGGGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 12 0.52
28 3 0.13
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTAAAGCTTATAATTAAAATTTTA
Found at i:2172807 original size:9 final size:9
Alignment explanation
Indices: 2172788--2172821 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
2172778 ATTAAAATAA
2172788 AAATAATTTT
1 AAAT-ATTTT
2172798 AAATATTTT
1 AAATATTTT
2172807 AATATATTTT
1 AA-ATATTTT
2172817 AAATA
1 AAATA
2172822 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 10 0.43
10 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AAATATTTT
Found at i:2172829 original size:19 final size:18
Alignment explanation
Indices: 2172787--2172830 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
2172777 TATTAAAATA
*
2172787 AAAATAATTTTAAATATT
1 AAAATAATTTTAAATAAT
**
2172805 TTAATATATTTTAAATAAT
1 AAAATA-ATTTTAAATAAT
2172824 AAAATAA
1 AAAATAA
2172831 ACTTTTAAGT
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATAATTTTAAATAAT
Found at i:2172974 original size:17 final size:17
Alignment explanation
Indices: 2172952--2172991 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2172942 ACGTAATTTG
2172952 TAAAAAAAAAAAAAAGA
1 TAAAAAAAAAAAAAAGA
* * *
2172969 TAAAAATAATAAAATGA
1 TAAAAAAAAAAAAAAGA
2172986 TAAAAA
1 TAAAAA
2172992 GGGAAATCTT
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:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
TAAAAAAAAAAAAAAGA
Found at i:2173255 original size:2 final size:2
Alignment explanation
Indices: 2173248--2173289 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2173238 TTCACTTCTT
2173248 TA TA TA 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 TA TA TA
2173290 AATTGATGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2174358 original size:18 final size:18
Alignment explanation
Indices: 2174337--2174371 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2174327 ATGAAATAAA
2174337 TTTAAAATA-TAATATATC
1 TTTAAAA-AGTAATATATC
2174355 TTTAAAAAGTAATATAT
1 TTTAAAAAGTAATATAT
2174372 AATAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTAAAAAGTAATATATC
Found at i:2176270 original size:16 final size:16
Alignment explanation
Indices: 2176249--2176303 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
2176239 TATGTCATAA
2176249 TTATATTTAAAATATT
1 TTATATTTAAAATATT
2176265 TTATATTTATATAAT-TT
1 TTATATTTA-A-AATATT
* *
2176282 TAATATTTTAAATA-T
1 TTATATTTAAAATATT
2176297 TTATATT
1 TTATATT
2176304 ATATATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 10 0.30
16 10 0.30
17 10 0.30
18 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTTAAAATATT
Found at i:2176288 original size:33 final size:30
Alignment explanation
Indices: 2176251--2176317 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 30
2176241 TGTCATAATT
2176251 ATATTTAAAATATTTTATATTTATATAATTTTA
1 ATATTTAAAATA-TTTATA-TTATAT-ATTTTA
*
2176284 ATATTTTAAATATTTATATTATATATTTTA
1 ATATTTAAAATATTTATATTATATATTTTA
2176314 ATAT
1 ATAT
2176318 GTACATATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 10 0.30
31 6 0.18
32 6 0.18
33 11 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
ATATTTAAAATATTTATATTATATATTTTA
Done.