Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 58 of 135
Found at i:19954157 original size:3 final size:3
Alignment explanation
Indices: 19954149--19954174 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19954139 AAATAAAAGG
19954149 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
19954175 GTAACAAATA
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:19954188 original size:18 final size:17
Alignment explanation
Indices: 19954152--19954207 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
19954142 TAAAAGGAAT
*
19954152 AATAAT-AATAATAAT-
1 AATAATAAATAAAAATA
*
19954167 AATAATAAGTAACAAATA
1 AATAATAAATAA-AAATA
*
19954185 AATAAATAAATAAAATTA
1 AAT-AATAAATAAAAATA
19954203 AATAA
1 AATAA
19954208 AAGGCAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 6 0.18
16 4 0.12
17 5 0.15
18 10 0.30
19 8 0.24
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
AATAATAAATAAAAATA
Found at i:19954307 original size:21 final size:21
Alignment explanation
Indices: 19954281--19954325 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
19954271 ATAAATAAAT
* *
19954281 AAAAATTAAACACTAA-AATA
1 AAAAAATAAACACAAAGAATA
*
19954301 AAAAAATAAATACAAAGAATA
1 AAAAAATAAACACAAAGAATA
19954322 AAAA
1 AAAA
19954326 TAACAAGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAAAATAAACACAAAGAATA
Found at i:19954463 original size:5 final size:5
Alignment explanation
Indices: 19954453--19954491 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
19954443 TTAAAAACAG
*
19954453 AAATA AAATA AAATA AAACTA AATTA AAATA AAATA AAA
1 AAATA AAATA AAATA AAA-TA AAATA AAATA AAATA AAA
19954492 ATTACAGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:19954632 original size:31 final size:31
Alignment explanation
Indices: 19954597--19954656 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
19954587 AATTAAAATT
*
19954597 AAAAGGCGAAATTAAAATAAATAAAAAATGA
1 AAAAGACGAAATTAAAATAAATAAAAAATGA
* *
19954628 AAAAGACTAAATTAAAATAAATTAAAAAT
1 AAAAGACGAAATTAAAATAAATAAAAAAT
19954657 ACGGAAGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (31 bp):
AAAAGACGAAATTAAAATAAATAAAAAATGA
Found at i:19956254 original size:100 final size:101
Alignment explanation
Indices: 19956090--19956727 Score: 606
Period size: 100 Copynumber: 6.2 Consensus size: 101
19956080 GACCCATTAC
* * *
19956090 AACTTTAGAGGTATAGGATTTGGTGTTGTAACTTCACTCCATTCCATTGCAACTTTAGTGGAGAT
1 AACTTTAGGGGTATAGGATTTGGTG-TG--ACTTCACTCCATTCCACTGCAACTTCAGTGGAGAT
* * * * *
19956155 TAAGACCTACTACTGTTAGTTTTGATCT-GCCCCTCTAA
63 TGAGATCTGCTACTGTTAGTTTTAATCTCGCCCCTCTAT
** * * *
19956193 AACTTTAGGGGTATAGGATTTGGCATGACTTCATTCCATTCTACTGCAACTTCAGCGGAGATTGA
1 AACTTTAGGGGTATAGGATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATTGA
*
19956258 GATCTGCTACTGTTAGTTTTAAT-TCGTCCCTCTAT
66 GATCTGCTACTGTTAGTTTTAATCTCGCCCCTCTAT
* ** * *
19956293 AACTTTAGGGGTATAAGATTTTATGT-AGCTTCACTCCATTCCACTACAACTTCAGTAGAGATTG
1 AACTTTAGGGGTATAGGATTTGGTGTGA-CTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* * * *
19956357 AGATCTACTACTGTTAGTTTTAATCTATTAGTTTTAATCTATCCCCCTAC
65 AGATCTGCTACTGTTAGTTTTAATC---TCG-------C---CCCTCTAT
* * * * * * *
19956407 AACTTTAGGAGTATAGAATTTGGTGTGGCTTCACTCCATTCCATTGCAACTTTAGTAGAGATTAA
1 AACTTTAGGGGTATAGGATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATTGA
* * * * * * *
19956472 GATATGCTACTATTAGTTCTAATC-CACCCTTTTAC
66 GATCTGCTACTGTTAGTTTTAATCTCGCCCCTCTAT
* * * *
19956507 AACTTTAAGGGTATAGGATTTGGTGTGGCTTCACTTCATTCCACTGCAACTTCAATGGAGATTGA
1 AACTTTAGGGGTATAGGATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATTGA
* *
19956572 GATTTGCTACTGTTAGTTTTAAT-TTGCCCCTCTAT
66 GATCTGCTACTGTTAGTTTTAATCTCGCCCCTCTAT
* ** * * *
19956607 AACTTTAAGGGTATAGGATTTGGTGTGGTTTCACTCCATTTCACTGCAACTTTAGTGAAGATTGA
1 AACTTTAGGGGTATAGGATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATTGA
* * *
19956672 GATCTGCTATTGTTAGTTTTAAT-TCGCTCCTCTGT
66 GATCTGCTACTGTTAGTTTTAATCTCGCCCCTCTAT
19956707 AACTTTA-GGGTATAGGATTTG
1 AACTTTAGGGGTATAGGATTTG
19956728 TTATTTTGCA
Statistics
Matches: 441, Mismatches: 76, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
99 16 0.04
100 318 0.72
102 2 0.00
103 23 0.05
104 2 0.00
114 80 0.18
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (101 bp):
AACTTTAGGGGTATAGGATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATTGA
GATCTGCTACTGTTAGTTTTAATCTCGCCCCTCTAT
Found at i:19956389 original size:14 final size:14
Alignment explanation
Indices: 19956370--19956398 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19956360 TCTACTACTG
19956370 TTAGTTTTAATCTA
1 TTAGTTTTAATCTA
19956384 TTAGTTTTAATCTA
1 TTAGTTTTAATCTA
19956398 T
1 T
19956399 CCCCCTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
TTAGTTTTAATCTA
Found at i:19956482 original size:114 final size:114
Alignment explanation
Indices: 19956270--19956495 Score: 285
Period size: 114 Copynumber: 2.0 Consensus size: 114
19956260 TCTGCTACTG
* * * * *
19956270 TTAGTTTTAATTCGTCCCTCTATAACTTTAGGGGTATAAGATTTTATGTAGCTTCACTCCATTCC
1 TTAGTTTTAATTCATCCCCCTACAACTTTAGGAGTATAAGATTTGATGTAGCTTCACTCCATTCC
* * * *
19956335 ACTACAACTTCAGTAGAGATTGAGATCTACTACTGTTAGTTTTAATCTA
66 ACTACAACTTCAGTAGAGATTAAGATATACTACTATTAGTTCTAATCTA
* *
19956384 TTAGTTTTAA-TCTATCCCCCTACAACTTTAGGAGTAT-AGAATTTGGTGTGGCTTCACTCCATT
1 TTAGTTTTAATTC-ATCCCCCTACAACTTTAGGAGTATAAG-ATTTGATGTAGCTTCACTCCATT
* * * *
19956447 CCATTGCAACTTTAGTAGAGATTAAGATATGCTACTATTAGTTCTAATC
64 CCACTACAACTTCAGTAGAGATTAAGATATACTACTATTAGTTCTAATC
19956496 CACCCTTTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
113 4 0.04
114 91 0.96
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (114 bp):
TTAGTTTTAATTCATCCCCCTACAACTTTAGGAGTATAAGATTTGATGTAGCTTCACTCCATTCC
ACTACAACTTCAGTAGAGATTAAGATATACTACTATTAGTTCTAATCTA
Found at i:19956540 original size:214 final size:214
Alignment explanation
Indices: 19956170--19956594 Score: 521
Period size: 214 Copynumber: 2.0 Consensus size: 214
19956160 CCTACTACTG
* * * * *
19956170 TTAGTTTTGATCTGCCCCTCTAAAACTTTAGGGGTATAGGATTTGGCATGACTTCATTCCATTCT
1 TTAGTTTTAATCTGCCCCTCTAAAACTTTAGGAGTATAGAATTTGGCATGACTTCACTCCATTCC
* * * * * ** *
19956235 ACTGCAACTTCAGCGGAGATTGAGATCTGCTACTGTTAGTTTTAATTCGTCCCTCTATAACTTTA
66 ACTGCAACTTCAGCAGAGATTAAGATATGCTACTATTAGTTCTAATTCCACCCTCTACAACTTTA
* * *
19956300 GGGGTATAAGATTTTATGTAGCTTCACTCCATTCCACTACAACTTCAGTAGAGATTGAGATCTAC
131 AGGGTATAAGATTTGATGTAGCTTCACTCCATTCCACTACAACTTCAATAGAGATTGAGATCTAC
19956365 TACTGTTAGTTTTAATCTA
196 TACTGTTAGTTTTAATCTA
* * ** *
19956384 TTAGTTTTAATCTATCCCC-CTACAACTTTAGGAGTATAGAATTTGGTGTGGCTTCACTCCATTC
1 TTAGTTTTAATCT-GCCCCTCTAAAACTTTAGGAGTATAGAATTTGGCATGACTTCACTCCATTC
* * * *
19956448 CATTGCAACTTTAGTAGAGATTAAGATATGCTACTATTAGTTCTAA-TCCACCCTTTTACAACTT
65 CACTGCAACTTCAGCAGAGATTAAGATATGCTACTATTAGTTCTAATTCCACCC-TCTACAACTT
* * * * * * *
19956512 TAAGGGTATAGGATTTGGTGTGGCTTCACTTCATTCCACTGCAACTTCAATGGAGATTGAGATTT
129 TAAGGGTATAAGATTTGATGTAGCTTCACTCCATTCCACTACAACTTCAATAGAGATTGAGATCT
*
19956577 GCTACTGTTAGTTTTAAT
194 ACTACTGTTAGTTTTAAT
19956595 TTGCCCCTCT
Statistics
Matches: 176, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
213 5 0.03
214 167 0.95
215 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (214 bp):
TTAGTTTTAATCTGCCCCTCTAAAACTTTAGGAGTATAGAATTTGGCATGACTTCACTCCATTCC
ACTGCAACTTCAGCAGAGATTAAGATATGCTACTATTAGTTCTAATTCCACCCTCTACAACTTTA
AGGGTATAAGATTTGATGTAGCTTCACTCCATTCCACTACAACTTCAATAGAGATTGAGATCTAC
TACTGTTAGTTTTAATCTA
Found at i:19956690 original size:314 final size:316
Alignment explanation
Indices: 19956087--19956694 Score: 830
Period size: 314 Copynumber: 1.9 Consensus size: 316
19956077 TCTGACCCAT
* *
19956087 TACAACTTTAGAGGTATAGGATTTGGTGTTGTAACTTCACTCCATTCCATTGCAACTTTAGTGGA
1 TACAACTTTAGAGGTATAGAATTTGGTGTTG-AACTTCACTCCATTCCATTGCAACTTTAGTAGA
* * * * ** *
19956152 GATTAAGACCTACTACTGTTAGTTTTGATCTGCCCCTCTAAAACTTTAGGGGTATAGGATTTGGC
65 GATTAAGACATACTACTATTAGTTCTAATCCACCCCTCTAAAACTTTAAGGGTATAGGATTTGGC
* *
19956217 ATGACTTCATTCCATTCTACTGCAACTTCAGCGGAGATTGAGATCTGCTACTGTTAGTTTTAATT
130 ATGACTTCATTCCATTCCACTGCAACTTCAACGGAGATTGAGATCTGCTACTGTTAGTTTTAATT
* * *
19956282 CGTCCCTCTATAACTTTAGGGGTATAAGATTTTATGTAGCTTCACTCCATTCCACTACAACTTCA
195 CGCCCCTCTATAACTTTAAGGGTATAAGATTTGATGTAGCTTCACTCCATTCCACTACAACTTCA
19956347 GTAGAGATTGAGATCTACTACTGTTAGTTTTAATCTATTAGTTTTAATCTATCCCCC
260 GTAGAGATTGAGATCTACTACTGTTAGTTTTAATCTATTAGTTTTAATCTATCCCCC
*
19956404 TACAACTTTAG-GAGTATAGAATTTGGTG-TG-GCTTCACTCCATTCCATTGCAACTTTAGTAGA
1 TACAACTTTAGAG-GTATAGAATTTGGTGTTGAACTTCACTCCATTCCATTGCAACTTTAGTAGA
* * * * * *
19956466 GATTAAGATATGCTACTATTAGTTCTAATCCACCCTTTTACAACTTTAAGGGTATAGGATTTGGT
65 GATTAAGACATACTACTATTAGTTCTAATCCACCCCTCTAAAACTTTAAGGGTATAGGATTTGGC
* * * *
19956531 GTGGCTTCACTT-CATTCCACTGCAACTTCAATGGAGATTGAGATTTGCTACTGTTAGTTTTAAT
130 ATGACTTCA-TTCCATTCCACTGCAACTTCAACGGAGATTGAGATCTGCTACTGTTAGTTTTAAT
* * * * * * * *
19956595 TTGCCCCTCTATAACTTTAAGGGTATAGGATTTGGTGTGGTTTCACTCCATTTCACTGCAACTTT
194 TCGCCCCTCTATAACTTTAAGGGTATAAGATTTGATGTAGCTTCACTCCATTCCACTACAACTTC
* *
19956660 AGT-GAAGATTGAGATCTGCTATTGTTAGTTTTAAT
259 AGTAG-AGATTGAGATCTACTACTGTTAGTTTTAAT
19956695 TCGCTCCTCT
Statistics
Matches: 253, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
313 1 0.00
314 222 0.88
315 2 0.01
316 3 0.01
317 25 0.10
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (316 bp):
TACAACTTTAGAGGTATAGAATTTGGTGTTGAACTTCACTCCATTCCATTGCAACTTTAGTAGAG
ATTAAGACATACTACTATTAGTTCTAATCCACCCCTCTAAAACTTTAAGGGTATAGGATTTGGCA
TGACTTCATTCCATTCCACTGCAACTTCAACGGAGATTGAGATCTGCTACTGTTAGTTTTAATTC
GCCCCTCTATAACTTTAAGGGTATAAGATTTGATGTAGCTTCACTCCATTCCACTACAACTTCAG
TAGAGATTGAGATCTACTACTGTTAGTTTTAATCTATTAGTTTTAATCTATCCCCC
Found at i:19957339 original size:20 final size:20
Alignment explanation
Indices: 19957314--19957359 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
19957304 AACAATGACC
*
19957314 AAAAATTGCAAATATTGGTA
1 AAAAATGGCAAATATTGGTA
* * *
19957334 AAAAATGGTAAATGTTGGTC
1 AAAAATGGCAAATATTGGTA
19957354 AAAAAT
1 AAAAAT
19957360 AGGAAACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.28
Consensus pattern (20 bp):
AAAAATGGCAAATATTGGTA
Found at i:19957675 original size:6 final size:6
Alignment explanation
Indices: 19957664--19957787 Score: 118
Period size: 6 Copynumber: 20.7 Consensus size: 6
19957654 CGGCCTCTCC
19957664 TTTTCT TTTTCT TTTTCT TTTTC- TTTTC- TTTTC- TTTTCTT TTTTCTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TTTTC-T
19957711 TTTTCTT TTTTCT TTTTC- TTTTC- TTTTC- TTTTCTT TTTTCT TCTTT-T
1 TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT T-TTTCT
* *
19957758 CTTTTCTT TTTTCT TCTTCT TCTTCT TTTT
1 -TTTTC-T TTTTCT TTTTCT TTTTCT TTTT
19957788 TTGGTGAAAT
Statistics
Matches: 108, Mismatches: 2, Indels: 16
0.86 0.02 0.13
Matches are distributed among these distances:
5 30 0.28
6 44 0.41
7 33 0.31
8 1 0.01
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:19957678 original size:5 final size:5
Alignment explanation
Indices: 19957663--19957781 Score: 124
Period size: 5 Copynumber: 23.6 Consensus size: 5
19957653 TCGGCCTCTC
19957663 CTTTT CTTTTT CTTTTT CTTTTT CTTTT CTTTT CTTTT CTTTT -TTCTT
1 CTTTT C-TTTT C-TTTT C-TTTT CTTTT CTTTT CTTTT CTTTT CTT-TT
*
19957711 -TTTT CTTTT -TTCT -TTTT CTTTT CTTTT CTTTT CTTTT -TTCTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTT-TT CTTTT
19957758 CTTTT CTTTT -TTCTT CTTCTT CTT
1 CTTTT CTTTT CTT-TT CTT-TT CTT
19957782 CTTTTTTTGG
Statistics
Matches: 104, Mismatches: 2, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
4 14 0.13
5 63 0.61
6 27 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
CTTTT
Found at i:19957722 original size:42 final size:42
Alignment explanation
Indices: 19957664--19957786 Score: 189
Period size: 42 Copynumber: 2.9 Consensus size: 42
19957654 CGGCCTCTCC
19957664 TTTTC-TTTTTC-TTTTTCTTTTTCTTTTCTTTTCTTTTCTT
1 TTTTCTTTTTTCTTTTTTCTTTTTCTTTTCTTTTCTTTTCTT
19957704 TTTTCTTTTTTCTTTTTTCTTTTTCTTTTCTTTTCTTTTCTT
1 TTTTCTTTTTTCTTTTTTCTTTTTCTTTTCTTTTCTTTTCTT
*
19957746 TTTTCTTCTTTTCTTTTCT-TTTTTCTTCTTCTTCTTCTTTT
1 TTTTCTT-TTTTCTTTTTTCTTTTTCTT-TTCTT-TTCTTTT
19957787 TTTGGTGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
40 5 0.06
41 6 0.08
42 44 0.57
43 15 0.19
44 7 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (42 bp):
TTTTCTTTTTTCTTTTTTCTTTTTCTTTTCTTTTCTTTTCTT
Found at i:19957789 original size:1 final size:1
Alignment explanation
Indices: 19957664--19957769 Score: 50
Period size: 1 Copynumber: 106.0 Consensus size: 1
19957654 CGGCCTCTCC
* * * * * * * * * * *
