Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 94 of 175
Found at i:30022452 original size:50 final size:50
Alignment explanation
Indices: 30022390--30022564 Score: 145
Period size: 50 Copynumber: 3.4 Consensus size: 50
30022380 AAATGTCATA
* * ** * * * *
30022390 TCCCAGATATGGTCTTACATGAGAGTTCTCATATTGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATG
* * *
30022440 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATG
* * * *
30022490 TCCCAGACATGGTCTTACGTGGA-ACCTCTCATAACCTCAGTAATGCCAATGACATG
1 TCCCAGACATGGTCTTAC-AGGAGACCTCTCAT-A--TCGGT-A--CCAACGCCATG
30022546 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
30022565 TGAGGTCTCA
Statistics
Matches: 100, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
50 66 0.66
51 2 0.02
53 4 0.04
54 1 0.01
56 27 0.27
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACCAACGCCATG
Found at i:30022553 original size:56 final size:52
Alignment explanation
Indices: 30022427--30022563 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 52
30022417 CTCATATTGG
* * *
30022427 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGAACCTCTCATCTCAGTA
* *
30022479 --CCAACGCCATGTCCCAGACATGGTCTTACGTGGAACCTCTCATAACCTCAGTAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGAACCTCTCAT---CTCAGT-A
*
30022533 TGCCAATGACATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
30022564 ATGAGGTCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
50 39 0.54
53 5 0.07
54 1 0.01
56 27 0.38
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGAACCTCTCATCTCAGTA
Found at i:30022961 original size:30 final size:29
Alignment explanation
Indices: 30022909--30022969 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
30022899 CAATGACTCG
**
30022909 AACTTTGGCAAAATTATGATTTTGCCCCTA
1 AACTTTGGCAAAATTACAATTTTG-CCCTA
* *
30022939 AACTTTGGCATATTTACAATTTTGCCCTA
1 AACTTTGGCAAAATTACAATTTTGCCCTA
30022968 AA
1 AA
30022970 GCTCAGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (29 bp):
AACTTTGGCAAAATTACAATTTTGCCCTA
Found at i:30032474 original size:30 final size:30
Alignment explanation
Indices: 30032440--30032535 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 30
30032430 AATGAAAGAG
30032440 CCCAAAAATTTAAAGAAGAATCTTGCATGA
1 CCCAAAAATTTAAAGAAGAATCTTGCATGA
* * *
30032470 CCCAAATATTTATAA-ATGAA---AG-A-G-
1 CCCAAAAATTTA-AAGAAGAATCTTGCATGA
30032494 CCCAAAAATTTAAAGAAGAATCTTGCATGA
1 CCCAAAAATTTAAAGAAGAATCTTGCATGA
*
30032524 CCTAAAAATTTA
1 CCCAAAAATTTA
30032536 TAAACTCATA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
23 2 0.04
24 15 0.29
25 1 0.02
26 1 0.02
27 2 0.04
28 1 0.02
29 1 0.02
30 26 0.51
31 2 0.04
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (30 bp):
CCCAAAAATTTAAAGAAGAATCTTGCATGA
Found at i:30032491 original size:54 final size:54
Alignment explanation
Indices: 30032427--30032539 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
30032417 TTTAGAAACA
*
30032427 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAAAATTT
*
30032481 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCTAAAAATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAAAATTT
30032535 ATAAA
1 ATAAA
30032540 CTCATATTGG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.24
Consensus pattern (54 bp):
ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAAAATTT
Found at i:30039373 original size:15 final size:14
Alignment explanation
Indices: 30039324--30039381 Score: 55
Period size: 15 Copynumber: 4.0 Consensus size: 14
30039314 GTATGCAATT
*
30039324 TTTTTTTTTTTTGCA
1 TTTTTTTTTTTCG-A
* *
30039339 ATTTTTTTTTTC-C
1 TTTTTTTTTTTCGA
30039352 TTCTTTTTTTTTCGGA
1 TT-TTTTTTTTTC-GA
30039368 TTTTTTTTTTTCGA
1 TTTTTTTTTTTCGA
30039382 AACCTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 1 0.03
14 12 0.34
15 20 0.57
16 2 0.06
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTTTTTTTTTCGA
Found at i:30039406 original size:14 final size:13
Alignment explanation
Indices: 30039382--30039407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30039372 TTTTTTTCGA
30039382 AACCTTTTTTTTT
1 AACCTTTTTTTTT
30039395 AACCTTTTTTTTT
1 AACCTTTTTTTTT
30039408 CGAAGCTACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
AACCTTTTTTTTT
Found at i:30043233 original size:6 final size:6
Alignment explanation
Indices: 30043222--30043248 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30043212 AAGTGGCTTT
30043222 TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTA
30043249 CTATGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:30043375 original size:18 final size:17
Alignment explanation
Indices: 30043332--30043377 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
30043322 CCGTTATGTC
30043332 CGCGACCGCGA-C-AAA
1 CGCGACCGCGACCGAAA
*
30043347 CGC-AACGCGACCGAAAA
1 CGCGACCGCGACCG-AAA
30043364 CGCGACCGCGACCG
1 CGCGACCGCGACCG
30043378 CAATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.24
15 4 0.16
17 6 0.24
18 9 0.36
ACGTcount: A:0.30, C:0.41, G:0.28, T:0.00
Consensus pattern (17 bp):
CGCGACCGCGACCGAAA
Found at i:30044067 original size:50 final size:50
Alignment explanation
Indices: 30044005--30044105 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
30043995 CGGACCATAC
*
30044005 TGCACAAATAAAATTCATATAGAATTACTCT-TCTTCTATTTGACATTGAT
1 TGCACAAATAAAATTCATATAGAACTACTCTCT-TTCTATTTGACATTGAT
* * **
30044055 TGCACAAGTAAAATTCGTATAGAACTGGTCTCTTTCTATTTGACATTGAT
1 TGCACAAATAAAATTCATATAGAACTACTCTCTTTCTATTTGACATTGAT
30044105 T
1 T
30044106 AGAATAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 44 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (50 bp):
TGCACAAATAAAATTCATATAGAACTACTCTCTTTCTATTTGACATTGAT
Found at i:30045066 original size:13 final size:13
Alignment explanation
Indices: 30045045--30045074 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30045035 AAATATATAA
*
30045045 ATTTGTAAAATTT
1 ATTTATAAAATTT
30045058 ATTTATAAAATTT
1 ATTTATAAAATTT
30045071 ATTT
1 ATTT
30045075 TTGTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
ATTTATAAAATTT
Found at i:30046227 original size:30 final size:29
Alignment explanation
Indices: 30046172--30046240 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
30046162 TGCTCGGACT
* *
30046172 AAATTT-TCAAAAAAAGATC-ATTTTTTTA
1 AAATTTAT-AAAAAAAGACCAATTTTTTGA
30046200 AAATATTATAAAAAATAGACCAATTTTTTGA
1 AAAT-TTATAAAAAA-AGACCAATTTTTTGA
30046231 AAATTTATAA
1 AAATTTATAA
30046241 GAATTAGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 4 0.11
29 8 0.23
30 11 0.31
31 12 0.34
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (29 bp):
AAATTTATAAAAAAAGACCAATTTTTTGA
Found at i:30047304 original size:3 final size:3
Alignment explanation
Indices: 30047296--30047359 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
30047286 GGGTTTTAAA
* * * *
30047296 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
30047340 AAT AAT AAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
30047360 CTAAGGTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 4 0.08
3 36 0.75
4 8 0.17
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30047415 original size:19 final size:20
Alignment explanation
Indices: 30047384--30047421 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30047374 CATATAAAAG
30047384 AATGTGAATAAATA-AATAT
1 AATGTGAATAAATAGAATAT
30047403 AATGTG-ATAAAATAGAATA
1 AATGTGAAT-AAATAGAATA
30047422 GATGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 11 0.65
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTGAATAAATAGAATAT
Found at i:30048594 original size:17 final size:19
Alignment explanation
Indices: 30048572--30048608 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
30048562 TTGTTATAAA
30048572 TTTTTTTTGT-TTT-GGTT
1 TTTTTTTTGTCTTTAGGTT
30048589 TTTTTTTTGTCTTTAGGTT
1 TTTTTTTTGTCTTTAGGTT
30048608 T
1 T
30048609 CTGTTTGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.03, C:0.03, G:0.16, T:0.78
Consensus pattern (19 bp):
TTTTTTTTGTCTTTAGGTT
Found at i:30048850 original size:44 final size:44
Alignment explanation
Indices: 30048813--30049454 Score: 498
Period size: 44 Copynumber: 14.5 Consensus size: 44
30048803 CTTCGACCCA
* * **
30048813 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCGATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * * * *
30048857 TTCCACTGTAATTTCAAGGAGACAAGACTTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * * *
30048901 CTCCACTACAACTTTAGGGAGACAATATTTGTAACTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC-TTCAATCTG
* * * * *
30048946 CTCCACTAG-AACTTTAGAGAGATAAAACTTGTAATTTCAATCTA
1 CTCCACT-GCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * ** **
30048990 CTTCACTGTAACTTCAGGGAGATGAGGTTTGTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * *
30049034 CTCCACTGCGACCTCAAGGAGATAAGA-TCTATAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGTAACTTCAATCTG
* * * *
30049078 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-CTTCAATCTG
*
30049123 CTCCACTGCAACTTCAGGGAGATAATACTTGTAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * **
30049167 CTCCGCTGCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * *
30049211 CTCCACTACGACTTCAGAGAGATAAGA-TCTATAACTTAAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGTAACTTCAATCTG
* * * * * * * * * **
30049255 TTCTATTGTAATTTTAAGGAGATAAGATTTATGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * ** * *
30049299 CTCCACTACAACTTTAGGAAGATAAGACTTACAACTTCAATATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * * * * *
30049343 CTCCGCTACAACTTCAAGAAGATGAGATTTGTAATTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-CTTCAATCTG
*
30049388 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * *
30049432 TTCCGCTGCAACTTCAAGGAGAT
1 CTCCACTGCAACTTCAGGGAGAT
30049455 GAGATTCGCC
Statistics
