Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 30 of 206
Found at i:8878001 original size:21 final size:22
Alignment explanation
Indices: 8877975--8878024 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
8877965 CGGTATCTCT
* *
8877975 TTGCACTGAAGTGTCAC-TCAC
1 TTGCACAGAAGTGCCACTTCAC
*
8877996 TTGCACAGTAGTGCCACTTTCAC
1 TTGCACAGAAGTGCCAC-TTCAC
8878019 TTGCAC
1 TTGCAC
8878025 CGTAGTACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.58
23 10 0.42
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (22 bp):
TTGCACAGAAGTGCCACTTCAC
Found at i:8879078 original size:8 final size:8
Alignment explanation
Indices: 8879062--8879108 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
8879052 TCTTCTTTCT
*
8879062 TATAAATA
1 TATATATA
8879070 TATATATA
1 TATATATA
8879078 TATATATA
1 TATATATA
*
8879086 TAAATATA
1 TATATATA
8879094 TATATATA
1 TATATATA
*
8879102 AATATAT
1 TATATAT
8879109 TATTAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:8879084 original size:14 final size:14
Alignment explanation
Indices: 8879062--8879108 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
8879052 TCTTCTTTCT
* *
8879062 TATAAATATATATA
1 TATATATATATAAA
8879076 TATATATATATAAA
1 TATATATATATAAA
8879090 TATATATATATAAA
1 TATATATATATAAA
8879104 TATAT
1 TATAT
8879109 TATTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATATATATAAA
Found at i:8884042 original size:2 final size:2
Alignment explanation
Indices: 8884030--8884067 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
8884020 TTTCCATCCT
*
8884030 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8884068 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:8896902 original size:27 final size:27
Alignment explanation
Indices: 8896872--8896943 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
8896862 GAACATTTTT
8896872 AATAT-TGGACCCACGTGATGGATGTTG
1 AATATGTGG-CCCACGTGATGGATGTTG
*
8896899 AATATGTGGCCCACGTGATGTATGTTG
1 AATATGTGGCCCACGTGATGGATGTTG
* * *
8896926 AACATGCGGCCCATGTGA
1 AATATGTGGCCCACGTGA
8896944 CGCACAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (27 bp):
AATATGTGGCCCACGTGATGGATGTTG
Found at i:8899349 original size:30 final size:30
Alignment explanation
Indices: 8899310--8899373 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
8899300 CACACAAGCC
* *
8899310 TGTGTTGTACACGGGAGGTCCACACGATCG
1 TGTGCTGTACACGGGAGGTCCACACGACCG
*
8899340 TGTGCTGTACACGGGCGGTCCACACGACCG
1 TGTGCTGTACACGGGAGGTCCACACGACCG
8899370 TGTG
1 TGTG
8899374 TAATTGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.17, C:0.27, G:0.34, T:0.22
Consensus pattern (30 bp):
TGTGCTGTACACGGGAGGTCCACACGACCG
Found at i:8901098 original size:19 final size:19
Alignment explanation
Indices: 8901074--8901110 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8901064 TGCAGTTAAT
* *
8901074 AAATTATTATTTAATTTTC
1 AAATTAATATATAATTTTC
8901093 AAATTAATATATAATTTT
1 AAATTAATATATAATTTT
8901111 TATAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATTAATATATAATTTTC
Found at i:8902175 original size:10 final size:10
Alignment explanation
Indices: 8902131--8902181 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
8902121 AAAGGTGATC
8902131 TTTTACTTTTT
1 TTTTA-TTTTT
** *
8902142 TTTGCTTTTG
1 TTTTATTTTT
8902152 TTTTATTTTCT
1 TTTTATTTT-T
8902163 TTTTA-TTTT
1 TTTTATTTTT
8902172 TTTTATTTTT
1 TTTTATTTTT
8902182 CTTAAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
9 6 0.19
10 18 0.56
11 8 0.25
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.82
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:8904838 original size:22 final size:23
Alignment explanation
Indices: 8904793--8904838 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
8904783 GGCCCGATAC
*
8904793 ACAAAGAAAATAATAAACCGAAT
1 ACAAAGAAAATAATAAACCAAAT
8904816 ACAAA-AAATATAA-AAACCAAAT
1 ACAAAGAAA-ATAATAAACCAAAT
8904838 A
1 A
8904839 AATAAAGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.70, C:0.13, G:0.04, T:0.13
Consensus pattern (23 bp):
ACAAAGAAAATAATAAACCAAAT
Found at i:8907707 original size:3 final size:3
Alignment explanation
Indices: 8907645--8907693 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
8907635 AAAGTAAAAC
* *
8907645 TAA TAA TAA TAA TAA TAT TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8907693 T
1 T
8907694 TGCAGTGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:8910966 original size:18 final size:17
Alignment explanation
Indices: 8910940--8910974 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8910930 CAAGTCAGCC
*
8910940 AAAAAAAATATTTTTAA
1 AAAAAAAATATATTTAA
8910957 AAAAATAAATATATTTAA
1 AAAAA-AAATATATTTAA
8910975 TTTTTTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAAAAATATATTTAA
Found at i:8911309 original size:25 final size:23
Alignment explanation
Indices: 8911255--8911302 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8911245 TTTAAAAAAA
8911255 TTAAAAAATATTTATTTATAATT
1 TTAAAAAATATTTATTTATAATT
* *
8911278 TTAAAAAATATTTTTTTGTAATT
1 TTAAAAAATATTTATTTATAATT
8911301 TT
1 TT
8911303 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTAAAAAATATTTATTTATAATT
Found at i:8913804 original size:109 final size:109
Alignment explanation
Indices: 8913520--8913846 Score: 392
Period size: 109 Copynumber: 3.0 Consensus size: 109
8913510 TAAATTCAAT
* * *
8913520 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCG
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
**
8913583 AATTTCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTTTTTTAAGA
66 AATTTCCAAACGCAAAACATTGCCTTATTTT-AA----AATTTTTAAGA
** * * *
8913632 AGGATATTAAG-TCATTTGGTTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCT
1 AGGATATTTGGCT-ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCT
8913696 CGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAA-A
64 CGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAGA
* * *
8913741 AGGATATTTGGCTATTAGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCTC
* * * *
8913806 GAACTTCCAAATGCAAAATATTGCCTTATTTAGAAAATTTT
65 GAATTTCCAAACGCAAAACATTGCCTTATTT-TAAAATTTT
8913847 CTTTTTTGAA
Statistics
Matches: 186, Mismatches: 23, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
109 83 0.45
110 16 0.09
112 23 0.12
114 27 0.15
115 37 0.20
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAGA
Found at i:8916482 original size:131 final size:131
Alignment explanation
Indices: 8916342--8916765 Score: 704
Period size: 131 Copynumber: 3.2 Consensus size: 131
8916332 CTTTGACCTG
* * **
8916342 CTCCACTACTGCTTAGGGAGATTGGATCTACCATCTTCGACCTGCTCCACTGTTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGA
* * **
8916407 TAAGACTGGTGGCTTCAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCATCGTCTTCGATCT
66 TAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCT
8916472 A
131 A
*
8916473 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCCGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGA
8916538 TAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGGGAAGATAAGATTCGCCGTCTTCGAT
66 TAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTA--GGAAGATAAGATTCGCCGTCTTCGAT
8916603 CTA
129 CTA
*
8916606 CTCCACTACAGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGA
* *
8916671 TAGGACTGGTGGCTTAAATCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCTCCGATCT
66 TAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCT
*
8916736 G
131 A
*
8916737 CTCCACTACTGCTTAGGGAGATAAGATCT
1 CTCCACTACTGCTTAGGGAGATAGGATCT
8916766 GTGGTCTTCA
Statistics
Matches: 275, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
131 149 0.54
133 126 0.46
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (131 bp):
CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGA
TAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCT
A
Found at i:8916495 original size:264 final size:263
Alignment explanation
Indices: 8916165--8916760 Score: 670
Period size: 264 Copynumber: 2.3 Consensus size: 263
8916155 GTTAGTTCTG
* * * *
8916165 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGAT-G---CGATTTGCTCCACTAATGCTTAGG
1 TCTGCTTCACTACTGCTTAGGAAGATAAGA-TTCATCGTCTCGATCTGCTCCACTACTGCTTAGG
* * * * *
8916226 GAGATAAAATTCGA-CGTCTTCGATCTGCTCCACTACTGTCTT-GAGAAAATAAGATTCACCATC
65 GAGATAAAA-TCGACCATCTTCGACCCGCTCCACTACTG-CTTAG-GAAAATAAGACT-ACCAGC
** * * * * *
8916289 TTTGATCTGCTCCGCTACTGC-T-GAGGAAGGCAGGA-TCTGCCATCTTTGACCTGCTCCACTAC
126 TTAAATCTGCTCCACTACTGCTTAGAGGAAGACAAGATTC-GCCATCTTCGACCTACTCCACTAC
* * **
8916351 TGCTTAGGGAGATTGGATCTACCATCTTCGACCTGCTCCACTGTTGCTTAGGGAGATAAGACTGG
190 AGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGACTGG
*
8916416 TGGCTTCAA
255 TGGCTTAAA
*
8916425 TCTGCTTCACTACTGCTTAGGAAGATAAGATTCATCGTCTTCGATCTACTCCACTACTGCTTAGG
1 TCTGCTTCACTACTGCTTAGGAAGATAAGATTCATCGTC-TCGATCTGCTCCACTACTGCTTAGG
** * * * * * ****
8916490 GAGATAGGATCTACCATCTTTGACCCGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
65 GAGATAAAATCGACCATCTTCGACCCGCTCCACTACTGCTTAGGAAAATAAGACTACCAGCTTAA
* * * * *
8916555 ATCTGCTTCACTACTGCTTAGGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACAGCTT
130 ATCTGCTCCACTACTGCTTAGAGGAAGACAAGATTCGCCATCTTCGACCTACTCCACTACAGCTT
* *
8916620 AGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCT
195 AGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTGGCT
8916685 TAAA
260 TAAA
* **
8916689 TCTGCTTCACTACTACTTAGGAAGATAAGATTCGCCGTCTCCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCACTACTGCTTAGGAAGATAAGATTCATCGTCT-CGATCTGCTCCACTACTGCTTAGG
8916754 GAGATAA
65 GAGATAA
8916761 GATCTGTGGT
Statistics
Matches: 280, Mismatches: 45, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
259 4 0.01
260 30 0.11
262 18 0.06
263 16 0.06
264 210 0.75
265 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (263 bp):
