Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 87 of 311
Found at i:27742478 original size:42 final size:42
Alignment explanation
Indices: 27742419--27742505 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
27742409 AAAAACACTG
*
27742419 CTATAGAACAGACCTTTAGCGA-CGCTTTTGC-CACAAACGCCA
1 CTATAAAACAGACCTTTAG-GAGCGCTTTT-CTCACAAACGCCA
* *
27742461 CTATAAAATAGACCTTTAGTAGCGCTTTTCTCACAAACGCCA
1 CTATAAAACAGACCTTTAGGAGCGCTTTTCTCACAAACGCCA
27742503 CTA
1 CTA
27742506 AAGTACATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (42 bp):
CTATAAAACAGACCTTTAGGAGCGCTTTTCTCACAAACGCCA
Found at i:27743657 original size:41 final size:41
Alignment explanation
Indices: 27743612--27743690 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
27743602 GGACACATTG
27743612 ATTAACAAAAGCTAATAAATCTGTCTTAATCTAAACATTTT
1 ATTAACAAAAGCTAATAAATCTGTCTTAATCTAAACATTTT
**
27743653 ATTAACAGCAGCTAATAAATCTGTCTTAATCTAAACAT
1 ATTAACAAAAGCTAATAAATCTGTCTTAATCTAAACAT
27743691 ATTAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.34
Consensus pattern (41 bp):
ATTAACAAAAGCTAATAAATCTGTCTTAATCTAAACATTTT
Found at i:27744760 original size:28 final size:28
Alignment explanation
Indices: 27744728--27744784 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
27744718 TGTTAGTGCA
*
27744728 TAAATACAAATTTATATGACGGAGTACT
1 TAAATACAAATTTATATGACGGAATACT
*
27744756 TAAATACCAATTTATATGACGGAATACT
1 TAAATACAAATTTATATGACGGAATACT
27744784 T
1 T
27744785 GGGATACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (28 bp):
TAAATACAAATTTATATGACGGAATACT
Found at i:27745300 original size:18 final size:15
Alignment explanation
Indices: 27745262--27745293 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27745252 AAGATAATGG
27745262 GTTAAATTGTTGTAA
1 GTTAAATTGTTGTAA
27745277 GTTAAATTGTTGTAA
1 GTTAAATTGTTGTAA
27745292 GT
1 GT
27745294 ACATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (15 bp):
GTTAAATTGTTGTAA
Found at i:27747230 original size:8 final size:8
Alignment explanation
Indices: 27747219--27747298 Score: 51
Period size: 8 Copynumber: 9.9 Consensus size: 8
27747209 ATATTAAATA
27747219 TTAAATTT
1 TTAAATTT
*
27747227 TTAAGTTT
1 TTAAATTT
*
27747235 TT-TATTT
1 TTAAATTT
27747242 TT--ATTT
1 TTAAATTT
*
27747248 TTTAATTT
1 TTAAATTT
*
27747256 TTTAA-TT
1 TTAAATTT
27747263 TTAAATTTTT
1 TTAAA--TTT
27747273 TTGAAGATTT
1 TT-AA-ATTT
27747283 TTATAATTT
1 TTA-AATTT
27747292 TTAAATT
1 TTAAATT
27747299 AACATATAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
6 6 0.10
7 11 0.18
8 22 0.37
9 8 0.13
10 10 0.17
11 2 0.03
12 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (8 bp):
TTAAATTT
Found at i:27747241 original size:15 final size:14
Alignment explanation
Indices: 27747222--27747272 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
27747212 TTAAATATTA
27747222 AATTTTTAAGTTTTTT
1 AATTTTT-A-TTTTTT
27747238 -ATTTTTATTTTTT
1 AATTTTTATTTTTT
* *
27747251 AATTTTTTAATTTTA
1 AA-TTTTTATTTTTT
27747266 AATTTTT
1 AATTTTT
27747273 TTGAAGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 6 0.19
14 7 0.23
15 18 0.58
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
AATTTTTATTTTTT
Found at i:27747252 original size:22 final size:21
Alignment explanation
Indices: 27747224--27747265 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27747214 AAATATTAAA
*
27747224 TTTTTAAGTTTTTTATTTTTAT
1 TTTTTAA-TTTTTTAATTTTAT
27747246 TTTTTAATTTTTTAATTTTA
1 TTTTTAATTTTTTAATTTTA
27747266 AATTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTAATTTTTTAATTTTAT
Found at i:27747273 original size:15 final size:15
Alignment explanation
Indices: 27747239--27747273 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27747229 AAGTTTTTTA
* *
27747239 TTTTTATTTTTTAAT
1 TTTTTAATTTTAAAT
27747254 TTTTTAATTTTAAAT
1 TTTTTAATTTTAAAT
27747269 TTTTT
1 TTTTT
27747274 TGAAGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTAATTTTAAAT
Found at i:27748343 original size:107 final size:111
Alignment explanation
Indices: 27748177--27748447 Score: 379
Period size: 115 Copynumber: 2.4 Consensus size: 111
27748167 CGATTTTAAA
* * * *
27748177 AAAGGGCCGCTAATGCTCGATCTATAGCGACGTTTTTAAAAAAGCGCCGCTAATGCCACTAAAGA
1 AAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGCCACTAAAGA
27748242 TCAACAT-AAA-A-CG-GTGCTTAATTTTTTTGCGGCGTTTTTCAG
66 TCAACATAAAATAGCGTGTGCTTAATTTTTTTGCGGCGTTTTTCAG
*
27748284 AAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGCCACTAAAGC
1 AAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGCCACTAAAGA
* * *
27748349 TCAACATAAAATTATGGCGTTGTGCTTAATTTTTTTGTGGTGTTTTTTAG
66 TCAACATAAAA-TA--GCG-TGTGCTTAATTTTTTTGCGGCGTTTTTCAG
* * *
27748399 AAAGCACTGCTAATGCTCGATCTATAGGGGCGTTTTTCAAAAAGTGCCG
1 AAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCG
27748448 TTAGTGCTTG
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
107 67 0.46
108 3 0.02
110 1 0.01
113 2 0.01
115 72 0.50
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (111 bp):
AAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGCCACTAAAGA
TCAACATAAAATAGCGTGTGCTTAATTTTTTTGCGGCGTTTTTCAG
Found at i:27751038 original size:25 final size:26
Alignment explanation
Indices: 27750988--27751039 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
27750978 TTTGGTTAAA
* *
27750988 TCTACTTTTATTTTGAACTTTCTTAT
1 TCTACTTTTATTTTGAACCTTATTAT
*
27751014 TCTA-TTTTATTTTGATCCTTATTAT
1 TCTACTTTTATTTTGAACCTTATTAT
27751039 T
1 T
27751040 TAATTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.63
Consensus pattern (26 bp):
TCTACTTTTATTTTGAACCTTATTAT
Found at i:27754598 original size:26 final size:26
Alignment explanation
Indices: 27754563--27754769 Score: 96
Period size: 24 Copynumber: 8.3 Consensus size: 26
27754553 ACAGCTCTTA
*
27754563 TGAGCATCCCGA-TATATGGCTCTTCG
1 TGAGCTTCCCGATTA-ATGGCTCTTCG
* * *
27754589 TGAGATTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAATGGCTCTTCG
**
27754615 TGAGCTTCTTGATTAATGGCTC-TC-
1 TGAGCTTCCCGATTAATGGCTCTTCG
* * *
27754639 TAGAGCTTCCCGA-TATTGGCT-TGCT
1 T-GAGCTTCCCGATTAATGGCTCTTCG
* * * * *
27754664 TGAACGTCTCGA-TATATGGCTATCCG
1 TGAGCTTCCCGATTA-ATGGCTCTTCG
**
27754690 -GAGCTTCCTAATTAATGGCTCTTCG
1 TGAGCTTCCCGATTAATGGCTCTTCG
* * * * *
27754715 -AAGCTACCCG-TTATTGGCTC-GCA
1 TGAGCTTCCCGATTAATGGCTCTTCG
* *
27754738 TGAGCTTCCTGATT-ATGGCTCTT-A
1 TGAGCTTCCCGATTAATGGCTCTTCG
27754762 TGAGCTTC
1 TGAGCTTC
27754770 TCGTTATACA
Statistics
Matches: 133, Mismatches: 38, Indels: 22
0.69 0.20 0.11
Matches are distributed among these distances:
23 1 0.01
24 50 0.38
25 39 0.29
26 41 0.31
27 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCGATTAATGGCTCTTCG
Found at i:27754793 original size:25 final size:25
Alignment explanation
Indices: 27754764--27754825 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
27754754 GGCTCTTATG
27754764 AGCTTCTCGTTATACAACCCGAATA
1 AGCTTCTCGTTATACAACCCGAATA
* * * * *
27754789 AGCTTCACGTTATATAGCTCGGATA
1 AGCTTCTCGTTATACAACCCGAATA
27754814 AGCTTCTCGTTA
1 AGCTTCTCGTTA
27754826 CATGGCTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (25 bp):
AGCTTCTCGTTATACAACCCGAATA
Found at i:27754833 original size:25 final size:25
Alignment explanation
Indices: 27754786--27754833 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27754776 TACAACCCGA
*
27754786 ATAAGCTTCACGTTATATAGCTCGG
1 ATAAGCTTCACGTTACATAGCTCGG
* *
27754811 ATAAGCTTCTCGTTACATGGCTC
1 ATAAGCTTCACGTTACATAGCTC
27754834 ACATCAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
ATAAGCTTCACGTTACATAGCTCGG
Found at i:27759300 original size:46 final size:46
Alignment explanation
Indices: 27759247--27759338 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
27759237 TATTCTACAG
27759247 AATAAACTACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
1 AATAAACTACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
* *
27759293 AATAAACTACCCAACAAGCTAAAAGATCTAGGGAGTTTTATGATTC
1 AATAAACTACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
27759339 CTTGCTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (46 bp):
AATAAACTACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
Found at i:27760503 original size:55 final size:55
Alignment explanation
Indices: 27760440--27760575 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 55
27760430 GGCCGTGGGT
* * * * *
27760440 GAACCTGTCAAAACAACACGGGCGTTCGACATGCCCGTGTCTAGAACCCGTGGCC
1 GAACCTGTCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCC
* * * *
27760495 GAACCTGTCAAATCAACACGGGTGTGCGACACGCCTGTGCCAAGAAACCGTGGTC
1 GAACCTGTCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCC
* * *
27760550 AAACCTGT-TAAACTAACATGGGCGTG
1 GAACCTGTCAAAAC-AACACGGGCGTG
27760576 GGCCTACATA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
54 3 0.05
55 63 0.95
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.18
Consensus pattern (55 bp):
GAACCTGTCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCC
Found at i:27763255 original size:27 final size:27
Alignment explanation
Indices: 27763224--27763277 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
27763214 AAGTTTACAT
27763224 ACCAAATTTCAACAAAACATATTAGCC
1 ACCAAATTTCAACAAAACATATTAGCC
27763251 ACCAAATTTCAACAAAACATATTAGCC
1 ACCAAATTTCAACAAAACATATTAGCC
27763278 TATACATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (27 bp):
ACCAAATTTCAACAAAACATATTAGCC
Found at i:27763936 original size:28 final size:28
Alignment explanation
Indices: 27763873--27763969 Score: 162
Period size: 27 Copynumber: 3.5 Consensus size: 28
27763863 ATATTAAGTC
*
27763873 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
27763900 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27763928 CGCACACTTAGTGC-ACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27763955 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27763970 GTACAATTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
27 48 0.73
28 18 0.27
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27766029 original size:22 final size:23
Alignment explanation
Indices: 27765980--27766034 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
27765970 TTTATGTTTA
27765980 TATTTTTATTTTATTTTAATACT
1 TATTTTTATTTTATTTTAATACT
* *
27766003 AATTTTTATTTT-TCTTTCAT-CT
1 TATTTTTATTTTAT-TTTAATACT
27766025 TATTTTTATT
1 TATTTTTATT
27766035 CGGATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTTTTATTTTATTTTAATACT
Found at i:27772371 original size:24 final size:24
Alignment explanation
Indices: 27772301--27772383 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
27772291 AGCTATAACA
*
27772301 GGAAGCTCAT-AAGAGCC-TAAATC
1 GGAAGCTC-TGAAGAGCCATTAATC
* ** *
27772324 AGGAAGCTCATAAAGAGCTTTTAATG
1 -GGAAGCTC-TGAAGAGCCATTAATC
27772350 GGAAGCTCTGAAGAGCCATTAATC
1 GGAAGCTCTGAAGAGCCATTAATC
*
27772374 AGAAGCTCTG
1 GGAAGCTCTG
27772384 GATGGCCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 31 0.63
25 14 0.29
26 4 0.08
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (24 bp):
GGAAGCTCTGAAGAGCCATTAATC
Found at i:27775379 original size:38 final size:38
Alignment explanation
Indices: 27775325--27775466 Score: 153
Period size: 38 Copynumber: 3.7 Consensus size: 38
27775315 CACACCAATT
* *
27775325 TGCTCAGAAGAACTATTCCATCCGATAACACACCCA-TA
1 TGCTCATAAGAGCTATTCCATCCGATAACA-ACCCAGTA
* * * ** *
27775363 TCCTCATAAGAGCTATTACATTCGATAACATTCTAGTA
1 TGCTCATAAGAGCTATTCCATCCGATAACAACCCAGTA
* *
27775401 TGCTTATAAGAGCTATTCTATCCGATAA-AACGCCAGTA
1 TGCTCATAAGAGCTATTCCATCCGATAACAAC-CCAGTA
*
27775439 TGCTCATAAGAGCTATTCCATCCAATAA
1 TGCTCATAAGAGCTATTCCATCCGATAA
27775467 TATTCCACAA
Statistics
Matches: 83, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
37 3 0.04
38 80 0.96
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (38 bp):