19957664 TTTTCTTTTTCTTTTTCTTTTTCTTTTCTTTTCTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
19957729 TTTTCTTTTCTTTTCTTTTTTCTTCTTTTCTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19957770 CTTCTTCTTC
Statistics
Matches: 69, Mismatches: 36, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (1 bp):
T
Found at i:19959186 original size:67 final size:70
Alignment explanation
Indices: 19959007--19959186 Score: 195
Period size: 75 Copynumber: 2.5 Consensus size: 70
19958997 ATTTTTATTA
* * * * * *
19959007 TTTTTCATTTCAAGATGCTCTTTGCGGGTTTTCATCTCGATTTCTTTTTCTTTTCTTTTCTTTTT
1 TTTTTTATTTCAAGATGCCCTTTACGGGTTTTCATCTCGA--TCTCTCTCTTTTCTTTTCATTTT
19959072 TTCTTTT
64 TTCTTTT
* * *
19959079 TTTGTTTGGGTTTCAAGATGCCATTTACGAGTTTTCATCTCGA-C-CTCT-TTTTCTTTTCATTT
1 TTT-TTT--ATTTCAAGATGCCCTTTACGGGTTTTCATCTCGATCTCTCTCTTTTCTTTTCATTT
*
19959141 TTTGTTTT
63 TTTCTTTT
*
19959149 TTTTTTATTTCAAGATGCCCTTTATGGGTTTTCATCTC
1 TTTTTTATTTCAAGATGCCCTTTACGGGTTTTCATCTC
19959187 AATTATTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
67 28 0.31
69 3 0.03
70 23 0.25
71 2 0.02
72 4 0.04
73 2 0.02
75 29 0.32
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.58
Consensus pattern (70 bp):
TTTTTTATTTCAAGATGCCCTTTACGGGTTTTCATCTCGATCTCTCTCTTTTCTTTTCATTTTTT
CTTTT
Found at i:19959197 original size:67 final size:67
Alignment explanation
Indices: 19959007--19959203 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 67
19958997 ATTTTTATTA
* * * *
19959007 TTTTTCATTTCAAGATGCTCTTTGCGGGTTTTCATCTCGATTTCTTTTTCTTTTCTTTTCTTTTT
1 TTTTTTATTTCAAGATGCCCTTTACGGGTTTTCATCTCGA---C-TTTT-TTTTCTTTTCATTTT
19959072 TTCTTTT
61 TTCTTTT
* * * * *
19959079 TTTGTTTGGGTTTCAAGATGCCATTTACGAGTTTTCATCTCGACCTCTTTTTCTTTTCATTTTTT
1 TTT-TTT--ATTTCAAGATGCCCTTTACGGGTTTTCATCTCGACTTTTTTTTCTTTTCATTTTTT
*
19959144 GTTTT
63 CTTTT
* * *
19959149 TTTTTTATTTCAAGATGCCCTTTATGGGTTTTCATCTCAATTATTTTTTTCTTTT
1 TTTTTTATTTCAAGATGCCCTTTACGGGTTTTCATCTCGACT-TTTTTTTCTTTT
19959204 TGTTCCTTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
67 29 0.28
68 11 0.11
69 3 0.03
70 23 0.22
71 2 0.02
72 4 0.04
73 2 0.02
75 29 0.28
ACGTcount: A:0.12, C:0.17, G:0.11, T:0.60
Consensus pattern (67 bp):
TTTTTTATTTCAAGATGCCCTTTACGGGTTTTCATCTCGACTTTTTTTTCTTTTCATTTTTTCTT
TT
Found at i:19959216 original size:67 final size:64
Alignment explanation
Indices: 19959062--19959222 Score: 160
Period size: 67 Copynumber: 2.4 Consensus size: 64
19959052 TTTTCTTTTC
*** * *
19959062 TTTTCTTTTTTTCTTTTTTTGTTTGGGTTTCAAGATGCCATTTACGAGTTTTCATCTCGACCTCT
1 TTTTCTTTTTTTCTTTTTTT-TTTTTATTTCAAGATGCCATTTACGAGTTTTCATCTCAACATCT
* * * * *
19959127 TTTTCTTTTCATTTTTTGTTTTTTTTTTATTTCAAGATGCCCTTTATGGGTTTTCATCTCAATTA
1 TTTTCTTTT--TTTCTT-TTTTTTTTTTATTTCAAGATGCCATTTACGAGTTTTCATCTCAA-CA
*
19959192 TTT
62 TCT
19959195 TTTTCTTTTTGTTCCTTTTTTTTTTTTA
1 TTTTCTTTTT-TT-CTTTTTTTTTTTTA
19959223 GCCTCCTCTT
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
65 9 0.12
66 1 0.01
67 50 0.64
68 18 0.23
ACGTcount: A:0.12, C:0.15, G:0.10, T:0.63
Consensus pattern (64 bp):
TTTTCTTTTTTTCTTTTTTTTTTTTATTTCAAGATGCCATTTACGAGTTTTCATCTCAACATCT
Found at i:19963678 original size:6 final size:6
Alignment explanation
Indices: 19963624--19963653 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19963614 AACACAATTT
19963624 TAAAAA TAAAAA TAAAAA TAATAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAA-AAA TAAAA
19963654 TAACAATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:19963806 original size:3 final size:3
Alignment explanation
Indices: 19963798--19963864 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
19963788 ATAAAATGCA
19963798 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19963846 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
19963865 TGGCATAAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19963990 original size:86 final size:87
Alignment explanation
Indices: 19963880--19964078 Score: 373
Period size: 86 Copynumber: 2.3 Consensus size: 87
19963870 TAAAATTAAG
19963880 TAACAAATAAATAAATAAAAATTAAATAAAAGGCAAAAAACTATAAAATGACATAAAAATAACAA
1 TAAC-AATAAATAAATAAAAATTAAATAAAAGGCAAAAAACTATAAAATGACATAAAAATAACAA
19963945 CACATAAGTAAATAAAAA-AAAA
65 CACATAAGTAAATAAAAACAAAA
19963967 TAACAATAAATAAATAAAAATTAAATAAAAGGCAAAAAACTATAAAATGACATAAAAATAACAAC
1 TAACAATAAATAAATAAAAATTAAATAAAAGGCAAAAAACTATAAAATGACATAAAAATAACAAC
19964032 ACATAAGTAAATAAAAACAAAA
66 ACATAAGTAAATAAAAACAAAA
*
19964054 TAACAATAAATAAATAAACATTAAA
1 TAACAATAAATAAATAAAAATTAAA
19964079 CACTAAAATA
Statistics
Matches: 110, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
86 78 0.71
87 32 0.29
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (87 bp):
TAACAATAAATAAATAAAAATTAAATAAAAGGCAAAAAACTATAAAATGACATAAAAATAACAAC
ACATAAGTAAATAAAAACAAAA
Found at i:19963994 original size:25 final size:25
Alignment explanation
Indices: 19963934--19963986 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
19963924 AAAATGACAT
* * *
19963934 AAAAATAACAACACATAAGTAAATA
1 AAAAAAAATAACACATAAATAAATA
19963959 AAAAAAAATAACA-ATAAATAAATA
1 AAAAAAAATAACACATAAATAAATA
19963983 AAAA
1 AAAA
19963987 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (25 bp):
AAAAAAAATAACACATAAATAAATA
Found at i:19964248 original size:5 final size:5
Alignment explanation
Indices: 19964231--19964276 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
19964221 GTACAAATTA
*
19964231 AAAAT AGAAAT AAAAT AAAAT AAAACT AAATT AAAAT AAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAA
19964277 ATTACAGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 28 0.76
6 9 0.24
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19964252 original size:16 final size:15
Alignment explanation
Indices: 19964231--19964276 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
19964221 GTACAAATTA
19964231 AAAATAGAAATAAAAT
1 AAAATA-AAATAAAAT
*
19964247 AAAATAAAACTAAATT
1 AAAATAAAA-TAAAAT
19964263 AAAATAAAATAAAA
1 AAAATAAAATAAAA
19964277 ATTACAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:19964277 original size:11 final size:11
Alignment explanation
Indices: 19964229--19964278 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
19964219 AGGTACAAAT
19964229 TAAAAATAGAAA
1 TAAAAATA-AAA
19964241 T-AAAATAAAA
1 TAAAAATAAAA
*
19964251 TAAAACT-AAA
1 TAAAAATAAAA
*
19964261 TTAAAATAAAA
1 TAAAAATAAAA
19964272 TAAAAAT
1 TAAAAAT
19964279 TACAGGGACC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 12 0.38
11 19 0.59
12 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:19968632 original size:14 final size:14
Alignment explanation
Indices: 19968613--19968639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19968603 ACATGGCTTT
19968613 TCTCTGTTCTTCTC
1 TCTCTGTTCTTCTC
19968627 TCTCTGTTCTTCT
1 TCTCTGTTCTTCT
19968640 TTTTCTCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.33, G:0.07, T:0.59
Consensus pattern (14 bp):
TCTCTGTTCTTCTC
Found at i:19974482 original size:26 final size:26
Alignment explanation
Indices: 19974447--19974502 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
19974437 GAATGAGATT
*
19974447 AAGAGATTTTTTT-ATACA-ACATTCA
1 AAGA-ATTTTTTTGAGACATACATTCA
19974472 AAGAATTTTTTTGAGACATACATTCA
1 AAGAATTTTTTTGAGACATACATTCA
19974498 AAGAA
1 AAGAA
19974503 AATTTAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 8 0.29
25 8 0.29
26 12 0.43
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (26 bp):
AAGAATTTTTTTGAGACATACATTCA
Found at i:19974856 original size:19 final size:19
Alignment explanation
Indices: 19974834--19974870 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19974824 AGCATTTAAT
* *
19974834 TTTTATTTTTGTTTATTTA
1 TTTTATTGTTATTTATTTA
19974853 TTTTATTGTTATTTATTT
1 TTTTATTGTTATTTATTT
19974871 TCATGTCATT
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:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTATTGTTATTTATTTA
Found at i:19974867 original size:96 final size:99
Alignment explanation
Indices: 19974698--19974877 Score: 257
Period size: 99 Copynumber: 1.8 Consensus size: 99
19974688 TCTTTTTTAC
*
19974698 TATTATTTATATTTAGTTGTTTATTTTGACATTTAGTTTATTGATTTTTTGTTTATTTATTTATT
1 TATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTGATTTTTTGTTTATTTATTTATT
19974763 TATAATTTATTTTCATGTCTAATCTCAATATTTT
66 TATAATTTATTTTCATGTCTAATCTCAATATTTT
*
19974797 TATTGTTTATATTT-GTTCGTTTATTTT-AGCATTTAATTT-TT-A-TTTTTGTTTATTTATTTT
1 TATTATTTATATTTAGTT-GTTTATTTTGA-CATTTAATTTATTGATTTTTTGTTTATTTA-TTT
19974857 ATTGT-T-ATTTATTTTCATGTC
63 ATT-TATAATTTATTTTCATGTC
19974878 ATTTTATTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
96 29 0.39
97 8 0.11
98 7 0.09
99 31 0.41
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.66
Consensus pattern (99 bp):
TATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTGATTTTTTGTTTATTTATTTATT
TATAATTTATTTTCATGTCTAATCTCAATATTTT
Found at i:19975045 original size:31 final size:29
Alignment explanation
Indices: 19975010--19975071 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
19975000 ATCTTAAAAT
* *
19975010 TATACATGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTT--GGTGCAATTG
*
19975041 TATACATGAGCTTTAATTTGGTGCAATTG
1 TATACATGAACTTTAATTTGGTGCAATTG
19975070 TA
1 TA
19975072 CACGAGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
31 17 0.61
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (29 bp):
TATACATGAACTTTAATTTGGTGCAATTG
Found at i:19975316 original size:29 final size:30
Alignment explanation
Indices: 19975276--19975342 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
19975266 TCAAAATTTA
19975276 ATGTATAAAATT-ACATAAAATCAAAGTTC
1 ATGTATAAAATTCACATAAAATCAAAGTTC
* * *
19975305 ATGTATACAATTGCACATTAAATCATAGTTC
1 ATGTATAAAATT-CACATAAAATCAAAGTTC
19975336 ATGTATA
1 ATGTATA
19975343 GTTTTGGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 11 0.33
31 22 0.67
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
ATGTATAAAATTCACATAAAATCAAAGTTC
Found at i:19979147 original size:375 final size:375
Alignment explanation
Indices: 19978457--19979208 Score: 1504
Period size: 375 Copynumber: 2.0 Consensus size: 375
19978447 TATCCAAAGG
19978457 TTAGAGGTCGAGAAGCTGAGGAAAGGAAAGAGAAAGGTTGAGGAGGACTTAGATAGTTTGAAGAA
1 TTAGAGGTCGAGAAGCTGAGGAAAGGAAAGAGAAAGGTTGAGGAGGACTTAGATAGTTTGAAGAA
19978522 GGACTACAAGAAGCTCTGTCTATCAATGAGAACCACTGGGTTAGGTAAGACATCAGAACAATGAC
66 GGACTACAAGAAGCTCTGTCTATCAATGAGAACCACTGGGTTAGGTAAGACATCAGAACAATGAC
19978587 AACAAGAAATCCAAGAAGAAAGGATTCGAGCGGAACAATGGAAGAGAAAGTTTCAAGATGCTCAA
131 AACAAGAAATCCAAGAAGAAAGGATTCGAGCGGAACAATGGAAGAGAAAGTTTCAAGATGCTCAA
19978652 GTCCAAGAAAATGCCATTAAGAGTAAGCTGTTGAAAAATCAGGTAGAGAAAGTTGAGTTGAGGGC
196 GTCCAAGAAAATGCCATTAAGAGTAAGCTGTTGAAAAATCAGGTAGAGAAAGTTGAGTTGAGGGC
19978717 CCGAATCGCAATCGTAACTCTGCAATCGAATTGAGGGCAAACCAAACTGAGAATAAGGAGCTGAA
261 CCGAATCGCAATCGTAACTCTGCAATCGAATTGAGGGCAAACCAAACTGAGAATAAGGAGCTGAA
19978782 AAAGAAAGTAGGAGAACTTGAAACTTCTTTGCGATACTACAAGATCTGAA
326 AAAGAAAGTAGGAGAACTTGAAACTTCTTTGCGATACTACAAGATCTGAA
19978832 TTAGAGGTCGAGAAGCTGAGGAAAGGAAAGAGAAAGGTTGAGGAGGACTTAGATAGTTTGAAGAA
1 TTAGAGGTCGAGAAGCTGAGGAAAGGAAAGAGAAAGGTTGAGGAGGACTTAGATAGTTTGAAGAA
19978897 GGACTACAAGAAGCTCTGTCTATCAATGAGAACCACTGGGTTAGGTAAGACATCAGAACAATGAC
66 GGACTACAAGAAGCTCTGTCTATCAATGAGAACCACTGGGTTAGGTAAGACATCAGAACAATGAC
19978962 AACAAGAAATCCAAGAAGAAAGGATTCGAGCGGAACAATGGAAGAGAAAGTTTCAAGATGCTCAA
131 AACAAGAAATCCAAGAAGAAAGGATTCGAGCGGAACAATGGAAGAGAAAGTTTCAAGATGCTCAA
19979027 GTCCAAGAAAATGCCATTAAGAGTAAGCTGTTGAAAAATCAGGTAGAGAAAGTTGAGTTGAGGGC
196 GTCCAAGAAAATGCCATTAAGAGTAAGCTGTTGAAAAATCAGGTAGAGAAAGTTGAGTTGAGGGC
19979092 CCGAATCGCAATCGTAACTCTGCAATCGAATTGAGGGCAAACCAAACTGAGAATAAGGAGCTGAA
261 CCGAATCGCAATCGTAACTCTGCAATCGAATTGAGGGCAAACCAAACTGAGAATAAGGAGCTGAA
19979157 AAAGAAAGTAGGAGAACTTGAAACTTCTTTGCGATACTACAAGATCTGAA
326 AAAGAAAGTAGGAGAACTTGAAACTTCTTTGCGATACTACAAGATCTGAA
19979207 TT
1 TT
19979209 GAGTTCCTTG
Statistics
Matches: 377, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
375 377 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (375 bp):
TTAGAGGTCGAGAAGCTGAGGAAAGGAAAGAGAAAGGTTGAGGAGGACTTAGATAGTTTGAAGAA
GGACTACAAGAAGCTCTGTCTATCAATGAGAACCACTGGGTTAGGTAAGACATCAGAACAATGAC
AACAAGAAATCCAAGAAGAAAGGATTCGAGCGGAACAATGGAAGAGAAAGTTTCAAGATGCTCAA
GTCCAAGAAAATGCCATTAAGAGTAAGCTGTTGAAAAATCAGGTAGAGAAAGTTGAGTTGAGGGC
CCGAATCGCAATCGTAACTCTGCAATCGAATTGAGGGCAAACCAAACTGAGAATAAGGAGCTGAA
AAAGAAAGTAGGAGAACTTGAAACTTCTTTGCGATACTACAAGATCTGAA
Found at i:19980712 original size:21 final size:24
Alignment explanation