TCTGCTTCACTACTGCTTAGGAAGATAAGATTCATCGTCTCGATCTGCTCCACTACTGCTTAGGG
AGATAAAATCGACCATCTTCGACCCGCTCCACTACTGCTTAGGAAAATAAGACTACCAGCTTAAA
TCTGCTCCACTACTGCTTAGAGGAAGACAAGATTCGCCATCTTCGACCTACTCCACTACAGCTTA
GGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTGGCTT
AAA
Found at i:8916501 original size:175 final size:177
Alignment explanation
Indices: 8916207--8916538 Score: 445
Period size: 175 Copynumber: 1.9 Consensus size: 177
8916197 TGATGCGATT
* * *
8916207 TGCTCCACTAATGCTTAGGGAGATAAAATTCGACGTCTTCGATCTGCTCCACTACTGTCTTGAGA
1 TGCTCCACTAATGCTTAGGGAGATAAAACTCGACGGCTTCAATCTGCTCCACTACTGTCTTGAGA
* * * * *
8916272 AAATAAGATTCACCATCTTTGATCTGCTCCGCTACTGCTGAGGAAGGCAGGATCTGCCATCTTTG
66 AAATAAGATTCACCATCTTCGATCTACTCCACTACTGCTGAGGAAGACAGGATCTACCATCTTTG
*
8916337 ACCTGCTCCACTACTGCTTAGGGAGATTGGATCTACCATCTTCGACC
131 ACCCGCTCCACTACTGCTTAGGGAGATTGGATCTACCATCTTCGACC
** * ** *
8916384 TGCTCCACTGTTGCTTAGGGAGATAAGACT-GGTGGCTTCAATCTGCTTCACTACTG-CTT-AGG
1 TGCTCCACTAATGCTTAGGGAGATAAAACTCGACGGCTTCAATCTGCTCCACTACTGTCTTGA-G
* * * * * *
8916446 AAGATAAGATTCATCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTT
65 AAAATAAGATTCACCATCTTCGATCTACTCCACTACTGCTGAGGAAGACAGGATCTACCATCTTT
8916511 GACCCGCTCCACTACTGCTTAGGGAGAT
130 GACCCGCTCCACTACTGCTTAGGGAGAT
8916539 AGGACTGGTG
Statistics
Matches: 133, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
174 1 0.01
175 85 0.64
176 21 0.16
177 26 0.20
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (177 bp):
TGCTCCACTAATGCTTAGGGAGATAAAACTCGACGGCTTCAATCTGCTCCACTACTGTCTTGAGA
AAATAAGATTCACCATCTTCGATCTACTCCACTACTGCTGAGGAAGACAGGATCTACCATCTTTG
ACCCGCTCCACTACTGCTTAGGGAGATTGGATCTACCATCTTCGACC
Found at i:8916664 original size:44 final size:44
Alignment explanation
Indices: 8916165--8916765 Score: 373
Period size: 44 Copynumber: 13.8 Consensus size: 44
8916155 GTTAGTTCTG
* * ** *
8916165 TCTGCTCCACTACTGCTTAGGAAGATAAGA-CT-TGA--TGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* * ** * *
8916205 TTTGCTCCACTAATGCTTAGGGAGATAAAATTCGA-CGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCATCTTCGA
* * * *
8916249 TCTGCTCCACTACTGTCTT-GAGAAAATAAGAT-TCACCATCTTTGA
1 TCTGCTCCACTACTG-CTTAG-GGAGATAGGATCT-ACCATCTTCGA
* * * ** * *
8916294 TCTGCTCCGCTACTGCTGAGGAAGGCAGGATCTGCCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* *
8916338 CCTGCTCCACTACTGCTTAGGGAGATTGGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* ** * ***** *
8916382 CCTGCTCCACTGTTGCTTAGGGAGATAAGA-CTGGTGGCTTCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* * * * *
8916425 TCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCATCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGA
* *
8916469 TCTACTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* * ***** **
8916513 CCCGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* * * *
8916556 TCTGCTTCACTACTGCTTAGGGGAAGATAAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTA-GGG-AGATAGGATCT-ACCATCTTCGA
* * *
8916602 TCTACTCCACTACAGCTTAGGGAGATAGGATCTACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* ***** **
8916646 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
* * * * * * *
8916689 TCTGCTTCACTACTACTTAGGAAGATAAGAT-TCGCCGTCTCCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGA
*
8916733 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT
8916766 GTGGTCTTCA
Statistics
Matches: 430, Mismatches: 109, Indels: 39
0.74 0.19 0.07
Matches are distributed among these distances:
40 26 0.06
42 1 0.00
43 87 0.20
44 247 0.57
45 47 0.11
46 22 0.05
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
Found at i:8916892 original size:86 final size:86
Alignment explanation
Indices: 8916785--8917497 Score: 1138
Period size: 86 Copynumber: 8.3 Consensus size: 86
8916775 AGTCTGGTCT
* *
8916785 GCTGTTAACGCAAGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
8916850 GCTTTGTTTGCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* * *
8916871 GCTATTTACGCAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
8916936 GCTTTGTTTTCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* * * * * *
8916957 GCTGTTTACGCAGGAAGACAAGATCTGTTTTTTTAACCAGCTCCACTACAACTGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
* *
8917022 GCTTTGTTTTCGGTATGCTTC
66 GCTTTGTTTTCGATCTGCTTC
*
8917043 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAATCAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
8917108 GCTTTGTTTTCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* *
8917129 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCCGCTCCACTGCAACCAATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
8917194 GCTTTGTTTTCGATCTACTTC
66 GCTTTGTTTTCGATCTGCTTC
*
8917215 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
8917280 GCTTTGTTTTCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* * *
8917301 GCTGTTAACGCAAGAAGGCAAGATCTACTTCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
* * *
8917366 ACTTTATTTTTGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* * * * *
8917387 CCTGTTAACGTAGGAAGGTAATATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
8917452 GCTTTGTTTTCGATCTGCTTT
66 GCTTTGTTTTCGATCTGCTTC
*
8917473 GCTGTTAACGCAGTAAGGCAAGATC
1 GCTGTTAACGCAGGAAGGCAAGATC
8917498 CAGCTCCACT
Statistics
Matches: 571, Mismatches: 56, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 571 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (86 bp):
GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
GCTTTGTTTTCGATCTGCTTC
Found at i:8917063 original size:43 final size:43
Alignment explanation
Indices: 8917015--8917322 Score: 113
Period size: 43 Copynumber: 7.2 Consensus size: 43
8917005 CAACTGATGG
*
8917015 AGGCAAGGCTTTGTTTTCGGTATGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATATGCTTCGCTGTTAACGCAGGA
* * ** * * *
8917058 AGGCAA-GATCTGCTTCTTTAATCA-GCTCCACTG-CAAC-CGATGG-
1 AGGCAAGGCTTTG-TT-TTCGAT-ATGCTTCGCTGTTAACGC-A-GGA
*
8917101 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATATGCTTCGCTGTTAACGCAGGA
* * ** *** * * *
8917144 AGGCAA-GATCTGCTTCTTTAACCCGCTCCACTG-CAAC-CAATGG-
1 AGGCAAGGCTTTG-TT-TTCGATATGCTTCGCTGTTAACGC-A-GGA
* *
8917187 AGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATATGCTTCGCTGTTAACGCAGGA
* * ** * * * *
8917230 AGGCAA-GATCTGCTTCTTTAACCA-GCTCCACTG-CAATCG-ATGG-
1 AGGCAAGGCTTTG-TT-TTCGA-TATGCTTCGCTGTTAA-CGCA-GGA
* *
8917273 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAAGA
1 AGGCAAGGCTTTGTTTTCGATATGCTTCGCTGTTAACGCAGGA
8917316 AGGCAAG
1 AGGCAAG
8917323 ATCTACTTCT
Statistics
Matches: 182, Mismatches: 55, Indels: 56
0.62 0.19 0.19
Matches are distributed among these distances:
42 52 0.29
43 77 0.42
44 52 0.29
45 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATATGCTTCGCTGTTAACGCAGGA
Found at i:8919169 original size:13 final size:13
Alignment explanation
Indices: 8919151--8919192 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
8919141 TGGTCTCTCC
8919151 TTTTCTTTTTCCT
1 TTTTCTTTTTCCT
8919164 TTTTCTTTTT-CT
1 TTTTCTTTTTCCT
*
8919176 TTTCTCTTTTTCAT
1 TTT-TCTTTTTCCT
8919190 TTT
1 TTT
8919193 CATTTTGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 5 0.19
13 17 0.65
14 4 0.15
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTTTCCT
Found at i:8919173 original size:19 final size:20
Alignment explanation
Indices: 8919151--8919198 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
8919141 TGGTCTCTCC
*
8919151 TTTTCTTTTTC-CTTTTTCT
1 TTTTCTTTTTCTCTTTTTCA
8919170 TTTTC-TTTTCTCTTTTTCA
1 TTTTCTTTTTCTCTTTTTCA
8919189 TTTTCATTTT
1 TTTTC-TTTT
8919199 GACTTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 17 0.68
21 3 0.12
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTTCTCTTTTTCA
Found at i:8919192 original size:6 final size:6
Alignment explanation
Indices: 8919151--8919198 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
8919141 TGGTCTCTCC
*
8919151 TTTTCT TTTTCCT TTTTCT TTTTCT TTTCTCT TTTTCA TTTTCAT TTT
1 TTTTCT TTTT-CT TTTTCT TTTTCT TTT-TCT TTTTCT TTTTC-T TTT
8919199 GACTTTGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.59
7 15 0.41
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:8922620 original size:109 final size:109
Alignment explanation
Indices: 8922338--8922663 Score: 385
Period size: 109 Copynumber: 3.0 Consensus size: 109
8922328 TAAATTCAAT
* * * *
8922338 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGACACGTTCCTCG
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
* *
8922401 AATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTTTTAAGAA
66 AATTTCCAAACGCAAAACATTGCCTTATTTT-AAA--ATTTTT-AGAA
** * *
8922449 A-GATATTAAG-TCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCT
1 AGGATATTTGGCT-ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCT
8922512 CGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTT-GAA
64 CGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAGAA
* * *
8922557 AGGATATTTGGCTATTAGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCTC
* * *
8922622 GAACTTT-CAAATGCAAAATATTGCCTTATTTAGAAAATTTTT
65 GAA-TTTCCAAACGCAAAACATTGCCTTATTT-TAAAATTTTT
8922664 CTTTTTTGAA
Statistics
Matches: 186, Mismatches: 21, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
108 4 0.02
109 78 0.42
110 39 0.21
111 1 0.01
112 28 0.15
113 36 0.19
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAGAA
Found at i:8922881 original size:9 final size:9
Alignment explanation
Indices: 8922867--8922897 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
8922857 ATAAATAAAT
8922867 AAATTATAA
1 AAATTATAA
8922876 AAATTATAA
1 AAATTATAA
8922885 AAATTATAA
1 AAATTATAA
8922894 AAAT
1 AAAT
8922898 ATGAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATTATAA
Found at i:8927804 original size:2 final size:2
Alignment explanation
Indices: 8927799--8927824 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8927789 TATATATATA
8927799 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
8927825 ATGAGATATG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8935196 original size:23 final size:23
Alignment explanation
Indices: 8935170--8935217 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
8935160 AATAAATAAT
8935170 GTTTGCCTAAATCAAAGCTCGAA
1 GTTTGCCTAAATCAAAGCTCGAA
8935193 GTTTGCCTAAATCAAAGCTCGAA
1 GTTTGCCTAAATCAAAGCTCGAA
8935216 GT
1 GT
8935218 CTTCTAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (23 bp):
GTTTGCCTAAATCAAAGCTCGAA
Found at i:8937861 original size:15 final size:14
Alignment explanation
Indices: 8937835--8937865 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
8937825 TTTATTCAAC
8937835 TTCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
8937849 TTCTTTTTCTTCTTT
1 TTCTTTTT-TTCTTT
8937864 TT
1 TT
8937866 GTTGAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:8947432 original size:21 final size:20
Alignment explanation
Indices: 8947403--8947442 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8947393 TTTCCAATCG
*
8947403 AGTCGAGTGAAATTAAATTTA
1 AGTCAAGTG-AATTAAATTTA
*
8947424 AGTCAAGTGGATTAAATTT
1 AGTCAAGTGAATTAAATTT
8947443 GATTGCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (20 bp):
AGTCAAGTGAATTAAATTTA
Found at i:8948381 original size:5 final size:5
Alignment explanation
Indices: 8948371--8948395 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8948361 GCCTAGGATG
8948371 TGAAT TGAAT TGAAT TGAAT TGAAT
1 TGAAT TGAAT TGAAT TGAAT TGAAT
8948396 AGGAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:8948803 original size:24 final size:25
Alignment explanation
Indices: 8948756--8948803 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8948746 TTGGCCCTCT
* * *
8948756 CGAGCTTTCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
8948781 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
8948804 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:8949051 original size:72 final size:73
Alignment explanation
Indices: 8948913--8949053 Score: 162
Period size: 72 Copynumber: 1.9 Consensus size: 73
8948903 AGGCTTTTTG
* * * * *
8948913 GGAGCTTCCTGATTAAAGGCTCTCCGGAGCTTCCCGATATGGCTCGCTTGAACTTTCTGATATAT
1 GGAGCTTCCTCATTAAAGGCTCTCCGGAGCTACCCGATATGGCTCGCATGAACTTCCCGATATAT
8948978 GGCTATCT
66 GGCTATCT
* * * *
8948986 GGAGCTTCC-CATTAATGGCTCTTCGGAGCTACCC-ATTATTGGCTCGCATGAGCTTCCCGGT-T
1 GGAGCTTCCTCATTAAAGGCTCTCCGGAGCTACCCGA-TA-TGGCTCGCATGAACTTCCCGATAT
8949048 ATGGCT
64 ATGGCT
8949054 CTTATGAGCT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
71 1 0.02
72 30 0.53
73 26 0.46
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (73 bp):
GGAGCTTCCTCATTAAAGGCTCTCCGGAGCTACCCGATATGGCTCGCATGAACTTCCCGATATAT
GGCTATCT
Found at i:8949052 original size:24 final size:23
Alignment explanation
Indices: 8949011--8949072 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
8949001 TGGCTCTTCG
* *
8949011 GAGCTACCCATTATTGGCTCGCAT
1 GAGCTTCCCGTTA-TGGCTCGCAT
**
8949035 GAGCTTCCCGGTTATGGCTCTTAT
1 GAGCTTCCC-GTTATGGCTCGCAT
8949059 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
8949073 ACAGCCCGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.15
24 25 0.76
25 3 0.09
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (23 bp):
GAGCTTCCCGTTATGGCTCGCAT
Found at i:8950231 original size:52 final size:52
Alignment explanation
Indices: 8950153--8950257 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
8950143 AAATGCTCAA
*
8950153 AATTGTTCACACGGGCAAAGACACGGGCGTGTACCTCAACCGTGTGTGACAC
1 AATTGTTCACACAGGCAAAGACACGGGCGTGTACCTCAACCGTGTGTGACAC
* * * *
8950205 AATTGTTCACACAGGCAGAGACACGGGTGTGTGCCTCAGCCGTGTGTGACAC
1 AATTGTTCACACAGGCAAAGACACGGGCGTGTACCTCAACCGTGTGTGACAC
8950257 A
1 A
8950258 CGGCCTAGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.20
Consensus pattern (52 bp):
AATTGTTCACACAGGCAAAGACACGGGCGTGTACCTCAACCGTGTGTGACAC
Found at i:8952873 original size:16 final size:16
Alignment explanation
Indices: 8952849--8952881 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8952839 AAAAGAAAGG
8952849 TGGTGGCATATTTTTT
1 TGGTGGCATATTTTTT
*
8952865 TGGTTGCATATTTTTT
1 TGGTGGCATATTTTTT
8952881 T
1 T
8952882 CTTTTTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.61
Consensus pattern (16 bp):
TGGTGGCATATTTTTT
Found at i:8952908 original size:20 final size:18
Alignment explanation
Indices: 8952875--8952911 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
8952865 TGGTTGCATA
8952875 TTTTTTTCTTTTTTCGAT
1 TTTTTTTCTTTTTTCGAT
8952893 TTTTTTCTCTTATTTTCGA
1 TTTTTT-TCTT-TTTTCGA
8952912 AACAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.08, C:0.14, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTTTCTTTTTTCGAT
Found at i:8954100 original size:4 final size:4
Alignment explanation
Indices: 8954086--8954121 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
8954076 ATTTTTATGT
8954086 TTTA GTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
8954122 GTTATGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:8954170 original size:18 final size:19
Alignment explanation
Indices: 8954136--8954172 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8954126 TGGTATATAC
*
8954136 ATTATTGATTTGTTTTTGT
1 ATTATTGATTCGTTTTTGT
8954155 ATTATT-ATTCGTTTTTGT
1 ATTATTGATTCGTTTTTGT
8954173 TCATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.16, C:0.03, G:0.14, T:0.68
Consensus pattern (19 bp):
ATTATTGATTCGTTTTTGT
Found at i:8954199 original size:14 final size:15
Alignment explanation
Indices: 8954166--8954199 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8954156 TTATTATTCG
* *
8954166 TTTTTGTTCATATTA
1 TTTTTGTTCACATCA
8954181 TTTTTGTTCACATCA
1 TTTTTGTTCACATCA
8954196 TTTT
1 TTTT
8954200 ATTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATCA
Found at i:8954447 original size:109 final size:109
Alignment explanation
Indices: 8954264--8954572 Score: 464
Period size: 109 Copynumber: 2.9 Consensus size: 109
8954254 CAAAGTAAGG
* *
8954264 CAATATTTTGCGTTTGGAAATTCGATAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCAT
1 CAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGT
8954329 TCAACCAAATAG-CTAAATATCCTTTTAAAAATTTCAAAACAAGA
66 TCAACCAAATAGTC-AAATATCCTTTTAAAAATTTCAAAACAAGA
*
8954373 CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGT
1 CAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGT
* * * * *
8954438 TCGATCAAATAGTGAAATATCCTTTT-AAAATTTCGAAATAAGA
66 TCAACCAAATAGTCAAATATCCTTTTAAAAATTTCAAAACAAGA
* * *
8954481 CAATATTTTGCGTTTGGAAATTCGAGGAAATGTGCCCTAATGTGCTGGGTTTC-A-ATTTCTCGT
1 CAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGT
* *
8954544 TTAACCAAATAGTCAAATATCCTCTTAAA
66 TCAACCAAATAGTCAAATATCCTTTTAAA
8954573 TTTTAATCCA
Statistics
Matches: 181, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
106 29 0.16
107 3 0.02
108 65 0.36
109 84 0.46
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (109 bp):
CAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGT
TCAACCAAATAGTCAAATATCCTTTTAAAAATTTCAAAACAAGA
Found at i:8955784 original size:5 final size:5
Alignment explanation
Indices: 8955774--8955801 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8955764 ATTTTTATAG
8955774 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
8955802 TAGATTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:8956579 original size:23 final size:22
Alignment explanation
Indices: 8956553--8956612 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
8956543 CATCTTATAA
8956553 ATAAAGAAATTATAAATTAATAC-
1 ATAAA-AAATTATAAATTAAT-CT
* **
8956576 ATAATAAACTTATATTTTAATCT
1 ATAA-AAAATTATAAATTAATCT
8956599 ATAAAAAATTATAA
1 ATAAAAAATTATAA
8956613 TTATATTTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
22 9 0.30
23 20 0.67
24 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAAAAAATTATAAATTAATCT
Found at i:8964202 original size:51 final size:53
Alignment explanation
Indices: 8964098--8964304 Score: 343
Period size: 53 Copynumber: 4.0 Consensus size: 53
8964088 CTGAAATTAA
*
8964098 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGGCCCCTAATT
1 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATT
* *
8964151 GACATAGTTTTGCCATTGTGTAAAGAACACA-A-CCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATT
*
8964202 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATT
8964255 GACATAGTTTTGCCATTGTGCAAGG-A-ACACAGCC-TTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATT
8964305 TTCCCATGGA
Statistics
Matches: 147, Mismatches: 5, Indels: 7
0.92 0.03 0.04
Matches are distributed among these distances:
50 16 0.11
51 56 0.38
52 3 0.02
53 72 0.49
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (53 bp):
GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATT
Found at i:8964283 original size:104 final size:103
Alignment explanation
Indices: 8964098--8964304 Score: 360
Period size: 104 Copynumber: 2.0 Consensus size: 103
8964088 CTGAAATTAA
*
8964098 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGGCCCCTAATTGACATAGTTTTG
1 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATTGACATAGTTTTG
*
8964163 CCATTGTGTAAAGAACACAACCTTTCAGGACCCCTAATT
66 CCATTGTGCAAAGAACACAACC-TTCAGGACCCCTAATT
*
8964202 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATTGACATAGTTTTG
1 GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATTGACATAGTTTTG
* *
8964267 CCATTGTGCAAGGAACACAGCCTTCAGGACCCCTAATT
66 CCATTGTGCAAAGAACACAACCTTCAGGACCCCTAATT
8964305 TTCCCATGGA
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
103 16 0.16
104 82 0.84
