Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 105 of 163
Found at i:33876195 original size:50 final size:53
Alignment explanation
Indices: 33876102--33876199 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 53
33876092 TATAATATAT
* *
33876102 ATAATATTAAAAAAATAATAAGAAGGGGTACGTTGCGTATTCTAATAGCATCA
1 ATAATATTAAAAAAATAATAAGAAGGAGTACGTGGCGTATTCTAATAGCATCA
* *
33876155 ATAATATTAAAAAAATAA-AA-AAGGAG-ACGTGGTGTCTTCTAATAG
1 ATAATATTAAAAAAATAATAAGAAGGAGTACGTGGCGTATTCTAATAG
33876200 TGTCATATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 16 0.39
51 5 0.12
52 2 0.05
53 18 0.44
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (53 bp):
ATAATATTAAAAAAATAATAAGAAGGAGTACGTGGCGTATTCTAATAGCATCA
Found at i:33876469 original size:20 final size:18
Alignment explanation
Indices: 33876444--33876495 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
33876434 TTTTAAACTT
33876444 TAAAAAGTTAAAATAATATA
1 TAAAAA-TTAAAATAAT-TA
**
33876464 TAAAAATTGAAAATTGTTA
1 TAAAAATT-AAAATAATTA
33876483 TAAAAATTTAAAA
1 TAAAAA-TTAAAA
33876496 AAGGTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
TAAAAATTAAAATAATTA
Found at i:33881202 original size:27 final size:27
Alignment explanation
Indices: 33881141--33881202 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
33881131 CCTATCAGGT
33881141 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
* * *
33881168 ATGTGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
33881195 AGGCGCCA
1 AGGCGCCA
33881203 TTACTAGACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.18
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:33881582 original size:22 final size:22
Alignment explanation
Indices: 33881557--33881643 Score: 129
Period size: 22 Copynumber: 3.7 Consensus size: 22
33881547 TCTATATTTA
33881557 GTATGAATATTGTAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
33881579 GTATGAATATTGTAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
33881601 GTATGAATATTGTAATATTATAATTTT
1 GTATGAATATTGT-A-ATT-T--TTTT
33881628 GTATGAATATTGTAAT
1 GTATGAATATTGTAAT
33881644 GTCGGTATAT
Statistics
Matches: 60, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
22 35 0.58
23 1 0.02
24 3 0.05
25 3 0.05
26 1 0.02
27 17 0.28
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (22 bp):
GTATGAATATTGTAATTTTTTT
Found at i:33881690 original size:47 final size:48
Alignment explanation
Indices: 33881562--33881690 Score: 165
Period size: 47 Copynumber: 2.7 Consensus size: 48
33881552 ATTTAGTATG
* **
33881562 AATATTGTAATTTTTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
1 AATATTGTAA-TTTTTTGTATGAATATTGTAA--TGTCGGTAT-AATATTGT
*
33881614 AATATTATAA--TTTTGTATGAATATTGTAATGTCGGTAT-ATATTGT
1 AATATTGTAATTTTTTGTATGAATATTGTAATGTCGGTATAATATTGT
33881659 AATATTGTAATTTTTTGTATGAATATTGTAAT
1 AATATTGTAATTTTTTGTATGAATATTGTAAT
33881691 TATTTTATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
45 16 0.23
47 26 0.37
49 19 0.27
52 9 0.13
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (48 bp):
AATATTGTAATTTTTTGTATGAATATTGTAATGTCGGTATAATATTGT
Found at i:33881761 original size:19 final size:19
Alignment explanation
Indices: 33881739--33881776 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
33881729 TATAAATTTA
*
33881739 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
33881758 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
33881777 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:33882035 original size:27 final size:27
Alignment explanation
Indices: 33881997--33882262 Score: 480
Period size: 27 Copynumber: 9.9 Consensus size: 27
33881987 CCGGCCCGGC
* * *
33881997 CCATTGGCGCCTCTCA-GAATGGCACGA
1 CCATTGGCGCCTCCCAGGTA-GGCACCA
33882024 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
33882051 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
33882078 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
33882105 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
33882132 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
33882159 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
33882186 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
33882213 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGGTAGGCACCA
*
33882240 CCATTGGCGCCTCCCAGATAGGC
1 CCATTGGCGCCTCCCAGGTAGGC
33882263 GCCAATACTA
Statistics
Matches: 234, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
27 232 0.99
28 2 0.01
ACGTcount: A:0.19, C:0.40, G:0.26, T:0.15
Consensus pattern (27 bp):
CCATTGGCGCCTCCCAGGTAGGCACCA
Found at i:33883611 original size:111 final size:115
Alignment explanation
Indices: 33883470--33883678 Score: 300
Period size: 111 Copynumber: 1.9 Consensus size: 115
33883460 ATCATAGCTA
**
33883470 TTTGGTTGAACGAGAAATCTCGACACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAACG
1 TTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTCCTCGAATTTCCCAAACG
* *
33883533 CAAAACATTGCCTTATTTTG-AAAATTT-TTTTAAAAAGATATTTAGCCG
66 CAAAACATTGCCTCATTTAGAAAAATTTCTTTTAAAAAGATATTTAGCCG
* * * *
33883581 TTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAATG
1 TTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTCCTCGAATTTCCCAAACG
* *
33883646 CTAAATATTGCCTCATTTAGAAAAATTTCTTTT
66 CAAAACATTGCCTCATTTAGAAAAATTTCTTTT
33883679 TAAAGTATGG
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
111 40 0.48
112 11 0.13
113 22 0.26
114 7 0.08
115 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (115 bp):
TTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTCCTCGAATTTCCCAAACG
CAAAACATTGCCTCATTTAGAAAAATTTCTTTTAAAAAGATATTTAGCCG
Found at i:33883957 original size:16 final size:16
Alignment explanation
Indices: 33883936--33883974 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
33883926 AATTATGGAG
*
33883936 ATATATGAAAGCATGT
1 ATATATAAAAGCATGT
*
33883952 ATATATAAAAGTATGT
1 ATATATAAAAGCATGT
33883968 ATATATA
1 ATATATA
33883975 TGTATACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (16 bp):
ATATATAAAAGCATGT
Found at i:33883960 original size:34 final size:34
Alignment explanation
Indices: 33883912--33883976 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
33883902 ATATATATAT
*
33883912 GCATATATACATAAAATTATGGAGATATATGAAA
1 GCATATATACATAAAAGTATGGAGATATATGAAA
* * * *
33883946 GCATGTATATATAAAAGTATGTATATATATG
1 GCATATATACATAAAAGTATGGAGATATATG
33883977 TATACGTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (34 bp):
GCATATATACATAAAAGTATGGAGATATATGAAA
Found at i:33884218 original size:13 final size:13
Alignment explanation
Indices: 33884200--33884225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33884190 GAATCATAAA