Indices: 19980663--19980718 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 24
19980653 CAAGTATGCA
*
19980663 AACTACCGATACATCTATACATAC
1 AACTACCGATACATCTACACATAC
*
19980687 AACTACCGATAC-TC-ACA-ATTC
1 AACTACCGATACATCTACACATAC
19980708 AACTACCGATA
1 AACTACCGATA
19980719 TAACTCAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 14 0.47
22 2 0.07
23 2 0.07
24 12 0.40
ACGTcount: A:0.41, C:0.30, G:0.05, T:0.23
Consensus pattern (24 bp):
AACTACCGATACATCTACACATAC
Found at i:19981421 original size:102 final size:102
Alignment explanation
Indices: 19981241--19981512 Score: 429
Period size: 102 Copynumber: 2.7 Consensus size: 102
19981231 TTCGTATTTG
* ** * * * *
19981241 ATACTCACGATGACACTTAGTCATC-GAACCTTTTAATCCATAAAGGATCCATATACTTACGATG
1 ATACTTACGATGACACAGAGTTATCAG-ACCTCTTAATCCGTAAAGGATCCATATACTCACGATG
*
19981305 ACACAGCCATCGGACCTGATAATCCACAAGGGATTCGT
65 ACACAGCCACCGGACCTGATAATCCACAAGGGATTCGT
19981343 ATACTTACGATGACACAGAGTTATCAGACCTCTTAATCCGTAAAGGATCCATATACTCACGATGA
1 ATACTTACGATGACACAGAGTTATCAGACCTCTTAATCCGTAAAGGATCCATATACTCACGATGA
*
19981408 CACAGCCACCGGACTTGATAATCCACAAGGGATTCGT
66 CACAGCCACCGGACCTGATAATCCACAAGGGATTCGT
* *
19981445 ACACTTACGATGACACAGAGTTATCAGACCTCTTAATCCGTAAAGGATCCATATACTCACAATGA
1 ATACTTACGATGACACAGAGTTATCAGACCTCTTAATCCGTAAAGGATCCATATACTCACGATGA
19981510 CAC
66 CAC
19981513 TTAGTCATCG
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
102 157 0.99
103 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (102 bp):
ATACTTACGATGACACAGAGTTATCAGACCTCTTAATCCGTAAAGGATCCATATACTCACGATGA
CACAGCCACCGGACCTGATAATCCACAAGGGATTCGT
Found at i:19981580 original size:52 final size:52
Alignment explanation
Indices: 19981241--19981582 Score: 293
Period size: 52 Copynumber: 6.7 Consensus size: 52
19981231 TTCGTATTTG
19981241 ATACTCACGATGACACTTAGTCATC-GAACCTTTTAATCCATAAAGGATCCAT
1 ATACTCACGATGACACTTAGTCATCAG-ACCTTTTAATCCATAAAGGATCCAT
* * * ** * * * *
19981293 ATACTTACGATGACAC--AGCCATCGGACCTGATAATCCACAAGGGATTCGT
1 ATACTCACGATGACACTTAGTCATCAGACCTTTTAATCCATAAAGGATCCAT
* ** * * *
19981343 ATACTTACGATGACACAGAGTTATCAGACCTCTTAATCCGTAAAGGATCCAT
1 ATACTCACGATGACACTTAGTCATCAGACCTTTTAATCCATAAAGGATCCAT
* * * * * * * *
19981395 ATACTCACGATGACAC--AGCCACCGGA-CTTGATAATCCACAAGGGATTCGT
1 ATACTCACGATGACACTTAGTCATCAGACCTT-TTAATCCATAAAGGATCCAT
* * ** * * *
19981445 ACACTTACGATGACACAGAGTTATCAGACCTCTTAATCCGTAAAGGATCCAT
1 ATACTCACGATGACACTTAGTCATCAGACCTTTTAATCCATAAAGGATCCAT
* * *
19981497 ATACTCACAATGACACTTAGTCATC-GAACCTTTTAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCATCAG-ACCTTTTAATCCATAAAGGATCCAT
* *
19981549 ATACTCATGATAACACTTAGTCATCAGACCTTTT
1 ATACTCACGATGACACTTAGTCATCAGACCTTTT
19981583 TGTTTATGGC
Statistics
Matches: 227, Mismatches: 54, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
49 2 0.01
50 75 0.33
51 2 0.01
52 145 0.64
53 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACTTAGTCATCAGACCTTTTAATCCATAAAGGATCCAT
Found at i:19988661 original size:52 final size:52
Alignment explanation
Indices: 19988564--19988852 Score: 283
Period size: 52 Copynumber: 5.5 Consensus size: 52
19988554 TTTGATGCTT
** * * * *
19988564 ACGATGACACAAAGTCATCAGACC-TTTACTCCGCAATGGATTTCATATACTC
1 ACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGGA-TTCATATACTC
* * * * *
19988616 ATGATGACACTTAGTCATTGGACTTTTTAATTCGTAAAGAATTCATATACTC
1 ACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGGATTCATATACTC
* * * * * ** * * *
19988668 ACGATGAGACATAGCCACCGGACCTTATAATCCACAAGGGATTCGTATTCTC
1 ACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGGATTCATATACTC
* ** * * *
19988720 ACAATGACACAGAGTCATCGGACCTCTTAATTCGTAAAGGATCCATATACTC
1 ACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGGATTCATATACTC
*
19988772 ACGATGACACTTAGTCATCGAACCTTTTAATCCGTAAAGGATTCATATACTC
1 ACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGGATTCATATACTC
* *
19988824 ACGATAACACTTAATCATCGGACCGTTTT
1 ACGATGACACTTAGTCATCGGACC-TTTT
19988853 GTCTAAGGCT
Statistics
Matches: 185, Mismatches: 50, Indels: 3
0.78 0.21 0.01
Matches are distributed among these distances:
52 170 0.92
53 15 0.08
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (52 bp):
ACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGGATTCATATACTC
Found at i:19992051 original size:13 final size:11
Alignment explanation
Indices: 19992026--19992074 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
19992016 TCAAACTAGC
19992026 AAAAAAAGAAG
1 AAAAAAAGAAG
19992037 AAGAAAAAGATAG
1 AA-AAAAAGA-AG
19992050 -AAAAAAGAA-
1 AAAAAAAGAAG
19992059 AAAAAAAGAAG
1 AAAAAAAGAAG
19992070 AAAAA
1 AAAAA
19992075 GAAAAAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.29
11 14 0.41
12 8 0.24
13 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:19992053 original size:10 final size:9
Alignment explanation
Indices: 19992034--19992077 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
19992024 GCAAAAAAAG
19992034 AAGAAGAAA
1 AAGAAGAAA
19992043 AAGATAGAAAA
1 AAGA-AG-AAA
*
19992054 AAGAAAAAAA
1 AAG-AAGAAA
19992064 AAGAAGAAA
1 AAGAAGAAA
19992073 AAGAA
1 AAGAA
19992078 AAAGTAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 14 0.47
10 8 0.27
11 7 0.23
12 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:19992059 original size:17 final size:19
Alignment explanation
Indices: 19992031--19992081 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 19
19992021 CTAGCAAAAA
* *
19992031 AAGAAGAAGAAAAAGATAG
1 AAGAAAAAGAAAAAGAAAG
*
19992050 -A-AAAAAGAAAAAAAAAG
1 AAGAAAAAGAAAAAGAAAG
19992067 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
19992082 TAAGGGCCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
19 11 0.42
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (19 bp):
AAGAAAAAGAAAAAGAAAG
Found at i:19992063 original size:20 final size:19
Alignment explanation
Indices: 19992029--19992080 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
19992019 AACTAGCAAA
*
19992029 AAAAGAAGAAGAAAAAGATAG
1 AAAA-AAGAAAAAAAAGA-AG
19992050 AAAAAAGAAAAAAAAAGAAG
1 AAAAAAG-AAAAAAAAGAAG
19992070 -AAAAAGAAAAA
1 AAAAAAGAAAAA
19992081 GTAAGGGCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.17
19 6 0.21
20 5 0.17
21 13 0.45
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAGAAG
Found at i:19993156 original size:49 final size:49
Alignment explanation
Indices: 19993099--19993588 Score: 250
Period size: 49 Copynumber: 10.0 Consensus size: 49
19993089 ATCCTAGAGT
*
19993099 TGAAGAGGGAAAGATTAAAGCCGCAACGGCAGATCTTACACTCTAAAAC
1 TGAAGAGGGAAAGATTAAAGCCGCAACGGCAGATCTTACACCCTAAAAC
* * * ** * * * *
19993148 TGAAGAGGGATAGGTTAAAGCCGTAACGATAAACCTAACACACTAAAA-
1 TGAAGAGGGAAAGATTAAAGCCGCAACGGCAGATCTTACACCCTAAAAC
* * * * * *** * *
19993196 TCAAAGAGGGAAAAATTAAACCCGTAATGATGGATTTTACACCCTAAAAT
1 T-GAAGAGGGAAAGATTAAAGCCGCAACGGCAGATCTTACACCCTAAAAC
* * * * *
19993246 TGAAGAGGGATAGATTAAAGCTGCAATGAG-GGATCTAACACCCTAAAAAC
1 TGAAGAGGGAAAGATTAAAGCCGCAACG-GCAGATCTTACACCCT-AAAAC
* * * * *
19993296 -AAAGAGGGAAAGATTGAAGCTGCAACGGC-GAATCTTACACCATGAAA-
1 TGAAGAGGGAAAGATTAAAGCCGCAACGGCAG-ATCTTACACCCTAAAAC
* * * * * *
19993343 TCAA-AGAGGAATAAATTAAAGCCACAACGAC-GAACCTAACACCCTAAAAC
1 TGAAGAG-GGAA-AGATTAAAGCCGCAACGGCAG-ATCTTACACCCTAAAAC
* * * * * *
19993393 TGAAAAGGGATAA-ATTAAAGCCGTAAGGGCGGATCTAACATCCTAAAA-
1 TGAAGAGGGA-AAGATTAAAGCCGCAACGGCAGATCTTACACCCTAAAAC
* * *
19993441 TCGAAGAGGGAAAGATTAAAGCCGTAA-GGATAAATCTTACACCCTAAAAC
1 T-GAAGAGGGAAAGATTAAAGCCGCAACGG-CAGATCTTACACCCTAAAAC
** * * * *
19993491 CAAAGAGGAAAATATTAAAGCAC-CAACGG-TGAATCTTACACCCTAGAAAA
1 TGAAGAGGGAAAGATTAAAGC-CGCAACGGCAG-ATCTTACACCCTA-AAAC
** * * * * *
19993541 ACACGAGGGACAGATTAAAGCCG-AACGGTAAATCTTACACCCTTAAAC
1 TGAAGAGGGAAAGATTAAAGCCGCAACGGCAGATCTTACACCCTAAAAC
19993589 CCAAAGATAG
Statistics
Matches: 339, Mismatches: 79, Indels: 47
0.73 0.17 0.10
Matches are distributed among these distances:
47 2 0.01
48 20 0.06
49 280 0.83
50 34 0.10
51 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (49 bp):
TGAAGAGGGAAAGATTAAAGCCGCAACGGCAGATCTTACACCCTAAAAC
Found at i:19993334 original size:98 final size:98
Alignment explanation
Indices: 19993101--19993583 Score: 388
Period size: 98 Copynumber: 4.9 Consensus size: 98
19993091 CCTAGAGTTG
* *
19993101 AAGAGGGAAAGATTAAAGCCGCAACGGC-AGATCTTACACTCTAAAA-CTGAAGAGGGATAGGTT
1 AAGAGGGAAAGATTAAAGCCGCAACGGCGA-ATCTTACACCCTAAAATC-GAAGAGGGATAGATT
* * *
19993164 AAAGCCGTAACGATAAACCTAACACACTAAAATCA
64 AAAGCCGCAACGATAAACCTAACACCCTAAAAACA
* * * * ** * * *
19993199 AAGAGGGAAAAATTAAACCCGTAATGATGGATTTTACACCCTAAAATTGAAGAGGGATAGATTAA
1 AAGAGGGAAAGATTAAAGCCGCAACGGCGAATCTTACACCCTAAAATCGAAGAGGGATAGATTAA
* * *** *
19993264 AGCTGCAATGAGGGATCTAACACCCTAAAAACA
66 AGCCGCAACGATAAACCTAACACCCTAAAAACA
* * * * * * *
19993297 AAGAGGGAAAGATTGAAGCTGCAACGGCGAATCTTACACCATGAAATCAAAGAGGAATAAATTAA
1 AAGAGGGAAAGATTAAAGCCGCAACGGCGAATCTTACACCCTAAAATCGAAGAGGGATAGATTAA
* **
19993362 AGCCACAACGACGAACCTAACACCCT-AAAACTGA
66 AGCCGCAACGATAAACCTAACACCCTAAAAAC--A
* * * * * *
19993396 AA-AGGGATAA-ATTAAAGCCGTAAGGGCGGATCTAACATCCTAAAATCGAAGAGGGAAAGATTA
1 AAGAGGGA-AAGATTAAAGCCGCAACGGCGAATCTTACACCCTAAAATCGAAGAGGGATAGATTA
* * * * *
19993459 AAGCCGTAAGGATAAATCTTACACCCTAAAACCA
65 AAGCCGCAACGATAAACCTAACACCCTAAAAACA
* * * * * *
19993493 AAGAGGAAAATATTAAAGCAC-CAACGGTGAATCTTACACCCTAGAAAAAC-ACGAGGGACAGAT
1 AAGAGGGAAAGATTAAAGC-CGCAACGGCGAATCTTACACCCT--AAAATCGAAGAGGGATAGAT
* * *
19993556 TAAAGCCG-AACGGTAAATCTTACACCCT
63 TAAAGCCGCAACGATAAACCTAACACCCT
19993584 TAAACCCAAA
Statistics
Matches: 299, Mismatches: 75, Indels: 22
0.76 0.19 0.06
Matches are distributed among these distances:
97 10 0.03
98 255 0.85
99 29 0.10
100 5 0.02
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (98 bp):
AAGAGGGAAAGATTAAAGCCGCAACGGCGAATCTTACACCCTAAAATCGAAGAGGGATAGATTAA
AGCCGCAACGATAAACCTAACACCCTAAAAACA
Found at i:19993532 original size:147 final size:143
Alignment explanation
Indices: 19993099--19993535 Score: 423
Period size: 147 Copynumber: 3.0 Consensus size: 143
19993089 ATCCTAGAGT
* * * * *
19993099 TGAAGAGGGA-AAGATTAAAGCCGCAACGGCAGATCTTACACTCTAAAACTGAAGAGGGATAGGT
1 TGAAGAGGGATAA-ATTAAAGCCGCAAGGGCGGATCTAACAC-CTAAAAC-GAAGAGGGAAAGAT
* * * * *
19993163 TAAAGCCGTAACGATAAACCTAACACACTAAAATCAAAGAGGGAAAAATTAAA-CCCGTAATGAT
63 TAAAGCCGTAAGGATAAATCTTACACCCTAAAATCAAAGA-GGAAAAATTAAAGCCC--AACGAT
* * *
19993227 GGATTTTACACCCTAAAAT
125 GAATCTTACACCCTAAAAC
* * * *
19993246 TGAAGAGGGATAGATTAAAGCTGCAATGAG-GGATCTAACACCCTAAAAACAAAGAGGGAAAGAT
1 TGAAGAGGGATAAATTAAAGCCGCAA-GGGCGGATCTAACA-CCT-AAAACGAAGAGGGAAAGAT
* * * ** * * *
19993310 TGAAGCTGCAACGG-CGAATCTTACACCATGAAATCAAAGAGGAATAAATTAAAGCCACAACGAC
63 TAAAGCCGTAA-GGATAAATCTTACACCCTAAAATCAAAGAGGAA-AAATTAAAGCC-CAACGAT
* *
19993374 GAACCTAACACCCTAAAAC
125 GAATCTTACACCCTAAAAC
* *
19993393 TGAAAAGGGATAAATTAAAGCCGTAAGGGCGGATCTAACATCCTAAAATCGAAGAGGGAAAGATT
1 TGAAGAGGGATAAATTAAAGCCGCAAGGGCGGATCTAACA-CCTAAAA-CGAAGAGGGAAAGATT
* *
19993458 AAAGCCGTAAGGATAAATCTTACACCCTAAAACCAAAGAGGAAAATATTAAAGCACCAACGGTGA
64 AAAGCCGTAAGGATAAATCTTACACCCTAAAATCAAAGAGGAAAA-ATTAAAGC-CCAACGATGA
19993523 ATCTTACACCCTA
127 ATCTTACACCCTA
19993536 GAAAAACACG
Statistics
Matches: 231, Mismatches: 46, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
146 14 0.06
147 204 0.88
148 12 0.05
149 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (143 bp):
TGAAGAGGGATAAATTAAAGCCGCAAGGGCGGATCTAACACCTAAAACGAAGAGGGAAAGATTAA
AGCCGTAAGGATAAATCTTACACCCTAAAATCAAAGAGGAAAAATTAAAGCCCAACGATGAATCT
TACACCCTAAAAC
Found at i:19993602 original size:49 final size:48
Alignment explanation
Indices: 19993444--19993605 Score: 141
Period size: 49 Copynumber: 3.3 Consensus size: 48
19993434 CCTAAAATCG
*
19993444 AAGAGGGAAAGATTAAAGCCGTAA-GGATAAATCTTACACCC-TAAAACCA
1 AAGA-GGACAGATTAAAGCCG-AACGG-TAAATCTTACACCCTTAAAACCA
* * * * * *
19993493 AAGAGGAAAATATTAAAGCACCAACGGTGAATCTTACACCCTAGAAAAAC-
1 AAGAGG-ACAGATTAAAGC-CGAACGGTAAATCTTACACCCT-TAAAACCA
* *
19993543 ACGAGGGACAGATTAAAGCCGAACGGTAAATCTTACACCCTTAAACCCA
1 AAGA-GGACAGATTAAAGCCGAACGGTAAATCTTACACCCTTAAAACCA
*
19993592 AAGATAGACAGATT
1 AAGA-GGACAGATT
19993606 GAAGTCACAA
Statistics
Matches: 90, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
48 6 0.07
49 61 0.68
50 16 0.18
51 7 0.08
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (48 bp):
AAGAGGACAGATTAAAGCCGAACGGTAAATCTTACACCCTTAAAACCA
Found at i:19994249 original size:23 final size:24
Alignment explanation
Indices: 19994210--19994259 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
19994200 CAAAGATTTT
*
19994210 TTTTATACAACACTTAAAA-AAAA
1 TTTTAAACAACACTTAAAAGAAAA