Matches: 461, Mismatches: 128, Indels: 18
0.76 0.21 0.03
Matches are distributed among these distances:
43 3 0.01
44 347 0.75
45 111 0.24
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
Found at i:30049119 original size:177 final size:176
Alignment explanation
Indices: 30048869--30049460 Score: 636
Period size: 177 Copynumber: 3.3 Consensus size: 176
30048859 CCACTGTAAT
* * * * * * *
30048869 TTCAAGGAGACAAGACTTATAGCTTCAATCTGCTCCACTACAACTTTAGGGAGACAATATTTGTA
1 TTCAAGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
* * * * *
30048934 ACTTTCAGTCTGCTCCACTAGAACTTTAGAGAGATAAAACTTGTAATTTCAATCTACTTCACTGT
66 ATTTTCAGTCTGCTCCACTAGAACTTTAG-GAGATAAAACTTGTAACTTCAATCTACTCCGCTGC
* *
30048999 AACTTCAGGGAGATGAGGTTTGTGTCTTCAATCTGCTCCACTGCGAC
130 AACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTGCGAC
* * *
30049046 CTCAAGGAGATAAGA-TCTATAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
1 TTCAAGGAGATAAGACT-TATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT
* * *
30049110 AATTTTCAGTCTGCTCCACT-GCAACTTCAGGGAGATAATACTTGTAACTTCAATCTGCTCCGCT
65 AATTTTCAGTCTGCTCCACTAG-AACTTTA-GGAGATAAAACTTGTAACTTCAATCTACTCCGCT
*
30049174 GCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTACGAC
128 GCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTGCGAC
* * * * * * * *
30049223 TTC-AGAGAGATAAGA-TCTATAACTTAAATCTGTTCTATTGTAATTTTAAGGAGATAAGATTTA
1 TTCAAG-GAGATAAGACT-TATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG
* * * * * ** *
30049286 T-GTCTTCAATCTGCTCCACTACAACTTTAGGAAGATAAGACTTACAACTTCAATATACTCCGCT
64 TAATTTTCAGTCTGCTCCACTAGAACTTTAGG-AGATAAAACTTGTAACTTCAATCTACTCCGCT
* * * * * *
30049350 ACAACTTCAAGAAGATGAGATTTGTAATTTTCAGTCTGCTCCACTGCAAC
128 GCAACTTCAAGGAGATGAGATTTGT-GTCTTCAATCTGCTCCACTGCGAC
* * * * * *
30049400 TTCAGGGAGATAAGACTTGTAACTTCAATATGTTCCGCTGCAACTTCAAGGAGATGAGATT
1 TTCAAGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
30049461 CGCCATAATG
Statistics
Matches: 350, Mismatches: 56, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
175 2 0.01
176 76 0.22
177 269 0.77
178 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (176 bp):
TTCAAGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
ATTTTCAGTCTGCTCCACTAGAACTTTAGGAGATAAAACTTGTAACTTCAATCTACTCCGCTGCA
ACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTGCGAC
Found at i:30049299 original size:265 final size:266
Alignment explanation
Indices: 30048812--30049460 Score: 729
Period size: 265 Copynumber: 2.4 Consensus size: 266
30048802 GCTTCGACCC
* ** *** * * *
30048812 ACTCCACTGCAACTTCAGGGAGATAAGACTTGT-AGCTTC-GATCCATTCCACTGTAATTTCAAG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAG-TCTGCTCCACTGCAACTTCAGG
* * * * * * * ** *
30048875 GAGACAAGACTTATAGCTTCAATCTGCTCCACTACAACTTTAGGGAGACAATATTTGTAACTTTC
65 GAGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTAACTTTC
* * * * *
30048940 AGTCTGCTCCACTAGAACTTTAGAGAGATAAAACTTGTAATTTCAATCTACTTCACTGTAACTTC
130 AATCTGCTCCACTAGAACTTCAGAGAGATAAAACTTATAACTTAAATCTACTTCACTGTAACTTC
* * * * * * *
30049005 AGGGAGATGAGGTTTGTGTCTTCAATCTGCTCCACTGCGACCTCAAGG-AGATAAGA-TCTATAA
195 AAGGAGATAAGATTTATGTCTTCAATCTGCTCCACTAC-AACTCAAGGAAGATAAGACT-TACAA
*
30049068 CTTCAATCT
258 CTTCAATAT
* *
30049077 GCTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
* **
30049142 AGATAATACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTGTC-TTCA
66 AGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTAACTTTCA
* * * *
30049206 ATCTGCTCCACTACG-ACTTCAGAGAGATAAGA-TCTATAACTTAAATCT-GTTCTATTGTAATT
131 ATCTGCTCCACTA-GAACTTCAGAGAGATAAAACT-TATAACTTAAATCTACTTC-ACTGTAACT
* **
30049268 TTAAGGAGATAAGATTTATGTCTTCAATCTGCTCCACTACAACTTTAGGAAGATAAGACTTACAA
193 TCAAGGAGATAAGATTTATGTCTTCAATCTGCTCCACTACAACTCAAGGAAGATAAGACTTACAA
30049333 CTTCAATAT
258 CTTCAATAT
* * * * *
30049342 ACTCCGCTACAACTTCAAGAAGATGAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
* *
30049407 AGATAAGACTTGTAACTTCAATATGTTCCGCTGCAACTTCAAGGAGATGAGATT
66 AGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATT
30049461 CGCCATAATG
Statistics
Matches: 323, Mismatches: 54, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
264 10 0.03
265 242 0.75
266 70 0.22
267 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (266 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
AGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTAACTTTCA
ATCTGCTCCACTAGAACTTCAGAGAGATAAAACTTATAACTTAAATCTACTTCACTGTAACTTCA
AGGAGATAAGATTTATGTCTTCAATCTGCTCCACTACAACTCAAGGAAGATAAGACTTACAACTT
CAATAT
Found at i:30050073 original size:44 final size:44
Alignment explanation
Indices: 30050023--30050111 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
30050013 ATTTGAGAAG
30050023 AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
1 AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
* *
30050067 AATAAATTAATCAACGAAAGCAGACATTGGTGAAATACAAAATT
1 AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
30050111 A
1 A
30050112 GTAAGAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (44 bp):
AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
Found at i:30054207 original size:50 final size:49
Alignment explanation
Indices: 30054095--30054342 Score: 253
Period size: 50 Copynumber: 4.8 Consensus size: 49
30054085 ATTTGGGTAA
* * *
30054095 AGAGATCCAATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCC-ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
30054151 AGAGGTCACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
30054201 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGT-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * ** *
30054251 AGAGGTTCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTTATATG
1 AGAGG-TCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
30054301 AGAATTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTC-CATGTAAGACCATGTCTGGGACATGGCATTGGCA
30054343 GTACAAGAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
49 2 0.01
50 123 0.73
51 2 0.01
53 3 0.02
55 1 0.01
56 37 0.22
57 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGAGGTCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:30054283 original size:100 final size:102
Alignment explanation
Indices: 30054095--30054342 Score: 279
Period size: 100 Copynumber: 2.4 Consensus size: 102
30054085 ATTTGGGTAA
* * *
30054095 AGAGATCCAATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCAC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG--TATGAGAGGTCAC
* * *
30054160 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
62 ACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
30054201 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGAGAGGTTC-CCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGG-TCACACG
** *
30054263 TAAGACCATGTCTGGGACATGGCATGGGCACTTATATG
65 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
30054301 AGA-ATTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30054343 GTACAAGAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
100 79 0.64
101 2 0.02
103 2 0.02
106 40 0.33
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCACACGT
AAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:30054335 original size:150 final size:153
Alignment explanation
Indices: 30054106--30054391 Score: 357
Period size: 150 Copynumber: 1.9 Consensus size: 153
30054096 GAGATCCAAT
* * *
30054106 GTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCACATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCATT--GATTATGAGAAGTCACATGTAAGACCA
* * * * * ** *
30054171 TGTCTGGGACATGGCGTTGGCACCG-AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
64 TATCTGGGACATGGCATTGGCA--GTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAG
30054235 CGTTGGCACCAAGATGAGAGGTTCCCC
127 CGTTGGCACCAAGATGAGAGGTTCCCC
* *
30054262 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-TT-A-TATGAGAATTCTCATGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCATTGATTATGAGAAGTCACATGTAAGACCATA
* * *
30054323 TCTGGGATATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTT
66 TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCGTT
30054388 GGCA
131 GGCA
30054392 TGTTATATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
148 1 0.01
149 39 0.35
150 40 0.35
151 1 0.01
154 2 0.02
155 1 0.01
156 29 0.26
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (153 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCATTGATTATGAGAAGTCACATGTAAGACCATA
TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCGTT
GGCACCAAGATGAGAGGTTCCCC
Found at i:30058931 original size:3 final size:3
Alignment explanation
Indices: 30058923--30058983 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
30058913 GGGTTTTAAA
* * * * *
30058923 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
30058968 AAT AAT AAT GAAT AAT
1 AAT AAT AAT -AAT AAT
30058984 CTAAGGTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30059039 original size:19 final size:20
Alignment explanation
Indices: 30059008--30059045 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30058998 CATATAAAAG
30059008 AATGTGAATAAATA-AATAT
1 AATGTGAATAAATAGAATAT
30059027 AATGTG-ATAAAATAGAATA
1 AATGTGAAT-AAATAGAATA
30059046 GATGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 11 0.65
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTGAATAAATAGAATAT
Found at i:30059852 original size:23 final size:23
Alignment explanation
Indices: 30059826--30059869 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30059816 AAAGTTTTTA
*
30059826 TTTTTATTTTTAT-TTTTGTATTC
1 TTTTT-TTTATATCTTTTGTATTC
30059849 TTTTTTTTATATCTTTTGTAT
1 TTTTTTTTATATCTTTTGTAT
30059870 ATAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTTTTTATATCTTTTGTATTC
Found at i:30059855 original size:20 final size:19