TGCTCATAAGAGCTATTCCATCCGATAACAACCCAGTA
Found at i:27797649 original size:46 final size:46
Alignment explanation
Indices: 27797599--27797771 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
27797589 TGGTTGAGCA
* *
27797599 TCCGAACTCATTGAGTTGATTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
27797645 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
27797690 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27797738 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27797772 GGGGTGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 27 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27797755 original size:93 final size:93
Alignment explanation
Indices: 27797596--27797766 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
27797586 GGATGGTTGA
* * *
27797596 GCATCCGAACTCATTGAGTTGATTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27797661 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* * *
27797689 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27797754 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
27797767 ACTTAGGGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:27804998 original size:46 final size:45
Alignment explanation
Indices: 27804948--27805118 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
27804938 TGGTTGAGCA
27804948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
27804994 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
27805040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
27805086 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27805119 GGGGGGTTAC
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 14 0.13
46 83 0.78
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:27805102 original size:92 final size:91
Alignment explanation
Indices: 27804945--27805113 Score: 302
Period size: 92 Copynumber: 1.8 Consensus size: 91
27804935 GGATGGTTGA
* *
27804945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27805010 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGT-CGAGTTCGTGAATGTAACTAG
*
27805037 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27805102 TGAGTCGAGTTC
66 TGAGTCGAGTTC
27805114 ACTTAGGGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 7 0.09
92 67 0.91
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAATGTAACTAG
Found at i:27820351 original size:16 final size:17
Alignment explanation
Indices: 27820319--27820351 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27820309 AAATAAGAAG
27820319 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
27820337 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
27820352 CTTCATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:27821416 original size:25 final size:25
Alignment explanation
Indices: 27821388--27821437 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
27821378 GTTGCTTAAG
*
27821388 GACTATGATTTCAAGATAAAGTATC
1 GACTATGATTGCAAGATAAAGTATC
*
27821413 GACTATGATTGCATGATAAAGTATC
1 GACTATGATTGCAAGATAAAGTATC
27821438 ATCCTAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (25 bp):
GACTATGATTGCAAGATAAAGTATC
Found at i:27823432 original size:27 final size:27
Alignment explanation
Indices: 27823402--27823472 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
27823392 TGCACTACAA
27823402 AGGTATTTCGATAATTTTACAAACTGG
1 AGGTATTTCGATAATTTTACAAACTGG
**
27823429 AGGTATTTC-AGTAATTTTACAAGTTGG
1 AGGTATTTCGA-TAATTTTACAAACTGG
27823456 -GAGTATTTCGATAATTT
1 AG-GTATTTCGATAATTT
27823473 CAAAAATTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 2 0.05
27 36 0.92
28 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGTATTTCGATAATTTTACAAACTGG
Found at i:27823462 original size:54 final size:54
Alignment explanation
Indices: 27823404--27823513 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
27823394 CACTACAAAG
* * * *
27823404 GTATTTCGATAATTTTACAAACTGGA-GGTATTTCAGTAATTTTACAAGTTGGGA
1 GTATTTCGATAATTTCA-AAAATGGACAGTATTTCAGTAATTTTACAAATTGGGA
* *
27823458 GTATTTCGATAATTTCAAAAATTGACAGTATTTTAGTAATTTTACAAATTGGGA
1 GTATTTCGATAATTTCAAAAATGGACAGTATTTCAGTAATTTTACAAATTGGGA
27823512 GT
1 GT
27823514 CTTAACGACC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 6 0.12
54 43 0.88
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (54 bp):
GTATTTCGATAATTTCAAAAATGGACAGTATTTCAGTAATTTTACAAATTGGGA
Found at i:27828757 original size:9 final size:9
Alignment explanation
Indices: 27828743--27828771 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
27828733 AATCAAATCG
27828743 GTTGCAATT
1 GTTGCAATT
27828752 GTTGCAATT
1 GTTGCAATT
27828761 GTTGCAATT
1 GTTGCAATT
27828770 GT
1 GT
27828772 GCTTTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (9 bp):
GTTGCAATT
Found at i:27835087 original size:50 final size:50
Alignment explanation
Indices: 27835003--27835246 Score: 247
Period size: 50 Copynumber: 4.9 Consensus size: 50
27834993 ACCGAAGCTC
* * *
27835003 TCTGTTACGCATAGTAGGCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * *
27835053 TCTGGTACACATAGTAGCCTGAACTTAGTACTACACATGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
*** * * * ** *
27835103 TCTAAAACACATAATAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * **
27835155 -CAGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCAACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
27835204 TCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
27835247 TCACAACGGA
Statistics
Matches: 150, Mismatches: 41, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
49 3 0.02
50 114 0.76
51 32 0.21
52 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:27835222 original size:101 final size:101
Alignment explanation
Indices: 27835056--27835245 Score: 245
Period size: 101 Copynumber: 1.9 Consensus size: 101
27835046 CTATCAATCT
** * *
27835056 GGTACACATAGTAGCCTGAACTTAGTACTACACATGTGACTTAACCATCTAAAACACATAATAGC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACATGCAACCTAACAATCTAAAACACATAATAGC
*
27835121 CTACACTTAGTACTACACACGTGATCGAAGTTAACA
66 CTACACATAGTACTACACACGTGATCGAAGTTAACA
* * * * *** * *
27835157 GGTACGCATAGTAGCCTGCACTTAGTACTATACATGCAACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACATGCAACCTAACAATCTAAAACACATAATAGC
*
27835222 CTGCACATAGTACTACACACGTGA
66 CTACACATAGTACTACACACGTGA
27835246 CTCACAACGG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGAACTTAGTACTACACATGCAACCTAACAATCTAAAACACATAATAGC
CTACACATAGTACTACACACGTGATCGAAGTTAACA
Found at i:27835623 original size:19 final size:20
Alignment explanation
Indices: 27835595--27835641 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
27835585 AAGAACATGT
27835595 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
27835616 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
27835635 TATATAT
1 TATATAT
27835642 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:27835919 original size:30 final size:30
Alignment explanation
Indices: 27835862--27835920 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
27835852 CAAAAATCAT
* * *
27835862 ACTTTTACAAATTTTCATTTTGACCCCTAA
1 ACTTTCACAAATTTACACTTTGACCCCTAA
* *
27835892 ACTTTCACATATTTACACTTTGGCCCCTA
1 ACTTTCACAAATTTACACTTTGACCCCTA
27835921 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGACCCCTAA
Found at i:27837337 original size:34 final size:34
Alignment explanation
Indices: 27837299--27837388 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
27837289 GTGGATACTG
*
27837299 TACTGAAATGGGCTAAGGCCCACATTGATATTGT
1 TACTGAAATGGGCTAAGGCCCACATTGATATTGC
* * *
27837333 TACTGTATTGGGCTAAGGCCCATATTGATATTGC
1 TACTGAAATGGGCTAAGGCCCACATTGATATTGC
* * *
27837367 GACTGATATGGGCTTAGGCCCA
1 TACTGAAATGGGCTAAGGCCCA
27837389 GACTGTTCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCACATTGATATTGC
Found at i:27839369 original size:15 final size:15
Alignment explanation
Indices: 27839349--27839394 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
27839339 TTATTATTCT
27839349 TTTATATATACATTA
1 TTTATATATACATTA
27839364 TTTATAT-T--ATTA
1 TTTATATATACATTA
27839376 TTTTATATATACATTA
1 -TTTATATATACATTA
27839392 TTT
1 TTT
27839395 CAAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.15
13 7 0.26
14 2 0.07
15 10 0.37
16 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTATATATACATTA
Found at i:27839380 original size:28 final size:28
Alignment explanation
Indices: 27839340--27839394 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
27839330 TTTCTTATAT
*
27839340 TATTATTCTTTTATATATACATTATTTA
1 TATTATTATTTTATATATACATTATTTA
27839368 TATTATTATTTTATATATACATTATTT
1 TATTATTATTTTATATATACATTATTT
27839395 CAAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TATTATTATTTTATATATACATTATTTA
Found at i:27839402 original size:28 final size:27
Alignment explanation
Indices: 27839343--27839407 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 27
27839333 CTTATATTAT
*
27839343 TATTCTTTTATATATACATTATTTATAT
1 TATT-TTTTATATATACATTATTTATAA
27839371 TATTATTTTATATATACATTATTTCA-AA
1 TATT-TTTTATATATACATTATTT-ATAA
27839399 TATTTTTTA
1 TATTTTTTA
27839408 AAAATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 5 0.15
28 28 0.82
29 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTTTTTATATATACATTATTTATAA
Found at i:27840269 original size:21 final size:20
Alignment explanation
Indices: 27840235--27840273 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27840225 AAAATTGTCT
**
27840235 ATCTATCATCAAACATTCATA
1 ATCTATCAAAAAAC-TTCATA
27840256 ATCTATCAAAAAACTTCA
1 ATCTATCAAAAAACTTCA
27840274 AAACTCATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATCTATCAAAAAACTTCATA
Found at i:27844267 original size:27 final size:27
Alignment explanation
Indices: 27844218--27844358 Score: 153
Period size: 27 Copynumber: 5.2 Consensus size: 27
27844208 AGGAAGCGTC
* *
27844218 CTGGTGGCTATTCCACAAT-TATCTGAT
1 CTGGTGGCTCTGCCA-AATATATCTGAT
*
27844245 CTGGTGGCTCTGCCAAATATATCTGTT
1 CTGGTGGCTCTGCCAAATATATCTGAT
* *
27844272 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCA-AATATATCTGAT
* * *
27844299 CTGGTGGCTCTGCCACATATGTCTGTT
1 CTGGTGGCTCTGCCAAATATATCTGAT
*
27844326 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCAAATATATCTG-AT
27844353 CTGGTG
1 CTGGTG
27844359 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.11
27 85 0.87
28 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCAAATATATCTGAT
Found at i:27844300 original size:54 final size:53
Alignment explanation
Indices: 27844218--27844358 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
27844208 AGGAAGCGTC
*
27844218 CTGGTGGCTATTCCACAATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
* *
27844272 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATGTCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
* *
27844326 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
27844359 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
Found at i:27846905 original size:47 final size:47
Alignment explanation
Indices: 27846827--27847140 Score: 414
Period size: 47 Copynumber: 6.6 Consensus size: 47
27846817 CCCTTCGGGA
* * * * * *
27846827 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27846873 CTCTGTCACATATATACACTTTCATATTCATCACATCGGCCATCAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27846921 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27846968 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27847015 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27847064 CTTATCACATATACATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--AT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27847115 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
27847141 CACAATTATC
Statistics
Matches: 241, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