19994233 TTTTAAACATACA-TTAAAAGAAAA
1 TTTTAAACA-ACACTTAAAAGAAAA
19994257 TTT
1 TTT
19994260 AAAGAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (24 bp):
TTTTAAACAACACTTAAAAGAAAA
Found at i:19994452 original size:3 final size:3
Alignment explanation
Indices: 19994444--19994487 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19994434 GAGTTTGTCT
19994444 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19994488 TAGTTGTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19994617 original size:10 final size:11
Alignment explanation
Indices: 19994598--19994698 Score: 50
Period size: 11 Copynumber: 9.2 Consensus size: 11
19994588 TATTTTAGCA
19994598 TTTTATTTTAT
1 TTTTATTTTAT
19994609 TTTTA-TTTAT
1 TTTTATTTTAT
19994619 TTTT-TGTTTAT
1 TTTTAT-TTTAT
* *
19994630 TTATCTTGTTAT
1 TTTTATT-TTAT
19994642 TATTTATTTTCA-
1 T-TTTATTTT-AT
* *
19994654 TGTCATTTTAT
1 TTTTATTTTAT
* *
19994665 TGTTATCTCTAT
1 TTTTAT-TTTAT
*
19994677 TATTA--TTAT
1 TTTTATTTTAT
*
19994686 TTTTATTTAAT
1 TTTTATTTTAT
19994697 TT
1 TT
19994699 GCATTTATCG
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
9 7 0.10
10 10 0.14
11 30 0.43
12 17 0.25
13 5 0.07
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:19994619 original size:15 final size:14
Alignment explanation
Indices: 19994599--19994651 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
19994589 ATTTTAGCAT
19994599 TTTATTTTATTTTTA
1 TTTATTTT-TTTTTA
19994614 TTTATTTTTTGTTTA
1 TTTATTTTTT-TTTA
* *
19994629 TTTATCTTGTTATTA
1 TTTAT-TTTTTTTTA
19994644 TTTATTTT
1 TTTATTTT
19994652 CATGTCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 4 0.12
15 25 0.76
16 4 0.12
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTATTTTTTTTTA
Found at i:19995236 original size:12 final size:12
Alignment explanation
Indices: 19995219--19995244 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19995209 GTAATGTTCT
19995219 TTATTTCGAGAA
1 TTATTTCGAGAA
19995231 TTATTTCGAGAA
1 TTATTTCGAGAA
19995243 TT
1 TT
19995245 CGAAAGGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTATTTCGAGAA
Found at i:20000525 original size:25 final size:25
Alignment explanation
Indices: 20000497--20000545 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20000487 TTTTATTCAG
20000497 AATACATAAATTGCCCCTAACTTTT
1 AATACATAAATTGCCCCTAACTTTT
* * * *
20000522 AATACTTATATTGTCCCTACCTTT
1 AATACATAAATTGCCCCTAACTTT
20000546 AACTTTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (25 bp):
AATACATAAATTGCCCCTAACTTTT
Found at i:20002678 original size:21 final size:21
Alignment explanation
Indices: 20002649--20002691 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20002639 ATAATTTGAA
*
20002649 TCTCGAATGATATTACAAATG
1 TCTCAAATGATATTACAAATG
*
20002670 TCTCAAATGATATTATAAATG
1 TCTCAAATGATATTACAAATG
20002691 T
1 T
20002692 ATAACAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (21 bp):
TCTCAAATGATATTACAAATG
Found at i:20012612 original size:517 final size:517
Alignment explanation
Indices: 20011639--20012669 Score: 2017
Period size: 517 Copynumber: 2.0 Consensus size: 517
20011629 TACGAACTTA
20011639 TAGGACTGGATTGCAGTTTAGGAAAGACTTCAGGGACTAATCTACTAATTTCTCTTTTTCACGGT
1 TAGGACTGGATTGCAGTTTAGGAAAGACTTCAGGGACTAATCTACTAATTTCTCTTTTTCACGGT
20011704 CGGTAGCACGATCATAGTCTACATTCACAGATCATTCAATTCTCACATTAAATTACATAATTTAG
66 CGGTAGCACGATCATAGTCTACATTCACAGATCATTCAATTCTCACATTAAATTACATAATTTAG
*
20011769 TCATTCAACACAATTTAGTCCTTTTTAGGAAAATTACAATTTTATCCCTAATAGTTTCCTTTTAT
131 TCATTCAACACAATTTAGTCCTTTTTAAGAAAATTACAATTTTATCCCTAATAGTTTCCTTTTAT
20011834 TCAATCTAGTCCTTTCAACTCAAAACATGTAAAACAACCATTCTCTCACACAACTAACCATAGCA
196 TCAATCTAGTCCTTTCAACTCAAAACATGTAAAACAACCATTCTCTCACACAACTAACCATAGCA
* *
20011899 GAATTCTCTTGGGTACCTATCTAACCCATTCACACATTTATTTTCATAATAATATATGTAGTTTC
261 GAATTCTCTTGAGTACCTATCCAACCCATTCACACATTTATTTTCATAATAATATATGTAGTTTC
20011964 ACCATTTTTACATTTTAATCCTTAAACCCTAATTTCATCGAAAATAACTTTACTAAAAGTTTTAA
326 ACCATTTTTACATTTTAATCCTTAAACCCTAATTTCATCGAAAATAACTTTACTAAAAGTTTTAA
20012029 CCCAAGGATCAAACACTCAAATACATCAAAAGCTTTCAATAACAAGCAATTTCAATAATGGCAAG
391 CCCAAGGATCAAACACTCAAATACATCAAAAGCTTTCAATAACAAGCAATTTCAATAATGGCAAG
20012094 TTTTCTAACATTTGAAAGATTCACAAATTAGTCCTTGCATAATCTACATTAAGCTAATAGTT
456 TTTTCTAACATTTGAAAGATTCACAAATTAGTCCTTGCATAATCTACATTAAGCTAATAGTT
*
20012156 TAGGACTGGATTGCAGTTTAGGAAAGACTTCAGGGACTAATCTGCTAATTTCTCTTTTTCACGGT
1 TAGGACTGGATTGCAGTTTAGGAAAGACTTCAGGGACTAATCTACTAATTTCTCTTTTTCACGGT
20012221 CGGTAGCACGATCATAGTCTACATTCACAGATCATTCAATTCTCACATTAAATTACATAATTTAG
66 CGGTAGCACGATCATAGTCTACATTCACAGATCATTCAATTCTCACATTAAATTACATAATTTAG
20012286 TCATTCAACACAATTTAGTCCTTTTTAAGAAAATTACAATTTTATCCCTAATAGTTTCCTTTTAT
131 TCATTCAACACAATTTAGTCCTTTTTAAGAAAATTACAATTTTATCCCTAATAGTTTCCTTTTAT
*
20012351 TCAATCTAGTCCTTTCAACTCAAAACATGTAAAACAACCATTCTCTCACACAACTAACCATAGCC
196 TCAATCTAGTCCTTTCAACTCAAAACATGTAAAACAACCATTCTCTCACACAACTAACCATAGCA
20012416 GAATTCTCTTGAGTACCTATCCAACCCATTCACACATTTATTTTCATAATAATATATGTAGTTTC
261 GAATTCTCTTGAGTACCTATCCAACCCATTCACACATTTATTTTCATAATAATATATGTAGTTTC
20012481 ACCATTTTTACATTTTAATCCTTAAACCCTAATTTCATCGAAAATAACTTTACTAAAAGTTTTAA
326 ACCATTTTTACATTTTAATCCTTAAACCCTAATTTCATCGAAAATAACTTTACTAAAAGTTTTAA
20012546 CCCAAGGATCAAACACTCAAATACATCAAAAGCTTTCAATAACAAGCAATTTCAATAATGGCAAG
391 CCCAAGGATCAAACACTCAAATACATCAAAAGCTTTCAATAACAAGCAATTTCAATAATGGCAAG
20012611 TTTTCTAACATTTGAAAGATTCACAAATTAGTCCTTGCATAATCTACATTAAGCTAATA
456 TTTTCTAACATTTGAAAGATTCACAAATTAGTCCTTGCATAATCTACATTAAGCTAATA
20012670 AGAACTCAAA
Statistics
Matches: 509, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
517 509 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (517 bp):
TAGGACTGGATTGCAGTTTAGGAAAGACTTCAGGGACTAATCTACTAATTTCTCTTTTTCACGGT
CGGTAGCACGATCATAGTCTACATTCACAGATCATTCAATTCTCACATTAAATTACATAATTTAG
TCATTCAACACAATTTAGTCCTTTTTAAGAAAATTACAATTTTATCCCTAATAGTTTCCTTTTAT
TCAATCTAGTCCTTTCAACTCAAAACATGTAAAACAACCATTCTCTCACACAACTAACCATAGCA
GAATTCTCTTGAGTACCTATCCAACCCATTCACACATTTATTTTCATAATAATATATGTAGTTTC
ACCATTTTTACATTTTAATCCTTAAACCCTAATTTCATCGAAAATAACTTTACTAAAAGTTTTAA
CCCAAGGATCAAACACTCAAATACATCAAAAGCTTTCAATAACAAGCAATTTCAATAATGGCAAG
TTTTCTAACATTTGAAAGATTCACAAATTAGTCCTTGCATAATCTACATTAAGCTAATAGTT
Found at i:20014810 original size:20 final size:20
Alignment explanation
Indices: 20014781--20014836 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
20014771 AAAGAAATAT
20014781 TTTA-ATATTTAAAATATAAA
1 TTTATATATTTAAAATA-AAA
*
20014801 -TTATATATTTAAATTAAAA
1 TTTATATATTTAAAATAAAA
*
20014820 TTTATAAATATTAAAAT
1 TTTATATAT-TTAAAAT
20014837 TATTGAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.20
20 18 0.60
21 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTATATATTTAAAATAAAA
Found at i:20015840 original size:18 final size:16
Alignment explanation
Indices: 20015807--20015854 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
20015797 CAGTTGTAAC
*
20015807 TAATTTAAAA-TT-TT
1 TAATTAAAAATTTATT
20015821 TAATTAATTAAATTTATT
1 TAATTAA--AAATTTATT
20015839 TAATTAAAAATTTATT
1 TAATTAAAAATTTATT
20015855 CTCATCCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 6 0.21
16 12 0.41
17 2 0.07
18 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTAAAAATTTATT
Found at i:20026101 original size:43 final size:43
Alignment explanation
Indices: 20026019--20026102 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
20026009 CACAAGATAG
* ** *
20026019 AGGAAGCTACGTAGAAAAAGTCACATTCAAGAAACGACAAAGA
1 AGGAAGCTACATAGAAAAAACCACATTCAAAAAACGACAAAGA
* *
20026062 AGGAAGCTACATGGAAAAAACCAC-TTCCAAAAAATGACAAA
1 AGGAAGCTACATAGAAAAAACCACATT-CAAAAAACGACAAA
20026103 AAAATAAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.52, C:0.18, G:0.18, T:0.12
Consensus pattern (43 bp):
AGGAAGCTACATAGAAAAAACCACATTCAAAAAACGACAAAGA
Found at i:20037125 original size:30 final size:33
Alignment explanation
Indices: 20037069--20037128 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
20037059 TGTTTGTATG
*
20037069 AAATTGAAGAAAGAGGGAAGAAGGAGAAAGACC
1 AAATTGAAGAAAGAAGGAAGAAGGAGAAAGACC
20037102 AAATTGAAGAAA-AAGG-A-AAGGAGAAAG
1 AAATTGAAGAAAGAAGGAAGAAGGAGAAAG
20037129 CTAAGGTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 1 0.04
32 3 0.12
33 12 0.46
ACGTcount: A:0.58, C:0.03, G:0.32, T:0.07
Consensus pattern (33 bp):
AAATTGAAGAAAGAAGGAAGAAGGAGAAAGACC
Found at i:20038226 original size:6 final size:6
Alignment explanation
Indices: 20038215--20038259 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
20038205 TGATCAAAAT
* * *
20038215 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
20038260 TATGAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (6 bp):
TGAAAG
Found at i:20041663 original size:24 final size:23
Alignment explanation
Indices: 20041636--20041705 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
20041626 ATAAACAAAC
20041636 ATGTTCGCGAACGTATAAATGAAT
1 ATGTTCGCGAACGT-TAAATGAAT
* * * *
20041660 ATGTTCGTGAACATTAAACGAAC
1 ATGTTCGCGAACGTTAAATGAAT
*
20041683 ATGTTCGCGAACGCTAAATGAAT
1 ATGTTCGCGAACGTTAAATGAAT
20041706 CGAGCCCGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 25 0.68
24 12 0.32
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (23 bp):
ATGTTCGCGAACGTTAAATGAAT
Found at i:20041686 original size:23 final size:23
Alignment explanation
Indices: 20041617--20041694 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
20041607 TTAGTTAACA
*
20041617 TTCGCGAACA-TAAACAAACATG
1 TTCGCGAACATTAAACGAACATG
* * *
20041639 TTCGCGAACGTATAAATGAATATG
1 TTCGCGAACAT-TAAACGAACATG
*
20041663 TTCGTGAACATTAAACGAACATG
1 TTCGCGAACATTAAACGAACATG
20041686 TTCGCGAAC
1 TTCGCGAAC
20041695 GCTAAATGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 9 0.20
23 18 0.40
24 18 0.40
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (23 bp):
TTCGCGAACATTAAACGAACATG
Found at i:20041703 original size:46 final size:46
Alignment explanation
Indices: 20041617--20041705 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 46
20041607 TTAGTTAACA
20041617 TTCGCGAACATAAACAAACATGTTCGCGAACGTATAAATGAATATG
1 TTCGCGAACATAAACAAACATGTTCGCGAACGTATAAATGAATATG
* * *
20041663 TTCGTGAACATTAAACGAACATGTTCGCGAACG-CTAAATGAAT
1 TTCGCGAACA-TAAACAAACATGTTCGCGAACGTATAAATGAAT
20041706 CGAGCCCGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 18 0.46
47 21 0.54
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (46 bp):
TTCGCGAACATAAACAAACATGTTCGCGAACGTATAAATGAATATG
Found at i:20042537 original size:32 final size:32
Alignment explanation
Indices: 20042495--20042561 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
20042485 GGGAGAGTAG
* *
20042495 TAAAAGGGGCCTAGGTGGTAATTAGACCCTAT
1 TAAAAGGGGCCTAGGTGATAAATAGACCCTAT
*
20042527 TAAAATGGGCCTAGGTGATAAATAGACCCTAT
1 TAAAAGGGGCCTAGGTGATAAATAGACCCTAT
20042559 TAA
1 TAA
20042562 GAAAACTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (32 bp):
TAAAAGGGGCCTAGGTGATAAATAGACCCTAT
Found at i:20050585 original size:12 final size:12
Alignment explanation
Indices: 20050568--20050606 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
20050558 ATCTACTTAC
20050568 TATATATTACTA
1 TATATATTACTA
20050580 TATATATTAC--
1 TATATATTACTA
20050590 TATATATTACTA
1 TATATATTACTA
20050602 TATAT
1 TATAT
20050607 TACTGTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.40
12 15 0.60
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATTACTA
Found at i:20050589 original size:22 final size:22
Alignment explanation
Indices: 20050564--20050606 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20050554 AGATATCTAC
20050564 TTACTATATATTACTATATATA
1 TTACTATATATTACTATATATA
20050586 TTACTATATATTACTATATAT
1 TTACTATATATTACTATATAT
20050607 TACTGTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (22 bp):
TTACTATATATTACTATATATA
Found at i:20050617 original size:10 final size:10
Alignment explanation
Indices: 20050564--20050610 Score: 76
Period size: 10 Copynumber: 4.5 Consensus size: 10
20050554 AGATATCTAC
20050564 TTACTATATA
1 TTACTATATA
20050574 TTACTATATATA
1 TTAC--TATATA
20050586 TTACTATATA
1 TTACTATATA
20050596 TTACTATATA
1 TTACTATATA
20050606 TTACT
1 TTACT
20050611 GTCTATTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 25 0.71
12 10 0.29
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (10 bp):
TTACTATATA
Found at i:20050678 original size:9 final size:9
Alignment explanation
Indices: 20050662--20050704 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
20050652 ATTACCATTT
20050662 ATTATTATC
1 ATTATTATC
*
20050671 ACTATTATC
1 ATTATTATC
*
20050680 ATTATTATT
1 ATTATTATC