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (103 bp):
GACATAGTTTTGCCATTGTGCAAGGAACACACAGCCTTTCAGGACCCCTAATTGACATAGTTTTG
CCATTGTGCAAAGAACACAACCTTCAGGACCCCTAATT
Found at i:8966848 original size:127 final size:126
Alignment explanation
Indices: 8966622--8966872 Score: 412
Period size: 127 Copynumber: 2.0 Consensus size: 126
8966612 CAGAAGTTTC
*
8966622 CTATATGACAGTAAAACTACAAATTAAGCCACACAAGGCTACAAGGTCTTCAACAAATAATACAT
1 CTATATGACAGTAAAACTACAAATTAAGCCACACAACGCTACAAGGTCTTCAACAAATAATACAT
* * * *
8966687 TTACTAAAAAATTTAATTCAAAACAAACTTAGAGATCTTTCTCATGCTTGATTGGTGATTTT
66 TTACTAAAAAACTTAATTCAAAACAAACTTAGAGAT-ATTCTCATACTCGATTGGTGATTTT
* *
8966749 CTATATGACTGTAAAACTACAAATTAAGCCACACAACGCTACGAGGTCTTCAACAAATAATACAT
1 CTATATGACAGTAAAACTACAAATTAAGCCACACAACGCTACAAGGTCTTCAACAAATAATACAT
* *
8966814 TTTCTTAAAAACTTAATTCAAAACAAACTTAGAGATATTCTCATACTCGATTGGTGATT
66 TTACTAAAAAACTTAATTCAAAACAAACTTAGAGATATTCTCATACTCGATTGGTGATT
8966873 CTTCGGGCCC
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
126 20 0.17
127 95 0.83
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (126 bp):
CTATATGACAGTAAAACTACAAATTAAGCCACACAACGCTACAAGGTCTTCAACAAATAATACAT
TTACTAAAAAACTTAATTCAAAACAAACTTAGAGATATTCTCATACTCGATTGGTGATTTT
Found at i:8967685 original size:24 final size:24
Alignment explanation
Indices: 8967657--8967716 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 24
8967647 ACTAAAAACA
8967657 AAAGAAACATAGTTTTCCAGCCAC
1 AAAGAAACATAGTTTTCCAGCCAC
8967681 AAAGAAACATAATAGTTTTCCAGCCAC
1 AAAGAAAC---ATAGTTTTCCAGCCAC
8967708 AAAGAAACA
1 AAAGAAACA
8967717 AACTTCCTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.27
27 24 0.73
ACGTcount: A:0.48, C:0.22, G:0.12, T:0.18
Consensus pattern (24 bp):
AAAGAAACATAGTTTTCCAGCCAC
Found at i:8967702 original size:27 final size:27
Alignment explanation
Indices: 8967665--8967716 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
8967655 CAAAAGAAAC
8967665 ATAGTTTTCCAGCCACAAAGAAACATA
1 ATAGTTTTCCAGCCACAAAGAAACATA
8967692 ATAGTTTTCCAGCCACAAAGAAACA
1 ATAGTTTTCCAGCCACAAAGAAACA
8967717 AACTTCCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (27 bp):
ATAGTTTTCCAGCCACAAAGAAACATA
Found at i:8968888 original size:14 final size:14
Alignment explanation
Indices: 8968869--8968896 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8968859 CATATTTCTA
8968869 AGAAATATATACTT
1 AGAAATATATACTT
8968883 AGAAATATATACTT
1 AGAAATATATACTT
8968897 TGAGAGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AGAAATATATACTT
Found at i:8969538 original size:3 final size:3
Alignment explanation
Indices: 8969530--8969562 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8969520 TAAATGCAAA
8969530 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
8969563 CAGCAGCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:8969567 original size:3 final size:3
Alignment explanation
Indices: 8969561--8969592 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8969551 TAGTAGTAGT
8969561 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
8969593 TACTAGTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:8969608 original size:3 final size:3
Alignment explanation
Indices: 8969602--8969630 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8969592 GTACTAGTAC
8969602 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8969631 GAAACTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8976663 original size:87 final size:87
Alignment explanation
Indices: 8976510--8977200 Score: 1053
Period size: 87 Copynumber: 7.9 Consensus size: 87
8976500 ACAGTGTATT
* * * *
8976510 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAAATAACGCACACCACGAAGATAATCAT
1 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
8976575 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
8976597 GGGCATT-GGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCA
1 GGGC-TTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCA
* *
8976661 TTTCAAAAACGGATATCCCTTTC
65 TTTCAAAAATGGAAATCCCTTTC
* *
8976684 GGGCTTGGGCTCATTCGTAAATTTATAGACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
1 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
8976749 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
* *
8976771 GGGCATT-GGCTCGTTCGTAAATTTATAAACATGATGTAACTAACGCACGCCACGAAGAAAATCA
1 GGGC-TTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCA
*
8976835 TTTCAAAAATGGATATCCCTTTC
65 TTTCAAAAATGGAAATCCCTTTC
* *
8976858 AGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
1 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
8976923 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
** * * *
8976945 GGGCTTGGGCTTATTCGTAAACTTATAAACATGATGTAATTAAAGCACGCGACAAAGAAAATCAT
1 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
* *
8977010 TTCAAAAATGGAAATCCTTTTT
66 TTCAAAAATGGAAATCCCTTTC
* * * * * * *
8977032 GAGCTTGGGCTCGTTCGTAAACTTATAAACATGATGTAATCAACACAAGCCACGAAGAAAACCAT
1 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
8977097 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
* * ** * *
8977119 GGGCTTGGGCTCATTCGTAAATTTATAAGCACAATGTAATCAACACACGCCACAAAGAAAATCAT
1 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
8977184 TTCAAAAATGGAAATCC
66 TTCAAAAATGGAAATCC
8977201 GGTTAATAGG
Statistics
Matches: 552, Mismatches: 48, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
86 4 0.01
87 544 0.99
88 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (87 bp):
GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCAT
TTCAAAAATGGAAATCCCTTTC
Found at i:8978617 original size:16 final size:16
Alignment explanation
Indices: 8978565--8978618 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
8978555 TGGTTCAGTA
*
8978565 TAATGGAATAGAGCTG
1 TAATAGAATAGAGCTG
*
8978581 TAAT-GTAATAGAGTTG
1 TAATAG-AATAGAGCTG
*
8978597 TAATAGAATAGAACTG
1 TAATAGAATAGAGCTG
8978613 TAATAG
1 TAATAG
8978619 CAATTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.30
Consensus pattern (16 bp):
TAATAGAATAGAGCTG
Found at i:8978653 original size:45 final size:45
Alignment explanation
Indices: 8978602--8978739 Score: 217
Period size: 45 Copynumber: 3.1 Consensus size: 45
8978592 AGTTGTAATA
8978602 GAATAGAACTGTAATAGCAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAGCAATTCAATTGTTTGGTTGAATGGAATG
8978647 GAATAGAACTGTAATAGCAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAGCAATTCAATTGTTTGGTTGAATGGAATG
* * * *
8978692 GAATAGAACTGTAACAG-TATTC-TTGTGTTTGGTTGAATGGAATA
1 GAATAGAACTGTAATAGCAATTCAAT-TGTTTGGTTGAATGGAATG
8978736 GAAT
1 GAAT
8978740 TGTAATAGCA
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
43 1 0.01
44 26 0.30
45 61 0.69
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.34
Consensus pattern (45 bp):
GAATAGAACTGTAATAGCAATTCAATTGTTTGGTTGAATGGAATG
Found at i:8979120 original size:13 final size:13
Alignment explanation
Indices: 8979102--8979137 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
8979092 TATATGTTAC
8979102 TTAAAAGAATAAT
1 TTAAAAGAATAAT
*
8979115 TTAAAAGAGTAAT
1 TTAAAAGAATAAT
8979128 TT-AAAGAATA
1 TTAAAAGAATA
8979138 TCTTGTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (13 bp):
TTAAAAGAATAAT
Found at i:8987070 original size:12 final size:12
Alignment explanation
Indices: 8987053--8987086 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8987043 TCACGAACAA
8987053 GCTCGTTTATTG
1 GCTCGTTTATTG
8987065 GCTCGTTTA-TG
1 GCTCGTTTATTG
*
8987076 ACTCGTTTATT
1 GCTCGTTTATT
8987087 TATTAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.50
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:8987336 original size:24 final size:24
Alignment explanation
Indices: 8987309--8987372 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
8987299 TTATTAACAT
*
8987309 TGTTCGTGAACATATTCAATTATA
1 TGTTCATGAACATATTCAATTATA
* *
8987333 TGTTTATGAACATGTTCAATTA-A
1 TGTTCATGAACATATTCAATTATA
*
8987356 -GTTAAATGAACATATTC
1 TGTT-CATGAACATATTC
8987373 GTGAACATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 3 0.09
23 12 0.35
24 19 0.56
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (24 bp):
TGTTCATGAACATATTCAATTATA
Found at i:8987442 original size:27 final size:30
Alignment explanation
Indices: 8987386--8987442 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 30
8987376 AACATTAAAC
* *
8987386 AAACGAATATGAACACACAAAATTTTAAAT
1 AAACGAACATGAACACACAAAATTTAAAAT
8987416 AAACGAACATG-A-ACA-AAAATTTAAAAT
1 AAACGAACATGAACACACAAAATTTAAAAT
8987443 TCTTAACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 3 0.12
29 1 0.04
30 10 0.40
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (30 bp):
AAACGAACATGAACACACAAAATTTAAAAT
Found at i:8990789 original size:2 final size:2
Alignment explanation
Indices: 8990784--8990809 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8990774 ACACACACAC
8990784 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
8990810 TGTAAAACCA
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:8992510 original size:50 final size:49
Alignment explanation
Indices: 8992456--8992991 Score: 202
Period size: 50 Copynumber: 10.7 Consensus size: 49
8992446 TACACCGCCA
*
8992456 GGGAAGTAAGATCCGTCGTTGTGGCTTCAATCCTTTTAATTGCAATGTCT
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAAT-CTTTTAATTGCAATGTCT
* *** * * * ** * **
8992506 GGGAAATAAGATTTACCATCGTAGCTTCAATCTGTTCCACTGCACCG-CT
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT-TTTAATTGCAATGTCT
* * * *
8992555 AGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTACGATGTCG
1 -GGGAAGTAAGATCCGCCGTTGTGGCTTCAATC-TTTTAATTGCAATGTCT
*** * * * * ** * *
8992606 GGGAAACCAGATCTGCCGTCGTAGCTTCATTCTGTTCCACTGCACTG-CT
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT-TTTAATTGCAATGTCT
* * *
8992655 AGGGAAGTAAGATCCACCGTTATGGCTTCAATCTTTTCAAATTGCAATGTCA