46 2 0.01
47 142 0.59
48 2 0.01
49 53 0.22
51 42 0.17
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27858442 original size:27 final size:27
Alignment explanation
Indices: 27858402--27858542 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
27858392 AGGAAGCGTC
*
27858402 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
27858429 CTGGTGGCTCTGCCA-AATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
27858456 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
27858483 CTGGTGGCTCTGCCAC-ATATGTCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
27858510 CTGGTGGCTCTTCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
27858537 CTGGTG
1 CTGGTG
27858543 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
26 10 0.10
27 85 0.87
28 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:27858484 original size:54 final size:53
Alignment explanation
Indices: 27858402--27858542 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
27858392 AGGAAGCGTC
27858402 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
* *
27858456 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATGTCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
* * *
27858510 CTGGTGGCTCTTCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
27858543 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
Found at i:27862483 original size:46 final size:47
Alignment explanation
Indices: 27862433--27862536 Score: 165
Period size: 47 Copynumber: 2.2 Consensus size: 47
27862423 TTACACGGAT
* *
27862433 CACATATCACACTGATGCCATATCCC-AATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCGAATATGGTCTTATACAGAAG
* *
27862479 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCGAATATGGTCTTATACAGAAG
27862526 CACATATCACA
1 CACATATCACA
27862537 TTACTCCGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 25 0.47
47 28 0.53
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCGAATATGGTCTTATACAGAAG
Found at i:27862529 original size:47 final size:45
Alignment explanation
Indices: 27862417--27862536 Score: 168
Period size: 46 Copynumber: 2.6 Consensus size: 45
27862407 TAGCCTAGCC
* * *
27862417 ATGGTCTTACACGGATCACATATCACACTGATGCCATATCCCAAT
1 ATGGTCTTATACGGAGCACATATCACACCGATGCCATATCCCAAT
* *
27862462 ATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGAT
1 ATGGTCTTATAC-GGAGCACATATCACACCGATGCCATATCCC-AAT
27862509 ATGGTCTTATACGGAAGCACATATCACA
1 ATGGTCTTATACGG-AGCACATATCACA
27862537 TTACTCCGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 11 0.17
46 28 0.42
47 27 0.41
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (45 bp):
ATGGTCTTATACGGAGCACATATCACACCGATGCCATATCCCAAT
Found at i:27862567 original size:52 final size:53
Alignment explanation
Indices: 27862490--27862590 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
27862480 ACATATCACA
* * *
27862490 CCGATGCCATATCCCGGATATGGTCTTATACGG-AAGCACATATCACATTACT
1 CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACATTACT
* * *
27862542 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATTTCACAT
1 CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACAT
27862591 GCTGCCATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 29 0.69
53 13 0.31
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAAGCACATATCACATTACT
Found at i:27865138 original size:30 final size:30
Alignment explanation
Indices: 27865086--27865182 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
27865076 TTATGGAGCA
27865086 AAGATAAGAAGAAAACC-GAATAAAGAAATCC
1 AAGAT-AG-AGAAAACCAGAATAAAGAAATCC
*
27865117 AAGATAGAGAAACCCAGAATAAAGAAAT-C
1 AAGATAGAGAAAACCAGAATAAAGAAATCC
* * * * * *
27865146 TAGAATAAAGAGATCCAGGATAAAGAAACCC
1 AAG-ATAGAGAAAACCAGAATAAAGAAATCC
27865177 AAGATA
1 AAGATA
27865183 CGATACTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 10 0.18
30 37 0.67
31 8 0.15
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (30 bp):
AAGATAGAGAAAACCAGAATAAAGAAATCC
Found at i:27865142 original size:15 final size:15
Alignment explanation
Indices: 27865094--27865173 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
27865084 CAAAGATAAG
*
27865094 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
27865108 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
27865123 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
27865138 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
27865153 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
27865168 AAGAAA
1 AAGAAA
27865174 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27865182 original size:15 final size:15
Alignment explanation
Indices: 27865105--27865182 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
27865095 AGAAAACCGA
*
27865105 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
27865120 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
27865134 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
27865149 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
27865165 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
27865180 ATA
1 ATA
27865183 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:27868909 original size:52 final size:49
Alignment explanation
Indices: 27868726--27868918 Score: 182
Period size: 47 Copynumber: 4.0 Consensus size: 49
27868716 TGCACATAGT
* * * ** * *
27868726 CACATATCATA-TACCGAGGCCATAGCCTAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
27868774 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
27868821 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
27868868 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
27868919 ATCACATTTC
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
46 24 0.20
47 54 0.45
48 10 0.08
49 1 0.01
52 31 0.26
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:27872540 original size:40 final size:39
Alignment explanation
Indices: 27872496--27872581 Score: 163
Period size: 40 Copynumber: 2.2 Consensus size: 39
27872486 CGACATCAGG
27872496 TTCAGCTTCTGGTTCCATTGGTTCCGCCTTATCTAGGAC
1 TTCAGCTTCTGGTTCCATTGGTTCCGCCTTATCTAGGAC
27872535 TTTCAGCTTCTGGTTCCATTGGTTCCGCCTTATCTAGGAC
1 -TTCAGCTTCTGGTTCCATTGGTTCCGCCTTATCTAGGAC
27872575 TTCAGCT
1 TTCAGCT
27872582 GATTGCATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 7 0.15
40 39 0.85
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.40
Consensus pattern (39 bp):
TTCAGCTTCTGGTTCCATTGGTTCCGCCTTATCTAGGAC
Found at i:27876328 original size:42 final size:42
Alignment explanation
Indices: 27876269--27876431 Score: 152
Period size: 42 Copynumber: 3.9 Consensus size: 42
27876259 TCGGCATCAG
* **
27876269 TATGAG-TTATCATGTAAGACCATATCTGGGATATGGCGTTTA
1 TATGAGATT-TCATGTAAGACCATATCTGGGACATGGCGTCAA
*
27876311 TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCGTCAA
1 TATGAGATTTCATGTAAGACCATATCTGGGACATGGCGTCAA
* * * * *
27876353 AATGAGAATT--TGTATAGGACCATATCTGGGATATGGCATCGA
1 TATGAGATTTCATGTA-A-GACCATATCTGGGACATGGCGTCAA
* ** **
27876395 TGTGAGATCCCATGTAAGACCACGTCTGGGACATGGC
1 TATGAGATTTCATGTAAGACCATATCTGGGACATGGC
27876432 ATTGGAATCT
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 4 0.04
41 1 0.01
42 86 0.88
43 3 0.03
44 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCTGGGACATGGCGTCAA
Found at i:27882673 original size:43 final size:43
Alignment explanation
Indices: 27882626--27882778 Score: 170
Period size: 44 Copynumber: 3.6 Consensus size: 43
27882616 ATCTAGACGT
* *
27882626 GGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAG
* * *
27882669 GGTCTTACAGGAAATCAAATAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAG
* *
27882711 GGTCTTACAAGTAAATCATAA-GTCGATGCCAATGTCCCAGAC-G
1 GGTCTTACATGT-AATCA-AATATCGATGCCAATGTCCCAGACAG
*
27882754 TGGTCTTACATGATAA-CACATATCG
1 -GGTCTTACATG-TAATCAAATATCG
27882779 GATCCTATGT
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
42 28 0.30
43 31 0.34
44 32 0.35
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:27885729 original size:27 final size:27
Alignment explanation
Indices: 27885699--27885754 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
27885689 TTTCCACAAC
27885699 TTAATTTTTTTCTTAAAATGATAGGCT
1 TTAATTTTTTTCTTAAAATGATAGGCT
27885726 TTAATTTTTTTCTTAAAATGATAGGCT
1 TTAATTTTTTTCTTAAAATGATAGGCT
27885753 TT
1 TT
27885755 CATAAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.54
Consensus pattern (27 bp):
TTAATTTTTTTCTTAAAATGATAGGCT
Found at i:27886580 original size:27 final size:27
Alignment explanation
Indices: 27886513--27886586 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
27886503 GCAAATCAAT
* *
27886513 CATTTTACCTTACAGGGGTATTACAGT
1 CATTTTACCTTATAGGGGTATTACAGC
*
27886540 CATTTTACCTTATAGGGGTATTTCAGC
1 CATTTTACCTTATAGGGGTATTACAGC
* *
27886567 CATTTTACCCTATAAGGGTA
1 CATTTTACCTTATAGGGGTA
27886587 AAATCGTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
CATTTTACCTTATAGGGGTATTACAGC
Found at i:27886597 original size:27 final size:27
Alignment explanation
Indices: 27886579--27886665 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
27886569 TTTTACCCTA
* *
27886579 TAAGGGTAAAATCGTCATTTTATCACT
1 TAAGGGCAATATCGTCATTTTATCACT
27886606 TAAGGGCAATATCGTCATTTTATCACT
1 TAAGGGCAATATCGTCATTTTATCACT
*
27886633 TAAGGGCAATATCGTCATTTTATCACA
1 TAAGGGCAATATCGTCATTTTATCACT
27886660 TAAGGG
1 TAAGGG
27886666 TTTAGGTACA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (27 bp):
TAAGGGCAATATCGTCATTTTATCACT
Found at i:27891642 original size:15 final size:16
Alignment explanation
Indices: 27891622--27891651 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27891612 GAGCCTGGTT
27891622 GAACTC-ATTTCCACC
1 GAACTCAATTTCCACC
27891637 GAACTCAATTTCCAC
1 GAACTCAATTTCCAC
27891652 ATGGCAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.27
Consensus pattern (16 bp):
GAACTCAATTTCCACC
Found at i:27894621 original size:21 final size:20
Alignment explanation
Indices: 27894597--27894635 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27894587 AAGACATGGA
27894597 ATAGAGGTTGATAAAGAAAAG
1 ATAGAGGTT-ATAAAGAAAAG
* *
27894618 ATAGATGTTATTAAGAAA
1 ATAGAGGTTATAAAGAAA
27894636 CTCCGACCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (20 bp):
ATAGAGGTTATAAAGAAAAG
Found at i:27907187 original size:46 final size:46
Alignment explanation
Indices: 27907066--27907188 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
27907056 TACATTGCAC
* * *
27907066 GAACTCGGACTCAACTCAATGAGTTTGGACGTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACATCCATAAGT
*
27907112 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACATCCATAAGT
27907158 GAACTCGGACTCAACTCAACGAGTTCGGATG
1 GAACTCGGACTCAACTCAACGAGTTCGGATG
27907189 ACCAAATATC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACATCCATAAGT
Found at i:27919606 original size:22 final size:24
Alignment explanation
Indices: 27919548--27919615 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
27919538 ATAGATATAA
* *
27919548 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
27919572 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
27919596 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
27919616 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:27938571 original size:19 final size:20
Alignment explanation
Indices: 27938549--27938594 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
27938539 TCAAAATTAT
27938549 TAAAAAATCA-AAAAAAATA
1 TAAAAAATCAGAAAAAAATA
**
27938568 TAAAAAA-CAGAAAAAGTTA
1 TAAAAAATCAGAAAAAAATA
27938587 TAAAAAAT
1 TAAAAAAT
27938595 ACTTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (20 bp):
TAAAAAATCAGAAAAAAATA
Found at i:27938694 original size:27 final size:27
Alignment explanation
Indices: 27938631--27938692 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
27938621 CTTATTAAAG
* *