20050689 ATTATTATC
1 ATTATTATC
20050698 -TTATTAT
1 ATTATTAT
20050705 TTAAGGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTATC
Found at i:20051804 original size:162 final size:161
Alignment explanation
Indices: 20051554--20051899 Score: 525
Period size: 162 Copynumber: 2.1 Consensus size: 161
20051544 TTTTAATTAG
* * * * * *
20051554 TTTTCAATTTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCCTTTTTTTTGCTT
1 TTTTCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCTACCAAGTGTCC-TTTTCTGGCTT
20051619 ATTTATGCATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCTAAATTAACTTTTATT
65 ATTTATGCATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCTAAATTAACTTTTATT
*
20051684 TAATTACAAAATTGGCCCAATAATTTTTCAAGG
130 TAATTACAAAATTGGCCCAA-AATTTTTCAAGA
* *
20051717 TTTAT-AAATTAGTCCTTTGACTGTTTGACTACACCAGGGGCTACCAAGTGTCAC-TTTCTGGCT
1 TTT-TCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCTACCAAGTGTC-CTTTTCTGGCT
* *
20051780 TATTTATGCATTTAGTCTCTGACATTTTTTATTTATTTTAATTTAATCCCTAAATTAACTTTTAT
64 TATTTATGCATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCTAAATTAACTTTTAT
*
20051845 TTAATTACAAAATTGGTCCAAAATTTTTCAAGA
129 TTAATTACAAAATTGGCCCAAAATTTTTCAAGA
*
20051878 TTTTCAAATTAATCCCTTGACT
1 TTTTCAAATTAATCCTTTGACT
20051900 TCTGGATGCC
Statistics
Matches: 166, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
160 1 0.01
161 29 0.17
162 90 0.54
163 44 0.27
164 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (161 bp):
TTTTCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCTACCAAGTGTCCTTTTCTGGCTTA
TTTATGCATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCTAAATTAACTTTTATTT
AATTACAAAATTGGCCCAAAATTTTTCAAGA
Found at i:20051997 original size:30 final size:30
Alignment explanation
Indices: 20051959--20052094 Score: 172
Period size: 30 Copynumber: 4.6 Consensus size: 30
20051949 CTTTGTAAGT
20051959 CCCT-AAACTTTTCCAAAATTATATTTTAA
1 CCCTAAAACTTTTCCAAAATTATATTTTAA
* * *
20051988 ACTTAAAACTTTTCCAAAATTATATTTTGA
1 CCCTAAAACTTTTCCAAAATTATATTTTAA
* **
20052018 CCCCAAAAC-TTTCTGGAAATTATATTTTAA
1 CCCTAAAACTTTTC-CAAAATTATATTTTAA
*
20052048 CCCTAAAACTTTTCCAAAATCATATTTTAA
1 CCCTAAAACTTTTCCAAAATTATATTTTAA
20052078 CCCTAAAA--TTTCCAAAA
1 CCCTAAAACTTTTCCAAAA
20052095 AATTGCATTT
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.10
29 6 0.07
30 72 0.79
31 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.38
Consensus pattern (30 bp):
CCCTAAAACTTTTCCAAAATTATATTTTAA
Found at i:20052098 original size:60 final size:60
Alignment explanation
Indices: 20051973--20052119 Score: 170
Period size: 60 Copynumber: 2.5 Consensus size: 60
20051963 AAACTTTTCC
* * * * **
20051973 AAAATTATATTTTAAACTTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCTG
1 AAAATTATATTTTAACCCTAAAACTTTTCCAAAATCATATTTTAACCCCAAAACTTTCAA
* *
20052033 GAAATTATATTTTAACCCTAAAACTTTTCCAAAATCATATTTTAACCCTAAAA-TTTCCAA
1 AAAATTATATTTTAACCCTAAAACTTTTCCAAAATCATATTTTAACCCCAAAACTTT-CAA
** * *
20052093 AAAATTGCATTTTTACCCCAAAACTTT
1 AAAATTATATTTTAACCCTAAAACTTT
20052120 CAAAAATTAC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 3 0.04
60 70 0.96
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (60 bp):
AAAATTATATTTTAACCCTAAAACTTTTCCAAAATCATATTTTAACCCCAAAACTTTCAA
Found at i:20052135 original size:29 final size:29
Alignment explanation
Indices: 20051963--20052144 Score: 141
Period size: 30 Copynumber: 6.1 Consensus size: 29
20051953 GTAAGTCCCT
* * **
20051963 AAACTTTTCCAAAATTATATTTTAAACTTA
1 AAAC-TTTCAAAAATTATATTTTAACCCCA
* *
20051993 AAACTTTTCCAAAATTATATTTTGACCCCA
1 AAAC-TTTCAAAAATTATATTTTAACCCCA
** *
20052023 AAACTTTCTGGAAATTATATTTTAACCCTA
1 AAACTTTC-AAAAATTATATTTTAACCCCA
* * *
20052053 AAACTTTTCCAAAATCATATTTTAACCCTA
1 AAAC-TTTCAAAAATTATATTTTAACCCCA
** *
20052083 AAA-TTTCCAAAAAATTGCATTTTTACCCCA
1 AAACTTT-C-AAAAATTATATTTTAACCCCA
* *
20052113 AAACTTTCAAAAATTACCATTTTACCCCCA
1 AAACTTTCAAAAATTA-TATTTTAACCCCA
20052143 AA
1 AA
20052145 CTTCCCTGAA
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
28 3 0.02
29 12 0.10
30 104 0.83
31 7 0.06
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.36
Consensus pattern (29 bp):
AAACTTTCAAAAATTATATTTTAACCCCA
Found at i:20052135 original size:90 final size:88
Alignment explanation
Indices: 20051959--20052147 Score: 220
Period size: 90 Copynumber: 2.1 Consensus size: 88
20051949 CTTTGTAAGT
* * *
20051959 CCCTAAACTTTTCCAAAATTATATTTTAAACTTAAAACTTTTCCAAAATTATATTTTGACCCCAA
1 CCCTAAACTTTTCCAAAATCATATTTTAAACCTAAAAC-TTTCCAAAATTACATTTTGACCCCAA
** *
20052024 AACTTTCTGGAAATTATATTTTAA
65 AACTTTCTAAAAATTACATTTTAA
* * *
20052048 CCCTAAAACTTTTCCAAAATCATATTTTAACCCTAAAA-TTTCCAAAAAATTGCATTTTTACCCC
1 CCCT-AAACTTTTCCAAAATCATATTTTAAACCTAAAACTTTCC--AAAATTACATTTTGACCCC
*
20052112 AAAACTTTC-AAAAATTACCATTTTAC
63 AAAACTTTCTAAAAATTA-CATTTTAA
*
20052138 CCCCAAACTT
1 CCCTAAACTT
20052148 CCCTGAATCC
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
88 5 0.06
89 16 0.19
90 64 0.75
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.37
Consensus pattern (88 bp):
CCCTAAACTTTTCCAAAATCATATTTTAAACCTAAAACTTTCCAAAATTACATTTTGACCCCAAA
ACTTTCTAAAAATTACATTTTAA
Found at i:20052184 original size:58 final size:58
Alignment explanation
Indices: 20052122--20052252 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 58
20052112 AAAACTTTCA
* * *
20052122 AAAATTACCATTTTACCCCCAAACTTCCCTGAATCCCATTTTAAACCCCGATTTCACT
1 AAAATTACCATTTTACCACCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* ** * * *
20052180 AAAATTACCATTTCACCATTAAATTTCCCTAAATCCCATTTTTAACCCCGATTTTACC
1 AAAATTACCATTTTACCACCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
*
20052238 AAAATCTATCATTTT
1 AAAAT-TACCATTTT
20052253 GTCCCCGGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
58 54 0.89
59 7 0.11
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCACCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:20064104 original size:38 final size:38
Alignment explanation
Indices: 20063984--20064111 Score: 111
Period size: 38 Copynumber: 3.3 Consensus size: 38
20063974 TCTTTATCTC
* *
20063984 TGAAATTGAAG-AAGGAGCAAGATCGTTTTCCTATCCTCT
1 TGAAATTGAAGTAA-GAGCAACATC-ATTTCCTATCCTCT
* * ** *
20064023 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGC--AACATCATTTC-CTATCCTCT
*
20064061 CGAAATTGAAGTAAGAGCAACATCATTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAACATCATTTCCTATCCTCT
20064099 TGAAATTGAAGTA
1 TGAAATTGAAGTA
20064112 GAGTGGATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
36 3 0.04
37 10 0.14
38 28 0.41
39 19 0.28
40 9 0.13
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (38 bp):
TGAAATTGAAGTAAGAGCAACATCATTTCCTATCCTCT
Found at i:20064172 original size:31 final size:30
Alignment explanation
Indices: 20064129--20064318 Score: 114
Period size: 31 Copynumber: 5.7 Consensus size: 30
20064119 TAACAAGTCT
20064129 TCATCTC-TGAAATTGAAGTAAGAGCAACG
1 TCATCTCTTGAAATTGAAGTAAGAGCAACG
**
20064158 TCATCTGCTTGAAATTGAAGTAGAGTTGGATAACACG
1 TCATCT-CTTGAAATTGAAGTA-A----GAGCA-ACG
*
20064195 TCTTCATCTCTGAAATTGAAGTAAGAGCAACG
1 TCATC-TCT-TGAAATTGAAGTAAGAGCAACG
* **
20064227 TCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACG
1 TCAT-CTCTTGAAATTGAAGTA-A----GAGCA-ACG
20064264 TCTTTATCTC-TGAAATTGAAGTAAGAGCAACG
1 TC---ATCTCTTGAAATTGAAGTAAGAGCAACG
* *
20064296 TCATCCGCTTAAAATTGAAGTAA
1 TCAT-CTCTTGAAATTGAAGTAA
20064319 AGTGGATAAC
Statistics
Matches: 125, Mismatches: 14, Indels: 42
0.69 0.08 0.23
Matches are distributed among these distances:
29 8 0.06
30 3 0.02
31 39 0.31
32 15 0.12
33 7 0.06
36 6 0.05
37 16 0.13
38 27 0.22
39 2 0.02
40 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (30 bp):
TCATCTCTTGAAATTGAAGTAAGAGCAACG
Found at i:20064209 original size:69 final size:69
Alignment explanation
Indices: 20064092--20064433 Score: 490
Period size: 69 Copynumber: 4.9 Consensus size: 69
20064082 ATCATTTCCT
* * *
20064092 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
20064156 CGTC
66 CGTC
* *
20064160 ATCTGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
20064225 CGTC
66 CGTC
20064229 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
20064294 CGTC
66 CGTC
* * * *
20064298 ATCCGCTTAAAATTGAAGTAAAG-TGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A
*
20064362 GATCATTTCC
65 -A-C--GT-C
* * *
20064372 TATCCTCTTGAAATTGAAGTAGAGTTGGATAGCAAGTCTTTATCTCTGAAATTGAAGTAAGA
1 -ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
20064434 ATTAGACAAA
Statistics
Matches: 248, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
68 58 0.23
69 133 0.54
70 1 0.00
71 1 0.00
73 1 0.00
74 1 0.00
75 20 0.08
76 33 0.13
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (69 bp):
ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTC
Found at i:20064314 original size:144 final size:144
Alignment explanation
Indices: 20063941--20064433 Score: 603
Period size: 144 Copynumber: 3.4 Consensus size: 144
20063931 TTTTTTTCTG
*
20063941 TCCGCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAG-AAGGAGCAAG
1 TCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA-GAGC-A-
** * * * * *
20064005 ATCGTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTGA
63 A-CGTCATCC---GCTTTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAAATTGA
20064070 AGTAAGAGCAACATCATTTCCTA
123 AGTAAGAGCAACATCA-TTCCTA
* *
20064093 TCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACG
1 TCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
* * *
20064158 TCATCTGC--TTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
66 TCATCCGCTTTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
*
20064221 GC-A-A-C-GT-C-A
130 GCAACATCATTCCTA
*
20064230 TCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 TCCGCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
* * *
20064295 GTCATCCGC--TTAAAATTGAAGTAAAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGA
65 GTCATCCGCTTTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
*
20064358 GCAAGATCATTTCCTA
130 GCAACATCA-TTCCTA
* *
20064374 TCCTCTTGAAATTGAAGTAGAGTTGGATAGCAAGTCTTTATCTCTGAAATTGAAGTAAGA
1 TCCGCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGA
20064434 ATTAGACAAA
Statistics
Matches: 305, Mismatches: 27, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
137 58 0.19
138 65 0.21
139 2 0.01
140 1 0.00
141 1 0.00
142 2 0.01
143 2 0.01
144 109 0.36
146 1 0.00
149 5 0.02
150 1 0.00
151 1 0.00
152 55 0.18
153 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (144 bp):
TCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
TCATCCGCTTTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
CAACATCATTCCTA
Found at i:20064384 original size:213 final size:218
Alignment explanation
Indices: 20063944--20064433 Score: 596
Period size: 213 Copynumber: 2.3 Consensus size: 218
20063934 TTTTCTGTCC
*
20063944 GCTTGAAATTGAAGTAGAG-TGGATAACATGTCTTTATCTCTGAAATTGAAG-AAGGAGCAAGAT
1 GCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA-GAGCAAGAT
* *
20064007 CGTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTGAAG
65 CG--TTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCCGAAATTGAAG
* * * * *
20064072 TAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCT
128 TAAGAGCAACATCA-GTCCTATCCGCTTAAAATTGAAGTAAAGTGGATAACAAGCCTTCATCTCT
20064137 GAAATTGAAGTAAGAGCAACGTCATCT
192 GAAATTGAAGTAAGAGCAACGTCATCT
* *
20064164 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC-A-A-C
1 GCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
* * * *
20064226 G-T-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
66 GTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCCGAAATTGAAGTAA
* * *
20064288 GAGC-A-A-C-GT-C-ATCCGCTTAAAATTGAAGTAAAGTGGATAACACGCCTTTATCTCTGAAT
131 GAGCAACATCAGTCCTATCCGCTTAAAATTGAAGTAAAGTGGATAACAAGCCTTCATCTCTGAAA
20064347 TTGAAGTAAGAGCAA-GATCATTTCCTAT
196 TTGAAGTAAGAGCAACG-TCA--T-C--T
* *
20064375 CCTCTTGAAATTGAAGTAGAGTTGGATAGCAAGTCTTTATCTCTGAAATTGAAGTAAGA
1 --GCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGA
20064434 ATTAGACAAA
Statistics
Matches: 240, Mismatches: 20, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
205 1 0.00
206 60 0.25
207 1 0.00
208 2 0.01
209 1 0.00
210 1 0.00
211 2 0.01
212 1 0.00
213 110 0.46
214 1 0.00
215 1 0.00
218 2 0.01
219 1 0.00
220 20 0.08
221 34 0.14
222 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (218 bp):
GCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
GTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCCGAAATTGAAGTAA
GAGCAACATCAGTCCTATCCGCTTAAAATTGAAGTAAAGTGGATAACAAGCCTTCATCTCTGAAA