1 -GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT--AATTGCAATGTCT
* * * * * ** * * **
8992707 GGAAACT-AGATCCGTCGTCGTGACTTCAATCTGTTCCACTACACCG-CT
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT-TTTAATTGCAATGTCT
* * *
8992755 AGGGGAGTAAGATCCGCCATTGTGGCTTCAATCCTTTTAATTGCAATGTCG
1 -GGGAAGTAAGATCCGCCGTTGTGGCTTCAAT-CTTTTAATTGCAATGTCT
*** ** * * * ** * * ** * *
8992806 GGGAAACCAGATCCGCAATCGTAGC-TCTATCTGTTCCACTACACCGCCA
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT-TTTAATTGCAATGTCT
*
8992855 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTTGCAATGTCA
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATC-TTTTAA-TTGCAATGTCT
*** * * * * * * ** * *
8992906 GGGAAACCAGATCCACCGTCGTAGCTTCAAT-TTGTTCCACTACACCGCCA
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT-TT-AATTGCAATGTCT
*
8992956 GGGAAGTAAGATCCGCTGTTGTGGCTTCAATCTTTT
1 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT
8992992 CCTTTGTAAT
Statistics
Matches: 331, Mismatches: 134, Indels: 42
0.65 0.26 0.08
Matches are distributed among these distances:
48 3 0.01
49 49 0.15
50 224 0.68
51 54 0.16
52 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (49 bp):
GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGTCT
Found at i:8992517 original size:100 final size:100
Alignment explanation
Indices: 8992390--8992991 Score: 739
Period size: 100 Copynumber: 6.0 Consensus size: 100
8992380 CTTCAATTTA
* * * * * *
8992390 TTTAACTGCAATGTCGGGGAAACAAGATTCGTCATTGT-GACTTCAATCTATTCCACTACACCGC
1 TTTAATTGCAATGTCGGGGAAACCAGATCCGCCATCGTAG-CTTCAATCTGTTCCACTACACCGC
*
8992454 CAGGGAAGTAAGATCCGTCGTTGTGGCTTCAATCCT
65 CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT
* ** *** * *
8992490 TTTAATTGCAATGTCTGGGAAATAAGATTTACCATCGTAGCTTCAATCTGTTCCACTGCACCGCT
1 TTTAATTGCAATGTCGGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCC
* *
8992555 AGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTT
66 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT
* * * * * * * *
8992590 TTTAATTACGATGTCGGGGAAACCAGATCTGCCGTCGTAGCTTCATTCTGTTCCACTGCACTGCT
1 TTTAATTGCAATGTCGGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCC
* *
8992655 AGGGAAGTAAGATCCACCGTTATGGCTTCAAT-CT
66 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT
* * * *
8992689 TTTCAAATTGCAATGTC-AGGAAACTAGATCCGTCGTCGT-GACTTCAATCTGTTCCACTACACC
1 TTT--AATTGCAATGTCGGGGAAACCAGATCCGCCATCGTAG-CTTCAATCTGTTCCACTACACC
* * *
8992752 GCTAGGGGAGTAAGATCCGCCATTGTGGCTTCAATCCT
63 GCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT
* *
8992790 TTTAATTGCAATGTCGGGGAAACCAGATCCGCAATCGTAGC-TCTATCTGTTCCACTACACCGCC
1 TTTAATTGCAATGTCGGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCC
*
8992854 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTT
66 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT
* * * *
8992889 TTTAATTTGCAATGTCAGGGAAACCAGATCCACCGTCGTAGCTTCAATTTGTTCCACTACACCGC
1 TTTAA-TTGCAATGTCGGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACCGC
*
8992954 CAGGGAAGTAAGATCCGCTGTTGTGGCTTCAAT-CT
65 CAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT
8992989 TTT
1 TTT
8992992 CCTTTGTAAT
Statistics
Matches: 437, Mismatches: 56, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
99 75 0.17
100 293 0.67
101 69 0.16
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (100 bp):
TTTAATTGCAATGTCGGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCC
AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT
Found at i:8993167 original size:50 final size:50
Alignment explanation
Indices: 8993078--8993173 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
8993068 CACCAGGGAG
**
8993078 ATAAGATCCGCCGTCGTGGCTTCAATCTGCTCCGCTGCAATGCCAAGAAA
1 ATAAGATCCGCCGTCGTGGCTTCAATCTGCTCAACTGCAATGCCAAGAAA
* ** * *
8993128 ATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAA
1 ATAAGATCCGCCGTCGTGGCTTCAATCTGCTCAACTGCAATGCCAA
8993174 AGAGATAGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (50 bp):
ATAAGATCCGCCGTCGTGGCTTCAATCTGCTCAACTGCAATGCCAAGAAA
Found at i:8993197 original size:167 final size:167
Alignment explanation
Indices: 8992962--8993331 Score: 508
Period size: 167 Copynumber: 2.2 Consensus size: 167
8992952 GCCAGGGAAG
* ** * * *
8992962 TAAGATCCGCTGTTGTGGCTTCAATCTTTTCCTTTGTAATGCTAAAGAGATAGAATTTACTGCCC
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCAAAGAGATAGAATTCACTGCCC
* *
8993027 ACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACACCAGGGAGATAAGATCCGCCGT
66 ACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACACCAGAGAGATAAGATCCGCCAT
*
8993092 CGTGGCTTCAATCTGCTCCGCTGC-AATGCCAAGAAAA
131 CGTGGCTTCAATCTACTCCGCTGCGAAT-CCAAGAAAA
* * *
8993129 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAAAGAGATAGGATTCGCTGCCC
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCAAAGAGATAGAATTCACTGCCC
* ** * **
8993194 ACAGCTTTAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGAGAGATAAGATTTGCCAT
66 ACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACACCAGAGAGATAAGATCCGCCAT
* * *
8993259 CGTGGCTTCAATCTATTCCGCTGCGACTCCAGGAAAA
131 CGTGGCTTCAATCTACTCCGCTGCGAATCCAAGAAAA
* * *
8993296 TAAAATCTGCCGTTGTGGCTTCAATCTTTTCCATTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTG
8993332 TAACGTCAAG
Statistics
Matches: 177, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
167 175 0.99
168 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (167 bp):
TAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGCCAAAGAGATAGAATTCACTGCCC
ACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACACCAGAGAGATAAGATCCGCCAT
CGTGGCTTCAATCTACTCCGCTGCGAATCCAAGAAAA
Found at i:8993472 original size:88 final size:88
Alignment explanation
Indices: 8993353--8993529 Score: 248
Period size: 88 Copynumber: 2.0 Consensus size: 88
8993343 CGATAAGACG
* *
8993353 GGTATCTTCGATCTGCTTCGCCGCCAGTACAGGAAGGCAAGATCTG-TCATTTTCAACCTACTCC
1 GGTATCTTCGATCTGCTTCGCCGCCAATACAGGAAGACAAGATCTGCT-ATTTTCAACCTACTCC
8993417 ACTGCTACCCAAGGAGAAAAGGCT
65 ACTGCTACCCAAGGAGAAAAGGCT
* * * *
8993441 GGTATCTTCGATCTTCTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTATTCCA
1 GGTATCTTCGATCTGCTTCGCCGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
* * * *
8993506 CTGCTGCTCAGGGAGATAAGGCT
66 CTGCTACCCAAGGAGAAAAGGCT
8993529 G
1 G
8993530 AAGTTTCACC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 77 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (88 bp):
GGTATCTTCGATCTGCTTCGCCGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
CTGCTACCCAAGGAGAAAAGGCT
Found at i:9000529 original size:19 final size:19
Alignment explanation
Indices: 9000505--9000541 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9000495 ATCTCTTAGG
*
9000505 TTTGGAGGGAAATAAAAGC
1 TTTGGAGAGAAATAAAAGC
*
9000524 TTTGGAGAGAAGTAAAAG
1 TTTGGAGAGAAATAAAAG
9000542 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.32, T:0.22
Consensus pattern (19 bp):
TTTGGAGAGAAATAAAAGC
Found at i:9002507 original size:87 final size:87
Alignment explanation
Indices: 9002390--9002734 Score: 467
Period size: 87 Copynumber: 4.0 Consensus size: 87
9002380 GGCAACAGTG
* * *
9002390 TTTCGGGCTTGGGCTCATTTGTAAATTTATAAACATGATGTAATTAACGCATGCCACAAAGAAAA
1 TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACAAAGAAAA
9002455 TCATTTCAAAAATGGAAATACC
66 TCATTTCAAAAATGGAAATACC
* * * *
9002477 TTTCGGGCTTGGCCCCGTTCGTAAACTTATAAACATGATGTAATTAACAAATGCCACAAAGAAAA
1 TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACAAAGAAAA
*
9002542 TCATTTCAAAAATGGAAATCCC
66 TCATTTCAAAAATGGAAATACC
* * ** ** * *
9002564 TTTCAGGCTTGGGCTTGTTCAAAAATTTATAAACATGATGTAATTATCACATGCCACGAAGAAAA
1 TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACAAAGAAAA
*
9002629 TCATTTCAAAAATGGAAATTCC
66 TCATTTCAAAAATGGAAATACC
* * * ***
9002651 TTTCGGGCTTGGCCTCATTTGTAAATTTATAAACATGATGTAAGTT-ACGCACGCCGTGAAGAAA
1 TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAA-TTAACACATGCCACAAAGAAA
9002715 ATCATTTCAAAAATGGAAAT
65 ATCATTTCAAAAATGGAAAT
9002735 CAGATTAACA
Statistics
Matches: 226, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 224 0.99
88 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (87 bp):
TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACAAAGAAAA
TCATTTCAAAAATGGAAATACC
Found at i:9005726 original size:18 final size:19
Alignment explanation
Indices: 9005678--9005731 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
9005668 ATTAATTGTC
* *
9005678 TATAAAATTTAATTTGAATA
1 TATAAAATAT-ATTTAAATA
*
9005698 TATAAATTATATTTAAATA
1 TATAAAATATATTTAAATA
*
9005717 T-TAAAATATAATTAA
1 TATAAAATATATTTAA
9005732 TACAAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 12 0.41
19 9 0.31
20 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TATAAAATATATTTAAATA
Found at i:9005755 original size:15 final size:14
Alignment explanation
Indices: 9005708--9005761 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
9005698 TATAAATTAT
9005708 ATTTAAATATTAAA
1 ATTTAAATATTAAA
* * *
9005722 ATATAATTAATACAA
1 ATTTAAATATTA-AA
9005737 ATTTAAATATTAAA
1 ATTTAAATATTAAA
9005751 TATTTAAATAT
1 -ATTTAAATAT
9005762 ATGCAGTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTAAATATTAAA
Found at i:9009693 original size:17 final size:17
Alignment explanation
Indices: 9009671--9009704 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9009661 ATCAAATAAT
*
9009671 AAATATGTAATTATATA
1 AAATATATAATTATATA
*
9009688 AAATATATATTTATATA
1 AAATATATAATTATATA
9009705 TATATCATTA
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:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AAATATATAATTATATA
Found at i:9010922 original size:170 final size:170
Alignment explanation
Indices: 9010640--9011278 Score: 800