27938631 TTATAAAAATATAAAAATTTAAAAGTA
1 TTATAAAAATAAAAAAATCTAAAAGTA
*
27938658 TTATAAAAATAAAAAAATCTAATA-TA
1 TTATAAAAATAAAAAAATCTAAAAGTA
27938684 TTATAAAAA
1 TTATAAAAA
27938693 ATTCTATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
TTATAAAAATAAAAAAATCTAAAAGTA
Found at i:27938710 original size:21 final size:21
Alignment explanation
Indices: 27938665--27938712 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
27938655 GTATTATAAA
*
27938665 AATAAAAAAATCTAATATATT
1 AATAAAAAAATCTAAAATATT
*
27938686 -ATAAAAAATTCTATAAAT-TT
1 AATAAAAAAATCTA-AAATATT
27938706 AATAAAA
1 AATAAAA
27938713 CTTATTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAAAAAAATCTAAAATATT
Found at i:27940946 original size:25 final size:23
Alignment explanation
Indices: 27940894--27940948 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
27940884 TATAAATAGT
27940894 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
27940917 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
27940942 AATAGTG
1 AATAGTG
27940949 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:27941046 original size:24 final size:23
Alignment explanation
Indices: 27941010--27941219 Score: 83
Period size: 24 Copynumber: 8.8 Consensus size: 23
27941000 ATAGATATAA
* *
27941010 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAAT-T
*
27941034 AAAAATACATACATAATATAATT
1 AAAAATATATACATAATATAATT
*
27941057 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-AT-T
* *
27941082 AGAAAAAAAATATAAATAATATAGTATT
1 ---AAAAATATATACATAATATA--ATT
* * * *
27941110 AAAGATATATAGATAAAATAGTAT
1 AAAAATATATACATAATATAAT-T
* * *
27941134 ATATATATATACGTAATATAGAATT
1 AAAAATATATACATAATAT--AATT
* * *
27941159 -TAGA-ATATACCTAATAT-ATT
1 AAAAATATATACATAATATAATT
*
27941179 AAAAGA-ATATATATAATATAATATT
1 AAAA-ATATATACATAATAT-A-ATT
27941204 AAAAA-ATATA-ATAATA
1 AAAAATATATACATAATA
27941220 ACAAAAAAAA
Statistics
Matches: 144, Mismatches: 26, Indels: 33
0.71 0.13 0.16
Matches are distributed among these distances:
20 3 0.02
21 1 0.01
22 28 0.19
23 21 0.15
24 45 0.31
25 25 0.17
26 2 0.01
28 2 0.01
29 17 0.12
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (23 bp):
AAAAATATATACATAATATAATT
Found at i:27941067 original size:22 final size:24
Alignment explanation
Indices: 27941010--27941076 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
27941000 ATAGATATAA
* *
27941010 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
27941034 AAAAATACATACATAATATAAT-T
1 AAAAATATATACATAATATAATGT
*
27941057 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
27941077 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
22 18 0.47
23 1 0.03
24 19 0.50
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:27941736 original size:30 final size:30
Alignment explanation
Indices: 27941699--27941797 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
27941689 TAGGTACAAG
*
27941699 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
27941729 AGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
27941759 TGGCGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
27941789 TGGTGGTGG
1 TGGTGGTGG
27941798 CAAAGGCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.17, C:0.07, G:0.51, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:27941757 original size:18 final size:18
Alignment explanation
Indices: 27941734--27941787 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
27941724 GGAGTAGGTG
27941734 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
27941752 GT-G-G--AGT-TGGC-G
1 GTGGAGCAAGTGTGGCTA
27941764 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
27941782 GTGGAG
1 GTGGAG
27941788 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 2 0.07
13 5 0.18
14 4 0.14
16 4 0.14
17 5 0.18
18 8 0.29
ACGTcount: A:0.19, C:0.09, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:27942607 original size:87 final size:87
Alignment explanation
Indices: 27942434--27942639 Score: 227
Period size: 87 Copynumber: 2.4 Consensus size: 87
27942424 TCCTAAGCTT
* * *
27942434 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACATAAATTGAAAATA
1 AACTCATTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
27942499 GCTCAGCAAGTGAGCCAAGGCTC
65 CCTCAGCAAGTGACCCAAGGCTC
* * **
27942522 AACTCATTTCTTGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCATTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
27942585 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCAAGTGACCCAAGGCTC
** *
27942609 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCATTTCTCGCAATATGAGTTGATTTTT
27942640 GCAAAGCATA
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 69 0.70
88 24 0.24
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (87 bp):
AACTCATTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCAAGTGACCCAAGGCTC
Found at i:27942864 original size:13 final size:14
Alignment explanation
Indices: 27942832--27942864 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
27942822 TGATTTTTTG
27942832 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
27942846 GAAAAACAGAATTT
1 GAAAAACAAAATTT
27942860 GAAAA
1 GAAAA
27942865 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:27942917 original size:91 final size:90
Alignment explanation
Indices: 27942679--27943029 Score: 389
Period size: 91 Copynumber: 3.9 Consensus size: 90
27942669 AATAAAAATC
* *
27942679 AATTGAAAATACCTCGGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AATTGAAAATACCTCAGCGTGT-ACTC-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
* *
27942743 TTTGACAAACATAAATTG--AAA-AGA
64 TTTGAAAAACAGAAATTGAAAAACAGA
* * * * *
27942767 AATTGAAAATATCTCAGCGTGTCCT-GAGGCTGAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
27942831 GGAAAAACA-AAATTTGAAAAACAGA
66 TGAAAAACAGAAA-TTGAAAAACAGA
* * *
27942856 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCAT-TCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGT-ACTCGAGGCTCAACTCACC-TCTCGCAATATGAGCTGATTTT
* *
27942920 TTTGAAACACAGAAATTGAAGAACAGA
64 TTTGAAAAACAGAAATTGAAAAACAGA
* * * * *
27942947 AATGGAAAACACCTCA--GTGT-CTTGAGGTTCAACTCGCCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTT
*
27943009 TTGAAAGACAGAAATTGAAAA
65 TTGAAAAACAGAAATTGAAAA
27943030 TACCGCAACG
Statistics
Matches: 224, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
85 3 0.01
86 48 0.21
87 29 0.13
88 48 0.21
89 27 0.12
90 1 0.00
91 64 0.29
92 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (90 bp):
AATTGAAAATACCTCAGCGTGTACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
TGAAAAACAGAAATTGAAAAACAGA
Found at i:27943220 original size:75 final size:75
Alignment explanation
Indices: 27942935--27943986 Score: 1356
Period size: 75 Copynumber: 14.3 Consensus size: 75
27942925 AACACAGAAA
* * * * *
27942935 TTGAAGAACAGAAATGGAAAACACCTC-A-GTGTCTTGAGGTTCAACTCGCCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27942998 GCTGATTTTTT
66 GTTGA-TTTTT
* *
27943009 TTGAAAGACAGAAATTGAAAATACCGCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27943074 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
27943082 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27943145 GTTGATTTTT
66 GTTGATTTTT
* *
27943155 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAACATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27943220 GCTGATTTTT
66 GTTGATTTTT
* *
27943230 TT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27943294 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
27943302 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27943365 GTTGATTTTT
66 GTTGATTTTT
* * *
27943375 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27943440 GCTGATTTTT
66 GTTGATTTTT
* *
27943450 TT-AAAAGACAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
27943514 AGTTGA--TTT
65 AGTTGATTTTT
* * * * * *
27943523 TTGACAAACAAAAATTGAAATTACCTC-A-GGGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27943586 GTTGATTTTT
66 GTTGATTTTT
*
27943596 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27943661 GCTGATTTTT
66 GTTGATTTTT
* *
27943671 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27943736 GTTGA--TTT
66 GTTGATTTTT
* * * * * * * *
27943744 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTACCTATCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
27943809 GTTGATTTTT
66 GTTGATTTTT
* * *
27943819 CTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
27943884 GTTGA--GTT
66 GTTGATTTTT
* * * * * * *
27943892 TTGACAAACAAAAATT-AAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACTTATCGCAATATG
1 TTGAAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
27943956 AGTTGATTTTT
65 AGTTGATTTTT
* * *
27943967 TT-AGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
27943987 AACGAAAATT
Statistics
Matches: 854, Mismatches: 101, Indels: 45
0.85 0.10 0.05
Matches are distributed among these distances:
71 109 0.13
72 12 0.01
73 267 0.31
74 105 0.12
75 324 0.38
76 37 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:27943597 original size:148 final size:147
Alignment explanation
Indices: 27942935--27943986 Score: 1331
Period size: 148 Copynumber: 7.1 Consensus size: 147
27942925 AACACAGAAA
* * *
27942935 TTGAAGAACAGAAATGGAAAACACCTC-A-GTGTCTTGAGGTTCAACTCGCCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * *
27942998 GCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCGCAACGTGTCTTGAGGCTCAACTCACCTC
65 GTTGA--TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
27943063 TCGCAATATGAGTTGA-TTT
128 TCGCAATATGAGTTGATTTT
* * * *
27943082 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
27943145 GTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCT
65 GTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
27943210 CGCAACATGAGCTGATTTT
129 CGCAATATGAGTTGATTTT
* * *
27943229 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * *
27943294 GTTGA-TTTTTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATC
65 GTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
27943356 GCAATATGAGTTGATTTTT
130 GCAATATGAGTTGA-TTTT
* *
27943375 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * *
27943440 GCTGATTTTTTTAAAAGACAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCACCTCT
65 GTTGATTTTTTGAAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
27943505 TGCAATATGAGTTGA-TTT
129 CGCAATATGAGTTGATTTT
* * * *
27943523 TTGACAAACAAAAATTGAAATTACCTC-A-GGGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
27943586 GTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCT
65 GTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
27943651 CGCAATATGAGCTGATTTTT
129 CGCAATATGAGTTGA-TTTT
* *
27943671 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * *
27943736 GTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTACCTATC
65 GTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
*
27943800 ACAATATGAGTTGATTTT
130 GCAATATGAGTTGATTTT
* * *
27943818 TCTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTAATATG
1 T-TG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATG
* * * * * * * *
27943883 AGTTGA-GTTTTGACAAACAAAAATT-AAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACTTA
64 AGTTGATTTTTTGAAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTC
27943946 TCGCAATATGAGTTGATTTT
128 TCGCAATATGAGTTGATTTT
* * *
27943966 TTTAGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
27943987 AACGAAAATT
Statistics
Matches: 801, Mismatches: 82, Indels: 44
0.86 0.09 0.05
Matches are distributed among these distances:
145 36 0.04
146 233 0.29
147 157 0.20
148 261 0.33
149 41 0.05
150 73 0.09
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (147 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTT
Found at i:27943602 original size:221 final size:221