TTGAAGTAAGAGCAACGTCATCT
Found at i:20064839 original size:11 final size:11
Alignment explanation
Indices: 20064769--20064839 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 11
20064759 TAGCTTTGAG
*
20064769 TTTAAATTAAT
1 TTTAAATTTAT
20064780 TTTAAATTTAT
1 TTTAAATTTAT
*
20064791 TTTAAAATTTAAAA
1 TTT-AAATTT--AT
*
20064805 TTTAAAATTACTT
1 TTTAAATTTA--T
*
20064818 ATTTAAGTTTAT
1 -TTTAAATTTAT
20064830 TTTAAATTTA
1 TTTAAATTTA
20064840 AATTTGAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
11 23 0.49
12 7 0.15
13 5 0.11
14 12 0.26
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:20065516 original size:10 final size:10
Alignment explanation
Indices: 20065485--20065509 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20065475 AGATATCTAC
20065485 TTACTATATA
1 TTACTATATA
20065495 TTACTATATA
1 TTACTATATA
20065505 TTACT
1 TTACT
20065510 GTCTATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (10 bp):
TTACTATATA
Found at i:20065577 original size:9 final size:9
Alignment explanation
Indices: 20065561--20065603 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
20065551 ATTACCATTT
20065561 ATTATTATC
1 ATTATTATC
*
20065570 ACTATTATC
1 ATTATTATC
*
20065579 ATTATTATT
1 ATTATTATC
20065588 ATTATTATC
1 ATTATTATC
20065597 -TTATTAT
1 ATTATTAT
20065604 TTAAGGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTATC
Found at i:20066760 original size:162 final size:162
Alignment explanation
Indices: 20066440--20066785 Score: 491
Period size: 162 Copynumber: 2.1 Consensus size: 162
20066430 TTTTAATTAG
* * * * *
20066440 TTTTCAATTTAATCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCCTTTTTTTGCTTA
1 TTTTCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCCTTTTCTGGCTTA
* *
20066505 TTTATGCATTTAGTCCCTGATATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTT
66 TTTATGCATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCTAAATCAACTTTTATTT
* *
20066570 AATTACAAAATTGGCCCAATAATTTTTCAAGG
131 AATTACAAAATTGGCCAAATAATTTTTCAAGA
* * *
20066602 TTTAT-AAATTAGTCCTTTGACTGTTTGACTACACCAGGGGCTGCCATGTGTCAC-TTTCTGGCT
1 TTT-TCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTC-CTTTTCTGGCT
* *
20066665 TATTTATGCATTTAGTCCCTGACATTTTTTATTTATTTTAATTTAATCCCTAAATTAACTTTTAT
64 TATTTATGCATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCTAAATCAACTTTTAT
* *
20066730 TTAATTACAAAATTGGTCTAAAT-TTTTTTCAAGA
129 TTAATTACAAAATTGG-CCAAATAATTTTTCAAGA
*
20066764 TTTTCAAATTAATCCCTTGACT
1 TTTTCAAATTAATCCTTTGACT
20066786 TCTGGATGCT
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
161 1 0.01
162 155 0.96
163 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (162 bp):
TTTTCAAATTAATCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCCTTTTCTGGCTTA
TTTATGCATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCTAAATCAACTTTTATTT
AATTACAAAATTGGCCAAATAATTTTTCAAGA
Found at i:20066893 original size:30 final size:30
Alignment explanation
Indices: 20066855--20067154 Score: 270
Period size: 30 Copynumber: 10.0 Consensus size: 30
20066845 CCCTAAATTA
*
20066855 TCTAAAAATTACATTTCGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* *
20066885 TCTGAAAATTATATTTTGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
*
20066915 T-TCCAAAATTACATTTTGACCCCAAAACTT
1 TCT-AAAAATTACATTTTGACCCCAAAACTT
* ** * * * *
20066945 TTTGGAAATTATATTTTAACCCTAAAAATGT
1 TCTAAAAATTACATTTTGACCCCAAAACT-T
* *
20066976 TC-CAAAATTACATTTTAACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* **
20067005 TCTAAAAATTATATTTTGGTCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* **
20067035 TCTAAAAATTATATTTTGACCCTTAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* * *
20067065 T-TCCAAAATCATATTTTGACCCCAAAA-TT
1 TCT-AAAAATTACATTTTGACCCCAAAACTT
* *
20067094 TCTAAAAAAATTGCATTTTTACCCCAAAACTT
1 TCT--AAAAATTACATTTTGACCCCAAAACTT
* *
20067126 TC-AAAAATTACCA-TTTCACCCCCAAACTT
1 TCTAAAAATTA-CATTTTGACCCCAAAACTT
20067155 CCCTAAATCC
Statistics
Matches: 222, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
29 29 0.13
30 167 0.75
31 22 0.10
32 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.35
Consensus pattern (30 bp):
TCTAAAAATTACATTTTGACCCCAAAACTT
Found at i:20067013 original size:90 final size:91
Alignment explanation
Indices: 20066889--20067135 Score: 304
Period size: 90 Copynumber: 2.7 Consensus size: 91
20066879 AAACTTTCTG
** * **
20066889 AAAATTATATTTTGACCCCAAAACTTT-TCCAAAATTACATTTTGACCCCAAAACTTTTTGGAAA
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAAATTACATTTTGACCCCAAAACTTTCTAAAAA
20066953 TTATATTTTAACCCTAAAAATGTTCC
66 TTATATTTTAACCCTAAAAATGTTCC
* * * **
20066979 AAAATTACATTTTAACCCCAAAACTTTCT-AAAAATTATATTTTGGTCCCAAAACTTTCTAAAAA
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAAATTACATTTTGACCCCAAAACTTTCTAAAAA
* * * *
20067043 TTATATTTTGACCCTTAAACTTTTCC
66 TTATATTTTAACCCTAAAAATGTTCC
* * *
20067069 AAAATCATATTTTGACCCCAAAA-TTTCTAAAAAAATTGCATTTTTACCCCAAAACTTTC-AAAA
1 AAAATTATATTTTGACCCCAAAACTTTCT-AAAAAATTACATTTTGACCCCAAAACTTTCTAAAA
20067132 ATTA
65 ATTA
20067136 CCATTTCACC
Statistics
Matches: 133, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
89 5 0.04
90 103 0.77
91 25 0.19
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (91 bp):
AAAATTATATTTTGACCCCAAAACTTTCTAAAAAATTACATTTTGACCCCAAAACTTTCTAAAAA
TTATATTTTAACCCTAAAAATGTTCC
Found at i:20067191 original size:58 final size:58
Alignment explanation
Indices: 20067129--20067258 Score: 215
Period size: 58 Copynumber: 2.2 Consensus size: 58
20067119 AAAACTTTCA
*
20067129 AAAATTACCATTTCACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACT
1 AAAATTACCATTTCACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* * *
20067187 AAAATTACCATTTCACCCTCAAACTTCCCTAAATCCCATTTTTACCCCCGATTTCACC
1 AAAATTACCATTTCACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
20067245 AAAATCTACCATTT
1 AAAAT-TACCATTT
20067259 TGTCCCCGGG
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 59 0.88
59 8 0.12
ACGTcount: A:0.32, C:0.35, G:0.02, T:0.31
Consensus pattern (58 bp):
AAAATTACCATTTCACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:20067226 original size:28 final size:27
Alignment explanation
Indices: 20067136--20067227 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 27
20067126 TCAAAAATTA
20067136 CCATTTCACCCCCAAACTTCCCTAAATC
1 CCATTTCA-CCCCAAACTTCCCTAAATC
* * * * *
20067164 CCATTTTAAACCCC-GATTTCACTAAAATTA
1 CCA-TTT-CACCCCAAACTTCCCT-AAA-TC
20067194 CCATTTCACCCTCAAACTTCCCTAAATC
1 CCATTTCACCC-CAAACTTCCCTAAATC
20067222 CCATTT
1 CCATTT
20067228 TTACCCCCGA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
28 20 0.42
29 17 0.35
30 11 0.23
ACGTcount: A:0.30, C:0.38, G:0.01, T:0.30
Consensus pattern (27 bp):
CCATTTCACCCCAAACTTCCCTAAATC
Found at i:20070183 original size:238 final size:237
Alignment explanation
Indices: 20069739--20070208 Score: 633
Period size: 238 Copynumber: 2.0 Consensus size: 237
20069729 TGGAATTATC
* * *
20069739 ATTTCTTAATTCCCCTTTAAACTCTTTTCCCAACAAAATTTTAAATTGATTTTTTTAATAAACAC
1 ATTTCTTAATTCCCCTTTAAACCCTTTTCCCAACAAAATTTCAAACTGATTTTTTTAATAAACAC
* * *
20069804 GAACTAATTATATTAACCCATCATAAATGAAAAGTTATTCGTTTTATCAATCTCAAGGTCTGCTA
66 GAACTAATTATATTAACCCATCATAAATGAAAAGTTACTCATTTTATCAATCCCAAGGTCTGCTA
* *** ** * * * * *
20069869 CGAGCTTTTCAGGTGGGTTTTCAAACATCTGTGTGTTCATATTTCTTTCCAAAGTAATTTTAGCA
131 CGAGCTCTTCAGGTGAACTTTCAAACATCTGTACGTTCATACTCCTCTCCAAAGTAATCTTAACA
20069934 AGACAATCAACAACTTGATTTTTTTCCCTTGAAATATGTTTA
196 AGACAATCAACAACTTGATTTTTTTCCCTTGAAATATGTTTA
**
20069976 ATTTCTTAATTTTCCTTTAAACCCTTTTCCCAACAAAATTTCAAACTGATTTTTTTTAATAAACA
1 ATTTCTTAATTCCCCTTTAAACCCTTTTCCCAACAAAATTTCAAACTGA-TTTTTTTAATAAACA
* * *
20070041 TGAACTAATTATATTAAGCTATCATAAAT-AAAAGGTTACTCATTTTATCAATCCCAAGGTC-GA
65 CGAACTAATTATATTAACCCATCATAAATGAAAA-GTTACTCATTTTATCAATCCCAAGGTCTG-
* *
20070104 CTACGAGCTCTTCAGGTGAACTTTCAAACGTCTGTACG-TCAGTACTCCTCTCCGAAA-TCATCT
128 CTACGAGCTCTTCAGGTGAACTTTCAAACATCTGTACGTTCA-TACTCCTCTCC-AAAGTAATCT
* *
20070167 TAACAAGACGATCAACAACTTGATTTTTTTCTCTTGAAATAT
191 TAACAAGACAATCAACAACTTGATTTTTTTCCCTTGAAATAT
20070209 TCATGATTTG
Statistics
Matches: 202, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
237 52 0.26
238 147 0.73
239 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (237 bp):
ATTTCTTAATTCCCCTTTAAACCCTTTTCCCAACAAAATTTCAAACTGATTTTTTTAATAAACAC
GAACTAATTATATTAACCCATCATAAATGAAAAGTTACTCATTTTATCAATCCCAAGGTCTGCTA
CGAGCTCTTCAGGTGAACTTTCAAACATCTGTACGTTCATACTCCTCTCCAAAGTAATCTTAACA
AGACAATCAACAACTTGATTTTTTTCCCTTGAAATATGTTTA
Found at i:20074090 original size:20 final size:21
Alignment explanation
Indices: 20074067--20074115 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
20074057 TTAGTTGTTC
20074067 CGGTAGAAGC-ATACTTGTAT
1 CGGTAGAAGCTATACTTGTAT
*
20074087 CGGTAGAA-CTATAGTTGTAT
1 CGGTAGAAGCTATACTTGTAT
*
20074107 CAGTAGAAG
1 CGGTAGAAG
20074116 AGGAGTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (21 bp):
CGGTAGAAGCTATACTTGTAT
Found at i:20077127 original size:20 final size:21
Alignment explanation
Indices: 20077104--20077150 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
20077094 AGTTGTTCCG
20077104 GTAGAAGC-ATACTTGTATCA
1 GTAGAAGCTATACTTGTATCA
* *
20077124 GTAGAA-CTGTAGTTGTATCA
1 GTAGAAGCTATACTTGTATCA
20077144 GTAGAAG
1 GTAGAAG
20077151 AGGAGTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (21 bp):
GTAGAAGCTATACTTGTATCA
Found at i:20077157 original size:20 final size:20
Alignment explanation
Indices: 20077116--20077157 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20077106 AGAAGCATAC
* *
20077116 TTGTATCAGTAGAACTGTAG
1 TTGTATCAGTAGAACAGGAG
*
20077136 TTGTATCAGTAGAAGAGGAG
1 TTGTATCAGTAGAACAGGAG
20077156 TT
1 TT
20077158 CTACCGATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (20 bp):
TTGTATCAGTAGAACAGGAG
Found at i:20083013 original size:15 final size:15
Alignment explanation
Indices: 20082993--20083024 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20082983 TAAGTTTTAG
20082993 AAACTCAACAAACCC
1 AAACTCAACAAACCC
*
20083008 AAACTCAACAAGCCC
1 AAACTCAACAAACCC
20083023 AA
1 AA
20083025 TTACATGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.38, G:0.03, T:0.06
Consensus pattern (15 bp):
AAACTCAACAAACCC
Found at i:20084687 original size:30 final size:30
Alignment explanation
Indices: 20084630--20084760 Score: 130
Period size: 30 Copynumber: 4.4 Consensus size: 30
20084620 TTTGATTTGG
* *
20084630 ACCCT-AAACTTTCCATAAATTCA-ATTTTA
1 ACCCTCAAACTTTTC-TAAAATCACATTTTA
*
20084659 ACCCTCGAACTTCTTC-AAAATCACATTTTA
1 ACCCTCAAACTT-TTCTAAAATCACATTTTA
20084689 ACCCTCAAACTTTTCTAAAATCACATTTTA
1 ACCCTCAAACTTTTCTAAAATCACATTTTA
* *
20084719 ACCC-CTAAACTTTTCCAAATAT-ACATTTTG
1 ACCCTC-AAACTTTTCTAAA-ATCACATTTTA
20084749 ACCAC-CAAACTT
1 ACC-CTCAAACTT
20084761 CCCAAAAATT
Statistics
Matches: 89, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.17
30 68 0.76
31 6 0.07
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (30 bp):
ACCCTCAAACTTTTCTAAAATCACATTTTA
Found at i:20084774 original size:30 final size:31
Alignment explanation
Indices: 20084675--20084785 Score: 88
Period size: 30 Copynumber: 3.6 Consensus size: 31
20084665 GAACTTCTTC
* * * *
20084675 AAAATCACATTTT-AACCCTCAAACTTT-TCT
1 AAAATTACATTTTGACCCCT-AAACTTTCCCA
* * *
20084705 AAAATCACATTTTAACCCCTAAACTTTTCCA
1 AAAATTACATTTTGACCCCTAAACTTTCCCA
*
20084736 AATA-TACATTTTGACCACC-AAAC-TTCCCA
1 AAAATTACATTTTGACC-CCTAAACTTTCCCA
20084765 AAAATTACATTTTTGACCCCT
1 AAAATTACA-TTTTGACCCCT
20084786 TTTTTCTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
29 8 0.12
30 40 0.60
31 19 0.28
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (31 bp):
AAAATTACATTTTGACCCCTAAACTTTCCCA
Found at i:20086878 original size:51 final size:51
Alignment explanation
Indices: 20086823--20086925 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
20086813 TATTACTAAA
20086823 TAGAGAATTGGTCATAACAAAACGGATTCCTTGATAAGGTAGAAGTCAACG
1 TAGAGAATTGGTCATAACAAAACGGATTCCTTGATAAGGTAGAAGTCAACG
20086874 TAGAGAATTGGTCATAACAAAACGGATTCCTTGATAAGGTAGAAGTCAACG
1 TAGAGAATTGGTCATAACAAAACGGATTCCTTGATAAGGTAGAAGTCAACG
20086925 T
1 T
20086926 GGTCGTGCGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (51 bp):
TAGAGAATTGGTCATAACAAAACGGATTCCTTGATAAGGTAGAAGTCAACG
Found at i:20088751 original size:7 final size:7
Alignment explanation
Indices: 20088736--20088772 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
20088726 GATGTGTTAT
20088736 AAAAAAG
1 AAAAAAG
*
20088743 AAAATAG
1 AAAAAAG
20088750 AAAAAAG
1 AAAAAAG