Period size: 170 Copynumber: 3.8 Consensus size: 170
9010630 TTAAATTTCA
* * *
9010640 CAAAATTCAGCCCAAAACCCTAATTTTTTAAAACTGACATATATTTAAAATTTAACCGATGTTAT
1 CAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATCGATGTTAT
* ** *
9010705 TATTCATTGATAATGCATGAAACTTATATACCGAAAATGCATCAAATATTATTTTATTTTCTTTC
66 TATTCACTGATAATGCATGAAACTTATGCACCGACAATGCATCAAATATTATTTTATTTTCTTTC
* *
9010770 TATTTTTCTTCCCAAAATCAGTCTATTTATCAAAATATCG
131 TATTTATCTTCCCAAAATCAGTCTATTTCTCAAAATATCG
* *
9010810 CAAAATTCAGCCCAAAACCCTAATTTTTTAAAACTGGCATATATCTAAAATTTAATCGATGTTAT
1 CAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATCGATGTTAT
* * * **
9010875 TATTCACTAATAATGCATTAAACTTATGCCCCGATGATGCATCAAATATTATTTTATTTTCTTTC
66 TATTCACTGATAATGCATGAAACTTATGCACCGACAATGCATCAAATATTATTTTATTTTCTTTC
* ** * * *
9010940 TATTTATCTTCCCAAGATTGGTCTATTTCCCCAAATATCA
131 TATTTATCTTCCCAAAATCAGTCTATTTCTCAAAATATCG
* * * *
9010980 CAAAATTCAACTCAAAACCCTAA-TTTTTAAAACTGGCATATATCTAAAATTTAATTGATATTAT
1 CAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATCGATGTTAT
* * * *
9011044 TATTCACTGATAATGCATGAAACTTATGCCCCGACGATGCATCAAATTTTATTTTATTTTATTTC
66 TATTCACTGATAATGCATGAAACTTATGCACCGACAATGCATCAAATATTATTTTATTTTCTTTC
* * * * * * *
9011109 TCTTTCTCTTTCCAGAA-CCGATCTATTTCTCTAAATATTG
131 TATTTATCTTCCCAAAATCAG-TCTATTTCTCAAAATATCG
* * * *
9011149 CAAAATTCAACCAAAAACCCTAATTTTTTAAATCTAACATGTATCTAAAATTTAA-CTGATGTTA
1 CAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATC-GATGTTA
* * * * * *
9011213 TTATTCACTTG-TAATGCATGAAGCTTATGTACCGACAATACATAAAATATTAGTTCATTTTCTT
65 TTATTCAC-TGATAATGCATGAAACTTATGCACCGACAATGCATCAAATATTATTTTATTTTCTT
9011277 TC
129 TC
9011279 CTTGAAATAT
Statistics
Matches: 408, Mismatches: 57, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
168 1 0.00
169 147 0.36
170 258 0.63
171 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (170 bp):
CAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATCGATGTTAT
TATTCACTGATAATGCATGAAACTTATGCACCGACAATGCATCAAATATTATTTTATTTTCTTTC
TATTTATCTTCCCAAAATCAGTCTATTTCTCAAAATATCG
Found at i:9011837 original size:30 final size:30
Alignment explanation
Indices: 9011803--9011862 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9011793 ACTTAACAAG
* *
9011803 CAAATGCTTTTAAGAA-ATTAACAAAATTAA
1 CAAATGCCTTTAA-AATAATAACAAAATTAA
9011833 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
9011863 GAATAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:9013055 original size:16 final size:16
Alignment explanation
Indices: 9013022--9013055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9013012 GACGTAGATA
*
9013022 AAAAATATTTTATGTT
1 AAAAATATTATATGTT
*
9013038 AAAAATATTATATTTT
1 AAAAATATTATATGTT
9013054 AA
1 AA
9013056 GGTTTTCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAAATATTATATGTT
Found at i:9016390 original size:7 final size:7
Alignment explanation
Indices: 9016378--9016406 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9016368 AAATTTATTA
9016378 ATAAAAC
1 ATAAAAC
9016385 ATAAAAC
1 ATAAAAC
9016392 ATAAAAC
1 ATAAAAC
9016399 ATAAAAC
1 ATAAAAC
9016406 A
1 A
9016407 AATAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAAAC
Found at i:9018462 original size:14 final size:15
Alignment explanation
Indices: 9018445--9018473 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9018435 AGAAGAGAAT
9018445 GAAAAAAAG-AAAAA
1 GAAAAAAAGTAAAAA
9018459 GAAAAAAAGTAAAAA
1 GAAAAAAAGTAAAAA
9018474 ATTACTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
GAAAAAAAGTAAAAA
Found at i:9031299 original size:12 final size:12
Alignment explanation
Indices: 9031281--9031310 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9031271 AGCCGCTAGA
9031281 ACCTCTGCCTCT
1 ACCTCTGCCTCT
*
9031293 GCCTCTGCCTCT
1 ACCTCTGCCTCT
9031305 ACCTCT
1 ACCTCT
9031311 ACCCCTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.50, G:0.10, T:0.33
Consensus pattern (12 bp):
ACCTCTGCCTCT
Found at i:9033196 original size:6 final size:6
Alignment explanation
Indices: 9033185--9033225 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
9033175 CCCAACACAA
9033185 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
9033226 ATAAATTCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:9038193 original size:214 final size:216
Alignment explanation
Indices: 9037821--9038222 Score: 781
Period size: 214 Copynumber: 1.9 Consensus size: 216
9037811 ACAAAATAAA
9037821 AACATAGTTAGGTAATTACTAATGTAGTTTATCCTAAAATTTAAAATGTGTTTGATGAACTGAAA
1 AACATAGTTAGGTAATTACTAATGTAGTTTATCCTAAAATTTAAAATGTGTTT-ATGAACTGAAA
9037886 AATTAAGCACTGAATTTATATTATAAAACTATTTGATATATTAGTAAAAATTAATCATTGAATAT
65 AATTAAGCACTGAATTTATATTATAAAACTATTTGATATATTAGTAAAAATTAATCATTGAATAT
9037951 AATTATTTTGTTTAATAATAATAAGCTTTAATTTTTGAAAATTCATTATTTCTGTTGATATATTA
130 AATTATTTTGTTTAATAATAATAAGCTTTAATTTTTGAAAATTCATTATTTCTGTTGATATATTA
9038016 GTAAAAATTAATCATTGAATAT
195 GTAAAAATTAATCATTGAATAT
9038038 AACATAGTTAGGTAATTACTAATGTAGTTTATCCTAAAATTTAAAATGTG-TT-TGAACTGAAAA
1 AACATAGTTAGGTAATTACTAATGTAGTTTATCCTAAAATTTAAAATGTGTTTATGAACTGAAAA
9038101 ATTAAGCACTGAATTTATATTATAAAACTATTTGATATATTAGTAAAAATTAATCATTGAATATA
66 ATTAAGCACTGAATTTATATTATAAAACTATTTGATATATTAGTAAAAATTAATCATTGAATATA
9038166 ATTATTTTGTTTAATAATAATAAGCTTTAATTTTTGAAAATTCATTATTTCTGTTGA
131 ATTATTTTGTTTAATAATAATAAGCTTTAATTTTTGAAAATTCATTATTTCTGTTGA
9038223 GGGAGGTCAA
Statistics
Matches: 185, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
214 133 0.72
216 2 0.01
217 50 0.27
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (216 bp):
AACATAGTTAGGTAATTACTAATGTAGTTTATCCTAAAATTTAAAATGTGTTTATGAACTGAAAA
ATTAAGCACTGAATTTATATTATAAAACTATTTGATATATTAGTAAAAATTAATCATTGAATATA
ATTATTTTGTTTAATAATAATAAGCTTTAATTTTTGAAAATTCATTATTTCTGTTGATATATTAG
TAAAAATTAATCATTGAATAT
Found at i:9038788 original size:2 final size:2
Alignment explanation
Indices: 9038781--9038817 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9038771 AATTAAAAAC
9038781 AT AT 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 AT AT A
9038818 AAGTTCATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9039080 original size:12 final size:13
Alignment explanation
Indices: 9039065--9039096 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9039055 TTGAATTTTA
9039065 TTAAGATTATT-G
1 TTAAGATTATTAG
9039077 TTAAGATTATTAG
1 TTAAGATTATTAG
9039090 TT-AGATT
1 TTAAGATT
9039097 TAATTTCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (13 bp):
TTAAGATTATTAG
Found at i:9044084 original size:6 final size:6
Alignment explanation
Indices: 9044064--9044109 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
9044054 AGGCAATCAA
9044064 ATTT-T ATTT-T ATTTAT ATTTAT ATTTAT ATTTTAT ATTTTAT ATTT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A-TTTAT A-TTTAT ATTT
9044110 TTTTCTTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 9 0.23
6 17 0.44
7 13 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
ATTTAT
Found at i:9044090 original size:12 final size:12
Alignment explanation
Indices: 9044064--9044109 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
9044054 AGGCAATCAA
9044064 ATTT-TATTT-T
1 ATTTATATTTAT
9044074 ATTTATATTTAT
1 ATTTATATTTAT
9044086 ATTTATATTTTAT
1 ATTTATA-TTTAT
9044099 ATTTTATATTT
1 A-TTTATATTT
9044110 TTTTCTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.12
11 5 0.16
12 8 0.25
13 9 0.28
14 6 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTATATTTAT
Found at i:9044099 original size:7 final size:7
Alignment explanation
Indices: 9044075--9044110 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
9044065 TTTTATTTTA
9044075 TTTATA-
1 TTTATAT
9044081 TTTATA-
1 TTTATAT
9044087 TTTATAT
1 TTTATAT
9044094 TTTATAT
1 TTTATAT
9044101 TTTATAT
1 TTTATAT
9044108 TTT
1 TTT
9044111 TTTCTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATAT
Found at i:9052991 original size:82 final size:81
Alignment explanation
Indices: 9052853--9053103 Score: 310
Period size: 82 Copynumber: 3.0 Consensus size: 81
9052843 CAACTTTTCC
** * *
9052853 TTTAATT-AGTCAATGAAACATCGCCGTTTTGTTAAATTTTTAATGTATTTTTTGCGGCGTTTTT
1 TTTAATTCA-TCAATGAAACGGCGCC-CTTTGTTAAA-TTTTAATATATTTTTTGCGGCGTTTTT
*
9052917 ATAGAAAACGCCACTAATA
63 ATACAAAACGCCACTAATA
* *
9052936 TTTAATTCATCAATGAAACGGCGCCCTTTATTAAATTCTTAATATATTTTTTGCGGCGTTTGTAT
1 TTTAATTCATCAATGAAACGGCGCCCTTTGTTAAATT-TTAATATATTTTTTGCGGCGTTTTTAT
9053001 ACAAAACGCCACTAATA
65 ACAAAACGCCACTAATA
* * *
9053018 TTTAATTCGTCAATGAAACGGTGCCGTTTGGTTAAATTTTAAATATATTTTTTGCGGCGTTTTTG
1 TTTAATTCATCAATGAAACGGCGCCCTTT-GTTAAATTTT-AATATATTTTTTGCGGCGTTTTT-
*
9053083 AT-C-AAACGCCGCTAATGA
63 ATACAAAACGCCACTAAT-A
9053101 TTT
1 TTT
9053104 CACTTTTAAA
Statistics
Matches: 149, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
81 2 0.01
82 89 0.60
83 55 0.37
84 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (81 bp):
TTTAATTCATCAATGAAACGGCGCCCTTTGTTAAATTTTAATATATTTTTTGCGGCGTTTTTATA
CAAAACGCCACTAATA
Found at i:9053241 original size:14 final size:14
Alignment explanation
Indices: 9053222--9053249 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9053212 ACATCATTAT
9053222 TAATATTATTTAAA
1 TAATATTATTTAAA
9053236 TAATATTATTTAAA
1 TAATATTATTTAAA
9053250 ATTTTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTATTTAAA
Found at i:9053731 original size:14 final size:14
Alignment explanation
Indices: 9053714--9053744 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9053704 CCCTAACTAT
9053714 TAACCCCTAACCCC
1 TAACCCCTAACCCC
*
9053728 TAACTCCTAACCCC
1 TAACCCCTAACCCC
9053742 TAA
1 TAA
9053745 ACCTTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.19
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:9053738 original size:21 final size:21
Alignment explanation
Indices: 9053680--9053744 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