33884200 ATATAAAATACAT
1 ATATAAAATACAT
33884213 ATATAAAATACAT
1 ATATAAAATACAT
33884226 GTTTTAAAAA
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:33884499 original size:5 final size:5
Alignment explanation
Indices: 33884489--33884515 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
33884479 TAATTTTTAT
33884489 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
33884516 CAATAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:33886339 original size:41 final size:41
Alignment explanation
Indices: 33886282--33886484 Score: 172
Period size: 41 Copynumber: 4.8 Consensus size: 41
33886272 GATTTTTTTA
*
33886282 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGCG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGATGCG
* * ***
33886323 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TG--GATGCG
** * * * * * * *
33886367 ATCCACTCCACTGTAACTTTAGAGAGATATGATAGGTTCCT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGATGCG
* * *
33886408 TTCGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCG
1 ATC---TGCTCCACTGCAACTTCAGAGAGATAAGATTGGATGCG
* *
33886452 CTCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
33886485 CTATTATTTT
Statistics
Matches: 124, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
41 63 0.51
42 2 0.02
43 1 0.01
44 58 0.47
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGATGCG
Found at i:33886421 original size:129 final size:125
Alignment explanation
Indices: 33886191--33886571 Score: 460
Period size: 129 Copynumber: 3.0 Consensus size: 125
33886181 AAAGTCTGAC
* * *
33886191 GCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCACCATTTTAATCCACGT-CACTGCAAC
1 GCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT-CTCTATTTTAATCCAC-TCCACTGTAAC
* * **
33886255 TTCAGGAAGATAGGATTGATTTTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAT
64 TTCAGG-AGATAGGA-TG-GTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAT
*
33886320 GCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCCACTGTAACT
1 GCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTCTA-TTTTAATCCACTCCACTGTAACT
* * * *
33886385 TTAGAGAGATATGATAGGTTCCTTTCGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTGGAT
65 TCAG-GAGATAGGAT-GGTT-CTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAT
* * *
33886449 GCGCTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACTGTAACT
1 GCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-CTATTTTAATCCACTCCACTGTAACT
* * * *
33886514 TCAGGGAGATAGGATTGTGTC-TTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT
65 TCA-GGAGATAGGATGGT-TCTTTCG-TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
33886572 CTGAAATTCT
Statistics
Matches: 220, Mismatches: 23, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
127 4 0.02
128 36 0.16
129 176 0.80
130 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (125 bp):
GCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTCTATTTTAATCCACTCCACTGTAACTT
CAGGAGATAGGATGGTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAT
Found at i:33886523 original size:44 final size:44
Alignment explanation
Indices: 33886192--33887530 Score: 333
Period size: 44 Copynumber: 30.8 Consensus size: 44
33886182 AAGTCTGACG
* * * * **
33886192 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCACCATTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
** ** * * * *
33886236 TAATCCACGT-CACTGCAACTTCAGGAAGATAGGAT-TGATTTTTT
1 CGATCTGC-TCCACTGTAACTTCAGGGAGATAAGATCT-ATTATTT
** * ** *
33886280 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-GGA-TG
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
* * * *
33886321 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GTAGTTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTA-TTT
** ** * * * *** *
33886365 TAATCCACTCCACTGTAACTTTAGAGAGATATGATAGGTTCCTTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATT-ATTT
* * ** *
33886410 CG-TTTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-GGA-TG
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
* * * *
33886450 CGCTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTATTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
** * * * *
33886494 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-TGTGT-CTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAT-TATTT
* * *
33886537 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATT-CTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCT---ATTATTT
* * * * * *
33886583 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGA-TG
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
* ** * * **
33886624 CGATCTACTCTGCTGTAACTTCAGAGAGATAATATCCCTT-TTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
** ** * * * *
33886667 TAATCCACTTCACTGTAACTTCAGGGAGATAGGA--TAGTGTCTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTAT-TT
* * * * ***
33886710 CGATTTGCTCCGCTGTAA-TCTCAGGAAGATAAGATCTCTGGCTT
1 CGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTATTATTT
* * *
33886754 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AAGTCTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-ATTA-T-TT
* * * * *
33886800 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CT-GTA-TG
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
* * * * *
33886841 CGATCCGCTCTACTGCAACTTCAGAGAGATGAGATCCT-TTATTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTATTATTT
** * * * *** * *
33886885 TAATCCGCTCCACT-TAACTTTA-GAAGACCTGA--TGTT-CTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
* * * *
33886924 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGT-TCTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-AT-TAT-TT
* * * *
33886970 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGT-TCTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-AT-TAT-TT
* * * * * *
33887016 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGA-TG
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
* ** * *
33887057 CGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCT-TTATTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTATTATTT
** * * * *
33887101 TAATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACTAGCTT
1 CGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTATTA-TTT
* * * **
33887145 CAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTAAAATTCTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTA-T-TT
* ** * * * *
33887191 CGGTCTATTCCACTGTAA-TCTCAGAGAGATAAGA-C-CTGA-TG
1 CGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTATTATTT
* * ** * **
33887232 CAATCTACTCTGCTATAACTTCACAGAGATAAGATCCT-TTATTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTATTATTT
** * * * * *
33887276 TAAT-TCGCTCCATTGTAA-TCTCA-GGATATAGGAT-TACTAGCTT
1 CGATCT-GCTCCACTGTAACT-TCAGGGAGATAAGATCTATTA-TTT
* * * *
33887319 CAATCTGCTCCGCTGTAA-TCTCAGAGAGATAAGATCTGAAATT-CTT
1 CGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT---ATTATTT
* * * * * *
33887365 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGA-TG
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
** ** * *
33887406 CGATCAACTCTGCTGTAACTTCAGAGAAATAAGATC-ATTTATTT
1 CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTA-TTATTT
** * * *
33887450 TAATCTGCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACTAGCTT
1 CGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTATTA-TTT
* * *
33887494 CAATCTGCTCCGCTGTAA-TCTCAGGAAGATAAGATCT
1 CGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT
33887531 GAAATTCTTC
Statistics
Matches: 953, Mismatches: 264, Indels: 155
0.69 0.19 0.11
Matches are distributed among these distances:
39 12 0.01
40 11 0.01
41 209 0.22
42 18 0.02
43 144 0.15
44 327 0.34
45 19 0.02
46 210 0.22
47 1 0.00
48 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTATTATTT
Found at i:33886599 original size:46 final size:45
Alignment explanation
Indices: 33886501--33887748 Score: 445
Period size: 46 Copynumber: 28.6 Consensus size: 45
33886491 TTTTAATCCG
* * * *
33886501 CTCCACTGTAACTTCAGGGAGATAGGAT-TGT-GTCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
* * *
33886544 CTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-TATTCTTCGATCTA
* *
33886590 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
** * * * ** ** *
33886631 CTCTGCTGTAACTTCAGAGAGATAATATCCCT-TT-TTTAATCCA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
* * * * * * *
33886674 CTTCACTGTAACTTCAGGGAGATAGGAT-AGT-GTCTTCGATTTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
* * * * ** * *
33886717 CTCCGCTGTAATCTCAGGAAGATAAGATCTCT-GGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
* * *
33886761 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-TATTCTTCGATCTA
* **
33886807 CTCCACTGTAACCTCAGGGAGATAAGA-CTGTA---TGCGATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
* * * * * * * **
33886848 CTCTACTGCAACTTCAGAGAGATGAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGTATTCTTCGATCTA
** * * *
33886892 CTCCACT-TAA-CT---TTAG--AAGACCTGATGTTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-TATTCTTCGATCTA
* * *
33886931 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGTTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-TATTCTTCGATCTA
* * *
33886977 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGTTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-TATTCTTCGATCTA
* *
33887023 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
** * * * * * **
33887064 CTCTGCTATAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGTATTCTTCGATCTA
* * * * * *
33887108 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTA-GCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-GTATTCTTCGATCTA
* ** *
33887152 CTCCACTGTAACCTCAGAGAGATAAGATCTAAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-GTATTCTTCGATCTA
* * * * * *
33887198 TTCCACTGTAATCTCAGAGAGATAAGACCTG-A---TGCAATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
** * * ** * * *
33887239 CTCTGCTATAACTTCACAGAGATAAGATCCTTTATT-TT-AAT-TCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGTATTCTTCGATCT-A
* * * * * * * *
33887283 CTCCATTGTAATCTCA-GGATATAGGAT-TACTA-GCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-GTATTCTTCGATCTA
* * * * *
33887326 CTCCGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-TATTCTTCGATCTA
* * *
33887372 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCAA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
** * * * * * *
33887413 CTCTGCTGTAACTTCAGAGAAATAAGATCATTTATT-TT-AATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATC-TGTATTCTTCGATCTA
* * * * * *
33887457 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTA-GCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-GTATTCTTCGATCTA
* * * *
33887501 CTCCGCTGTAATCTCAGGAAGATAAGATCTGAAATTCTTC-AGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-TATTCTTCGA-TCTA
* * * * * * * *
33887547 TTCCATTATAATCTCAGAGAGATAAGA-C-CTA--ATACGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
** * * ** * ** **
33887588 CTCTGCTATAACTTCAGATAGATAAGATCCT-T-TTTTTTAATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGTATTCTTCGATCTA
* * * * * *
33887632 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTA-GCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-GTATTCTTCGATCTA
* * ** *
33887676 CTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-GTATTCTTCGATCTA
* *
33887722 CTCTACTGTAACCTTAGGGAGATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
33887749 CCTGATGCGA
Statistics
Matches: 898, Mismatches: 239, Indels: 133
0.71 0.19 0.10
Matches are distributed among these distances:
36 2 0.00
37 6 0.01
38 2 0.00
39 11 0.01
40 3 0.00
41 170 0.19
42 16 0.02
43 125 0.14
44 245 0.27
45 19 0.02
46 299 0.33
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGTATTCTTCGATCTA
Found at i:33886709 original size:173 final size:171
Alignment explanation
Indices: 33886416--33886792 Score: 506
Period size: 173 Copynumber: 2.2 Consensus size: 171
33886406 CTTTCGTTTG
* * * *
33886416 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGCTCTGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACT-GATGCGATCTACTCTACTGCAACTTCAGAGAGATA
* * *
33886481 AGATCTATTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTGTCTTCGATCTGCT
65 AGATCCATTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCT
* * **
33886546 CCGCTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTA
130 CCGCTGTAACCTCAGGAAGATAAGATCT---ATGGCTTCAATCTA
* *
33886590 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGA-CTGATGCGATCTACTCTACTGCAACTTCAGAGAGATA
* * * *
33886655 ATATCCCTT-TTTTAATCCACTTCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATTTGCT
65 AGATCCATTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCT
* * *
33886719 CCGCTGTAATCTCAGGAAGATAAGATCTCTGGCTTCAATCTG
130 CCGCTGTAACCTCAGGAAGATAAGATCTATGGCTTCAATCTA
33886761 CTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 CTCCACTGTAACCTCAGGGAGATAAGA-CTGA
33886793 AAGTCTTCGG
Statistics
Matches: 180, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
170 1 0.01
171 38 0.21
173 77 0.43
174 62 0.34