20088757 AAAAAAG
1 AAAAAAG
20088764 AAGAAAAG
1 AA-AAAAG
20088772 A
1 A
20088773 TGGGTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:20089714 original size:4 final size:4
Alignment explanation
Indices: 20089705--20089758 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
20089695 CGATGAAGAA
* *
20089705 AAAT AAAT AAAT AAAT AAAT AAA- AAGAGA AAAA AAAT AAA- AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-A-T AAAT AAAT AAAT AAAT AAAT
20089752 AAAT AAA
1 AAAT AAA
20089759 AGAAAAGGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
3 8 0.18
4 33 0.75
5 1 0.02
6 2 0.05
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (4 bp):
AAAT
Found at i:20089722 original size:12 final size:11
Alignment explanation
Indices: 20089703--20089758 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
20089693 TTCGATGAAG
20089703 AAAAATAAATA
1 AAAAATAAATA
20089714 AATAAATAAATA
1 AA-AAATAAATA
* *
20089726 AAAAGAGAAAAA
1 AAAA-ATAAATA
*
20089738 AAATAAAAAATA
1 AAA-AATAAATA
20089750 AAAAATAAA
1 AAAAATAAA
20089759 AGAAAAGGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 9 0.24
12 27 0.73
13 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:20089745 original size:7 final size:7
Alignment explanation
Indices: 20089703--20089759 Score: 60
Period size: 7 Copynumber: 7.4 Consensus size: 7
20089693 TTCGATGAAG
20089703 AAAAATA
1 AAAAATA
20089710 AATAAATA
1 AA-AAATA
20089718 AATAAATAA
1 AA-AAAT-A
*
20089727 AAAGAGAAA
1 AAA-A-ATA
20089736 AAAAATA
1 AAAAATA
20089743 AAAAATA
1 AAAAATA
20089750 AAAAATA
1 AAAAATA
20089757 AAA
1 AAA
20089760 GAAAAGGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 21 0.48
8 14 0.32
9 8 0.18
10 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:20089749 original size:28 final size:30
Alignment explanation
Indices: 20089700--20089764 Score: 91
Period size: 28 Copynumber: 2.2 Consensus size: 30
20089690 GGATTCGATG
20089700 AAGAAAAATAAATAAATAAATAAATAAA-AA
1 AAGAAAAATAAATAAATAAATAAA-AAATAA
*
20089730 GAGAAAAA-AAATAAA-AAATAAAAAATAA
1 AAGAAAAATAAATAAATAAATAAAAAATAA
20089758 AAGAAAA
1 AAGAAAA
20089765 GGAGAGATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.09
28 15 0.47
29 7 0.22
30 7 0.22
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (30 bp):
AAGAAAAATAAATAAATAAATAAAAAATAA
Found at i:20090681 original size:49 final size:48
Alignment explanation
Indices: 20090607--20090810 Score: 219
Period size: 49 Copynumber: 4.1 Consensus size: 48
20090597 AAATGAGCCG
*
20090607 CGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGTGAATC
1 CGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGCGAA-C
* * * * * *
20090656 CGGTACCACGAAGATTTAAAAGGAAAGGTTGAGGCCGTAACGGCAAACC
1 CGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGCGAA-C
* * * * *
20090705 CGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGTAGCAACGGCGAAC
1 CGGTACCAT-GAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGCGAAC
** * *
20090754 CTGGTACCATGAAGATTTGAAGGGAAAGGTTGAGACCGTAACGACGAAC
1 C-GGTACCATGAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGCGAAC
20090803 TCGGTACC
1 -CGGTACC
20090811 TTAGAGACGT
Statistics
Matches: 124, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 87 0.70
50 37 0.30
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (48 bp):
CGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGCGAAC
Found at i:20090787 original size:99 final size:99
Alignment explanation
Indices: 20090616--20090827 Score: 284
Period size: 99 Copynumber: 2.2 Consensus size: 99
20090606 GCGGTACCAT
* * * *
20090616 GAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGTGAATCCGGTACCACGAAGATTTAAAAGGAA
1 GAAGATGTGATGGGAAAGGTTGAGGTAGCAACGGCGAATCCGGTACCACGAAGATTTAAAAGGAA
* *
20090681 AGGTTGAGGCCGTAACGGCAAACCCGATACCTTA
66 AGGTTGAGACCGTAACGACAAACCCGATACCTTA
* * *
20090715 GAAGATGTGATGGGAAAGGTTGAGGTAGCAACGGCGAA-CCTGGTACCATGAAGATTTGAAGGGA
1 GAAGATGTGATGGGAAAGGTTGAGGTAGCAACGGCGAATCC-GGTACCACGAAGATTTAAAAGGA
* * *
20090779 AAGGTTGAGACCGTAACGACGAACTCGGTACCTTA
65 AAGGTTGAGACCGTAACGACAAACCCGATACCTTA
*
20090814 G-AGACGTGATGGGA
1 GAAGATGTGATGGGA
20090828 GTCGCAACGG
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
98 14 0.14
99 85 0.86
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.18
Consensus pattern (99 bp):
GAAGATGTGATGGGAAAGGTTGAGGTAGCAACGGCGAATCCGGTACCACGAAGATTTAAAAGGAA
AGGTTGAGACCGTAACGACAAACCCGATACCTTA
Found at i:20091374 original size:40 final size:40
Alignment explanation
Indices: 20091196--20091373 Score: 221
Period size: 40 Copynumber: 4.4 Consensus size: 40
20091186 ATCTCGAGCA
* * * *
20091196 TGGGGCAGATAGAAGACATCATTCAATCTCTTACCCTGATCG
1 TGGGGTAGATTGAAGACA-CA-CCAATCTCTTACCCCGATCG
20091238 TGGGGTAGATTGAAGACACACCAATCTCTTACCCCGATCG
1 TGGGGTAGATTGAAGACACACCAATCTCTTACCCCGATCG
* * * * *
20091278 TGGGGTAGATTAAAGGCATACCAATCTCTTACCCTGATTG
1 TGGGGTAGATTGAAGACACACCAATCTCTTACCCCGATCG
* * *
20091318 TGAGGTAGATTGAAGATACACCAATCTCTTACCCCGATCT
1 TGGGGTAGATTGAAGACACACCAATCTCTTACCCCGATCG
*
20091358 TGGGGCAGATTGAAGA
1 TGGGGTAGATTGAAGA
20091374 TTATCCAATC
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 99 0.85
41 2 0.02
42 16 0.14
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
TGGGGTAGATTGAAGACACACCAATCTCTTACCCCGATCG
Found at i:20091382 original size:80 final size:81
Alignment explanation
Indices: 20091196--20091391 Score: 263
Period size: 80 Copynumber: 2.4 Consensus size: 81
20091186 ATCTCGAGCA
* * * *
20091196 TGGGGCAGATAGAAGACATCATTCAATCTCTTACCCTGATCGTGGGGTAGATTGAAGACACACCA
1 TGGGGCAGATTGAAG-CATTATCCAATCTCTTACCCTGATCGTGAGGTAGATTGAAGACACACCA
20091261 ATCTCTTACCCCGATCG
65 ATCTCTTACCCCGATCG
* * * *
20091278 TGGGGTAGATTAAAGGCA-TA-CCAATCTCTTACCCTGATTGTGAGGTAGATTGAAGATACACCA
1 TGGGGCAGATTGAA-GCATTATCCAATCTCTTACCCTGATCGTGAGGTAGATTGAAGACACACCA
*
20091341 ATCTCTTACCCCGATCT
65 ATCTCTTACCCCGATCG
*
20091358 TGGGGCAGATTGAAG-ATTATCCAATCTTTTACCC
1 TGGGGCAGATTGAAGCATTATCCAATCTCTTACCC
20091392 CTAATCAAGA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 3 0.03
80 80 0.81
81 1 0.01
82 13 0.13
83 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (81 bp):
TGGGGCAGATTGAAGCATTATCCAATCTCTTACCCTGATCGTGAGGTAGATTGAAGACACACCAA
TCTCTTACCCCGATCG
Found at i:20091454 original size:42 final size:43
Alignment explanation
Indices: 20091361--20091459 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
20091351 CCGATCTTGG
* *
20091361 GGCAGATTGAAGATTATCCAATCTTTTACCCCTAATCAAGAGA
1 GGCAGATTGAAGACTATCCAATCTTTTACCCCTAATCAAAAGA
* * *
20091404 GGCAGATTGAAGACTATTCGATCTTTTA-CCCTAGTCAAAA-A
1 GGCAGATTGAAGACTATCCAATCTTTTACCCCTAATCAAAAGA
*
20091445 GGGTAGATTGAAGAC
1 -GGCAGATTGAAGAC
20091460 CATCTAAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
41 1 0.02
42 23 0.47
43 25 0.51
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (43 bp):
GGCAGATTGAAGACTATCCAATCTTTTACCCCTAATCAAAAGA
Found at i:20091979 original size:85 final size:85
Alignment explanation
Indices: 20091836--20092001 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
20091826 AAACCCCCAT
* * *
20091836 CTTCCTGATGAGGTACAGAGAATTAGGTCAAAGCAATAAAGCAGTCATCTTTCTGATGATAAACA
1 CTTCCTGATGAGATACAGAGAACTAGGTCAAAGCAATAAAGCAGTCATCTTTCTGATGAGAAACA
*
20091901 GAGAAGTGGACCAAATTCGC
66 GAGAAGTAGACCAAATTCGC
* *
20091921 CTTCCTGATGAGATACAGAGAACT-GGATTAAATCAATGAAATG-A-TCATC-TTCTTGATGAGA
1 CTTCCTGATGAGATACAGAGAACTAGG-TCAAAGCAAT-AAA-GCAGTCATCTTTC-TGATGAGA
* *
20091982 TACATAGAAGTAGACCAAAT
62 AACAGAGAAGTAGACCAAAT
20092002 CAATAAAGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
84 5 0.07
85 59 0.86
86 4 0.06
87 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAACTAGGTCAAAGCAATAAAGCAGTCATCTTTCTGATGAGAAACA
GAGAAGTAGACCAAATTCGC
Found at i:20092373 original size:85 final size:85
Alignment explanation
Indices: 20092251--20092417 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
20092241 CAAACCTCAT
* * * ** *
20092251 CTTCCTGATGAGATATAGAGAAGTTGGTCAAGGCAATAAAGC-GATCATCTTTTTTATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTTGATCAAAGCAATAAAGCAG-TCATCTTCCTGATGAGATAC
20092315 AGAGAAGTAGACCAAATCCGC
65 AGAGAAGTAGACCAAATCCGC
* * * *
20092336 CTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATAAGGCAGTCATCTTCCTGATGAGATATA
1 CTTCCTGATGAGATACAGAGAAGTTGATCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACA
20092401 GAGAAGTAGACCAAATC
66 GAGAAGTAGACCAAATC
20092418 AATGAGGTGA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 70 0.99
86 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTTGATCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACA
GAGAAGTAGACCAAATCCGC
Found at i:20092454 original size:208 final size:207
Alignment explanation
Indices: 20091505--20092655 Score: 1125
Period size: 208 Copynumber: 5.5 Consensus size: 207
20091495 TCAAACCTCA
* * * * * * * *
20091505 TCTTCCTGATGAGATACAGAGAAGTGGGTCAGA-CAACGAATCGGTCATCTTTCTGATAAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAA-TAAGCAGTCATCTTCCTGATGAGATAC
* * * * * * *
20091569 AGAGTAG-CGAACCAAAACAATGAAGCGAAGCTCCATGGGAGTAAAACTTCAAACCCTATCTTCC
65 AGAGAAGTAG-ACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCC
* * * * * * *
20091633 TAATGAGATATAGAGAAGTCGGGTCGAAGCAATAAAG-TAGTCATC-TTCTTGACGAGATATAGA
129 TGATGAGATACAGAGAAGT-TGGTCAAAGCAATAAAGCGA-TCATCTTTC-TGATGAGATACAGA
*
20091696 GAAATGAACCAAATCCG
191 GAAGTGAACCAAATCCG
* * * ** * * *
20091713 TCTTCTTGATGAGATACAAAGAAGTTGA-TAAAAAAAGAAGCGGTCATCTTCCTGATAAGATACA
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATAAGCAGTCATCTTCCTGATGAGATACA
* * * * * * *
20091777 GAGAAGTGGACCTATTCAACGAAGCGGAGCTTAATGTGAGTGAAACTTTAAACCCCCATCTTCCT
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAA-CCCCATCTTCCT
* * *
20091842 GATGAGGTACAGAGAA-TTAGGTCAAAGCAATAAAGC-AGTCATCTTTCTGATGATAAACAGAGA
130 GATGAGATACAGAGAAGTT-GGTCAAAGCAATAAAGCGA-TCATCTTTCTGATGAGATACAGAGA
* *
20091905 AGTGGACCAAATTCG
193 AGTGAACCAAATCCG
* * *
20091920 CCTTCCTGATGAGATACAGAGAACTGGATTAAATCAATGAA--ATGATCATCTTCTTGATGAGAT
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAAT-AAGCA-G-TCATCTTCCTGATGAGAT
* * * * *
20091983 ACATAGAAGTAGACCAAATCAATAAAGCAAAGCTCAATGTGAGTAAAAATTCAAACCCCTATCTT
63 ACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCC-ATCTT
* * * * * * *
20092048 CTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCCTGATGAGATACAAAG
127 CCTGATGAGATACAGAGAAGTTGGTCAAAGCAATAAAGCGATCATCTTTCTGATGAGATACAGAG
*
20092113 AAGTGAACCAAATTCG
192 AAGTGAACCAAATCCG
* * * *
20092129 TCTTCCTGATGAGATAC--AGAAGTGGATTGAAA-CAATGAGGCGGTCATCTTCTTGATGAGATT
1 TCTTCCTGATGAGATACAGAGAAGTGGATT-AAATCAAT-AAGCAGTCATCTTCCTGATGAGATA
* *** * * *
20092191 CAGTGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAACT-AGACTTCAAACCTCATCTTC
64 CAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT-GTGAGTGAAACTTCAAACCCCATCTTC
* * * *
20092255 CTGATGAGATATAGAGAAGTTGGTCAAGGCAATAAAGCGATCATCTTTTTTATGAGATACAGAGA
128 CTGATGAGATACAGAGAAGTTGGTCAAAGCAATAAAGCGATCATCTTTCTGATGAGATACAGAGA
20092320 AGT-AGACCAAATCCG
193 AGTGA-ACCAAATCCG
* * *
20092335 CCTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATAAGGCAGTCATCTTCCTGATGAGATAT
1 TCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATAA-GCAGTCATCTTCCTGATGAGATAC
* * *
20092400 AGAGAAGTAGACCAAATCAATGAGGTGAAGCTCAATACG-GA-TGAGACTTCAAACCCCATCTTC
65 AGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT--GTGAGTGAAACTTCAAACCCCATCTTC
* * * ** * * **
20092463 CTAATGCGATACAGAGAAGTTGGTCAAAACAATAAATTGGTCAT-TTTCCTGACGAGATGTAGAG
128 CTGATGAGATACAGAGAAGTTGGTCAAAGCAATAAAGCGATCATCTTT-CTGATGAGATACAGAG
*
20092527 AAGTGAACCAAATCAG
192 AAGTGAACCAAATCCG
* *
20092543 TCTTCCTGATAAGATACAGAGAAGTAGATTAAAAT-AATGAAGCAGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATT-AAATCAAT-AAGCAGTCATCTTCCTGATGAGATA
* *
20092607 CAGAGAAGTAGATCAATTCAATGAAGCGAAGCTCAATGT-AGTGAAACTT
64 CAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTT
20092656 TCACTCCCCA
Statistics
Matches: 780, Mismatches: 133, Indels: 61
0.80 0.14 0.06
Matches are distributed among these distances:
205 1 0.00
206 90 0.12
207 229 0.29
208 303 0.39
209 156 0.20
210 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (207 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATAAGCAGTCATCTTCCTGATGAGATACA
GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTG
ATGAGATACAGAGAAGTTGGTCAAAGCAATAAAGCGATCATCTTTCTGATGAGATACAGAGAAGT
GAACCAAATCCG
Found at i:20094824 original size:14 final size:14
Alignment explanation
Indices: 20094805--20094832 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20094795 ATTATATACA
20094805 TGGGCAATGCTTAG