9053670 CCCTAACCTG
* * *
9053680 ACCCTTAAATCCTAAACCCTAA
1 ACCCCTAACTCCTAACCCCT-A
* **
9053702 ATCCCTAACTATTAACCCCTA
1 ACCCCTAACTCCTAACCCCTA
9053723 ACCCCTAACTCCTAACCCCTA
1 ACCCCTAACTCCTAACCCCTA
9053744 A
1 A
9053745 ACCTTAAATC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (21 bp):
ACCCCTAACTCCTAACCCCTA
Found at i:9053760 original size:21 final size:21
Alignment explanation
Indices: 9053715--9053776 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
9053705 CCTAACTATT
* * * *
9053715 AACCCCTAACCCCTAACTCCT
1 AACCCCTAAACCATAAATCCC
*
9053736 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCATAAATCCC
*
9053757 AACCCTTAAACCAT-AATCCC
1 AACCCCTAAACCATAAATCCC
9053777 TAAATCCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCATAAATCCC
Found at i:9054103 original size:21 final size:20
Alignment explanation
Indices: 9054079--9054147 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 20
9054069 CCAACCTTTT
9054079 AACCATAAATCATAACCCCTA
1 AACCATAAATCATAA-CCCTA
*
9054100 AACCCAT-AATCCATAAACCTTA
1 AA-CCATAAAT-CAT-AACCCTA
*
9054122 AACTC-TAAACCATATACCCTA
1 AAC-CATAAATCATA-ACCCTA
9054143 AACCA
1 AACCA
9054148 AAAAACCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
20 2 0.05
21 18 0.47
22 16 0.42
23 2 0.05
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCATAAATCATAACCCTA
Found at i:9054132 original size:14 final size:14
Alignment explanation
Indices: 9054034--9054159 Score: 67
Period size: 14 Copynumber: 8.9 Consensus size: 14
9054024 CTAGTTAATC
*
9054034 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
9054049 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* *
9054063 TAAACCC-CAACCTT
1 TAAACCCTAAACC-A
* * *
9054077 TTAACCATAAATCA
1 TAAACCCTAAACCA
*
9054091 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
9054106 TAATCCATAAACCT
1 TAAACCCTAAACCA
*
9054120 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
9054134 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
9054148 AAAAACCTAAAC
1 TAAACCCTAAAC
9054160 TATAGTGATA
Statistics
Matches: 82, Mismatches: 24, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
13 4 0.05
14 54 0.66
15 24 0.29
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:9054448 original size:41 final size:41
Alignment explanation
Indices: 9054334--9054743 Score: 416
Period size: 41 Copynumber: 10.1 Consensus size: 41
9054324 TAAATTATTT
* * * * *
9054334 TAAATCCCTGAGTATTAGTGGCACTTT-TCAGAAAATGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCA-AAAACGCCGC
** * * * *
9054375 TAAA--AATGAGAATTAGCGTCGCTTAATCAAAAATGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * *
9054414 TAAAGCCCTGATCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * *
9054455 TAAATCCCTGAGCATTAGCAGCGCTTT-CCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * **
9054495 TAAAACCTTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * * *
9054536 TAAAGCCCTGAGCATCAGCGGTGCTTTATCGAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
*
9054577 TAAAGCCCTGAGCATTAGCGGCGCTTTAACAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
** * * ** *
9054618 TAAA-TACTGACCATTAGCGGTGCTTCCTCAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* *
9054658 TAAAGCCCTGAGCATTAGGGGCGCTTTATCAAAAACGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * * * *
9054699 TAAAGGCCTAAGCATTAGCGGCACTTTATCAAAAATGCCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
9054740 TAAA
1 TAAA
9054744 AGCCTGTTTT
Statistics
Matches: 303, Mismatches: 61, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
39 28 0.09
40 70 0.23
41 205 0.68
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
Found at i:9054511 original size:81 final size:82
Alignment explanation
Indices: 9054334--9054743 Score: 391
Period size: 81 Copynumber: 5.0 Consensus size: 82
9054324 TAAATTATTT
* * * * * ** * *
9054334 TAAATCCCTGAGTATTAGTGGCACTTT-TCAGAAAATGCCGCTAAA--AATGAGAATTAGCGTCG
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCA-AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
* * *
9054396 CTTAATCAAAAATGCCGC
65 CTTTACCAAAAACGCCGC
* * * * *
9054414 TAAAGCCCTGATCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAGCATTAGCAGCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
9054479 TTT-CCAAAAACGCCGC
66 TTTACCAAAAACGCCGC
* * ** * *
9054495 TAAAACCTTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATCAGCGGTGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
* * *
9054560 TTTATCGAAAACACCGC
66 TTTACCAAAAACGCCGC
* ** * *
9054577 TAAAGCCCTGAGCATTAGCGGCGCTTTAACAAAAACGCCGCTAAA-TACTGACCATTAGCGGTGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
* *
9054641 -TTCCTCAAAAACACCGC
66 TTTAC-CAAAAACGCCGC
* * * * *
9054658 TAAAGCCCTGAGCATTAGGGGCGCTTTATCAAAAACGCCGTTAAAGGCCTAAGCATTAGCGGCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
* * *
9054723 TTTATCAAAAATGCCAC
66 TTTACCAAAAACGCCGC
9054740 TAAA
1 TAAA
9054744 AGCCTGTTTT
Statistics
Matches: 271, Mismatches: 52, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
80 37 0.14
81 140 0.52
82 92 0.34
83 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (82 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
TTTACCAAAAACGCCGC
Found at i:9054556 original size:122 final size:121
Alignment explanation
Indices: 9054334--9054744 Score: 459
Period size: 122 Copynumber: 3.4 Consensus size: 121
9054324 TAAATTATTT
* * * * * * *
9054334 TAAATCCCTGAGTATTAGTGGCACTTT-TCAGAAAATGCCGCTAAAAATGAGAATTAGCGTCGCT
1 TAAAGCCCTGAGCATTAGCGGCACTTTATCA-AAAACGCCGCTAAAACTGAGCATTAGCGGCGCT
*** * * * *
9054398 TAATCAAAAATGCCGCTAAAGCCCTGATCATTAGCGGCGCTTTCTTAAAAACGCCGC
65 TTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * * *
9054455 TAAATCCCTGAGCATTAGCAGCGCTTT-CCAAAAACGCCGCTAAAACCTTGAGCATTAGCGGCGC
1 TAAAGCCCTGAGCATTAGCGGCACTTTATCAAAAACGCCGCTAAAA-C-TGAGCATTAGCGGCGC
* * * *
9054519 TTTCCCAAAAACGCCGCTAAAGCCCTGAGCATCAGCGGTGCTTTATCGAAAACACCGC
64 TTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * * *
9054577 TAAAGCCCTGAGCATTAGCGGCGCTTTAACAAAAACGCCGCTAAATACTGACCATTAGCGGTGC-
1 TAAAGCCCTGAGCATTAGCGGCACTTTATCAAAAACGCCGCTAAA-ACTGAGCATTAGCGGCGCT
* * *
9054641 TTCCTCAAAAACACCGCTAAAGCCCTGAGCATTAGGGGCGCTTTATCAAAAACGCCGT
65 TTCC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
* * * *
9054699 TAAAGGCCTAAGCATTAGCGGCACTTTATCAAAAATGCCACTAAAA
1 TAAAGCCCTGAGCATTAGCGGCACTTTATCAAAAACGCCGCTAAAA
9054745 GCCTGTTTTG
Statistics
Matches: 247, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
120 14 0.06
121 30 0.12
122 185 0.75
123 17 0.07
124 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (121 bp):
TAAAGCCCTGAGCATTAGCGGCACTTTATCAAAAACGCCGCTAAAACTGAGCATTAGCGGCGCTT
TCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
Found at i:9055054 original size:23 final size:23
Alignment explanation
Indices: 9055028--9055074 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9055018 ATATTTGAAA
9055028 TAATTTAAAATAAAATATTAATT
1 TAATTTAAAATAAAATATTAATT
* * *
9055051 TAATTTTATATAAAATATTTATT
1 TAATTTAAAATAAAATATTAATT
9055074 T
1 T
9055075 CAAAATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTTAAAATAAAATATTAATT
Found at i:9055177 original size:10 final size:10
Alignment explanation
Indices: 9055110--9055177 Score: 59
Period size: 10 Copynumber: 6.7 Consensus size: 10
9055100 TTAAAATATT
*
9055110 TTATTTTAAA
1 TTATATTAAA
9055120 TTATATTAAAAA
1 TTATATT--AAA
*
9055132 ATATATTAAA
1 TTATATTAAA
9055142 TTATGATTAAA
1 TTAT-ATTAAA
*
9055153 TTAT-TT-AT
1 TTATATTAAA
*
9055161 TTTTATTAAA
1 TTATATTAAA
9055171 TTATATT
1 TTATATT
9055178 TAATAATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 19 0.41
11 10 0.22
12 9 0.20
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (10 bp):
TTATATTAAA
Found at i:9060191 original size:19 final size:17
Alignment explanation
Indices: 9060169--9060203 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
9060159 ATTTTTAAAA
9060169 ATAAAATGTATTAAAAAGT
1 ATAAAAT-TA-TAAAAAGT
9060188 ATAAAATTATAAAAAG
1 ATAAAATTATAAAAAG
9060204 AAACAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
ATAAAATTATAAAAAGT
Found at i:9063129 original size:2 final size:2
Alignment explanation
Indices: 9063122--9063152 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9063112 CTATAAATTA
9063122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9063153 CAATATGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9080835 original size:13 final size:13
Alignment explanation
Indices: 9080817--9080842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9080807 CATGTCAAAT
9080817 CGCCACGTAAGAC
1 CGCCACGTAAGAC
9080830 CGCCACGTAAGAC
1 CGCCACGTAAGAC
9080843 TACAGAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (13 bp):
CGCCACGTAAGAC
Found at i:9083904 original size:26 final size:26
Alignment explanation
Indices: 9083851--9083906 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
9083841 TATTTTAAAA
* * * *
9083851 TATTTTTAAAATAATTTTTTTATTTT
1 TATTTTAAAAATAAATTTTTGATGTT
*
9083877 TATTTTAAAAATAAATTTTTGGTGTT
1 TATTTTAAAAATAAATTTTTGATGTT
9083903 TATT
1 TATT
9083907 AAAAAATGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TATTTTAAAAATAAATTTTTGATGTT
Found at i:9090198 original size:31 final size:30
Alignment explanation
Indices: 9090141--9090207 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
9090131 AAAAAATAAA
*
9090141 TTTT-AAAGGATTAAATAAAAAATTTATCAT
1 TTTTAAAAGGATCAAATAAAAAATTTATC-T
* * *
9090171 TTTTAAAAGGATCAAATTACAATTTTATCT
1 TTTTAAAAGGATCAAATAAAAAATTTATCT
9090201 TTATTAA
1 TT-TTAA
9090208 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
TTTTAAAAGGATCAAATAAAAAATTTATCT
Found at i:9094135 original size:27 final size:25
Alignment explanation