175 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (171 bp):
CTCCACTGTAACCTCAGGGAGATAAGACTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAA
GATCCATTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTC
CGCTGTAACCTCAGGAAGATAAGATCTATGGCTTCAATCTA
Found at i:33887045 original size:216 final size:218
Alignment explanation
Indices: 33886500--33887229 Score: 899
Period size: 216 Copynumber: 3.4 Consensus size: 218
33886490 ATTTTAATCC
* * * *
33886500 GCTCCACTGTAACTTCAGGGAGATAGGAT-TG-TGTCTTCGATCTGCTCCGCTGTAACCTCAGGG
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGATGTCTTCGATCTACTCCACTGTAACCTCAGGG
* *
33886563 AGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGAT
66 AGATAAGACCTGAAGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGAT
* * * *
33886628 CTACTCTGCTGTAACTTCAGAGAGATAATATCCCTT-TTTTAATCCACTTCACTGTAACTTCAGG
131 CTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGG
* *
33886692 GAGATAGGATAGTGTCTTCGATTT
196 GAGATAGGAT-GTATCTTCGATCT
* * * * * * *
33886716 GCTCCGCTGTAATCTCAGGAAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGG
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGATGTCTTCGATCTACTCCACTGTAACCTCAGGG
*
33886780 AGATAAGATCTGAAAG-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTGTATGCG
66 AGATAAGACCTG-AAGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-ATGCG
** * * * *
33886843 ATCCGCTCTACTGCAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACT-TAACTTTA
129 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
* *** *
33886907 -GAAGACCTGATGT-TCTTCGGTCT
194 GGGAGATAGGATGTATCTTCGATCT
* * *
33886930 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGTTCTTCGGTCTACTCCACTGTAACCTCAGG
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGATG-TCTTCGATCTACTCCACTGTAACCTCAGG
*
33886995 GAGATAAGACCTGATGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
65 GAGATAAGACCTGAAGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
*
33887060 TCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCTCA
130 TCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCA
*
33887124 GGGAGATAGGAT-TACTAGCTTCAATCT
194 GGGAGATAGGATGTA-T--CTTCGATCT
* * * * *
33887151 GCTCCACTGTAACCTCAGAGAGATAAGATCTAAAAT-TCTTCGGTCTATTCCACTGTAATCTCAG
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT--GATGTCTTCGATCTACTCCACTGTAACCTCAG
*
33887215 AGAGATAAGACCTGA
64 GGAGATAAGACCTGA
33887230 TGCAATCTAC
Statistics
Matches: 439, Mismatches: 57, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
214 34 0.08
215 6 0.01
216 165 0.38
217 132 0.30
218 24 0.05
219 1 0.00
221 75 0.17
223 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (218 bp):
GCTCCACTGTAACCTCAGGGAGATAAGATCTGATGTCTTCGATCTACTCCACTGTAACCTCAGGG
AGATAAGACCTGAAGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGAT
CTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGG
GAGATAGGATGTATCTTCGATCT
Found at i:33887147 original size:391 final size:387
Alignment explanation
Indices: 33886416--33887530 Score: 1215
Period size: 391 Copynumber: 2.8 Consensus size: 387
33886406 CTTTCGTTTG
* * *
33886416 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGCTCTGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACT-GATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
*
33886481 AGAT-CTATTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTGTCTTCGATCTGC
65 AGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCA-GGAGATAGGA-TGTATCTTCGATCTGC
33886545 TCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
127 TCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGA
** * * ** **
33886610 GATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAATATCCCTTTTTTAATCCAC
192 GATAAGACCTGATGCGATCTACTCCACTGTAACCTCAGAGAGATAAGA-CCCTGATGCAATCCAC
* * * * * ** *
33886675 TTCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATTTGCTCCGCTGTAATCTCAGGAAGAT
256 TTCACTATAACTTCAGAGAGATAAGATACTGTCTTCAATCCGCTCCACTGTAATCTCAGGAAGAT
* * *
33886740 AAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTCGGTC
321 AAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTAAAAGTCTTCGGTC
33886805 TA
386 TA
* *
33886807 CTCCACTGTAACCTCAGGGAGATAAGACTGTATGCGATCCGCTCTACTGCAACTTCAGAGAGATG
1 CTCCACTGTAACCTCAGGGAGATAAGACTG-ATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* * *** * *
33886872 AGATCCTTTATTTTAATCCGCTCCACT-TAACTTTAGAAGACCTGATGT-TCTTCGGTCTACTCC
65 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGAGATAGGATGTATCTTCGATCTGCTCC
* * **
33886935 ACTGTAACCTCAGGGAGATAAGACCTGATGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
130 GCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
* * * *
33887000 AAGACCTGATGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGATGCGATCTA
195 AAGACCTGATG-----CGATCTACTCCACTGTAACCTCAGAGAGATAAGACCCTGATGCAATCCA
* * * * * *
33887064 C-TCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGA
255 CTTC-ACTATAACTTCAGAGAGATAAGATACTGT-CTTCAATCCGCTCCACTGTAATCTCAGGAA
* *
33887128 GATAGGAT-TACTAGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTAAAATTCTTC
318 GATAAGATCT-CTAGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTAAAAGTCTTC
33887192 GGTCTA
382 GGTCTA
* * * * * * ** *
33887198 TTCCACTGTAATCTCAGAGAGATAAGACCTGATGCAATCTACTCTGCTATAACTTCACAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGA-CTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* * * *
33887263 AGATCCTTTATTTTAATTCGCTCCATTGTAA-TCTCAGGATATAGGAT-TACTAGCTTCAATCTG
65 AGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGAGATAGGATGTA-T--CTTCGATCTG
* *
33887326 CTCCGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
126 CTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* ** * * ** * ** *
33887391 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAGAGAAATAAGATCATTTATTTTAATCT
191 AGATAAGACCTGATGCGATCTACTCCACTGTAACCTCAGAGAGATAAGA-CCCTGA-TGCAATCC
* * * * * * *
33887456 GCTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCGCTGTAATCTCAGG
254 ACTTCACTATAACT-TCAGAGAGATAAGA-TACT-GTCTTCAATCCGCTCCACTGTAATCTCAGG
33887519 AAGATAAGATCT
316 AAGATAAGATCT
33887531 GAAATTCTTC
Statistics
Matches: 597, Mismatches: 102, Indels: 47
0.80 0.14 0.06
Matches are distributed among these distances:
387 85 0.14
388 3 0.01
389 8 0.01
390 67 0.11
391 245 0.41
392 47 0.08
393 56 0.09
394 5 0.01
395 81 0.14
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (387 bp):
CTCCACTGTAACCTCAGGGAGATAAGACTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAA
GATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGAGATAGGATGTATCTTCGATCTGCTCCG
CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
AGACCTGATGCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCCTGATGCAATCCACTTCAC
TATAACTTCAGAGAGATAAGATACTGTCTTCAATCCGCTCCACTGTAATCTCAGGAAGATAAGAT
CTCTAGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTAAAAGTCTTCGGTCTA
Found at i:33887224 original size:175 final size:175
Alignment explanation
Indices: 33886977--33887896 Score: 1437
Period size: 175 Copynumber: 5.3 Consensus size: 175
33886967 CTTCGGTCTA
* * * **
33886977 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGTTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
33887042 AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
33887107 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
* * * * * * *
33887152 CTCCACTGTAACCTCAGAGAGATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGAG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* * *
33887217 AGATAAGACCTGATGCAATCTACTCTGCTATAACTTCACAGAGATAAGATCCTTTATTTTAATTC
66 AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* *
33887282 GCTCCATTGTAATCTCA-GGATATAGGATTACTAGCTTCAATCTG
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
*
33887326 CTCCGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* * * * *
33887391 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAGAGAAATAAGATCATTTATTTTAATCT
66 AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
33887456 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
* * * * * * *
33887501 CTCCGCTGTAATCTCAGGAAGATAAGATCTGAAATTCTTCAGTCTATTCCATTATAATCTCAGAG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* * * *
33887566 AGATAAGACCTAATACGATCTACTCTGCTATAACTTCAGATAGATAAGATCCTTTTTTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
33887631 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
* * *
33887676 CTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCTACTGTAACCTTAGGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* * * *
33887741 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAAATAGATAAGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
*
33887806 ACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
* *
33887851 CTCCGCTGTAATCTCAGGGGGTTAAGATCTGAAATTCTTCGGTCTA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
33887897 TTTCCTAGGG
Statistics
Matches: 678, Mismatches: 66, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
174 158 0.23
175 520 0.77
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (175 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
Found at i:33887376 original size:349 final size:349
Alignment explanation
Indices: 33886977--33887898 Score: 1504
Period size: 349 Copynumber: 2.6 Consensus size: 349
33886967 CTTCGGTCTA
* * * **
33886977 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGTTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* *
33887042 AGATAAGACCTGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* *
33887107 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGAGA
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAG-GA
* * * *
33887172 GATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGATGCAATC
195 GATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATCTCAGAGAGATAAGACCTAATACAATC
* *
33887237 TACTCTGCTATAACTTCACAGAGATAAGATCCTTTATTTTAATTCGCTCCATTGTAATCTCA-GG
260 TACTCTGCTATAACTTCACAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
*
33887301 ATATAGGATTACTAGCTTCAATCTG
325 AGATAGGATTACTAGCTTCAATCTG
*
33887326 CTCCGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* * *
33887391 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAGAGAAATAAGATCATTTATTTTAATCT
66 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
33887456 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAA
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGG-A
* * *
33887521 GATAAGATCTGAAATTCTTCAGTCTATTCCATTATAATCTCAGAGAGATAAGACCTAATACGATC
195 GATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATCTCAGAGAGATAAGACCTAATACAATC
* * *
33887586 TACTCTGCTATAACTTCAGATAGATAAGATCCTTTTTTTTAATCCGCTCCACTGTAATCTCAGGG
260 TACTCTGCTATAACTTCACAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
33887651 AGATAGGATTACTAGCTTCAATCTG
325 AGATAGGATTACTAGCTTCAATCTG
* * *
33887676 CTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCTACTGTAACCTTAGGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* *
33887741 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAAATAGATAAGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* *
33887806 ACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGG
131 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA-GGA
*
33887871 GTTAAGATCTGAAATTCTTCGGTCTATT
195 GATAAGATCTGAAATTCTTCGGTCTATT
33887899 TCCTAGGGAA
Statistics
Matches: 531, Mismatches: 39, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
348 1 0.00
349 295 0.56
350 233 0.44
351 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (349 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
AGATAAGACCTGATGCGATCAACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAG
ATAAGATCTGAAATTCTTCGGTCTATTCCACTATAATCTCAGAGAGATAAGACCTAATACAATCT
ACTCTGCTATAACTTCACAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGA
GATAGGATTACTAGCTTCAATCTG
Found at i:33889145 original size:13 final size:13
Alignment explanation
Indices: 33889127--33889152 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33889117 TTAGCCTCTC
33889127 CATTTTTCATTTT
1 CATTTTTCATTTT
33889140 CATTTTTCATTTT
1 CATTTTTCATTTT
33889153 TTTGACTCAG
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):
CATTTTTCATTTT
Found at i:33889858 original size:6 final size:6
Alignment explanation
Indices: 33889857--33889896 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
33889847 TTTTTTTATT
* *
33889857 TTTTCA TTTTGA TTTTGA CTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
33889897 TCTTTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:33889866 original size:19 final size:19
Alignment explanation
Indices: 33889819--33889866 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
33889809 TTGATCTTGA
* *
33889819 TTTTGATTTTTTTCTTCTT
1 TTTTCATTTTTTTCTTATT
* * *
33889838 TCTTCCTTTTTTTTTTATT
1 TTTTCATTTTTTTCTTATT
33889857 TTTTCATTTT
1 TTTTCATTTT
33889867 GATTTTGACT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTCATTTTTTTCTTATT
Found at i:33889902 original size:18 final size:18
Alignment explanation
Indices: 33889856--33889902 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
33889846 TTTTTTTTAT
33889856 TTTTTCATTTTGATTTTGA
1 TTTTTC-TTTTGATTTTGA
* **
33889875 CTTTGATTTTGATTTTGA
1 TTTTTCTTTTGATTTTGA