Alignment explanation
Indices: 30059820--30059858 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
30059810 GGTGAAAAAG
30059820 TTTTTATTTTTATTTTTAT
1 TTTTTATTTTTATTTTTAT
30059839 TTTTGTATTCTTT-TTTTTAT
1 TTTT-TATT-TTTATTTTTAT
30059859 ATCTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 11 0.61
21 3 0.17
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTATTTTTAT
Found at i:30065747 original size:20 final size:20
Alignment explanation
Indices: 30065718--30065771 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
30065708 CATATATCAT
* *
30065718 AATTTTATTTGATTCCAATC
1 AATTTGATTTAATTCCAATC
**
30065738 AATTTGATTTAATTTTAATC
1 AATTTGATTTAATTCCAATC
*
30065758 AAATTGATTTAATT
1 AATTTGATTTAATT
30065772 GTTCATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (20 bp):
AATTTGATTTAATTCCAATC
Found at i:30066523 original size:86 final size:84
Alignment explanation
Indices: 30066376--30066537 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 84
30066366 AATAAAAATA
* * *
30066376 AAAATTGAATAAAATCTGTTTCGGGGTTTATTCCCGTCGTTCAACAAATTTTATTCCATCTTTGA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTACCGTCGTTCAACAAATTTTATTCCATC-TTGA
*
30066441 TTTATTTTCCAAACGAATATT
65 TTT-GTTTCCAAACGAATATT
* ** * * *
30066462 AAAATTAAATAAATTCTGTTTCGGGATTTATTACTTTCGTTTAACAGATTTTATTCGATCTTGAT
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTACCGTCGTTCAACAAATTTTATTCCATCTTGAT
30066527 TTGTTTCCAAA
66 TTGTTTCCAAA
30066538 TGAAAACTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
84 8 0.12
85 7 0.11
86 51 0.77
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (84 bp):
AAAATTAAATAAAATCTGTTTCGGGATTTATTACCGTCGTTCAACAAATTTTATTCCATCTTGAT
TTGTTTCCAAACGAATATT
Found at i:30068375 original size:30 final size:30
Alignment explanation
Indices: 30068339--30068398 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
30068329 ATATTTAAGA
*
30068339 AGCCACATGGGCTAGACACACGACCATGTG
1 AGCCACACGGGCTAGACACACGACCATGTG
* * * *
30068369 AGCCACACGGTCTGGACACATGGCCATGTG
1 AGCCACACGGGCTAGACACACGACCATGTG
30068399 CTAGACCGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.30, G:0.28, T:0.15
Consensus pattern (30 bp):
AGCCACACGGGCTAGACACACGACCATGTG
Found at i:30077006 original size:17 final size:18
Alignment explanation
Indices: 30076984--30077017 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30076974 TATTCAGCTT
30076984 GTTATTGAATT-TTTAAC
1 GTTATTGAATTGTTTAAC
30077001 GTTATTGAATTGTTTAA
1 GTTATTGAATTGTTTAA
30077018 TTGCTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (18 bp):
GTTATTGAATTGTTTAAC
Found at i:30084083 original size:20 final size:20
Alignment explanation
Indices: 30084060--30084111 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
30084050 TTTATTCCAG
30084060 TCAATTTGATTTGATTTTAA
1 TCAATTTGATTTGATTTTAA
30084080 TCAAATTT-ATTTGATTTTAA
1 TC-AATTTGATTTGATTTTAA
*
30084100 TCAAATTGATTT
1 TCAATTTGATTT
30084112 AATTGCTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.14
20 20 0.69
21 5 0.17
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.54
Consensus pattern (20 bp):
TCAATTTGATTTGATTTTAA
Found at i:30084599 original size:22 final size:23
Alignment explanation
Indices: 30084558--30084604 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
30084548 TTCAATTTAT
30084558 TTTATTTTATACTTAAATATTTG
1 TTTATTTTATACTTAAATATTTG
* *
30084581 TTTA-TTTATATTTATATATTTG
1 TTTATTTTATACTTAAATATTTG
30084603 TT
1 TT
30084605 AGCTAACGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTATTTTATACTTAAATATTTG
Found at i:30096159 original size:12 final size:12
Alignment explanation
Indices: 30096139--30096178 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
30096129 AATTATTTCT
*
30096139 ATTAGTTTTTTA
1 ATTAATTTTTTA
30096151 ATTAA-TTTTTA
1 ATTAATTTTTTA
30096162 ATTAATTTTTTA
1 ATTAATTTTTTA
30096174 TATTA
1 -ATTA
30096179 CAGTAAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 11 0.44
12 10 0.40
13 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
ATTAATTTTTTA
Found at i:30117726 original size:3 final size:3
Alignment explanation
Indices: 30117701--30117794 Score: 92
Period size: 3 Copynumber: 33.0 Consensus size: 3
30117691 ACTGGGTAGT
* * * * *
30117701 AGA AGA GGA AG- AGA AAA AAA AGA AGA ATA AG- CGA AGA A-A TAG-
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA
30117743 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
30117789 AGA AGA
1 AGA AGA
30117795 TGAGAAAATG
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
2 10 0.13
3 66 0.87
ACGTcount: A:0.66, C:0.01, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:30119413 original size:29 final size:28
Alignment explanation
Indices: 30119380--30119451 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
30119370 AGCTTACACT
30119380 TTGGTCACTCAATTTTAAAAAGTTACAAG
1 TTGGTCACTCAATTTT-AAAAGTTACAAG
* * *
30119409 TTGGTCACTAAACTACTTGAAAGTTACAAG
1 TTGGTCACTCAA-T-TTTAAAAGTTACAAG
*
30119439 TTGTTCA-TCAATT
1 TTGGTCACTCAATT
30119452 GTAATGGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
28 1 0.03
29 14 0.40
30 18 0.51
31 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (28 bp):
TTGGTCACTCAATTTTAAAAGTTACAAG
Found at i:30124483 original size:41 final size:41
Alignment explanation
Indices: 30124438--30124575 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 41
30124428 TAATTCACCG
** * *
30124438 GCACAAAGCTTGCTAGGCTTAAGGCTTGATAATATACACTA
1 GCACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
* * *
30124479 GCACAAAGCCTGCTAGGCACAAAGCCTAATAATATACAC-C
1 GCACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
* * *
30124519 GACACAAAGCTTGCTAGACACAAAACCTGATAATATACACTG
1 G-CACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
*
30124561 GCACAAAGCTAGCTA
1 GCACAAAGCTTGCTA
30124576 ATATCTCATT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.01
41 80 0.98
42 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (41 bp):
GCACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
Found at i:30130480 original size:46 final size:44
Alignment explanation
Indices: 30130384--30130745 Score: 346
Period size: 46 Copynumber: 8.6 Consensus size: 44
30130374 TACGTATGAT
* *
30130384 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTAC
30130427 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
* *
30130473 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGACTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AG-CTAC
*
30130519 CACTTATCACTTTATCACTTGATCAGATAA--GTA--TA---A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
30130555 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
30130591 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
30130637 CACTTATCACTTTGTCTCTTAATCAGATAA--GT-G-TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
30130673 CACTTATCACATTT-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
30130719 CATTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30130746 AGTACTCAAA
Statistics
Matches: 280, Mismatches: 12, Indels: 51
0.82 0.03 0.15
Matches are distributed among these distances:
36 88 0.31
37 4 0.01
38 5 0.02
39 1 0.00
40 4 0.01
41 1 0.00
42 6 0.02
43 11 0.04
44 10 0.04
45 23 0.08
46 127 0.45
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:30130557 original size:36 final size:36
Alignment explanation
Indices: 30130516--30130704 Score: 216
Period size: 36 Copynumber: 5.0 Consensus size: 36
30130506 TAGCTAAGAC
*
30130516 TAACACTTATCACTTTATCACTTGATCAGATAAGTA
1 TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
30130552 TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
1 TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
*
30130588 TAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTA
1 TAACACTTATCACTTTTTCACTTGATCAGATAA--GTA
* * * *
30130626 GCTAAAGCTACCACTTATCACTTTGTCTCTTAATCAGATAAGTG
1 --T--A---A-CACTTATCACTTTTTCACTTGATCAGATAAGTA
* *
30130670 TAGCACTTATCACATTTTCACTTGATCAGATAAGT
1 TAACACTTATCACTTTTTCACTTGATCAGATAAGT
30130705 GTAGCTAAAG
Statistics
Matches: 131, Mismatches: 12, Indels: 20
0.80 0.07 0.12
Matches are distributed among these distances:
36 95 0.73
38 3 0.02
40 2 0.02
42 2 0.02
44 2 0.02
46 27 0.21
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (36 bp):
TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
Found at i:30130641 original size:82 final size:82
Alignment explanation
Indices: 30130427--30130745 Score: 379
Period size: 82 Copynumber: 3.9 Consensus size: 82
30130417 GCTAGGCTAC
* * *
30130427 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
30130492 TGATCAGATAAGTGTAGCTAAG
66 TGATCAGATAA--GTA--T-AG
* *
30130514 ACTAACACTTATCACTTTATCACTTGATCAGATAA--GTA--T--A---A-CACTTATCACTTTT
1 -----CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTA
30130569 TCACTTGATCAGATAAGTATAG
61 TCACTTGATCAGATAAGTATAG
* *
30130591 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
* *
30130656 TAATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
30130673 CACTTATCACATTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCATTTATCACTTTATCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
30130738 TGATCAGA
66 TGATCAGA
30130746 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 13, Indels: 30
0.83 0.05 0.12
Matches are distributed among these distances:
72 29 0.14
74 3 0.01
76 1 0.00
77 2 0.01
78 2 0.01
80 3 0.01
81 1 0.00
82 129 0.63
83 1 0.00
88 1 0.00
90 3 0.01
92 29 0.14
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TGATCAGATAAGTATAG
Found at i:30130681 original size:118 final size:118
Alignment explanation
Indices: 30130473--30130709 Score: 377
Period size: 118 Copynumber: 2.0 Consensus size: 118
30130463 CTAAGGCTAC
30130473 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGACTAACACTTATCACTTTATCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGACTAACACTTATCACTTTATCACT
* *
30130538 TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TAATCAGATAAGTATAACACTTATCACATTTTCACTTGATCAGATAAGTATAG
* * * *
30130591 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAA-AGCTACCACTTATCACTTTGTCTC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGA-CTAACACTTATCACTTTATCAC
* * *
30130655 TTAATCAGATAAGTGTAGCACTTATCACATTTTCACTTGATCAGATAAGTGTAG
65 TTAATCAGATAAGTATAACACTTATCACATTTTCACTTGATCAGATAAGTATAG
30130709 C
1 C
30130710 TAAAGCTACC
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
117 1 0.01
118 108 0.99
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (118 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGACTAACACTTATCACTTTATCACT
TAATCAGATAAGTATAACACTTATCACATTTTCACTTGATCAGATAAGTATAG
Found at i:30139405 original size:80 final size:79
Alignment explanation
Indices: 30139143--30139445 Score: 376
Period size: 80 Copynumber: 3.8 Consensus size: 79
30139133 TCCTCGTTCA
* * * * ** *
30139143 AATGCCTTCGGGGCATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
30139208 TAACAACTCGCACG
66 TAACAACTCGCACG
30139222 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
30139287 TTAACAACTCGCACG
65 TTAACAACTCGCACG
30139302 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
** * *
30139367 TTAGTATCTCGCACA
65 TTAACAACTCGCACG
* ** * * * * *
30139382 AAGGCCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCCGG
30139445 A
63 A
30139446 CAGCATTCAA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 35 0.17
80 160 0.80
81 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:30139405 original size:120 final size:120
Alignment explanation
Indices: 30139173--30139445 Score: 381
Period size: 120 Copynumber: 2.3 Consensus size: 120
30139163 CGGTTTTAGT
*
30139173 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* * *
30139238 AACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-AC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
30139292 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
30139357 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATAC
* * *
30139413 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
30139446 CAGCATTCAA
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
119 11 0.08
120 120 0.88
121 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (120 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
Found at i:30139406 original size:40 final size:40
Alignment explanation
Indices: 30139143--30139392 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
30139133 TCCTCGTTCA
* * * * ** *
30139143 AATGCCTTCGGGGCATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30139182 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30139222 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30139262 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30139302 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
30139342 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
30139382 AAGGCCTTCGG
1 AATGCCTTCGG
30139393 ATCTTAGTCC
Statistics
Matches: 198, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 32 0.16
40 166 0.84
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:30139454 original size:41 final size:41
Alignment explanation
Indices: 30139377--30139454 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30139367 TTAGTATCTC
* * *
30139377 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30139418 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30139455 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30147192 original size:40 final size:40
Alignment explanation
Indices: 30147101--30147403 Score: 389
Period size: 40 Copynumber: 7.6 Consensus size: 40
30147091 TCCTCGTTCA
* * * ** *
30147101 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30147140 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30147180 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30147220 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
30147260 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
30147300 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
30147340 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
30147380 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30147404 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 36 0.15
40 195 0.82
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:30152198 original size:33 final size:32
Alignment explanation
Indices: 30152149--30152212 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
30152139 CTTGCTGCAA
* *
30152149 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
30152182 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
30152213 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:30152226 original size:27 final size:26
Alignment explanation
Indices: 30152174--30152233 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
30152164 ACATATATAT
*
30152174 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
30152200 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
30152227 ATATCTG
1 ATATCTG
30152234 GCAACCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:30155182 original size:93 final size:93
Alignment explanation
Indices: 30155023--30155193 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30155013 GGATGGTTGA
* *
30155023 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
30155088 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30155116 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
30155181 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30155194 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30155196 original size:46 final size:46
Alignment explanation
Indices: 30155026--30155198 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
30155016 TGGTTGAGCA
* * *
30155026 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* * *
30155072 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G
30155117 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
*
30155165 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30155199 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 61 0.56
47 28 0.26
48 3 0.03
50 5 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
Found at i:30159385 original size:27 final size:27
Alignment explanation
Indices: 30159368--30159574 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
30159358 ATATTAAGTC
30159368 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
30159395 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
30159423 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
30159450 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
30159478 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
30159505 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
30159533 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
30159560 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
30159575 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:30159452 original size:55 final size:55
Alignment explanation
Indices: 30159368--30159574 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
30159358 ATATTAAGTC
* * * *
30159368 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
30159423 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
30159478 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
30159533 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
30159575 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:30177435 original size:46 final size:45
Alignment explanation
Indices: 30177326--30177581 Score: 173
Period size: 45 Copynumber: 5.7 Consensus size: 45
30177316 GATCGGAGGG
* * * * *
30177326 TGCCATGGTCTCTTTCAACCACT-GTCTTATTTA-TTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCA-TGGTCTTATTCATTTC-CATCGTGA
*
30177371 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT-CCATCGTGA
* *
30177417 TGCCATAGTGTCTTTCAACTATGGTCTTATTTC-TTT-GATTCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA-TTCATTTCCA-TCGTGA
* * * * ***
30177462 TGCCATAGTGTCTTTCAGCTATAGTCTTACTCGA-TAGAATCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTCCATCGTGA
* * * * * * * *
30177507 TGCCATAATATCTTTCAGCTATGGTCTTACTCATTTCTAAT-ATGG
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTC-CATCGTGA
* * *
30177552 TGTCATAGTGTCTTTCAACTATGGTATTAT
1 TGCCATAGTGTCTTTCAACCATGGTCTTAT
30177582 CTATTCCCGG
Statistics
Matches: 174, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
44 5 0.03
45 123 0.71
46 42 0.24
47 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCATCGTGA
Found at i:30177489 original size:45 final size:44
Alignment explanation
Indices: 30177368--30177581 Score: 191
Period size: 45 Copynumber: 4.8 Consensus size: 44
30177358 ATTCTCGTCT
* *
30177368 TGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTCCCATCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT--GATCG
*
30177414 TGTTGCCATAGTGTCTTTCAACTATGGTCTTATTTC-TTTGATTCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTGA-TCG
* * * *
30177459 TGATGCCATAGTGTCTTTCAGCTATAGTCTTACTCGA-TAGAATCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTG-ATCG
* * * * * *
30177504 TGATGCCATAATATCTTTCAGCTATGGTCTTACTCATTTCTAAT-A
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TT-TGATCG
* * *
30177549 TGGTGTCATAGTGTCTTTCAACTATGGTATTAT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTAT
30177582 CTATTCCCGG
Statistics
Matches: 139, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
44 4 0.03
45 95 0.68
46 37 0.27
47 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (44 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGATCG
Found at i:30177611 original size:45 final size:45