Alignment explanation
Indices: 27942935--27943966 Score: 1689
Period size: 221 Copynumber: 4.7 Consensus size: 221
27942925 AACACAGAAA
* * * *
27942935 TTGAAGAACAGAAATGGAAAACACCTC-A-GTGTCTTGAGGTTCAACTCGCCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* *
27942998 GCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCGCAACGTGTCTTGAGGCTCAACTCACCTC
66 GCTGA-TTTTTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
27943063 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACT
130 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACT
27943128 CACCTATCGCAATATGAGTTGATTTTT
195 CACCTATCGCAATATGAGTTGATTTTT
*
27943155 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAACATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
27943220 GCTGATTTTTTT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCT
66 GCTGATTTTTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
27943284 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTC
131 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTC
27943349 ACCTATCGCAATATGAGTTGATTTTT
196 ACCTATCGCAATATGAGTTGATTTTT
* *
27943375 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
27943440 GCTGATTTTTTTAAAAGACAGAAATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGATTTTTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
27943505 TGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGGGTCTTGAGGTTCAACTC
131 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTC
27943570 ACCTATCGCAATATGAGTTGATTTTT
196 ACCTATCGCAATATGAGTTGATTTTT
27943596 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* *
27943661 GCTGATTTTTTTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGATTTTTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
27943726 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
131 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAAC
* *
27943791 TTACCTATCACAATATGAGTTGATTTTT
194 TCACCTATCGCAATATGAGTTGATTTTT
* * * *
27943819 CTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * * * * *
27943884 GTTGA-GTTTTGACAA-ACAAAAATT-AAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACTTA
66 GCTGATTTTTTTAAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTC
27943946 TCGCAATATGAGTTGATTTTT
130 TCGCAATATGAGTTGATTTTT
27943967 TTAGAAACAT
Statistics
Matches: 766, Mismatches: 40, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
220 243 0.32
221 375 0.49
222 44 0.06
223 104 0.14
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (221 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTC
ACCTATCGCAATATGAGTTGATTTTT
Found at i:27944191 original size:14 final size:13
Alignment explanation
Indices: 27944156--27944200 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
27944146 TTGATTTTTG
27944156 AAAAACAGAAATT
1 AAAAACAGAAATT
*
27944169 AAAAGCAGAAATT
1 AAAAACAGAAATT
27944182 GAAAAACAGAAATT
1 -AAAAACAGAAATT
27944196 AAAAA
1 AAAAA
27944201 TACCTCGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:27944221 original size:100 final size:101
Alignment explanation
Indices: 27943984--27944288 Score: 438
Period size: 100 Copynumber: 3.0 Consensus size: 101
27943974 CATAAATTAA
*
27943984 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
27944048 TGA--TTTGAAAAGCAGAATTTGTAACGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
27944083 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
27944148 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * * * *
27944183 AAAAACAGAAATTAAAAATACCTCGGTGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
27944248 GATTTTTGAAAAGCATAAATTGAAAAAACGGAAATTG
66 GATTTTTGAAAAGCAGAAATTG-AAAAGCAGAAATTG
27944285 AAAA
1 AAAA
27944289 TACCTCAGCG
Statistics
Matches: 186, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
99 64 0.34
100 91 0.49
101 15 0.08
102 16 0.09
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
Found at i:27944333 original size:90 final size:87
Alignment explanation
Indices: 27944169--27944344 Score: 244
Period size: 90 Copynumber: 2.0 Consensus size: 87
27944159 AACAGAAATT
** * *
27944169 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGTGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGTGTAACCCGAGGCCCAACTCACCTC
27944234 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * * *
27944256 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTAACCTGAGGCCCAATTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTC-G-GTGTAACCCGAGGCCCAACTCAC
27944321 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
27944345 TTGAAAGATA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 13 0.17
88 22 0.29
89 1 0.01
90 41 0.53
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGTGTAACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:27960962 original size:95 final size:92
Alignment explanation
Indices: 27960784--27961238 Score: 226
Period size: 99 Copynumber: 4.8 Consensus size: 92
27960774 TTTATTTCTA
* * **
27960784 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGGGCCTCAGGTTACACGCTGAGGTAT
1 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAACTGAGCCTCAGGGCACACGCTGAGGTAT
27960849 TTCAATTCGCGTTTTTTCAAATTTATGC
66 TTCAATTCGCGTTTTTTC-AATTTATGC
* * *
27960877 TCTTTCAAAACAATCAAGCTCCATATTGCGAGAGGGTGAGCTGAGCCTCGGGGCACAC-C-GAGG
1 TCTTTCAAAAAAATCAA-CT-CATATTGCGAGA-GGTGAACTGAGCCTCAGGGCACACGCTGAGG
* * *
27960940 TATTTTTAATT-TCGTGTTTTTCAATTTCTGC
63 TA-TTTCAATTCGCGT-TTTTTCAATTTATGC
*** **
27960971 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-CCTCAGGG--CAC
1 --------TC--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAACTGAGCCTCAGGGCACAC
* *
27961033 GCTGAGGTATTTTCAATT-TC-TGTTTTTCAATTTTTGC
56 GCTGAGGTA-TTTCAATTCGCGT-TTTTTCAATTTATGC
* * **
27961070 -GTTACAAAATTCTGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GG-ACA
1 TCTTTCAAAA-----------AAATCAACTCATATTGCGAGAGGTGAACTGAGCCTCAGGGCACA
* *
27961132 CGCT-AGGTATTTTCAATTTCG-TTTTTTTTAATTTATG-
55 CGCTGAGGTA-TTTCAA-TTCGCGTTTTTTCAATTTATGC
* * ** *
27961169 --TTTCTAAAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCA-GG-ACACGCTAAGGTA
1 TCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAACTGAGCCTCAGGGCACACGCTGAGGT-
*
27961230 ATTTTAATT
64 ATTTCAATT
27961239 TTGTTTGTCA
Statistics
Matches: 296, Mismatches: 30, Indels: 77
0.73 0.07 0.19
Matches are distributed among these distances:
88 50 0.17
89 9 0.03
90 1 0.00
93 16 0.05
94 19 0.06
95 26 0.09
96 18 0.06
98 6 0.02
99 66 0.22
100 48 0.16
101 10 0.03
102 14 0.05
103 2 0.01
104 11 0.04
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (92 bp):
TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAACTGAGCCTCAGGGCACACGCTGAGGTAT
TTCAATTCGCGTTTTTTCAATTTATGC
Found at i:27960978 original size:13 final size:12
Alignment explanation
Indices: 27960943--27960986 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 12
27960933 ACCGAGGTAT
27960943 TTTTAATTTCGTG
1 TTTTAATTTC-TG
27960956 TTTTTCAATTTCTG
1 -TTTT-AATTTCTG
27960970 CTTTTAATTTCTG
1 -TTTTAATTTCTG
27960983 TTTT
1 TTTT
27960987 TCAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 8 0.29
14 10 0.36
15 6 0.21
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (12 bp):
TTTTAATTTCTG
Found at i:27960987 original size:13 final size:13
Alignment explanation
Indices: 27960942--27960987 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
27960932 CACCGAGGTA
27960942 TTTTTAATTTCGTG
1 TTTTTAATTTC-TG
27960956 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
27960970 CTTTTAATTTCTG
1 TTTTTAATTTCTG
27960983 TTTTT
1 TTTTT
27960988 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 11 0.38
15 6 0.21
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:27961043 original size:100 final size:103
Alignment explanation
Indices: 27960874--27961165 Score: 364
Period size: 99 Copynumber: 2.8 Consensus size: 103
27960864 TTCAAATTTA
* * * *
27960874 TGCTCTTTCAAAACAATCAAGCTCCATATTGCGAGAGGGTGAGCTGAGCCTCGGGGCACACCGAG
1 TGCT-TTTC-AAA-AATCAA-CT-CATATTGCGAGA-GGTGAGTTGAGCCTCAGGGCACGCTGAG
* ** *
27960939 GTATTTTTAATTTCGTGTTTTTCAATTTCTGC-TT-TTAATTTC
60 GTATTTTCAATTTCGTGTTTTTCAATTTCTGCGTTACAAAATTC
*
27960981 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-CCTCAGGGCACGCTGAGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
*
27961045 TCAATTTC-TGTTTTTCAATTTTTGCGTTACAAAATTC
66 TCAATTTCGTGTTTTTCAATTTCTGCGTTACAAAATTC
*
27961082 TGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT-AGGTATTT
1 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* *
27961144 TCAATTTCGTTTTTTTTAATTT
66 TCAATTTCGTGTTTTTCAATTT
27961166 ATGTTTCTAA
Statistics
Matches: 167, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
99 63 0.38
100 53 0.32
101 21 0.13
102 12 0.07
103 2 0.01
104 6 0.04
105 3 0.02
106 4 0.02
107 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (103 bp):
TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
TCAATTTCGTGTTTTTCAATTTCTGCGTTACAAAATTC
Found at i:27961158 original size:99 final size:99
Alignment explanation
Indices: 27960888--27961239 Score: 340
Period size: 99 Copynumber: 3.6 Consensus size: 99
27960878 CTTTCAAAAC
* * * *
27960888 AATCAAGCTCCATATTGCGAGAGGGTGAGCTGAGCCTCGGGGCACAC-CGAGGTATTTTTAATTT
1 AATCAA-CT-CATATTGCGAGA-GGTGAGTTGAGCCTC-AGG-ACACGCTAGGTATTTTCAATTT
** * *
27960952 CGTGTTTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAA
61 CGTGTTTTTCAATTTCTGCTTCAAAATTCTGCTTTTC-AA
*
27960992 AATCAACTCATATTGCGAGAGGTGAGTTGA-CCTCAGGGCACGCTGAGGTATTTTCAATTTC-TG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT-AGGTATTTTCAATTTCGTG
*
27961055 TTTTTCAATTTTTGCGTTACAAAATTCTGCTTTTC-A
65 TTTTTCAATTTCTGC-TT-CAAAATTCTGCTTTTCAA
*
27961091 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAGGTATTTTCAATTTCGTTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAGGTATTTTCAATTTCGTGT
* * * *
27961156 TTTTTAATTTATGTTTCTAAA-----------AA
66 TTTTCAATTTCTGCTTCAAAATTCTGCTTTTCAA
* *
27961179 AATCAACTCATATTGCGATAAGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTT-AATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT-AGGT-ATTTTCAATTT
27961240 TGTTTGTCAA
Statistics
Matches: 221, Mismatches: 18, Indels: 33
0.81 0.07 0.12
Matches are distributed among these distances:
88 44 0.20
89 9 0.04
90 5 0.02
98 7 0.03
99 68 0.31
100 47 0.21
101 21 0.10
102 12 0.05
103 2 0.01
104 6 0.03
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (99 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAGGTATTTTCAATTTCGTGT
TTTTCAATTTCTGCTTCAAAATTCTGCTTTTCAA
Found at i:27961438 original size:72 final size:71
Alignment explanation
Indices: 27961176--27962152 Score: 806
Period size: 72 Copynumber: 13.4 Consensus size: 71
27961166 ATGTTTCTAA
* * * * *
27961176 AAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
27961240 TGTTTGTC
65 TGTTT-TC
* * *
27961248 -AAACTCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-
27961312 TGTTTTTC
65 TG-TTTTC
* * * * * *
27961320 AGAAAAATCAACTCATATTGTGATAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
27961385 TTGTTTGTC
64 TTGTTT-TC
*
27961394 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTAAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-
27961459 TGTCTTTC
65 TGT-TTTC
* *
27961467 AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
27961532 TTCTGTTTTTC
63 TT-TG-TTTTC
* * ** *
27961543 AAAAAAATCAACTCATATTGCGATAGGTGAG-TGAACCTC-AGA-ACCCTGAGGTAATTTCAAAT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC-AA-
27961605 TTTTGTTTGTC
62 TTTTGTTT-TC
* *
27961616 AAAAATCAACTCATATTGCAAGAGGTGA-TTGAGACCTCAAGAC-CGTTGAAGTATTTTCAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAAGACACGTTGAGGTATTTTCAATT-
* *
27961679 TGTCTTTTA
64 T-TGTTTTC
* * *
27961688 AAAAAGTCAGCTCAATATTGGCAAGA-GT-AG-TGAACCTCAAGACGAAC-TTGA-GTA-TTTCA