33889893 TTTTTCTTTT
1 TTTTTCTTTT
33889903 TCTTTCATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.13, C:0.06, G:0.11, T:0.70
Consensus pattern (18 bp):
TTTTTCTTTTGATTTTGA
Found at i:33889914 original size:62 final size:61
Alignment explanation
Indices: 33889771--33889915 Score: 142
Period size: 62 Copynumber: 2.3 Consensus size: 61
33889761 TCTAGATTTC
*
33889771 TCTT-TTTTTCATTCTTCTTTCT-TTT-TCTCATTTCTATTTTGATCTTGATTTTGATTTTTT
1 TCTTCTTTTTCTTTCTT-TTT-TATTTTTCTCATTTCTATTTTGATCTTGATTTTGATTTTTT
*
33889831 TCTTCTTTCTTCCTTTTTTTTTTATTTTT-TCATTT-TGATTTTGA-CTTTGATTTTGATTTTGA
1 TCTTCTTT-TT-CTTTCTTTTTTATTTTTCTCATTTCT-ATTTTGATC-TTGATTTTGATTTT--
33889893 TT
60 TT
33889895 T-TTCTTTTTCTTTCATTTTTT
1 TCTTCTTTTTCTTTC-TTTTTT
33889916 GATCTGAGCC
Statistics
Matches: 72, Mismatches: 3, Indels: 18
0.77 0.03 0.19
Matches are distributed among these distances:
60 4 0.06
61 10 0.14
62 43 0.60
63 12 0.17
64 3 0.04
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.72
Consensus pattern (61 bp):
TCTTCTTTTTCTTTCTTTTTTATTTTTCTCATTTCTATTTTGATCTTGATTTTGATTTTTT
Found at i:33894424 original size:19 final size:19
Alignment explanation
Indices: 33894374--33894427 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
33894364 AGTATTAGAC
* *
33894374 TTAATACTAGGATTAACCT
1 TTAAAACTAGAATTAACCT
* * * *
33894393 ATAAAATTGGAATTAGCCT
1 TTAAAACTAGAATTAACCT
33894412 TTAAAACTAGAATTAA
1 TTAAAACTAGAATTAA
33894428 AACTAGCTTG
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (19 bp):
TTAAAACTAGAATTAACCT
Found at i:33909562 original size:47 final size:46
Alignment explanation
Indices: 33909509--33909610 Score: 109
Period size: 49 Copynumber: 2.2 Consensus size: 46
33909499 ACAAAAGAGG
* *
33909509 GAAAAATG-AAAGA-GATGGTAAAGAAAATGAAAGAGAGAGATATGAAT
1 GAAAAATGCAAAGACGAT-GCAAAGAAAATGAAAGAGAAAG-TA-GAAT
* * *
33909556 GAAAAATGCTTAAGACGATGCAGAGAAAATGAAAGAGAAAGTAGCAT
1 GAAAAATGC-AAAGACGATGCAAAGAAAATGAAAGAGAAAGTAGAAT
33909603 GAAAAATG
1 GAAAAATG
33909611 TTGAAAACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
47 19 0.40
48 2 0.04
49 23 0.49
50 3 0.06
ACGTcount: A:0.55, C:0.04, G:0.26, T:0.15
Consensus pattern (46 bp):
GAAAAATGCAAAGACGATGCAAAGAAAATGAAAGAGAAAGTAGAAT
Found at i:33919264 original size:1 final size:1
Alignment explanation
Indices: 33919258--33919284 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
33919248 TGACCTGGAA
33919258 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
33919285 TCTCTCGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:33923555 original size:181 final size:179
Alignment explanation
Indices: 33923223--33923558 Score: 503
Period size: 181 Copynumber: 1.9 Consensus size: 179
33923213 AGCATAAACC
* *
33923223 AAAAAGAAAATAAGGAATTCATCACAATCTCAGGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
1 AAAAAAAAAATAAGGAATTCATCACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
* * *
33923288 AAGAAAGGTACACTAACTTTAAGAATGCCTTCCTCTGAATATCTATTGCCAGTTTCTTGACATAG
66 AAGAAAGGCACACTAACTTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACATAG
* *
33923353 GATTTCTTGGTTACTACCTAAGTTCGTTATTATAGCTTAAACTATAAAAT
131 GA-TTCTTAGTTACAACCTAAGTTCGTTATTATAGCTTAAACTATAAAAT
* *
33923403 AAAAAAAAAATGAAGGACTTCATTACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAA
1 AAAAAAAAAAT-AAGGAATTCATCACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAA
* ** *
33923468 ATAGAAAGGCATTCTAACTTTAAGAATGCCTCCCTCTGAGTATCCATTGCCAGTTTCTTGACATG
65 AAAGAAAGGCACACTAACTTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACAT-
*
33923533 AGTG-TTCTTATTTACAACCTAAGTTC
129 AG-GATTCTTAGTTACAACCTAAGTTC
33923559 ACTATTATTA
Statistics
Matches: 139, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
180 10 0.07
181 126 0.91
182 2 0.01
183 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (179 bp):
AAAAAAAAAATAAGGAATTCATCACAATCTCAAGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
AAGAAAGGCACACTAACTTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACATAG
GATTCTTAGTTACAACCTAAGTTCGTTATTATAGCTTAAACTATAAAAT
Found at i:33926966 original size:18 final size:19
Alignment explanation
Indices: 33926932--33926967 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33926922 TATACAAATT
33926932 ATAAAATTATATTATAAAC
1 ATAAAATTATATTATAAAC
*
33926951 ATAATATTAT-TTATAAA
1 ATAAAATTATATTATAAA
33926968 AAGTGTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAAATTATATTATAAAC
Found at i:33934279 original size:19 final size:20
Alignment explanation
Indices: 33934255--33934299 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
33934245 AAATACAAGT
33934255 GTATCGGTACCCT-TGTAAA
1 GTATCGGTACCCTATGTAAA
33934274 GTATCGGTACCCTGATGTAAA
1 GTATCGGTACCCT-ATGTAAA
33934295 GTATC
1 GTATC
33934300 AATACTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.54
21 11 0.46
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (20 bp):
GTATCGGTACCCTATGTAAA
Found at i:33937110 original size:22 final size:22
Alignment explanation
Indices: 33937085--33937132 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
33937075 AAAGCACCGC
*
33937085 AGTGCTAAATAAAGAGCACTA-A
1 AGTGCTAAACAAAGAGCA-TAGA
* *
33937107 AGTGTTAAACAGAGAGCATAGA
1 AGTGCTAAACAAAGAGCATAGA
33937129 AGTG
1 AGTG
33937133 TTGAACCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.19
Consensus pattern (22 bp):
AGTGCTAAACAAAGAGCATAGA
Found at i:33943493 original size:45 final size:45
Alignment explanation
Indices: 33943444--33943599 Score: 172
Period size: 45 Copynumber: 3.5 Consensus size: 45
33943434 ACCAGAAACG
* * *
33943444 AGTAAGATCATAGTTGAAAGACGTTATGACATCACAATTCTATCA
1 AGTAAGATCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
* * * * * *
33943489 AGTAA-AACTATGGCTAAAAGATGTTATGGCATCATGATTCTATCG
1 AGTAAGATC-ATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
* * *
33943534 AGTAAGACCATAGCTGAAAGACTTTATGGCATCACGATTTTATCA
1 AGTAAGATCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
33943579 AGTAAGATCATCA-CTGAAAGA
1 AGTAAGATCAT-AGCTGAAAGA
33943600 TACTATGGCA
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
44 2 0.02
45 85 0.94
46 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (45 bp):
AGTAAGATCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
Found at i:33943568 original size:90 final size:90
Alignment explanation
Indices: 33943439--33943654 Score: 245
Period size: 90 Copynumber: 2.4 Consensus size: 90
33943429 ACCATACCAG
* * * **
33943439 AAACGAGTAAGATCATAGTTGAAAGACGTTATGACATCACAATTCTATCAAGTAAAA-CTATGGC
1 AAACGAGTAAGACCATAGTTGAAAGACATTATGGCATCACAATTCTATCAAGTAAAATC-ATCAC