Alignment explanation
Indices: 30177507--30177631 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 45
30177497 AGAATCGTGA
* * * * *
30177507 TGCCATAATATCTTTCAGCTATGGTCTTACTCATTTCTAATATGG
1 TGCCATAATATCTTTCAACTATGGTATTACTCATTCCCAATATAG
* * * **
30177552 TGTCATAGTGTCTTTCAACTATGGTATTA-TCTATTCCCGGTATAG
1 TGCCATAATATCTTTCAACTATGGTATTACTC-ATTCCCAATATAG
* *
30177597 TGCCATAATATCTTTCAACTATGGTCTTAATCATT
1 TGCCATAATATCTTTCAACTATGGTATTACTCATT
30177632 TCCTTCAAGC
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 2 0.03
45 60 0.94
46 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (45 bp):
TGCCATAATATCTTTCAACTATGGTATTACTCATTCCCAATATAG
Found at i:30180226 original size:90 final size:90
Alignment explanation
Indices: 30180080--30180257 Score: 212
Period size: 90 Copynumber: 2.0 Consensus size: 90
30180070 TTTGTATCTT
* * * * * * ** * *
30180080 TTTGAAAATGCGTGACTAAATTGTAAATTTACACATCTCACATCTAACGTTTGTTACCAAGTTAA
1 TTTGAAAATGAGTGACCAAATTATAAATTTACACATCACACACCTAACATCCGTTACAAAGCTAA
*
30180145 AAGGCCAGTGACCAGCTTGTAACCG
66 AAGGCCAGTGACCAACTTGTAACCG
* * *
30180170 TTTGAAATTGAGTGACCAAATTATAAATTTACCCATCACACACCTGACATCCGTTACAAAGCTAA
1 TTTGAAAATGAGTGACCAAATTATAAATTTACACATCACACACCTAACATCCGTTACAAAGCTAA
* *
30180235 TAGGCCTGTGACCAACTTGTAAC
66 AAGGCCAGTGACCAACTTGTAAC
30180258 TTTTGAATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (90 bp):
TTTGAAAATGAGTGACCAAATTATAAATTTACACATCACACACCTAACATCCGTTACAAAGCTAA
AAGGCCAGTGACCAACTTGTAACCG
Found at i:30181205 original size:20 final size:19
Alignment explanation
Indices: 30181176--30181233 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
30181166 TTTTTTAAAA
*
30181176 ATAAAAATTTTAAAATTTTT
1 ATAAATATTTT-AAATTTTT
*
30181196 ATAAATATTTTGAA-TTTT
1 ATAAATATTTTAAATTTTT
*
30181214 AAAAATTATTTTCAAATTTT
1 ATAAA-TATTTT-AAATTTT
30181234 GAAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 12 0.39
21 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATAAATATTTTAAATTTTT
Found at i:30181223 original size:19 final size:19
Alignment explanation
Indices: 30181192--30181247 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
30181182 ATTTTAAAAT
*
30181192 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
30181210 TTTTAAAAATTATTTTCAAA
1 TTTTAAAAATTATTTT-GAA
*
30181230 TTTTGAAAATTATTTTGA
1 TTTTAAAAATTATTTTGA
30181248 TCTTTTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 7 0.22
20 17 0.53
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:30181238 original size:20 final size:19
Alignment explanation
Indices: 30181182--30181245 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
30181172 AAAAATAAAA
*
30181182 ATTTTAAAATTTTTATAAA-T
1 ATTTT-AAA-TTTTAAAAATT
*
30181202 ATTTTGAATTTTAAAAATT
1 ATTTTAAATTTTAAAAATT
*
30181221 ATTTTCAAATTTTGAAAATT
1 ATTTT-AAATTTTAAAAATT
30181241 ATTTT
1 ATTTT
30181246 GATCTTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.21
19 8 0.21
20 22 0.58
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTTAAATTTTAAAAATT
Found at i:30185333 original size:22 final size:22
Alignment explanation
Indices: 30185305--30185348 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30185295 ATTTGGTTTT
30185305 TATATTTTCGTACATAATTATG
1 TATATTTTCGTACATAATTATG
30185327 TATATTTTCGTACATAATTATG
1 TATATTTTCGTACATAATTATG
30185349 AGAGTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (22 bp):
TATATTTTCGTACATAATTATG
Found at i:30189515 original size:43 final size:43
Alignment explanation
Indices: 30189466--30189650 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
30189456 TTTTAAAAAA
* *
30189466 AAACGCCGCTAAAGACCAAGGCCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
30189509 AAACGCCGCTAAAGACTAAGACCTTTAGCGGCGCTCTTCTCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
30189552 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * * **
30189595 AAACGTCACTATAGACTATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
30189638 AAACGCCGCTAAA
1 AAACGCCGCTAAA
30189651 AACATAATAT
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:30189564 original size:86 final size:86
Alignment explanation
Indices: 30189466--30189650 Score: 280
Period size: 86 Copynumber: 2.2 Consensus size: 86
30189456 TTTTAAAAAA
* * *
30189466 AAACGCCGCTAAAGACCAAGGCCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACTAAGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAAGAC
*
30189531 CTTTAGCGGCGCTCTTCTCAC
66 CTTTAGCGGCGCTCTTATCAC
* * * * *
30189552 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGTCACTATAGACTATGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAAGAC
*
30189617 CTTTAGCGGCGCTTTTATCAC
66 CTTTAGCGGCGCTCTTATCAC
30189638 AAACGCCGCTAAA
1 AAACGCCGCTAAA
30189651 AACATAATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACTAAGAC
CTTTAGCGGCGCTCTTATCAC
Found at i:30193273 original size:22 final size:22
Alignment explanation
Indices: 30193236--30193288 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
30193226 ACCCTAACCC
30193236 AACCCTTAAATCCCTAAATCATA
1 AACCC-TAAATCCCTAAATCATA
* * *
30193259 AACCCTAAATTCCTAACTCTTA
1 AACCCTAAATCCCTAAATCATA
*
30193281 ACCCCTAA
1 AACCCTAA
30193289 CTCTTAACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCTAAATCCCTAAATCATA
Found at i:30193287 original size:14 final size:14
Alignment explanation
Indices: 30193270--30193297 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30193260 ACCCTAAATT
30193270 CCTAACTCTTAACC
1 CCTAACTCTTAACC
30193284 CCTAACTCTTAACC
1 CCTAACTCTTAACC
30193298 ATTAAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (14 bp):
CCTAACTCTTAACC
Found at i:30193318 original size:21 final size:20
Alignment explanation
Indices: 30193294--30193334 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
30193284 CCTAACTCTT
*
30193294 AACCATTAAACCTTAAATCCC
1 AACCATTAAACCAT-AATCCC
*
30193315 AACCCTTAAACCATAATCCC
1 AACCATTAAACCATAATCCC
30193335 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCATTAAACCATAATCCC
Found at i:30193592 original size:20 final size:21
Alignment explanation
Indices: 30193567--30193606 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30193557 CTAGTTAATC
30193567 TAAACCCT-AAACCATAAACT
1 TAAACCCTAAAACCATAAACT
30193587 TAAACCCTAAAACCATAAAC
1 TAAACCCTAAAACCATAAAC
30193607 CCTTAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAACT
Found at i:30193636 original size:15 final size:14
Alignment explanation
Indices: 30193566--30193637 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 14
30193556 ACTAGTTAAT
*
30193566 CTAAACCCTAAACC
1 CTAAACCATAAACC
* *
30193580 ATAAA-CTTAAACC
1 CTAAACCATAAACC
30193593 CTAAAACCATAAACC
1 CT-AAACCATAAACC
*
30193608 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
30193622 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
30193637 C
1 C
30193638 CAGCCTTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 8 0.17
14 17 0.37
15 21 0.46
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:30194121 original size:12 final size:12
Alignment explanation
Indices: 30194104--30194129 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30194094 TTTTTTATCC
30194104 AAACGCCGCTAA
1 AAACGCCGCTAA
30194116 AAACGCCGCTAA
1 AAACGCCGCTAA
30194128 AA
1 AA
30194130 GTCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:30196319 original size:4 final size:4
Alignment explanation
Indices: 30196310--30196357 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
30196300 TACACTGTTG
30196310 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
30196358 CACATTCATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:30206147 original size:23 final size:22
Alignment explanation
Indices: 30206095--30206147 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30206085 TCCACGTCTT
*
30206095 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
30206117 -TTCATTTTCTCTTCTTTCTT-TAA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
30206140 TTTCTTTT
1 TTTCTTTT
30206148 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 13 0.50
24 5 0.19
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:30213220 original size:20 final size:20
Alignment explanation
Indices: 30213191--30213229 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30213181 AGATATCATC
30213191 ATTTTCAACTTAATTTGAAT
1 ATTTTCAACTTAATTTGAAT
*
30213211 ATTTTTAACTTAATTTGAA
1 ATTTTCAACTTAATTTGAA
30213230 AGAAATAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTTCAACTTAATTTGAAT
Found at i:30216481 original size:27 final size:27
Alignment explanation
Indices: 30216420--30216503 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
30216410 TCCCAAACTA
* *
30216420 TTATAAAATGACTGTTATGCCCCCCACG
1 TTATAAAATGACTGTTATG-CCCCTATG
**
30216448 TGGTAAAATGACTGTTATGCCCCTATG
1 TTATAAAATGACTGTTATGCCCCTATG
* *
30216475 TTATAAAATGACCG-TATG-CTCTATG
1 TTATAAAATGACTGTTATGCCCCTATG
30216500 TTAT
1 TTAT
30216504 GTATGAGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 10 0.21
26 4 0.08
27 17 0.35
28 17 0.35
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
TTATAAAATGACTGTTATGCCCCTATG
Found at i:30216829 original size:33 final size:32
Alignment explanation
Indices: 30216773--30216834 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
30216763 TTATTGTCAC
30216773 TGTAATGGGCTAAGACCACATTGATACTGATAT
1 TGTAATGGGCTAAGACCACATTGA-ACTGATAT
*
30216806 TGTAATGGGCTAAGGCTCA-ATTGAACTGA
1 TGTAATGGGCTAAGAC-CACATTGAACTGA
30216835 ACTGTTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 5 0.19
33 20 0.74
34 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (32 bp):
TGTAATGGGCTAAGACCACATTGAACTGATAT
Found at i:30220572 original size:16 final size:15
Alignment explanation
Indices: 30220547--30220580 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30220537 AAAGCTGATA