Indices: 9094100--9094164 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
9094090 AATAGAGCAC
9094100 ATAATCGGGAAGCACACTCTCGAGCCAT
1 ATAA-CGGGAAGCACA-TCT-GAGCCAT
* *
9094128 ATAACGGGAAGCTCATGTGAGCCAT
1 ATAACGGGAAGCACATCTGAGCCAT
* *
9094153 GTAACAGGAAGC
1 ATAACGGGAAGC
9094165 TTATCCGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 17 0.52
26 2 0.06
27 10 0.30
28 4 0.12
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (25 bp):
ATAACGGGAAGCACATCTGAGCCAT
Found at i:9098264 original size:3 final size:3
Alignment explanation
Indices: 9098258--9098296 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
9098248 CAGCAGCAGC
9098258 AGA AGA AGA AGA AGA AGA AGA AGA A-A AGAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
9098297 TCTGATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9099028 original size:31 final size:33
Alignment explanation
Indices: 9098993--9099078 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 33
9098983 AGACTCGCCC
9098993 ATATTATTT-TTAAAATTTTTTAAAAAAT-TTT
1 ATATTATTTATTAAAATTTTTTAAAAAATATTT
** *
9099024 ATATTATATTATTTTAATATTTTAAAAAATATTT
1 ATATTAT-TTATTAAAATTTTTTAAAAAATATTT
* *
9099058 -T-TTATTTATTGAAAGTTTTTA
1 ATATTATTTATTAAAATTTTTTA
9099079 TATAGTCATC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
31 19 0.42
32 6 0.13
33 17 0.38
34 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
ATATTATTTATTAAAATTTTTTAAAAAATATTT
Found at i:9099046 original size:35 final size:36
Alignment explanation
Indices: 9098993--9099067 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
9098983 AGACTCGCCC
*
9098993 ATATTATTTTTAAAATTTTTTAAAAA-ATTTTATATT
1 ATATTATTTTTAAAA-TTTTAAAAAATATTTTATATT
* *
9099029 ATATTA-TTTTAATATTTTAAAAAATATTTTTTATT
1 ATATTATTTTTAAAATTTTAAAAAATATTTTATATT
9099064 -TATT
1 ATATT
9099068 GAAAGTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 13 0.37
35 16 0.46
36 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (36 bp):
ATATTATTTTTAAAATTTTAAAAAATATTTTATATT
Found at i:9100669 original size:20 final size:22
Alignment explanation
Indices: 9100646--9100699 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
9100636 GGTTTTTTTA
9100646 ATATATTTTTTA-A-TTTTTGT
1 ATATATTTTTTAGACTTTTTGT
* * *
9100666 ATATAATCTTTAGACTTTTTTT
1 ATATATTTTTTAGACTTTTTGT
9100688 ATA-ATTTTTTAG
1 ATATATTTTTTAG
9100700 TTATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 10 0.37
21 8 0.30
22 9 0.33
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (22 bp):
ATATATTTTTTAGACTTTTTGT
Found at i:9100727 original size:22 final size:20
Alignment explanation
Indices: 9100702--9100759 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
9100692 TTTTTTAGTT
9100702 ATTTTAAAATATATATTTTAAA
1 ATTTTAAAAT-TAT-TTTTAAA
*
9100724 ATTTCTAATATTATTTTTAAA
1 ATTT-TAAAATTATTTTTAAA
*
9100745 ATTTTGAAATTATTT
1 ATTTTAAAATTATTT
9100760 ATTGCCCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 9 0.28
21 11 0.34
22 7 0.22
23 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTAAAATTATTTTTAAA
Found at i:9106472 original size:22 final size:21
Alignment explanation
Indices: 9106430--9106474 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
9106420 AAAATTGAGT
*
9106430 GAGAAATTAAGAGGGAATTGA
1 GAGAAATTAAGAGAGAATTGA
* *
9106451 GAGAAATTTGAGAGAGATTTGA
1 GAGAAA-TTAAGAGAGAATTGA
9106473 GA
1 GA
9106475 ATGAGAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (21 bp):
GAGAAATTAAGAGAGAATTGA
Found at i:9107186 original size:18 final size:18
Alignment explanation
Indices: 9107165--9107200 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9107155 AAATCAACTT
*
9107165 AATTCGATTAATCGGTCG
1 AATTCGATTAATCAGTCG
*
9107183 AATTCGGTTAATCAGTCG
1 AATTCGATTAATCAGTCG
9107201 GCTAATCGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
AATTCGATTAATCAGTCG
Found at i:9107913 original size:24 final size:24
Alignment explanation
Indices: 9107862--9107913 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
9107852 GCCCAATAAT
* * *
9107862 GCCCGGGCCCAAGCAAACAAATAT
1 GCCCGGGCCCAAACAAACAAACAG
* *
9107886 GCCCGGGCCCAAACCAATAAACAG
1 GCCCGGGCCCAAACAAACAAACAG
9107910 GCCC
1 GCCC
9107914 AAAACCCAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.38, G:0.21, T:0.06
Consensus pattern (24 bp):
GCCCGGGCCCAAACAAACAAACAG
Found at i:9108932 original size:19 final size:19
Alignment explanation
Indices: 9108908--9108948 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
9108898 TTTTTATATA
9108908 TAATATATACACATTTTTT
1 TAATATATACACATTTTTT
*
9108927 TAATATATATACATTTTTT
1 TAATATATACACATTTTTT
9108946 TAA
1 TAA
9108949 AGCTTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATACACATTTTTT
Found at i:9113969 original size:22 final size:22
Alignment explanation
Indices: 9113944--9113985 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9113934 ATTCAAATAA
9113944 TAATAACA-AAATAGTAGCAACG
1 TAATAA-AGAAATAGTAGCAACG
*
9113966 TAATAAAGAAATGGTAGCAA
1 TAATAAAGAAATAGTAGCAA
9113986 AATAGCAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.19
Consensus pattern (22 bp):
TAATAAAGAAATAGTAGCAACG
Found at i:9122855 original size:2 final size:2
Alignment explanation
Indices: 9122848--9122875 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9122838 CTATAGTTTG
9122848 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
9122876 TTCCTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9124117 original size:31 final size:31
Alignment explanation
Indices: 9124077--9124145 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
9124067 AAAATCCAAT
* * *
9124077 AATCTCAGTTGAATTATTATATTGATACTAA
1 AATCCCAGTTGAATTATTATAATAATACTAA
*
9124108 AATCCCAGTTGAATTATTATAATAATGCTAA
1 AATCCCAGTTGAATTATTATAATAATACTAA
9124139 AATCCCA
1 AATCCCA
9124146 CCAACACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (31 bp):
AATCCCAGTTGAATTATTATAATAATACTAA
Found at i:9124206 original size:2 final size:2
Alignment explanation
Indices: 9124199--9124236 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9124189 GGAAAGACAA
9124199 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
9124237 TTCTTGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9125412 original size:14 final size:14
Alignment explanation
Indices: 9125372--9125413 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
9125362 TATTTGATAG
*
9125372 TATAAA-TTGTAAT
1 TATAAATTTATAAT
9125385 TATACAATTATATAAT
1 TATA-AATT-TATAAT
9125401 TATAAATTTATAA
1 TATAAATTTATAA
9125414 AAAATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.16
14 7 0.28
15 5 0.20
16 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (14 bp):
TATAAATTTATAAT
Found at i:9129931 original size:2 final size:2
Alignment explanation
Indices: 9129924--9129949 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9129914 GGCTTTGTTA
9129924 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
9129950 GTTCATTTTA
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:9130467 original size:12 final size:13
Alignment explanation
Indices: 9130443--9130474 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9130433 GAAAGGGCTG
9130443 ACCTA-AATAGGA
1 ACCTATAATAGGA
9130455 ACCTATAAT-GGA
1 ACCTATAATAGGA
9130467 ACCTATAA
1 ACCTATAA
9130475 ATTAATCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (13 bp):
ACCTATAATAGGA
Found at i:9131044 original size:22 final size:25
Alignment explanation
Indices: 9131019--9131063 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
9131009 AAATATGAAT
9131019 TTGAGA-GAAATTT-AGA-AGGAAA
1 TTGAGAGGAAATTTGAGAGAGGAAA
9131041 TTGAGAGGAAATTTGAGAGAGGA
1 TTGAGAGGAAATTTGAGAGAGGA
9131064 TTTGTTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 3 0.15
25 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (25 bp):
TTGAGAGGAAATTTGAGAGAGGAAA
Found at i:9136731 original size:57 final size:59
Alignment explanation
Indices: 9136623--9136747 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 59
9136613 ACAAAAATGG
* *
9136623 TGAAAATGAAGAAATGAGAAACATTTGGAAAAGATTATGATTTTCTCCAAAAT-AAAAA
1 TGAAAATGAAGAAATGAGAAACATTTGGAAAAGAATATGATTTTATCCAAAATGAAAAA
* * * * *
9136681 TGAAAAT-AGAGAAATG-GAATCATTTGGAAATGAATGTGGTTTTATTCAAAATGAAAAA
1 TGAAAATGA-AGAAATGAGAAACATTTGGAAAAGAATATGATTTTATCCAAAATGAAAAA
*
9136739 TAAAAATGA
1 TGAAAATGA
9136748 CCTGGAAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
57 30 0.54
58 25 0.45
59 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (59 bp):
TGAAAATGAAGAAATGAGAAACATTTGGAAAAGAATATGATTTTATCCAAAATGAAAAA
Found at i:9141344 original size:3 final size:3
Alignment explanation
Indices: 9141336--9141383 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
9141326 TGGTTTGAAG
*
9141336 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA G-A GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
9141383 G
1 G
9141384 GGCAATATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:9151253 original size:14 final size:15
Alignment explanation
Indices: 9151231--9151307 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
9151221 CAATCAAACA
9151231 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
9151245 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
9151260 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
9151280 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
9151294 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
9151308 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:9151272 original size:20 final size:20
Alignment explanation
Indices: 9151247--9151286 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9151237 AATATTTTCC
*
9151247 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
9151267 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
9151287 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Done.