** *
33943503 TAAAAGATGTTATGGCATCATGATTC
65 TAAAAGATACTATGGCATCATGAATC
* * * * * * *
33943529 TATCGAGTAAGACCATAGCTGAAAGACTTTATGGCATCACGATTTTATCAAGTAAGATCATCACT
1 AAACGAGTAAGACCATAGTTGAAAGACATTATGGCATCACAATTCTATCAAGTAAAATCATCACT
*
33943594 GAAAGATACTATGGCATCATGAATC
66 AAAAGATACTATGGCATCATGAATC
* * *
33943619 AAACCAATAAGACCATAGTTGAAAGACACTATGGCA
1 AAACGAGTAAGACCATAGTTGAAAGACATTATGGCA
33943655 ACACGACAAA
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
90 102 0.99
91 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (90 bp):
AAACGAGTAAGACCATAGTTGAAAGACATTATGGCATCACAATTCTATCAAGTAAAATCATCACT
AAAAGATACTATGGCATCATGAATC
Found at i:33943607 original size:45 final size:45
Alignment explanation
Indices: 33943444--33943660 Score: 165
Period size: 45 Copynumber: 4.8 Consensus size: 45
33943434 ACCAGAAACG
* * * *
33943444 AGTAAGATCATAGTTGAAAGACGT-TATGACATCACAATTCTATCA
1 AGTAAGACCATAGCTGAAAGAC-TCTATGGCATCACGATTCTATCA
* * * * * * *
33943489 AGTAAAACTATGGCTAAAAGA-TGTTATGGCATCATGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACT-CTATGGCATCACGATTCTATCA
* *
33943534 AGTAAGACCATAGCTGAAAGACTTTATGGCATCACGATTTTATCA
1 AGTAAGACCATAGCTGAAAGACTCTATGGCATCACGATTCTATCA
* * * * *
33943579 AGTAAGATCATCA-CTGAAAGA-TACTATGGCATCATGAATCAAACCA
1 AGTAAGACCAT-AGCTGAAAGACT-CTATGGCATCACGATTC-TATCA
* * *
33943625 A-TAAGACCATAGTTGAAAGACACTATGGCAACACGA
1 AGTAAGACCATAGCTGAAAGACTCTATGGCATCACGA
33943661 CAAAAAATGA
Statistics
Matches: 135, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 126 0.93
46 6 0.04
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACTCTATGGCATCACGATTCTATCA
Found at i:33956477 original size:12 final size:11
Alignment explanation
Indices: 33956450--33956519 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
33956440 TTTTAAAAAA
33956450 TTAAAAAA-AT
1 TTAAAAAATAT
*
33956460 TAAAAAAAGTAT
1 TTAAAAAA-TAT
33956472 TTAAAAAATAT
1 TTAAAAAATAT
*
33956483 TT--TAAA-AT
1 TTAAAAAATAT
*
33956491 TTAAAAAGTAT
1 TTAAAAAATAT
*
33956502 GTAAAAAATAT
1 TTAAAAAATAT
*
33956513 TTTAAAA
1 TTAAAAA
33956520 TTAAAAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 9 0.20
11 21 0.46
12 9 0.20
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (11 bp):
TTAAAAAATAT
Found at i:33956490 original size:31 final size:31
Alignment explanation
Indices: 33956455--33956528 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 31
33956445 AAAAATTAAA
*
33956455 AAAATTAAAAAAAGTATTTAAAAAATATTTT
1 AAAATTAAAAAAAGTATGTAAAAAATATTTT
*
33956486 AAAATT-TAAAAAGTATGTAAAAAATATTTT
1 AAAATTAAAAAAAGTATGTAAAAAATATTTT
33956516 AAAATTAAAAAAA
1 AAAATTAAAAAAA
33956529 TAAATATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 28 0.72
31 11 0.28
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATGTAAAAAATATTTT
Found at i:33956508 original size:19 final size:19
Alignment explanation
Indices: 33956470--33956508 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
33956460 TAAAAAAAGT
* *
33956470 ATTTAAAAAATATTTTAAA
1 ATTTAAAAAATATGTAAAA
*
33956489 ATTTAAAAAGTATGTAAAA
1 ATTTAAAAAATATGTAAAA
33956508 A
1 A
33956509 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
ATTTAAAAAATATGTAAAA
Found at i:33956638 original size:42 final size:42
Alignment explanation
Indices: 33956592--33956675 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
33956582 GCCCGGCCTG
33956592 TTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCCCATATTTC
1 TTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCCCATATTTC
*
33956634 TTTTCTAAACGGGCCTCGTTTTTTTGCCCAAGCCCATATTTC
1 TTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCCCATATTTC
33956676 GGGCCTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.40
Consensus pattern (42 bp):
TTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCCCATATTTC
Found at i:33957423 original size:21 final size:22
Alignment explanation
Indices: 33957397--33957443 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
33957387 CATAAAAATC
*
33957397 ATAATATATAA-TATTATAAAA
1 ATAATAAATAACTATTATAAAA
*
33957418 ATAATAAATAACTTATTATAATA
1 ATAATAAATAAC-TATTATAAAA
33957441 ATA
1 ATA
33957444 TGCTATGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATAAATAACTATTATAAAA
Found at i:33958232 original size:28 final size:28
Alignment explanation
Indices: 33958201--33958379 Score: 146
Period size: 28 Copynumber: 6.4 Consensus size: 28
33958191 TATAATTCTA
*
33958201 GGTAAAACTATAAAATCTAAAAAATAGG
1 GGTAAAACTGTAAAATCTAAAAAATAGG
* * ** *
33958229 GGTAAAACTATAAAATTTGGAAAATAAG
1 GGTAAAACTGTAAAATCTAAAAAATAGG
* * * *
33958257 GGCAAAACTGTAAGATCTAGAAAATATG
1 GGTAAAACTGTAAAATCTAAAAAATAGG
* * **
33958285 AGCAAAGTTGTAAAATCT-AAAAA-AGG
1 GGTAAAACTGTAAAATCTAAAAAATAGG
* *
33958311 GGTAAAATTGTAAAATCTAGAAAAAAAGG
1 GGTAAAACTGTAAAATCTA-AAAAATAGG
* * * *
33958340 GGCAAAATTGCAAAATCTATAAAATAGG
1 GGTAAAACTGTAAAATCTAAAAAATAGG
*
33958368 GGTAAAATTGTA
1 GGTAAAACTGTA
33958380 CAATAAAAAA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
26 17 0.14
27 4 0.03
28 82 0.67
29 20 0.16
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (28 bp):
GGTAAAACTGTAAAATCTAAAAAATAGG
Found at i:33958379 original size:83 final size:84
Alignment explanation
Indices: 33958201--33958379 Score: 200
Period size: 83 Copynumber: 2.1 Consensus size: 84
33958191 TATAATTCTA
* * * * *
33958201 GGTAAAACTATAAAATCTAAAAAATAGGGGTAAAACTATAAAATTTGGAAAATAAGGGCAAAACT
1 GGTAAAATTGTAAAATCTAAAAAATAGGGGTAAAACTATAAAATCTAGAAAAAAAGGGCAAAACT
* * *
33958266 GTAAGATCTAGAAAATATG
66 GCAAAATCTAGAAAATAGG
* * * * * *
33958285 AGCAAAGTTGTAAAATCT-AAAAA-AGGGGTAAAATTGTAAAATCTAGAAAAAAAGGGGCAAAAT
1 GGTAAAATTGTAAAATCTAAAAAATAGGGGTAAAACTATAAAATCTAGAAAAAAA-GGGCAAAAC
*
33958348 TGCAAAATCTATAAAATAGG
65 TGCAAAATCTAGAAAATAGG
33958368 GGTAAAATTGTA
1 GGTAAAATTGTA
33958380 CAATAAAAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
82 25 0.33
83 38 0.50
84 13 0.17
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (84 bp):
GGTAAAATTGTAAAATCTAAAAAATAGGGGTAAAACTATAAAATCTAGAAAAAAAGGGCAAAACT
GCAAAATCTAGAAAATAGG
Found at i:33963503 original size:13 final size:13
Alignment explanation
Indices: 33963487--33963539 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
33963477 TTTAAACCAA
33963487 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
33963500 ACTTTTC-CACGTC
1 ACTTTTCAAAAG-C
*
33963513 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
33963526 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
33963539 A
1 A
33963540 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 2 0.06
13 29 0.91
14 1 0.03
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:33970210 original size:32 final size:32