*
30220547 ATAATTAATATACATT
1 ATAATAAATATA-ATT
30220563 ATAATAAATATAATT
1 ATAATAAATATAATT
30220578 ATA
1 ATA
30220581 TTAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:30233391 original size:6 final size:6
Alignment explanation
Indices: 30233380--30233412 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
30233370 GATAAACCAA
30233380 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
30233413 TTACTTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:30236127 original size:6 final size:6
Alignment explanation
Indices: 30236109--30236138 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
30236099 GCAAATGAAT
30236109 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
30236139 TGGGAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:30237864 original size:19 final size:19
Alignment explanation
Indices: 30237842--30237880 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30237832 GAAGGGATAC
30237842 AAACAGAGTTGATGTCTTG
1 AAACAGAGTTGATGTCTTG
30237861 AAACAGAGTTGATGTCTTG
1 AAACAGAGTTGATGTCTTG
30237880 A
1 A
30237881 TGAGTAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
AAACAGAGTTGATGTCTTG
Found at i:30240516 original size:24 final size:24
Alignment explanation
Indices: 30240488--30240535 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
30240478 AAGAGGTCCC
*
30240488 ATGTAAGACCATGTCTAGGACATG
1 ATGTAAGACCATGTATAGGACATG
30240512 ATGTAAGACCATGTATAGGACATG
1 ATGTAAGACCATGTATAGGACATG
30240536 GCGTTGGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (24 bp):
ATGTAAGACCATGTATAGGACATG
Found at i:30240587 original size:50 final size:50
Alignment explanation
Indices: 30240512--30240694 Score: 194
Period size: 50 Copynumber: 3.7 Consensus size: 50
30240502 CTAGGACATG
* *
30240512 ATGTAAGACCATGTATAGGACATGGCGTTGGCACCGAGATAAGAGATCCC
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAGATCCC
* * *
30240562 ATGTAAGACCATGTCTAGGACATGGCATTGGTACCGAGATGAGAGGTTCCCC
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGA-GAT-CCC
* * * *
30240614 A--TAAGACCATGTTTGGGACATGGCATGGGCACC-A-ATATGAGAACTCCC
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAG-A-TCCC
* * *
30240662 ATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCA
30240695 GTACAGGAAA
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
47 1 0.01
48 8 0.07
49 2 0.02
50 94 0.85
51 2 0.02
52 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAGATCCC
Found at i:30246391 original size:50 final size:50
Alignment explanation
Indices: 30246316--30246600 Score: 247
Period size: 50 Copynumber: 5.7 Consensus size: 50
30246306 CATTTGGGTA
* * * ** *
30246316 AAGATGTCCCATGTAATACCGTGTCTGCAACATGGCGTTGGCGCCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
30246366 AAGATGTCCCATGTAAGACCATGTCTAGGACATGTCGTTGACACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
30246416 AAGAGGTCCCATGTAGGAGCATGTCTGGGATATGGCGTTGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * *
30246466 GAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
** * * * * * *
30246516 AAGAAATCCCACGTAAGACCATATCTGGGATATGGCATTGGTAGTAC-AGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCGA-GAT
*
30246567 AACA--TCCCATGTAAGACCATGTCTGGGACATGGC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
30246601 TTTGACATGT
Statistics
Matches: 191, Mismatches: 39, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
49 28 0.15
50 157 0.82
51 4 0.02
52 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:30248255 original size:33 final size:33
Alignment explanation
Indices: 30248205--30248379 Score: 163
Period size: 33 Copynumber: 5.3 Consensus size: 33
30248195 TGGCAACCAT
* * * **
30248205 AGAGTAAGTTCATTGGGACAGTAAACATAAAGT
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
* * *
30248238 AGGGTAAGTCCGCTGGGATAGTAAACA-AAGAAC
1 AGAGTAAGTCCACTGGGACAGTAAACACAA-AAC
* * * *
30248271 AAAGTAAGTCCGCTAGGATAGTAAACACAAAAC
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
* * *
30248304 AGAGTAAGTCCATTGGGACAATAAACACAAAAT
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
* * *
30248337 AGGGTAAGTCCACTGGGACAGTAAATACAGAAC
1 AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
*
30248370 AGGGTAAGTC
1 AGAGTAAGTC
30248380 TGTCGGGACA
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
32 2 0.02
33 113 0.97
34 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (33 bp):
AGAGTAAGTCCACTGGGACAGTAAACACAAAAC
Found at i:30257533 original size:50 final size:50
Alignment explanation
Indices: 30257345--30257635 Score: 296
Period size: 50 Copynumber: 5.8 Consensus size: 50
30257335 GATAATAACA
* ** * * * **
30257345 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-AT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** * *
30257394 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
30257444 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
30257494 TGCCAATGCCATATCCCAGACATGGTCCTACATGAGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
30257544 TGTCAACGCCATGTCCTAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
30257594 TGCCAACGCCATGTTGCAGACACGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30257636 TTACCCAAAT
Statistics
Matches: 202, Mismatches: 39, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
49 38 0.19
50 164 0.81
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:30268239 original size:82 final size:82
Alignment explanation
Indices: 30268098--30268266 Score: 329
Period size: 82 Copynumber: 2.1 Consensus size: 82
30268088 AGAACGATTC
30268098 TAATGTTACAAACAATGAGTGGCACCTAGCAATGCATCATTCCTACCTAAGTCACAAGAAATCAT
1 TAATGTTACAAACAATGAGTGGCACCTAGCAATGCATCATTCCTACCTAAGTCACAAGAAATCAT
30268163 GATTCGACATAACCTTT
66 GATTCGACATAACCTTT
*
30268180 TAATGTTACAAACAATGAGTGGCACCTAGCAATGCATCATTCCTACCTAAGTCATAAGAAATCAT
1 TAATGTTACAAACAATGAGTGGCACCTAGCAATGCATCATTCCTACCTAAGTCACAAGAAATCAT
30268245 GATTCGACATAACCTTT
66 GATTCGACATAACCTTT
30268262 TAATG
1 TAATG
30268267 ATTAACCTTT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (82 bp):
TAATGTTACAAACAATGAGTGGCACCTAGCAATGCATCATTCCTACCTAAGTCACAAGAAATCAT
GATTCGACATAACCTTT
Found at i:30278404 original size:7 final size:7
Alignment explanation
Indices: 30278392--30278416 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30278382 ATTTGGGAAA
30278392 TTTAGGG
1 TTTAGGG
30278399 TTTAGGG
1 TTTAGGG
30278406 TTTAGGG
1 TTTAGGG
30278413 TTTA
1 TTTA
30278417 AGAGGTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:30289586 original size:51 final size:50
Alignment explanation
Indices: 30289453--30289642 Score: 202
Period size: 51 Copynumber: 3.8 Consensus size: 50
30289443 GTGAAAGTGA
* * * *
30289453 TGGTCACGTCTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGGT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA-GTT
* * *
30289503 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAG-TT
* * * * * * *
30289554 TGATCACGTGTGTAGTACTATGTGCAGACTACTATGTGTATCGGATAATGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGT-T
* *
30289605 TGGTCACATGTGTAGTACTATGTGCAGGATAGTATGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
30289643 AACCGGTATC
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
50 41 0.36
51 74 0.64
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTT
Found at i:30289718 original size:46 final size:43
Alignment explanation
Indices: 30289644--30289742 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
30289634 TAGTATGTGA
*
30289644 ACCGGTATCATTAATTATAAAGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTACAAAGTGGTTGCTATGTGCTGAAT-CC
* *
30289687 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTACAAA--GTGGTTGCTATGTGCTGAATCC
30289733 ACCGTGTATC
1 ACCG-GTATC
30289743 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 14 0.29
46 26 0.54
47 3 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTACAAAGTGGTTGCTATGTGCTGAATCC
Found at i:30300769 original size:7 final size:7
Alignment explanation
Indices: 30300757--30300798 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
30300747 TAAATAAGAG
30300757 CTCATCC
1 CTCATCC
30300764 CTCATCC
1 CTCATCC
*
30300771 ATCATCC
1 CTCATCC
*
30300778 ATCATCC
1 CTCATCC
*
30300785 CTCATCT
1 CTCATCC
30300792 CTCATCC
1 CTCATCC
30300799 ACCCTCTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.19, C:0.50, G:0.00, T:0.31
Consensus pattern (7 bp):
CTCATCC
Found at i:30300782 original size:21 final size:21
Alignment explanation
Indices: 30300758--30300799 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30300748 AAATAAGAGC
30300758 TCATCCCTCATC-CATCATCCA
1 TCATCCCTCATCTC-TCATCCA
30300779 TCATCCCTCATCTCTCATCCA
1 TCATCCCTCATCTCTCATCCA
30300800 CCCTCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.21, C:0.48, G:0.00, T:0.31
Consensus pattern (21 bp):
TCATCCCTCATCTCTCATCCA
Found at i:30311797 original size:51 final size:50
Alignment explanation
Indices: 30311739--30311923 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
30311729 CCGGTTTACA
* * *
30311739 TAGTAGCCTGCACATAGTACTACACATATGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCCGGTACACG
* ** * * * *
30311790 TAGTAGCCTGCACATAATACTACACGCGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATATC-ATCCGGTACACG
*
30311841 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCCGGTACACG
* *
30311891 TAGTATCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACATGTGACC
30311924 TAGCAACTTC
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 43 0.39
51 63 0.58
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCCGGTACACG
Found at i:30311921 original size:101 final size:101
Alignment explanation
Indices: 30311737--30311921 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
30311727 ACCCGGTTTA
* *