1 AAAAA-TCAACTC-ATATT-GCGAGAGGTGAGTTGAGCCTCAAGAC--ACGTTGAGGTATTTTCA
* *
27961747 A-TCTATTTTC
61 ATTTTGTTTTC
* * * *
27961757 AAAAAAATGCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGTC-TTGTAGCTGTA-ATT
1 --AAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC-ACGTTG-AG--GTATTTT
*
27961820 CAATTTT-TTGTC
59 CAATTTTGTTTTC
*
27961832 AAATAATCAACT--TATTGCGAGAGGTGAGTTGAGCCTTAAGA-ACGTTGAGGTATTTTCATATT
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA-ATT
*
27961894 TCTGTTCTTTAAA
64 T-TG-T-TTT--C
* * *
27961907 AAAAATCTAGCTCATGTTTGCGAGAGGT-AGTTGAACCTCAAGACAACGTTGAGTGTATTTTCAA
1 AAAAATC-AACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAAGAC-ACGTTGAG-GTATTTTCAA
*
27961971 TTTCGTTTTC
62 TTTTGTTTTC
* *
27961981 AAAAAAATCAACTCAT-TTGGCGAATAGGTTGAG-TGA-CACTCAAGACGC-TTGAGGTAATTTT
1 --AAAAATCAACTCATATT-GCG-AGAGG-TGAGTTGAGC-CTCAAGACACGTTGAGGT-ATTTT
*
27962042 CAATTTTG-TTTA
59 CAATTTTGTTTTC
*
27962054 AAATAATCAATCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGCGGTATTTTCAATT
1 AAA-AATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
*
27962119 CTT-CTTTC
64 -TTGTTTTC
27962127 AAAAAAAATC-ACTCATA-TGCGAGAGG
1 ---AAAAATCAACTCATATTGCGAGAGG
27962153 CCGAAGTTGA
Statistics
Matches: 753, Mismatches: 76, Indels: 152
0.77 0.08 0.15
Matches are distributed among these distances:
67 3 0.00
68 4 0.01
69 16 0.02
70 17 0.02
71 130 0.17
72 161 0.21
73 94 0.12
74 58 0.08
75 124 0.16
76 95 0.13
77 18 0.02
78 12 0.02
79 12 0.02
80 9 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
GTTTTC
Found at i:27961595 original size:148 final size:149
Alignment explanation
Indices: 27961156--27962173 Score: 865
Period size: 148 Copynumber: 6.9 Consensus size: 149
27961146 AATTTCGTTT
* * * * * *
27961156 TTTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCAGGACA
1 TTTTAAATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
* * * * * *
27961220 CGCTAAGGTAATTTT-AATTT-TGTTTGTC---AAACTCAACTCATATTACAAGAGGTGAGTTGA
65 CGTTGAGGT-ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
27961280 GCCTCAAGACACGTTGAGGTA
129 ACCTCAAGACACCTTGAGGTA
* * * * * * *
27961301 TTTTCAATTTCTGTTTTTCAGAAAAATCAACTCATATTGTGATAGGTAAGTTGAGCCTCAGGACA
1 TTTTAAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
* * * *
27961366 CGCTGAGGTAATTTCAATTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
65 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA
*
27961428 CCTCAAGACACGTTGAGGTA
130 CCTCAAGACACCTTGAGGTA
*
27961448 TTTTAAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTAAATTTCTGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
*
27961513 ACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAG-TGA
64 ACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
27961577 ACCTC-AGA-ACCCTGAGGTAA
129 ACCTCAAGACACCTTGAGGT-A
* * *
27961597 TTTCAAATTTTTGTTTGTC--AAAAATCAACTCATATTGCAAGAGGTGA-TTGAGACCTCAAGAC
1 TTTTAAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-ACCTCAAGAC
* * * *
27961659 -CGTTGAAGTATTTTCAA-TTCTGTCTTTT-AAAAAAGTCAGCTCAATATTGGCAAGA-GT-AG-
64 ACGTTGAGGTATTTTCAATTTCTGT-TTTTCAAAAAAATCAACTC-ATATT-GCGAGAGGTGAGT
*
27961718 TGAACCTCAAGACGAACTTGA-GTA
126 TGAACCTCAAGAC-ACCTTGAGGTA
* * *
27961742 -TTTCAA--TCTATTTTCAAAAAAATGCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACG
1 TTTTAAATTTCTGTTTTCAAAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC-
* * * *
27961804 TC-TTGTAGCTGTA-ATTCAA-TT-T-TTTGTC-AAATAATCAACT--TATTGCGAGAGGTGAGT
64 ACGTTG-AG--GTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
27961861 TGAGCCTTAAGA-ACGTTGAGGTA
126 TGAACCTCAAGACACCTTGAGGTA
* * * *
27961884 TTTTCATATTTCTGTTCTTTAAAAAAAATCTAGCTCATGTTTGCGAGAGGT-AGTTGAACCTCAA
1 TTTT-AAATTTCTG-T-TTTCAAAAAAATC-AACTCAT-ATTGCGAGAGGTGAGTTGAACCTCAA
*
27961948 GACAACGTTGAGTGTATTTTCAATTTC-G-TTTTCAAAAAAATCAACTCAT-TTGGCGAATAGGT
61 GAC-ACGTTGAG-GTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATT-GCG-AGAGG-
*
27962010 TGAG-TG-ACACTCAAGAC-GCTTGAGGTAA
121 TGAGTTGAAC-CTCAAGACACCTTGAGGT-A
* * *
27962038 TTTTCAATTT-TG-TTT-AAAATAATCAATCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTAAATTTCTGTTTTCAAAAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
* * *
27962100 CGTTGCGGTATTTTCAA-TTCT-TCTTTCAAAAAAAATC-ACTCATA-TGCGAGAGGCCGAAGTT
65 CGTTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGG-TG-AGTT
27962161 GAA-CTCAAGACAC
127 GAACCTCAAGACAC
27962174 TGAGTGTTTT
Statistics
Matches: 726, Mismatches: 83, Indels: 127
0.78 0.09 0.14
Matches are distributed among these distances:
140 5 0.01
141 13 0.02
142 10 0.01
143 19 0.03
144 80 0.11
145 74 0.10
146 135 0.19
147 117 0.16
148 139 0.19
149 47 0.06
150 18 0.02
151 30 0.04
152 7 0.01
153 23 0.03
154 9 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (149 bp):
TTTTAAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
GTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
CTCAAGACACCTTGAGGTA
Found at i:27961778 original size:144 final size:146
Alignment explanation
Indices: 27961165--27962148 Score: 630
Period size: 146 Copynumber: 6.7 Consensus size: 146
27961155 TTTTTTAATT
* * * * *
27961165 TATGTTTCTAAAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCAGGACACGCT-AAGGT
1 TATGTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAA-GT
* * * * * *
27961229 AATTTT-AATTT-TGTTTGTC---AAACTCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGA
64 -ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAG-TGAACCTC-AGA
* * * *
27961289 CACGTTGAGGTATTTTCAATTTC
126 AAC-CTGAGGTAATTTCAA-ATC
* * * * * * * * * * *
27961312 TGTTTTTCAGAAAAATCAACTCATATTGTGATAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAA
1 TATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAAGTAT
* * * *
27961377 TTTCAATTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
66 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAG-TGAACCTC-AGAAAC
* *
27961439 GTTGAGGT-ATTTTAAATTTC
129 -CTGAGGTAATTTCAAA--TC
* * * *
27961459 TGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
1 TATGTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAAGTA
*
27961524 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTGAACCTCAGAACCC
65 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTGAACCTCAGAAACC
*
27961589 TGAGGTAATTTCAAATT
130 TGAGGTAATTTCAAATC
* *** *
27961606 TTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGA-TTGAGACCTCAAGAC-CGTTGAAGTA
1 TATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-ACCTCAAGACACGTTGAAGTA
* *
27961669 TTTTCAA-TTCTGTCTTTT-AAAAAAGTCAGCTCAATATTG-GCA-AGAGT-AGTGAACCTCAAG
65 TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTC-ATATTGCG-ATAG-GTGAGTGAACCTC-AG
*
27961729 ACGAACTTGA-GT-ATTTC-AATC
125 A--AACCTGAGGTAATTTCAAATC
* * *
27961750 TAT-TTTCAAAAAAATGCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGTC-TTGTAGC
1 TATGTTTCAAAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC-ACGTTGAAG-
* * * * * * *
27961813 TGTAATTCAA-TT-T-TTTGTC-AAATAATCAACT--TATTGCGAGAGGTGAGTTGAGCCTTA-A
63 TAT-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAG-TGAACCTCAGA
* * *
27961871 GAACGTTGAGGTATTTTCATATTTC
126 -AAC-CTGAGGTAATTTCA-A-ATC
* * * * *
27961896 TGTTCTTTAAAAAAAATCTAGCTCATGTTTGCGAGAGGT-AGTTGAACCTCAAGACAACGTTGAG
1 T-ATGTTTCAAAAAAATC-AACTCAT-ATTGCGAGAGGTGAGTTGAACCTCAAGAC-ACGTTGA-
*
27961960 TGTATTTTCAATTTC-G-TTTTCAAAAAAATCAACTCAT-TTGGCGAATAGGTTGAGTG-ACACT
61 AGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATT-GCG-ATAGG-TGAGTGAAC-CT
*
27962021 CA-AGACGCTTGAGGTAATTTTC-AAT-
122 CAGAAAC-C-TGAGGTAA-TTTCAAATC
* * * **
27962046 TTTGTTT-AAAATAATCAATCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGCGGTA
1 TATGTTTCAAAAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAAGTA
*
27962110 TTTTCAA-TTCT-TCTTTCAAAAAAAATC-ACTCATA-TGCGA
65 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGA
27962149 GAGGCCGAAG
Statistics
Matches: 688, Mismatches: 90, Indels: 121
0.77 0.10 0.13
Matches are distributed among these distances:
140 4 0.01
141 13 0.02
142 8 0.01
143 19 0.03
144 79 0.11
145 62 0.09
146 132 0.19
147 112 0.16
148 130 0.19
149 44 0.06
150 20 0.03
151 31 0.05
152 9 0.01
153 17 0.02
154 8 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (146 bp):
TATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAAGTAT
TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTGAACCTCAGAAACCT
GAGGTAATTTCAAATC
Found at i:27961921 original size:438 final size:437
Alignment explanation
Indices: 27961315--27962132 Score: 1147
Period size: 438 Copynumber: 1.9 Consensus size: 437
27961305 CAATTTCTGT
* * *
27961315 TTTTCAGAAAAATCAACTCATATTGTGATAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TTTTCAAAAAAATCAACTCATATTGCGATAGGTAAGTTGAACCTCA-GACACGCTGAGGTAATTT
27961380 CAATTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
65 CAATTTTGTTTGTCAAAAATCAACT-ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
27961445 GTATTTTAAATTTCTGTCTTTCAAAAAAAATCAGCTCAT-ATTGCGAGAGGTGAGTTGAACCTCA
129 GTATTTTAAATTTCTGTCTTTCAAAAAAAATCAGCTCATGATTGCGAGAGGT-AGTTGAACCTCA
27961509 AGAC-ACGTTGAG-GTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATT-GCG-ATAGG
193 AGACAACGTTGAGTGTATTTTCAATTTC-G-TTTTCAAAAAAATCAACTCAT-TTGGCGAATAGG
*
27961570 -TGAGTGA-ACCTC-AGAAC-CCTGAGGTAA-TTTCAAATTTTTGTTTGTCAAA-AATCAA-CTC
255 TTGAGTGACA-CTCAAG-ACGCCTGAGGTAATTTTC-AA-TTTTG-TT-TAAAATAATCAATCTC
*
27961628 ATATTGCAAGAGGTGA-TTGAGACCTCAAGAC-CGTTGAAGTATTTTCAATTCTGTCTTTTAAAA
314 ATATTGCAAGAGGTGAGTTGAG-CCTCAAGACACGTTGAAGTATTTTCAATTCT-TCTTTCAAAA
27961691 AAGTCAGCTCAATATTGGCAAGAGTAGTGAACCTCAAGACGAACTTGAGTATTTCAATCTA
377 AAGTCAGCTCAATATTGGCAAGAGTAGTGAACCTCAAGACGAACTTGAGTATTTCAATCTA
* *
27961752 TTTTCAAAAAAATGCAACTCATATTGCGATAGGTGAGTTGAACCTCA-AGACGTCTTGTAGCTGT
1 TTTTCAAAAAAAT-CAACTCATATTGCGATAGGTAAGTTGAACCTCAGACACG-C-TG-AG--GT
*
27961816 AA-TTCAA-TTT-TTTGTCAAATAATCAACT-TATTGCGAGAGGTGAGTTGAGCCTTAAGA-ACG
60 AATTTCAATTTTGTTTGTCAAA-AATCAACTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
* *
27961876 TTGAGGTATTTTCATATTTCTGTTCTTT-AAAAAAAATCTAGCTCATGTTTGCGAGAGGTAGTTG
124 TTGAGGTATTTT-AAATTTCTG-TCTTTCAAAAAAAATC-AGCTCATGATTGCGAGAGGTAGTTG
27961940 AACCTCAAGACAACGTTGAGTGTATTTTCAATTTCGTTTTCAAAAAAATCAACTCATTTGGCGAA
186 AACCTCAAGACAACGTTGAGTGTATTTTCAATTTCGTTTTCAAAAAAATCAACTCATTTGGCGAA
*
27962005 TAGGTTGAGTGACACTCAAGACGCTTGAGGTAATTTTCAATTTTGTTTAAAATAATCAATCTCAT
251 TAGGTTGAGTGACACTCAAGACGCCTGAGGTAATTTTCAATTTTGTTTAAAATAATCAATCTCAT
* **
27962070 ATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGCGGTATTTTCAATTCTTCTTTCAAAAAA
316 ATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAAGTATTTTCAATTCTTCTTTCAAAAAA
27962133 AATCACTCAT
Statistics
Matches: 343, Mismatches: 14, Indels: 45
0.85 0.03 0.11
Matches are distributed among these distances:
436 19 0.06
437 61 0.18
438 97 0.28
439 46 0.13
440 74 0.22
441 42 0.12
442 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (437 bp):
TTTTCAAAAAAATCAACTCATATTGCGATAGGTAAGTTGAACCTCAGACACGCTGAGGTAATTTC
AATTTTGTTTGTCAAAAATCAACTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
ATTTTAAATTTCTGTCTTTCAAAAAAAATCAGCTCATGATTGCGAGAGGTAGTTGAACCTCAAGA
CAACGTTGAGTGTATTTTCAATTTCGTTTTCAAAAAAATCAACTCATTTGGCGAATAGGTTGAGT
GACACTCAAGACGCCTGAGGTAATTTTCAATTTTGTTTAAAATAATCAATCTCATATTGCAAGAG
GTGAGTTGAGCCTCAAGACACGTTGAAGTATTTTCAATTCTTCTTTCAAAAAAGTCAGCTCAATA
TTGGCAAGAGTAGTGAACCTCAAGACGAACTTGAGTATTTCAATCTA
Found at i:27963374 original size:30 final size:30
Alignment explanation
Indices: 27963334--27963432 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
27963324 CTAGCCTTTG
27963334 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
27963364 CCACCGCCAACTCCACTTCGCCACACTTG-T
1 CCACCACCAACTCCAC-TAGCCACACTTGCT
* *
27963394 CCACCACCTACTCCCATTAGCCACA-TTGCT