1 TGGGCAATGCTTAG
20094819 TGGGCAATGCTTAG
1 TGGGCAATGCTTAG
20094833 GCAACCGTCT
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:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (14 bp):
TGGGCAATGCTTAG
Found at i:20095209 original size:18 final size:16
Alignment explanation
Indices: 20095177--20095225 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
20095167 TTGGGATGAG
20095177 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
20095193 AATAAATTTGATTAATT-
1 AATAAATTT--TTAATTA
*
20095210 AA-AAATTTTAAATTA
1 AATAAATTTTTAATTA
20095225 A
1 A
20095226 TTACAACTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.17
15 1 0.03
16 15 0.52
17 2 0.07
18 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:20096354 original size:18 final size:17
Alignment explanation
Indices: 20096327--20096368 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
20096317 ATCTAAAAAT
*
20096327 AATATTTAAAAATATATA
1 AATATATAAAAATA-ATA
20096345 AATATATAAAAATAATA
1 AATATATAAAAATAATA
20096362 AACTATA
1 AA-TATA
20096369 ATTTTTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATATAAAAATAATA
Found at i:20096874 original size:30 final size:31
Alignment explanation
Indices: 20096840--20096906 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
20096830 TAATAAAGGT
* *
20096840 AAAATTACGCTTTGA-CCTCTT-AAAATTATA
1 AAAATTACGATTTAATCCT-TTAAAAATTATA
*
20096870 AAAATT-TGATTTAATCCTTTAAAAATTATA
1 AAAATTACGATTTAATCCTTTAAAAATTATA
20096900 AAAATTA
1 AAAATTA
20096907 TAAATTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.39
Consensus pattern (31 bp):
AAAATTACGATTTAATCCTTTAAAAATTATA
Found at i:20096913 original size:16 final size:16
Alignment explanation
Indices: 20096891--20096928 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
20096881 TAATCCTTTA
20096891 AAAATTA-TAAAAATT
1 AAAATTATTAAAAATT
20096906 ATAAATTATTAAAAATT
1 A-AAATTATTAAAAATT
20096923 AAAATT
1 AAAATT
20096929 TAATTTCGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 11 0.52
17 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATTATTAAAAATT
Found at i:20100090 original size:59 final size:58
Alignment explanation
Indices: 20100020--20100305 Score: 217
Period size: 59 Copynumber: 4.8 Consensus size: 58
20100010 GAGAATTTTA
*
20100020 GGGTTAAAATGTAATTTTAGG-AAAGTTT-GGGGTCAAAATGTAATTTTTGGAAGTTTG
1 GGGTCAAAATGTAATTTT-GGAAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAGTTTG
* * * * * * * *
20100077 GGAGACCAAAATGTTATCTCGTG-AAAGTTTGGGGGTCAAAATTTGATTTTAGG-AGATTTG
1 GG-G-TCAAAATGTAATTTTG-GAAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAG-TTTG
* * * * *
20100137 GGAGTAAAAATGTGATTTTGGAAAAG-TTCGAGAGTCAAAATGTAA-TTTTGGAAAAATTTAG
1 GG-GTCAAAATGTAATTTTGGAAAAGTTTAG-GGGTCAAAATGTAATTTTTGG--AAGTTT-G
* * * * *
20100198 GGGTTAAAAGGCAATTTTGGAAAAGTTTAGGGGTTAAAATGTAA-TTTTGAAAAGTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTTG-GAAGTTTG
* **
20100256 AGGGTCAAAATGTAATTTTGGAAAAGTTTAAGGGTCAAAATACAATTTTT
1 -GGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTT
20100306 AAATAAAATA
Statistics
Matches: 179, Mismatches: 35, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
57 2 0.01
58 12 0.07
59 88 0.49
60 70 0.39
61 7 0.04
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (58 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAGTTTG
Found at i:20100117 original size:30 final size:29
Alignment explanation
Indices: 20100040--20100118 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
20100030 GTAATTTTAG
**
20100040 GAAAGTTT-GGGGTCAAAATGTAATTTTT
1 GAAAGTTTGGGGGTCAAAATGTAATTCGT
* ** *
20100068 GGAAGTTTGGGAGACCAAAATGTTATCTCGT
1 GAAAGTTTGGG-GGTCAAAATGTAAT-TCGT
20100099 GAAAGTTTGGGGGTCAAAAT
1 GAAAGTTTGGGGGTCAAAAT
20100119 TTGATTTTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 7 0.18
29 2 0.05
30 18 0.46
31 12 0.31
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (29 bp):
GAAAGTTTGGGGGTCAAAATGTAATTCGT
Found at i:20100201 original size:89 final size:89
Alignment explanation
Indices: 20100140--20100304 Score: 240
Period size: 89 Copynumber: 1.8 Consensus size: 89
20100130 AGATTTGGGA
* *
20100140 GTAAAAATGTGATTTTGGAAAAGTTCGAGAGTCAAAATGTAATTTTGGAAAAATTTAGGGGTTAA
1 GTAAAAATGTAATTTT-GAAAAGTTCGAGAGTCAAAATGTAATTTTGGAAAAATTTAGGGGTCAA
*
20100205 AAGGCAATTTTGGAAAAGTTTAGGG
65 AATGCAATTTTGGAAAAGTTTAGGG
* * * * *
20100230 GTTAAAATGTAATTTTGAAAAGTTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTAAGGGTCAAA
1 GTAAAAATGTAATTTTGAAAAGTTCGAGAGTCAAAATGTAATTTTGGAAAAATTTAGGGGTCAAA
*
20100295 ATACAATTTT
66 ATGCAATTTT
20100305 TAAATAAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 52 0.79
90 14 0.21
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (89 bp):
GTAAAAATGTAATTTTGAAAAGTTCGAGAGTCAAAATGTAATTTTGGAAAAATTTAGGGGTCAAA
ATGCAATTTTGGAAAAGTTTAGGG
Found at i:20100304 original size:30 final size:30
Alignment explanation
Indices: 20100143--20100296 Score: 193
Period size: 30 Copynumber: 5.2 Consensus size: 30
20100133 TTTGGGAGTA
* ** *
20100143 AAAATGTGATTTTGGAAAAGTTCGAGAGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
* * *
20100173 AAAATGTAATTTTGGAAAAATTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
* * * *
20100203 AAAAGGCAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
*
20100233 AAAATGTAATTTT-GAAAAGTTTGAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
20100262 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTC
20100292 AAAAT
1 AAAAT
20100297 ACAATTTTTA
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
29 26 0.24
30 81 0.76
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAAGGGTC
Found at i:20100974 original size:27 final size:27
Alignment explanation
Indices: 20100943--20100995 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
20100933 TTCCTTTTTT
* *
20100943 TATTTTCAAATCTGTTTTGT-TTTTTAG
1 TATTTTAAAATCTATTTT-TATTTTTAG
20100970 TATTTTAAAATCTATTTTTATTTTTA
1 TATTTTAAAATCTATTTTTATTTTTA
20100996 AAACAGAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (27 bp):
TATTTTAAAATCTATTTTTATTTTTAG
Found at i:20101403 original size:29 final size:29
Alignment explanation
Indices: 20101368--20101433 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
20101358 GTAAAAATAA
*
20101368 ATAAATAATTAA-TAAGTATATTAATATAT
1 ATAAATAATAAATTAA-TATATTAATATAT
*
20101397 ATAAATAATAAATTAATATATTAATATCT
1 ATAAATAATAAATTAATATATTAATATAT
*
20101426 AAAAATAA
1 ATAAATAA
20101434 AAACGCTTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (29 bp):
ATAAATAATAAATTAATATATTAATATAT
Found at i:20102570 original size:48 final size:48
Alignment explanation
Indices: 20102513--20102639 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 48
20102503 CATCTCTTGG
* * * *
20102513 TCCACTTCTCTGTATCTCATTAAAAAGATGACCACTTCATTGTTTTGA
1 TCCACTTCTCTGTATCTCATCAAAAAGATAACCACTTCATTGCTTCGA
* ** *
20102561 TCCACTTCTCTGTATCTCATCAAGAAGATAACTGCTTTATTGCTTCGA
1 TCCACTTCTCTGTATCTCATCAAAAAGATAACCACTTCATTGCTTCGA
* **
20102609 CCCACTTCTCTGTA-CATCATCAGGAAGATAA
1 TCCACTTCTCTGTATC-TCATCAAAAAGATAA
20102640 GGGTTTAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 67 0.99
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (48 bp):
TCCACTTCTCTGTATCTCATCAAAAAGATAACCACTTCATTGCTTCGA
Found at i:20102801 original size:85 final size:85
Alignment explanation
Indices: 20102679--20102847 Score: 223
Period size: 85 Copynumber: 2.0 Consensus size: 85
20102669 GGCTTCATTG
* * * * * * *
20102679 ATTTGGTCTACTTTTTTGTATCTTATCAGGAAGATGACAGCCTCATTGTTTTAATCCATTTCTCT
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACAGCCTCATTGCTTTAACCCACTTCTCT
20102744 ATATCTCATC-AGAAAGATGA
66 ATATCTCATCAAG-AAGATGA
* * * *
20102764 ATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTAACCCACTTCTCT
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACAGCCTCATTGCTTTAACCCACTTCTCT
20102829 ATATCTCATCAAGAAGATG
66 ATATCTCATCAAGAAGATG
20102848 GGGGTTTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 70 0.97
86 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACAGCCTCATTGCTTTAACCCACTTCTCT
ATATCTCATCAAGAAGATGA
Found at i:20102923 original size:209 final size:208
Alignment explanation
Indices: 20102556--20103762 Score: 1502
Period size: 209 Copynumber: 5.8 Consensus size: 208
20102546 ACTTCATTGT
* * **
20102556 TTTGATCCACTTCTCTGTATCTCATCAAGAAGATAACTGCTTTATTGCTTCGACCCACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
* * *
20102621 TA-CATCATCAGGAAGATAAGGGTTTAAAGTTTCACTCACATTGAGCTTGGCTTCATTGATTTGG
66 TATC-TCATCAGGAAGAT-AGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGG
* * * * *
20102685 TCTACTTTTTTGTATCTTATCAGGAAGATGACAGCCTCATTGTTTTAATCCATTTCTCTATATCT
129 TCTACTTCTCTGTATCTCATCAGGAAGATGACAGCCTCATTGTTTTAATCCACTTCTCTGTATCT
* *
20102750 CATCAGAAAGATGAA
194 CATCAGAAAGACGGA
* * * ** *
20102765 TTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTAACCCACTTCTCTA
1 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
* * * *
20102830 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATCGATTTGGT
66 TATCTCATCAGGAAGAT-AGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGT
* * * * *
20102895 CTACTTCTCTATATCTCATCAAGAAGATGACCGTCTCATTTTTTTAATCCACTTCTCTGTATCTC
130 CTACTTCTCTGTATCTCATCAGGAAGATGACAGCCTCATTGTTTTAATCCACTTCTCTGTATCTC
*
20102960 ATCAGAAAGACGAA
195 ATCAGAAAGACGGA
* * * * ** *
20102974 TTTGATCAATTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTGCTTTAACTCACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
* * * * *
20103039 TATCTTATCAGGAAGATGAGGGTTTGAAGTTTCACTCAAATTGTGCTTCGCTTCATCGATTTGGT
66 TATCTCATCAGGAAGAT-AGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGT
* * * *
20103104 CTACTTAAAT-TGTATCTCATCAGGAAGATAACCGCCTCATTATTTTAATCCACTTCTCTGTATC
130 CTACTT--CTCTGTATCTCATCAGGAAGATGACAGCCTCATTGTTTTAATCCACTTCTCTGTATC
*
20103168 TCATCAGGAAGACGGA
193 TCATCAGAAAGACGGA
* * * *
20103184 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTTATTGCTTTGACCCACTTTTTTG
1 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
* *
20103249 TATCTCATCAGGAAGATGGGGTTTGGAAGTTTCACTCATATTGAGCTTCGCTTCATTGAATTGGT
66 TATCTCATCAGGAAGATAGGGTTT-GAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGT
* *
20103314 CTACTTCTTTGTATCTCATCAGGAAGATGACA-CTTTCATTGTTTTAATCCACTTCTCTGTATCT
130 CTACTTCTCTGTATCTCATCAGGAAGATGACAGC-CTCATTGTTTTAATCCACTTCTCTGTATCT
* *
20103378 AATTAGAAAGACGGA
194 CATCAGAAAGACGGA
* * * * * * *
20103393 TTTGGTTCACTTCTCTGCATCTCGTTAGGAAGATGACCACTTTATTACTTCGACCTACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
* * * * *
20103458 TATCTTATCAAGAAGATGGGGTATGGAAGTTTCACTCACATTGAGCTTCGCCTCATTGAATTGGT
66 TATCTCATCAGGAAGATAGGGT-TTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGT
* * * * *
20103523 CTTCTTCTCTGTATCTTATCAGGAAGATGACTGCTTCATTGTTTTAATCCACTTCTCTGTATCTT
130 CTACTTCTCTGTATCTCATCAGGAAGATGACAGCCTCATTGTTTTAATCCACTTCTCTGTATCTC
*
20103588 ATCAGGAAGACGGA
195 ATCAGAAAGACGGA
* * * * * *
20103602 TTTGGTTCACTTCTCTGCATCTCGTCAAGAAGATGGCCACTATATTGCTTCGACCCATTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
* * *
20103667 TATCTCATCAGGAAGATAGGGTTTGGAAGTTTCACTCTCATTGACCTCCGCTTCATTGAATTGGT
66 TATCTCATCAGGAAGATAGGGTTT-GAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGT
* ** * *
20103732 TTGTTTCTTTGTATCTCATTAGGAAGATGAC
130 CTACTTCTCTGTATCTCATCAGGAAGATGAC
20103763 CTTTTGAAGT
Statistics
Matches: 877, Mismatches: 112, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
208 3 0.00
209 693 0.79
210 180 0.21
211 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (208 bp):
TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTG
TATCTCATCAGGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGTC
TACTTCTCTGTATCTCATCAGGAAGATGACAGCCTCATTGTTTTAATCCACTTCTCTGTATCTCA
TCAGAAAGACGGA
Found at i:20103033 original size:85 final size:85
Alignment explanation
Indices: 20102899--20103054 Score: 226
Period size: 85 Copynumber: 1.8 Consensus size: 85
20102889 TTTGGTCTAC
**
20102899 TTCTCTATATCTCATCAAGAAGATGACCGTCTCATTTTTTTAATCCACTTCTCTGTATCTCATCA
1 TTCTCTATATCTCATCAAGAAGATGACCGTCTCATTGCTTTAATCCACTTCTCTGTATCTCATCA
20102964 GAAAGACGAATTTGATCAAT
66 GAAAGACGAATTTGATCAAT
* * *
20102984 TTCTCTGTATCTCATCAAGAAGATGACCG-CTTTATTGCTTTAA-CTCACTTCTCTGTATCTTAT
1 TTCTCTATATCTCATCAAGAAGATGACCGTC-TCATTGCTTTAATC-CACTTCTCTGTATCTCAT
*
20103047 CAGGAAGA
64 CAGAAAGA
20103055 TGAGGGTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
84 2 0.03
85 61 0.97
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (85 bp):
TTCTCTATATCTCATCAAGAAGATGACCGTCTCATTGCTTTAATCCACTTCTCTGTATCTCATCA
GAAAGACGAATTTGATCAAT
Done.