30311737 CATAGTAGCCTGCACATAGTACTACACATATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCA-TATCATCCGATACACGTAGTAGCCTGCA
*
30311802 CATAATACTACACGCGTGATCGAAGCTATCCGGTACG
65 CATAATACTACACACGTGATCGAAGCTATCCGGTACG
* * *
30311839 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTATCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCATATCA-TCCGATACACGTAGTAGCCTGCA
*
30311903 CATAGTACTACACACGTGA
65 CATAATACTACACACGTGA
30311922 CCTAGCAACT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATACGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAATACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:30315530 original size:16 final size:15
Alignment explanation
Indices: 30315505--30315535 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30315495 TGATAGATCT
30315505 CTGACGAACTTCCAA
1 CTGACGAACTTCCAA
30315520 CTGATCGAACTTCCAA
1 CTGA-CGAACTTCCAA
30315536 TAATCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.23
Consensus pattern (15 bp):
CTGACGAACTTCCAA
Found at i:30315790 original size:21 final size:21
Alignment explanation
Indices: 30315764--30315805 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30315754 ACGTAACACT
30315764 TAATTCATCATCATTACCATA
1 TAATTCATCATCATTACCATA
*
30315785 TAATTCATTATCATTACCATA
1 TAATTCATCATCATTACCATA
30315806 CGATCATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATTCATCATCATTACCATA
Found at i:30322098 original size:27 final size:27
Alignment explanation
Indices: 30322060--30322238 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
30322050 TAAATTGTAC
30322060 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
30322087 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
30322113 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
30322141 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
30322169 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
30322196 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
30322223 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
30322239 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:30322228 original size:82 final size:81
Alignment explanation
Indices: 30322057--30322238 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
30322047 GATTAAATTG
* *
30322057 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30322122 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
30322138 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
30322202 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
30322220 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
30322239 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:30325399 original size:33 final size:33
Alignment explanation
Indices: 30325356--30325453 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 33
30325346 TTACTTTTAG
*
30325356 AGCGGACTATCTCTATTCTTTGTTTATTGTCCT
1 AGCGGACTATCTCTATTCTATGTTTATTGTCCT
* * * * * * *
30325389 AGTGGGCTATCTCTGTTATGTGTTTACTGCCCT
1 AGCGGACTATCTCTATTCTATGTTTATTGTCCT
* *
30325422 AGCGGACTATCCCCATTCTATGTTTATTGTCC
1 AGCGGACTATCTCTATTCTATGTTTATTGTCC
30325454 CAATAGACTA
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (33 bp):
AGCGGACTATCTCTATTCTATGTTTATTGTCCT
Found at i:30330916 original size:28 final size:27
Alignment explanation
Indices: 30330859--30331009 Score: 230
Period size: 27 Copynumber: 5.5 Consensus size: 27
30330849 TAAATTGTGC
* *
30330859 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
30330886 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
30330914 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
30330941 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
30330969 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
30330996 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
30331010 TGACTTAATA
Statistics
Matches: 117, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:30330924 original size:55 final size:55
Alignment explanation
Indices: 30330859--30331009 Score: 248
Period size: 55 Copynumber: 2.7 Consensus size: 55
30330849 TAAATTGTGC
*
30330859 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
30330914 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
30330969 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGC
30331010 TGACTTAATA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:30338918 original size:28 final size:27
Alignment explanation
Indices: 30338861--30339012 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
30338851 TAAATTGTGC
* *
30338861 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
30338888 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
30338916 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
30338943 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
30338971 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
30338998 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30339013 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:30338926 original size:55 final size:55
Alignment explanation
Indices: 30338861--30339012 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
30338851 TAAATTGTGC
*
30338861 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
30338916 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
30338971 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
30339013 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:30352401 original size:28 final size:27
Alignment explanation
Indices: 30352369--30352421 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
30352359 AAAATAATTA
*
30352369 AAATTAAATATGTTAACAATTTAAGTTT
1 AAATTAAATATGTTAA-AATTAAAGTTT
* *
30352397 AAATTAATTATTTTAAAATTAAAGT
1 AAATTAAATATGTTAAAATTAAAGT
30352422 GTGAATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (27 bp):
AAATTAAATATGTTAAAATTAAAGTTT
Found at i:30352428 original size:27 final size:28
Alignment explanation
Indices: 30352369--30352428 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
30352359 AAAATAATTA
* *
30352369 AAATTAAATATGTTAACAATTTAAGTTT
1 AAATTAAATATGTTAACAATTAAAGTGT
* *
30352397 AAATTAATTATTTTAA-AATTAAAGTGT
1 AAATTAAATATGTTAACAATTAAAGTGT
*
30352424 GAATT
1 AAATT
30352429 TCAACAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAACAATTAAAGTGT
Found at i:30357016 original size:27 final size:27
Alignment explanation
Indices: 30356986--30357047 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
30356976 CCTCATTGGT
*
30356986 TAAAATGACCGAAATACCCCTATAAGG
1 TAAAATGACCGAAATACCCCTAGAAGG
* * * *
30357013 TAAAATAACCGTAATGCCCCTAGAGGG
1 TAAAATGACCGAAATACCCCTAGAAGG
30357040 T-AAATGAC
1 TAAAATGAC
30357048 TGATTTGTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCTAGAAGG
Found at i:30359216 original size:22 final size:22
Alignment explanation
Indices: 30359191--30359232 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30359181 TACCAAGTTG
30359191 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
30359210 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
30359232 A
1 A
30359233 GTTGTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:30359219 original size:16 final size:15
Alignment explanation
Indices: 30359194--30359227 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30359184 CAAGTTGATA
*
30359194 ATAATTAATATATATT
1 ATAATAAATATA-ATT
30359210 ATAATAAATATAATT
1 ATAATAAATATAATT
30359225 ATA
1 ATA
30359228 TATTAGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:30363279 original size:13 final size:13
Alignment explanation
Indices: 30363248--30363281 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
30363238 TTTCTAAGAT
30363248 GGGAAATGAACAA
1 GGGAAATGAACAA
30363261 -GGAAATGAACAA
1 GGGAAATGAACAA
30363273 GGGAAATGA
1 GGGAAATGA
30363282 GAAAACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.53, C:0.06, G:0.32, T:0.09
Consensus pattern (13 bp):
GGGAAATGAACAA
Found at i:30363974 original size:27 final size:28
Alignment explanation
Indices: 30363915--30363968 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
30363905 AAAATAATTA
*
30363915 AAATTAAATATGTTAATAATTTAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
30363943 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAAATATGTTAATAATTAAAGTG
30363969 TGAATTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:30364265 original size:68 final size:67
Alignment explanation
Indices: 30364102--30364390 Score: 277
Period size: 68 Copynumber: 4.2 Consensus size: 67
30364092 AAAGAGGATA
* *
30364102 AGGTTTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGAT-ATGG-CA-TAAACTTATAG
1 AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCT-ATGA-GGACATTAAAC--ATGG
30364164 GGTTGCA-
62 GGTT--AT
* * *
30364171 AGGTATAAGACCATAGCTCGACTATGGCAACTAATAAAGTCTATGAGGATATTAAACATGGGGTT
1 AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTATGAGGACATTAAACATGGGGTT
30364236 AT
66 AT
*
30364238 GAGGTATAAGACTATAGCTCGACTATGGCAACCAATAGAGT-T-TGCCAGGACATTAAACATGGG
1 -AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTATG--AGGACATTAAACATGGG
30364301 GTTACT
63 GTTA-T
* * * * ** * *
30364307 AGGTATAAGACCATAGCTC-AGTTATAGCAACTAATAGAGTCCACCAAGACATTAAACATCGGGT
1 AGGTATAAGACCATAGCTCGA-CTATGGCAACCAATAGAGTCTATGAGGACATTAAACATGGGGT
*
30364371 TACA
65 TA-T
*
30364375 AGGTGTAAGACCATAG
1 AGGTATAAGACCATAG
30364391 ATTTGCTATG
Statistics
Matches: 189, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
66 3 0.02
67 2 0.01
68 137 0.72
69 42 0.22
70 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (67 bp):
AGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTATGAGGACATTAAACATGGGGTT
AT
Found at i:30364401 original size:136 final size:136
Alignment explanation
Indices: 30364101--30364390 Score: 343
Period size: 136 Copynumber: 2.1 Consensus size: 136
30364091 GAAAGAGGAT
* *