1 CCACCACCAACT-CCACTAGCCACACTTGCT
27963424 CCACCACCA
1 CCACCACCA
27963433 CTTGTACTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.05
30 42 0.71
31 14 0.24
ACGTcount: A:0.24, C:0.51, G:0.07, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:27964025 original size:22 final size:24
Alignment explanation
Indices: 27963977--27964031 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
27963967 TTACGTATAA
* * *
27963977 ATATATATTATTACCTATTTTACT
1 ATATATTTTAATACCTATATTACT
27964001 ATATATTTTAATA-CTATATTA-T
1 ATATATTTTAATACCTATATTACT
27964023 ATATATTTT
1 ATATATTTT
27964032 TTTTCTACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 7 0.25
24 11 0.39
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATTTTAATACCTATATTACT
Found at i:27964075 original size:22 final size:23
Alignment explanation
Indices: 27964049--27964100 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
27964039 CATGTTAATC
*
27964049 TTATGTATATATTTTA-ATTATA
1 TTATGTATATATTTTACACTATA
*
27964071 TTATGTATGTATTTTACACTATA
1 TTATGTATATATTTTACACTATA
27964094 TTATGTA
1 TTATGTA
27964101 CATTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (23 bp):
TTATGTATATATTTTACACTATA
Found at i:27974672 original size:37 final size:37
Alignment explanation
Indices: 27974622--27974700 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27974612 TTATTACGAA
* * *
27974622 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27974659 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27974696 GTCTT
1 GTCTT
27974701 TAGACTCGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27975118 original size:47 final size:47
Alignment explanation
Indices: 27974909--27975652 Score: 1323
Period size: 47 Copynumber: 15.9 Consensus size: 47
27974899 AGGCCTTATC
27974909 ACACATTTCACATTC-TCACATCGG-CATTAGGCCTTATCACATATAT
1 ACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27974955 ACA--TTCACATTCATCACATC-GCCATTAGGCC-TATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27974998 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975045 ACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975091 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
27975138 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975185 ACACTTTCACATT-ATCACAT--GCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975229 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT-AT
27975277 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975324 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975371 ACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
27975419 ACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
27975465 ACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975512 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
27975561 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
27975608 ACACTTTCACATTTCATCACATCGGCCATTAGGCCTTATCACATA
1 ACACTTTCACA-TTCATCACATCGGCCATTAGGCCTTATCACATA
27975653 GAATCCTAAA
Statistics
Matches: 676, Mismatches: 4, Indels: 34
0.95 0.01 0.05
Matches are distributed among these distances:
43 25 0.04
44 52 0.08
45 24 0.04
46 104 0.15
47 306 0.45
48 118 0.17
49 47 0.07
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
Found at i:27977917 original size:25 final size:25
Alignment explanation
Indices: 27977880--27977931 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
27977870 AAGGAATTCG
27977880 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
27977905 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
27977930 CA
1 CA
27977932 TTATTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:27978317 original size:117 final size:118
Alignment explanation
Indices: 27978093--27978320 Score: 307
Period size: 117 Copynumber: 1.9 Consensus size: 118
27978083 CGAATACACG
* * * ***
27978093 TCACCAGCATGATTGCTCTTCGGGACTAGCCCGGATATAACACCAGCATGAATGCTCTTCGGGGT
1 TCACCAGCATGAATGCTCTTCGGGACTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAAC
*
27978158 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATACA
66 TTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATACA
* * * *
27978211 TCACTAGCATGAATGCT-TTCGGGACTTAG-CCTGATACATCACTAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGAC-TAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAA
* * *
27978274 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCC
65 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCC
27978321 CGGTTATAGT
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
117 77 0.81
118 18 0.19
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (118 bp):
TCACCAGCATGAATGCTCTTCGGGACTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAAC
TTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATACA
Found at i:27978321 original size:40 final size:40
Alignment explanation
Indices: 27978093--27978323 Score: 308
Period size: 40 Copynumber: 5.9 Consensus size: 40
27978083 CGAATACACG
* * *
27978093 TCACCAGCATGATTGCTCTTCGGGAC-TAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
27978132 ACACCAGCATGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27978172 TCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
27978211 TCACTAGCATGAATGCT-TTCGGGACTTAG-CCTGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27978249 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
27978289 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG
27978324 TTATAGTAAC
Statistics
Matches: 168, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
38 35 0.21
39 56 0.33
40 77 0.46
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:27978421 original size:38 final size:38
Alignment explanation
Indices: 27978327--27978429 Score: 120
Period size: 37 Copynumber: 2.7 Consensus size: 38
27978317 AGCCCGGTTA
* * *
27978327 TAGTAACTCGCACAAATGCC-GCGGATTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATTAACCCAGAAT
* * * *
27978364 TAGTAGCTCGCACCAATGCCTTCAGGCTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTC-GGATTAACCCAGAAT
27978403 TAGTAACTCG-ACAAATGCCTTCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATT
27978430 TAGTCCGGAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 22 0.41
38 12 0.22
39 20 0.37
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
TAGTAACTCGCACAAATGCCTTCGGATTAACCCAGAAT
Found at i:27986473 original size:27 final size:27
Alignment explanation
Indices: 27986438--27986621 Score: 244
Period size: 27 Copynumber: 6.8 Consensus size: 27
27986428 AGTGCTATAA
* * *
27986438 TCAACTCGCACACTTAGTGCTACGTAA
1 TCAAATCGCACACTTAGTGCTACATAG
27986465 TCAAATCGCACACTTAGTGCTACATAG
1 TCAAATCGCACACTTAGTGCTACATAG
** *
27986492 TCAAACTCGCACACTTAGTGCCGCATGG
1 TCAAA-TCGCACACTTAGTGCTACATAG
* *
27986520 TCAATTCGCACACTTAGTGC-ATCATAT
1 TCAAATCGCACACTTAGTGCTA-CATAG
** *
27986547 TCATTTCGCACACTTAGTGCAACATAG
1 TCAAATCGCACACTTAGTGCTACATAG
27986574 TCAAATCGCACACTTAGTGCTACATAG
1 TCAAATCGCACACTTAGTGCTACATAG
27986601 TCAAATCGCACACTTAGTGCT
1 TCAAATCGCACACTTAGTGCT
27986622 GTACAATTTA
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
27 115 0.83
28 24 0.17
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
TCAAATCGCACACTTAGTGCTACATAG
Found at i:27994582 original size:27 final size:27
Alignment explanation
Indices: 27994552--27994756 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
27994542 ATATTGAGTC
* * * *
27994552 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27994579 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27994606 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27994634 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27994661 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27994688 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27994715 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27994742 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27994757 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27998369 original size:27 final size:27
Alignment explanation
Indices: 27998339--27998403 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
27998329 GTAATTTCAC
* *
27998339 AATCGAGGGTAAAAT-GATAATTTTGTA
1 AATCGAGGGTAAAATAG-TAATTCTATA
*
27998366 AATCGAGGCTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
27998393 AATCGAGGGTA
1 AATCGAGGGTA
27998404 CTTTGGTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:28004908 original size:20 final size:20
Alignment explanation
Indices: 28004865--28004906 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
28004855 CAGTAAAATA
*
28004865 TTTTCTAGAATATTATTTAC
1 TTTTCTAGAATATGATTTAC
28004885 TTTTCTAGAA-ATGATTTA-
1 TTTTCTAGAATATGATTTAC
28004903 TTTT
1 TTTT
28004907 TTTGGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTCTAGAATATGATTTAC
Found at i:28015805 original size:29 final size:29
Alignment explanation
Indices: 28015742--28015809 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
28015732 TAATCAACCA
28015742 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
28015771 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
28015800 CGCACACTTA
1 CGCACACTTA
28015810 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:28015950 original size:29 final size:28
Alignment explanation
Indices: 28015911--28015986 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 28
28015901 CTTAATAATC
28015911 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTG-C-TGTACATTTA
*
28015941 AACTCGCACACTTAGTGCTGTACAATTTA
1 AACCCGCACACTTAGTGCTGTAC-ATTTA
28015970 AACCCGCACACTTAGTG
1 AACCCGCACACTTAGTG
28015987 TCAATCTCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.79
30 3 0.07
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (28 bp):
AACCCGCACACTTAGTGCTGTACATTTA
Found at i:28018641 original size:30 final size:30
Alignment explanation
Indices: 28018595--28018654 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
28018585 TTTCCGAGCC
28018595 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
28018625 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
28018655 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:28021684 original size:56 final size:56
Alignment explanation
Indices: 28021624--28021799 Score: 280
Period size: 56 Copynumber: 3.1 Consensus size: 56
28021614 TCCCAGACAG
* *
28021624 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACAT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
* *
28021680 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCTAACATATTGAACAT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
* * * *
28021736 GGCCTTACTCGCACACATATATCAGAATCACATATCGATACCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
28021792 GGTCTTAC
1 GGTCTTAC
28021800 GCATAATCAC
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 109 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
Found at i:28030811 original size:46 final size:47
Alignment explanation
Indices: 28030706--28030839 Score: 148
Period size: 46 Copynumber: 2.9 Consensus size: 47
28030696 GCCATATTAT
* * *
28030706 GAGATCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGCCATAGACATTGAGAC
* * *
28030754 GAGAGCTAGTGTAAGACATATCTGGGACAT-CCATCAG-CCTTGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCCAT-AGACATTGAGAC
* *
28030800 GTA-AGCCAGTGTAAGACATGTCTGGGACATGGCATCGACA
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATGCCATAGACA
28030840 CCTTACCCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
46 38 0.54
47 19 0.27
48 14 0.20
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCCATAGACATTGAGAC
Found at i:28031935 original size:20 final size:21
Alignment explanation
Indices: 28031896--28031935 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
28031886 GTCGAGTTGG