30364101 AAGGTTTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGATATGGCATAAACTTATAGGG
1 AAGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGACATGGCATAAAC-TATAGGG
* * * ** * * *
30364166 TTGCAAGGTATAAGACCATAGCTCGACTATGGCAACTAATAAAGTCTATGAGGATATTAAACATG
65 TTACAAGGTATAAGACCATAGCTCGACTATAGCAACTAATAAAGTCCACCAAGACATTAAACATC
*
30364231 GGGTTAT
130 GGGTTAC
* * * * *
30364238 GAGGTATAAGACTATAGCTCGACTATGGCAACCAATAGAGTTTGCCA-GGACATTAAAC-ATGGG
1 AAGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGACATGG-CA-TAAACTATAGG
* * *
30364301 GTTACTAGGTATAAGACCATAGCTC-AGTTATAGCAACTAATAGAGTCCACCAAGACATTAAACA
64 GTTACAAGGTATAAGACCATAGCTCGA-CTATAGCAACTAATAAAGTCCACCAAGACATTAAACA
30364365 TCGGGTTAC
128 TCGGGTTAC
*
30364374 AAGGTGTAAGACCATAG
1 AAGGTATAAGACCATAG
30364391 ATTTGCTATG
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
135 1 0.01
136 79 0.62
137 43 0.34
138 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (136 bp):
AAGGTATAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGACATGGCATAAACTATAGGGT
TACAAGGTATAAGACCATAGCTCGACTATAGCAACTAATAAAGTCCACCAAGACATTAAACATCG
GGTTAC
Found at i:30369668 original size:45 final size:45
Alignment explanation
Indices: 30369618--30369703 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
30369608 TGTTATTATG
* * * *
30369618 AAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCGTCATGATA
1 AAAATGAATAAGACCATAGCTGAAAGACGCTATGGCATCATGATA
*
30369663 AAAATGAATAAGACCATAGGTGAAAGACGCTATGGCATCAT
1 AAAATGAATAAGACCATAGCTGAAAGACGCTATGGCATCAT
30369704 ATGAAAACGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (45 bp):
AAAATGAATAAGACCATAGCTGAAAGACGCTATGGCATCATGATA
Found at i:30373056 original size:60 final size:60
Alignment explanation
Indices: 30372983--30373103 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
30372973 CATGAATTTA
30372983 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
1 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
30373043 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
1 CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
30373103 C
1 C
30373104 AGATAAGATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (60 bp):
CGTAAGGGTTGTTTTGTAGTTACAAATGCATAGTCAAAGTTGGCCAAGTTTGTTTCTAAC
Found at i:30375633 original size:263 final size:265
Alignment explanation
Indices: 30375163--30375691 Score: 945
Period size: 263 Copynumber: 2.0 Consensus size: 265
30375153 AACTTTAGTT
*
30375163 TTTGTTATTACAATTTTTATAGTTTTAATTGCTAATTTTTTTGTTTCATGATCTCAATAGGTCTA
1 TTTGTTATTACAATTTTTATAGTTTCAATTGCTAA-TTTTTTGTTTCATGATCTCAATAGGTCTA
*
30375228 TTACTAGCTGTATGTGTAAAAGAACTCCTGCTGAAGGCCTCTACCCTTTAGATCCAGAAATTGAA
65 TTACTAGCTGTATGCGTAAAAGAACTCCTGCTGAAGGCCTCTACCCTTTAGATCCAGAAATTGAA
30375293 AGGACATTGCTAAGAAGGAGAAGAGAACAAAAAGCAATGAATCAAGATGGTAACAATCCACCTAC
130 AGGACATTGCTAAGAAGGAGAAGAGAACAAAAAGCAATGAATCAAGATGGTAACAATCCACCTAC
*
30375358 TATGAATGAGCAACTTAATCTAGGCGCTCCGAATGTTAATCCTCTTGTTGCTCAGATGTTTGATG
195 TATGAATGAGCAACTTAATCTAGGAGCTCCGAATGTTAATCCTCTTGTTGCTCAGATGTTTGATG
30375423 ATCGGG
260 ATCGGG
* *
30375429 TTTGTTATTACAATTTTTATAGTTTCAGTTGCTAA-TTTTT-TTTCGTGATCTCAATAGGTCTAT
1 TTTGTTATTACAATTTTTATAGTTTCAATTGCTAATTTTTTGTTTCATGATCTCAATAGGTCTAT
* * * *
30375492 TACTAGCTGTATGCGTAGAGGAACTCCTGCTGAAGGGCTCTATCCTTTAGATCCAGAAATTGAAA
66 TACTAGCTGTATGCGTAAAAGAACTCCTGCTGAAGGCCTCTACCCTTTAGATCCAGAAATTGAAA
30375557 GGACATTGCTAAGAAGGAGAAGAGAACAAAAAGCAATGAATCAAGATGGTAACAATCCACCTACT
131 GGACATTGCTAAGAAGGAGAAGAGAACAAAAAGCAATGAATCAAGATGGTAACAATCCACCTACT
*
30375622 ATGAATGAGCAACTTAATCTAGGAGCTTCGAATGTTAATCCTCTTGTTGCTCAGATGTTTGATGA
196 ATGAATGAGCAACTTAATCTAGGAGCTCCGAATGTTAATCCTCTTGTTGCTCAGATGTTTGATGA
30375687 TCGGG
261 TCGGG
30375692 ATAGGCCAAT
Statistics
Matches: 253, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
263 215 0.85
264 5 0.02
266 33 0.13
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (265 bp):
TTTGTTATTACAATTTTTATAGTTTCAATTGCTAATTTTTTGTTTCATGATCTCAATAGGTCTAT
TACTAGCTGTATGCGTAAAAGAACTCCTGCTGAAGGCCTCTACCCTTTAGATCCAGAAATTGAAA
GGACATTGCTAAGAAGGAGAAGAGAACAAAAAGCAATGAATCAAGATGGTAACAATCCACCTACT
ATGAATGAGCAACTTAATCTAGGAGCTCCGAATGTTAATCCTCTTGTTGCTCAGATGTTTGATGA
TCGGG
Found at i:30385621 original size:27 final size:27
Alignment explanation
Indices: 30385591--30385765 Score: 183
Period size: 27 Copynumber: 6.4 Consensus size: 27
30385581 ATTGTACAGA
*
30385591 ACTAAGTGTGCGATTTGACTATGTTGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
** *
30385618 ACTAAGTGTGCGAAATGAATATG-ATGC
1 ACTAAGTGTGCGATTTGACTATGTA-GC
* * **
30385645 ACTAAGTGTGCGAATTGACCATGCGGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
30385672 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGA-TTTGACTATGTAGC
*
30385700 ACTAAGTGTGCGATTTGA-TTTCGTAGC
1 ACTAAGTGTGCGATTTGACTAT-GTAGC
* * *
30385727 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
**
30385754 ACTGCGTGTGCG
1 ACTAAGTGTGCG
30385766 GACTCAATAT
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 98 0.78
28 25 0.20
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGATTTGACTATGTAGC
Found at i:30406949 original size:27 final size:27
Alignment explanation
Indices: 30406918--30407095 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
30406908 TAAATTGTAC
30406918 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30406945 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30406971 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30406999 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
30407027 AGCACTAAGTGTGCGATTTGA-TTTCGT
1 AGCACTAAGTGTGCGATTTGACTAT-GT
* * *
30407054 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
**
30407081 AGCACTGCGTGTGCG
1 AGCACTAAGTGTGCG
30407096 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30410760 original size:11 final size:10
Alignment explanation
Indices: 30410744--30410782 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
30410734 TTACATTTTA
30410744 AATTTTTATCT
1 AATTTTTAT-T
30410755 AATTTTTATT
1 AATTTTTATT
* *
30410765 AAATTTTATA
1 AATTTTTATT
30410775 AATTTTTA
1 AATTTTTA
30410783 ACTTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTATT
Found at i:30416406 original size:44 final size:44
Alignment explanation
Indices: 30416357--30416491 Score: 145
Period size: 44 Copynumber: 3.1 Consensus size: 44
30416347 AGAATATGAG
30416357 AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
1 AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
* ** * ** * *
30416401 AAACTTCAATTAT-TCAATTATT-CAACAATGG-T-AAC-ATCTT
1 AAACTTAAACAATACCAAAAATTACAAC-ATGGATCGACTAGCTT
30416441 CAAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
1 -AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
30416486 AAACTT
1 AAACTT
30416492 CTAAGATTCC
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
40 4 0.06
41 12 0.18
42 15 0.22
43 15 0.22
44 18 0.26
45 4 0.06
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (44 bp):
AAACTTAAACAATACCAAAAATTACAACATGGATCGACTAGCTT
Found at i:30416752 original size:91 final size:91
Alignment explanation
Indices: 30416597--30416765 Score: 268
Period size: 91 Copynumber: 1.9 Consensus size: 91
30416587 TAGCTTTTTC
* * *
30416597 TTGGTTTTCTTCCACTAACTTAATTATATTATTATAGTTATGTTTAGTTTTCTTTATTAATATAA
1 TTGGTTTTCTTCCACTAAATTAATTATATTATTAAAGTTATGTTTAGTTTTCTTTATAAATATAA
*
30416662 TTTATAACATTTTGTTGTTAATTATT
66 TGTATAACATTTTGTTGTTAATTATT
* *
30416688 TTGGTTTTCTTCCACTAAATTTATTTTATTATTAAAGTTATGTTTTA-TTTTCTTTATAAATATA
1 TTGGTTTTCTTCCACTAAATTAATTATATTATTAAAGTTATG-TTTAGTTTTCTTTATAAATATA
30416752 ATGTATAACATTTT
65 ATGTATAACATTTT
30416766 TTTAACAACA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 67 0.94
92 4 0.06
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (91 bp):
TTGGTTTTCTTCCACTAAATTAATTATATTATTAAAGTTATGTTTAGTTTTCTTTATAAATATAA
TGTATAACATTTTGTTGTTAATTATT
Found at i:30417280 original size:21 final size:21
Alignment explanation
Indices: 30417256--30417295 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30417246 GTCATGTGAG
*
30417256 TGGGTCACATAGCCTTGTGGA
1 TGGGTCACATAGCCGTGTGGA
*
30417277 TGGGTCACATGGCCGTGTG
1 TGGGTCACATAGCCGTGTG
30417296 AACAAACCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.38, T:0.28
Consensus pattern (21 bp):
TGGGTCACATAGCCGTGTGGA
Found at i:30418228 original size:12 final size:12
Alignment explanation
Indices: 30418211--30418235 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30418201 ATGCACAAGT
30418211 TAACATAAATAA
1 TAACATAAATAA
30418223 TAACATAAATAA
1 TAACATAAATAA
30418235 T
1 T
30418236 GAGGTGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAACATAAATAA
Found at i:30429353 original size:12 final size:13
Alignment explanation
Indices: 30429332--30429360 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30429322 ACTTCTATGA
30429332 AAAAATAAAATAT
1 AAAAATAAAATAT
30429345 AAAAA-AAAATAT
1 AAAAATAAAATAT
30429357 AAAA
1 AAAA
30429361 CCCCTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAATAT
Found at i:30433091 original size:15 final size:16
Alignment explanation
Indices: 30433061--30433099 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
30433051 TAGTAAAAAT
30433061 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
30433078 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
30433093 ATAATTT
1 ATAATTT
30433100 TTAAAATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:30433536 original size:22 final size:22
Alignment explanation
Indices: 30433511--30433566 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
30433501 TGTTCAGATG
30433511 ATTATATATAAAATAAT-TAAAT
1 ATTATATA-AAAATAATATAAAT
*
30433533 ATTATATAAAAATAATATACAT
1 ATTATATAAAAATAATATAAAT
*
30433555 ATT-TTTAAAAAT
1 ATTATATAAAAAT
30433567 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTATATAAAAATAATATAAAT
Done.