28031896 TCACACAGGCGTGTTGCCCTT
1 TCACACAGGCGTGTTGCCCTT
*
28031917 TCACACGGGCGTG-TGCCCT
1 TCACACAGGCGTGTTGCCCT
28031936 ATCTTAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
TCACACAGGCGTGTTGCCCTT
Found at i:28033449 original size:50 final size:50
Alignment explanation
Indices: 28033385--28033484 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
28033375 GTATTTGTGT
28033385 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
1 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
28033435 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
1 CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
28033485 TATGGAGAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (50 bp):
CGAATTGAACTATTGCTTGTATATATATGTTCAAGTCGAATTTGTTTAAG
Found at i:28036880 original size:43 final size:44
Alignment explanation
Indices: 28036767--28036881 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
28036757 TGTGATTTTG
* * * *
28036767 TGTAAGACGACGTCTGGGACGTTGGCATCGATTTGTAATTTGCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAAGTTACA
*** * * ** *
28036811 TGTAAGACCTTATTTAGGACAATGGCATCGATATGT-GGTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAAGTTACA
28036854 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
28036882 TGTACGAGCT
Statistics
Matches: 52, Mismatches: 19, Indels: 1
0.72 0.26 0.01
Matches are distributed among these distances:
43 25 0.48
44 27 0.52
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAAGTTACA
Found at i:28037348 original size:26 final size:26
Alignment explanation
Indices: 28037319--28037426 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
28037309 TGCTACAAAT
*
28037319 TGATAATGGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
28037345 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
28037371 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
28037397 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
28037423 TGAT
1 TGAT
28037427 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:28054247 original size:27 final size:27
Alignment explanation
Indices: 28054213--28054385 Score: 179
Period size: 27 Copynumber: 6.4 Consensus size: 27
28054203 TAAATTGTAC
28054213 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
28054240 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
28054266 ATGCACT-AGAGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
28054293 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
28054321 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28054348 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28054375 AGCACTGAGTG
1 AGCACTAAGTG
28054386 ACGGCTCAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 20 0.17
27 78 0.64
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28054353 original size:81 final size:81
Alignment explanation
Indices: 28054214--28054368 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
28054204 AAATTGTACA
* *
28054214 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACT-AGAGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGAGT
28054278 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
28054294 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGA
*
28054358 GTGCGAGTTGA
64 GTGCGAATTGA
28054369 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 16 0.25
81 37 0.57
82 12 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGAGT
GCGAATTGACCATGCG
Found at i:28059490 original size:79 final size:77
Alignment explanation
Indices: 28059356--28059564 Score: 280
Period size: 77 Copynumber: 2.7 Consensus size: 77
28059346 ATATCCGGAC
* * *
28059356 TAAGATCCGAAGGCTTTGTGCGAGATACT--AA-TGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
1 TAAG-TCCGAAGGCATTGTGCGAGTTACTAAAACCGGGTTAAGT-CCGAAGGCATTCGTGCGAGT
28059418 TGTTAAATCCGGGT
64 TGTTAAATCCGGGT
** *
28059432 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGT
1 TAAGT-CCGAAGGCATT-GTGCGAGTTACTAAAACCGGGTTAAGTCCGAAGGCATTCGTGCGAGT
28059497 TGTTAAATCCGGGT
64 TGTTAAATCCGGGT
* * *
28059511 TAAGTCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCGAAGGCATT
1 TAAGTCCGAAGGCATTGTGCGAGTTACTAAAACCGGGTTAAGTCCGAAGGCATT
28059565 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
75 1 0.01
76 14 0.12
77 41 0.35
78 11 0.09
79 40 0.34
80 9 0.08
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (77 bp):
TAAGTCCGAAGGCATTGTGCGAGTTACTAAAACCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTG
TTAAATCCGGGT
Found at i:28059492 original size:39 final size:39
Alignment explanation
Indices: 28059388--28059564 Score: 275
Period size: 39 Copynumber: 4.5 Consensus size: 39
28059378 AGATACTAAT
28059388 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCC
1 GGGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAATCC
28059428 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCC
1 GGGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAATCC
28059468 GGGTTAAGTCCGAAGGCATTCGTGCGAGTTGTTAAATCC
1 GGGTTAAGTCCGAAGGCATTCGTGCGAGTTGTTAAATCC
* ** *
28059507 GGGTTAAGTCCGAAGGCATT-GTGTGAGTTACTAAAACC
1 GGGTTAAGTCCGAAGGCATTCGTGCGAGTTGTTAAATCC
* *
28059545 GGGCTATGTCCGAAGGCATT
1 GGGTTAAGTCCGAAGGCATT
28059565 TGAACGAGGA
Statistics
Matches: 131, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
38 32 0.24
39 50 0.38
40 49 0.37
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (39 bp):
GGGTTAAGTCCGAAGGCATTCGTGCGAGTTGTTAAATCC
Found at i:28059584 original size:77 final size:78
Alignment explanation
Indices: 28059392--28059598 Score: 211
Period size: 77 Copynumber: 2.7 Consensus size: 78
28059382 ACTAATGGGT
** ** *
28059392 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGT-CCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAG
** * *
28059457 TTGTTAAATCCGGGT
64 TTACTAAAACCGGGC
** ** * *
28059472 TAAGTCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCGAAGGCATT-GTGTGAGTT
1 TAAGTCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTT
28059536 ACTAAAACCGGGC
66 ACTAAAACCGGGC
* * * *
28059549 TATGTCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCGAAGG
1 TAAGTCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAGTCCGAAGG
28059599 TACGTGATTT
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
76 14 0.12
77 44 0.39
78 11 0.10
79 39 0.35
80 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (78 bp):
TAAGTCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTT
ACTAAAACCGGGC
Found at i:28067288 original size:40 final size:40
Alignment explanation
Indices: 28067258--28067467 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
28067248 GGACTAAGAT
* * * **
28067258 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
28067298 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
28067338 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
28067378 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
28067418 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
28067457 CCGAAGGCATT
1 CCGAAGGCATT
28067468 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:28070812 original size:40 final size:42
Alignment explanation
Indices: 28070709--28070855 Score: 127
Period size: 43 Copynumber: 3.5 Consensus size: 42
28070699 GAAATCCGAG
**
28070709 CTCGTTGAGCAGTCCGAGTTCGTGATATATGTGAGAATCCGAA
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCC-AA
** * *
28070752 CTTATTGAGTGGTCCAAGTTCGTGATATATGTG-GCATCC-A
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAA
* * * ** * * *
28070792 CTCGTTGAGTGGTCTGAGTTCATTATGGATGTGAGCATCTGAG
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATC-CAA
*
28070835 CTCATTGAGTGGTCCGAGTTC
1 CTCGTTGAGTGGTCCGAGTTC
28070856 ATAATGGATG
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
40 26 0.31
41 5 0.06
42 5 0.06
43 47 0.57
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAA
Found at i:28075946 original size:47 final size:47
Alignment explanation
Indices: 28075892--28076317 Score: 620
Period size: 47 Copynumber: 9.1 Consensus size: 47
28075882 TTAGGATTTT
** *
28075892 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
28075939 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28075986 ATGCGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28076033 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * **
28076080 ATGTGATGAATAAGAACATGCATATATGTGATAACGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28076127 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28076174 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
28076221 ATGTGATGAATGAGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
28076268 ATGTGACGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
28076315 ATG
1 ATG
28076318 CGAAATGTGT
Statistics
Matches: 340, Mismatches: 38, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 337 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28075979 original size:25 final size:24
Alignment explanation
Indices: 28075891--28076256 Score: 82
Period size: 25 Copynumber: 15.5 Consensus size: 24
28075881 TTTAGGATTT
* **
28075891 TATGTGATGAATGTGAATGTGCATA
1 TATGTGAT-AAGGTGAACATGCATA
* * *
28075916 TATGTGATAAGGCCGAATA-GC-CA
1 TATGTGATAAGG-TGAACATGCATA
*
28075939 -ATGTGATGAATGTGAACATGCATA
1 TATGTGAT-AAGGTGAACATGCATA
*
28075963 TATGTGATAAGGTTG-A-ATGGC-CA
1 TATGTGATAAGG-TGAACAT-GCATA
* *
28075986 -ATGCGATGAATGTGAACATGCATA
1 TATGTGAT-AAGGTGAACATGCATA
* * *
28076010 TGTGTGATAAGGCCG-A-ATGGC-CA
1 TATGTGATAAGG-TGAACAT-GCATA
*
28076033 -ATGTGATGAATGTGAACATGCATA
1 TATGTGAT-AAGGTGAACATGCATA
* *
28076057 TATGTGATAAGGCCG-A-ATGGC-CA
1 TATGTGATAAGG-TGAACAT-GCATA
***
28076080 -ATGTGATGAATAAGAACATGCATA
1 TATGTGAT-AAGGTGAACATGCATA
* * * *
28076104 TATGTGATAACG-CAAAATGGC-CA
1 TATGTGATAAGGTGAACAT-GCATA
*
28076127 -ATGTGATGAATGTGAACATGCATA
1 TATGTGAT-AAGGTGAACATGCATA
* * *
28076151 TGTGTGATAAGGCCG-A-ATG-ACCA
1 TATGTGATAAGG-TGAACATGCA-TA
*
28076174 -ATGTGATGAATGTGAACATGCATA
1 TATGTGAT-AAGGTGAACATGCATA
* *
28076198 TATGTGATAAGGCCG-A-ATGGC-CA
1 TATGTGATAAGG-TGAACAT-GCATA
* *
28076221 -ATGTGATGAATGAGAACATGCATA
1 TATGTGAT-AAGGTGAACATGCATA
28076245 TATGTGATAAGG
1 TATGTGATAAGG
28076257 CAAAATGGCC
Statistics
Matches: 243, Mismatches: 53, Indels: 91
0.63 0.14 0.24
Matches are distributed among these distances:
22 57 0.23
23 59 0.24
24 62 0.26
25 65 0.27
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.26
Consensus pattern (24 bp):
TATGTGATAAGGTGAACATGCATA
Found at i:28076039 original size:22 final size:22
Alignment explanation
Indices: 28076012--28076086 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
28076002 CATGCATATG
28076012 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
28076034 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
28076059 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
28076081 TGTGAT
1 TGTGAT
28076087 GAATAAGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:28076347 original size:46 final size:46
Alignment explanation
Indices: 28076291--28076409 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
28076281 GGAAGTGTAT
* *
28076291 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
* *
28076337 ATATGAGGTAAAGTCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
*
28076383 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
28076410 TGAGAGATGT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
Found at i:28078950 original size:28 final size:28
Alignment explanation
Indices: 28078918--28078982 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
28078908 ATTTACTAGA
*
28078918 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
28078946 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
28078974 ATACCCCTA
1 ATACCCCTA
28078983 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Done.