Alignment explanation
Indices: 33970167--33970227 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
33970157 ATTGTTTTGA
* *
33970167 GTACTGAATTGAATTATGAAGTTACTGAATGT
1 GTACTGAATTGAACTATGAAATTACTGAATGT
* *
33970199 GTACTGCATTGAACTGTGAAATTACTGAA
1 GTACTGAATTGAACTATGAAATTACTGAA
33970228 GTAATGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (32 bp):
GTACTGAATTGAACTATGAAATTACTGAATGT
Found at i:33970478 original size:45 final size:45
Alignment explanation
Indices: 33970410--33970670 Score: 321
Period size: 45 Copynumber: 5.9 Consensus size: 45
33970400 TTATTGATCA
* * * *
33970410 GGCAC-TTATGTGCCGACTACTGTTACTGTTACTATTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTACCGATTC
*
33970454 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTATCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTACCGATTC
* * *
33970499 GGCACTTTGTGTGTCGAATACTATTACCGTTACTAGTACCAATTC
1 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTACCGATTC
* * * *
33970544 GACACTTTGTGTGTCGAATACTGTTATCGTTACTGTTATCGATT-
1 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTACCGATTC
* ** *
33970588 GACACTTTGTGTGTCGAATACTGTTACCG-TACTATTACAAATTT
1 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTACCGATTC
* * * *
33970632 AGCACTTTGTGTGTTGAATACTGTTACTGTTACTGTTAC
1 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTAC
33970671 TGTTACTGCT
Statistics
Matches: 188, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
43 10 0.05
44 58 0.31
45 120 0.64
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (45 bp):
GGCACTTTGTGTGTCGAATACTGTTACCGTTACTATTACCGATTC
Found at i:33970661 original size:6 final size:6
Alignment explanation
Indices: 33970650--33970678 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33970640 GTGTGTTGAA
33970650 TACTGT TACTGT TACTGT TACTGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTG
33970679 CTATCGTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:33970709 original size:11 final size:11
Alignment explanation
Indices: 33970693--33970720 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33970683 CGTTACTAAT
33970693 TACTGTTTAGG
1 TACTGTTTAGG
33970704 TACTGTTTAGG
1 TACTGTTTAGG
33970715 TACTGT
1 TACTGT
33970721 GTATCGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.11, G:0.25, T:0.46
Consensus pattern (11 bp):
TACTGTTTAGG
Found at i:33980601 original size:29 final size:32
Alignment explanation
Indices: 33980547--33980613 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 32
33980537 TGGTTTTTTA
33980547 AATAATTATAAAAAAATATATTTAAAATTGTT
1 AATAATTATAAAAAAATATATTTAAAATTGTT
* *
33980579 AATAATTAT-AAATAATA-A-TTAAAATTTTT
1 AATAATTATAAAAAAATATATTTAAAATTGTT
33980608 AA-AATT
1 AATAATT
33980614 CATATATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 4 0.12
29 12 0.36
30 1 0.03
31 7 0.21
32 9 0.27
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
AATAATTATAAAAAAATATATTTAAAATTGTT
Found at i:33983867 original size:20 final size:19
Alignment explanation
Indices: 33983822--33983862 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
33983812 TATATATTTT
*
33983822 AAAATATTAATTACCATAA
1 AAAATATCAATTACCATAA
33983841 AAAATATCAA-TACCATAA
1 AAAATATCAATTACCATAA
33983859 AAAA
1 AAAA
33983863 AATATAAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATATCAATTACCATAA
Found at i:33983882 original size:20 final size:21
Alignment explanation
Indices: 33983837--33983885 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
33983827 ATTAATTACC
33983837 ATAAAAAATATCAATACCATA
1 ATAAAAAATATCAATACCATA
*
33983858 A-AAAAAATAT-AA-ACGAGTA
1 ATAAAAAATATCAATACCA-TA
33983877 ATAAAAAAT
1 ATAAAAAAT
33983886 GAAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 5 0.20
20 16 0.64
21 1 0.04
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.20
Consensus pattern (21 bp):
ATAAAAAATATCAATACCATA
Found at i:33985565 original size:24 final size:23
Alignment explanation
Indices: 33985538--33985595 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
33985528 ATGATAAATC
*
33985538 AATAAAATATAAACGAACAATCAA
1 AATAAAATA-AAACGAACAATAAA
* *
33985562 AATAATAATAAAAGGGACAATAAA
1 AATAA-AATAAAACGAACAATAAA
*
33985586 AATATAATAA
1 AATAAAATAA
33985596 TCTAGTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.17
24 20 0.69
25 4 0.14
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (23 bp):
AATAAAATAAAACGAACAATAAA
Found at i:33985669 original size:14 final size:12
Alignment explanation
Indices: 33985638--33985702 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
33985628 TTGAAGAAAT
33985638 AATAATAAAT-A
1 AATAATAAATAA
*
33985649 AACAATAAATAA
1 AATAATAAATAA
**
33985661 AAGTGAATAGCTAAA
1 AA-T-AATAAAT-AA
33985676 AATAAATAAATAA
1 AAT-AATAAATAA
33985689 AATAATAAATAA
1 AATAATAAATAA
33985701 AA
1 AA
33985703 AAAGGAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
11 9 0.21
12 14 0.33
13 5 0.12
14 11 0.26
15 4 0.09
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.22
Consensus pattern (12 bp):
AATAATAAATAA
Found at i:33985697 original size:16 final size:15
Alignment explanation
Indices: 33985676--33985705 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33985666 AATAGCTAAA
33985676 AATAAATAAATAAAAT
1 AATAAATAAA-AAAAT
33985692 AATAAATAAAAAAA
1 AATAAATAAAAAAA
33985706 GGAAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AATAAATAAAAAAAT
Found at i:33985704 original size:14 final size:13
Alignment explanation
Indices: 33985638--33985703 Score: 57
Period size: 14 Copynumber: 5.2 Consensus size: 13
33985628 TTGAAGAAAT
33985638 AATAATAAAT--A
1 AATAATAAATAAA
*
33985649 AACAATAAATAAA
1 AATAATAAATAAA
* **
33985662 AGTGAATAGCTAAA
1 AAT-AATAAATAAA
33985676 AATAAATAAAT-AA
1 AAT-AATAAATAAA
33985689 AATAATAAATAAA
1 AATAATAAATAAA
33985702 AA
1 AA
33985704 AAGGAAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
11 9 0.21
12 7 0.17
13 11 0.26
14 15 0.36
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:33990750 original size:2 final size:2
Alignment explanation
Indices: 33990743--33990803 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
33990733 TCATAATAAG
33990743 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
33990785 AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC A
33990804 TACATACATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33992662 original size:19 final size:19
Alignment explanation
Indices: 33992638--33992678 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
33992628 ACTTAAATGG
*
33992638 TTAATTAACATAATTAACC
1 TTAATTAACATAATAAACC
* *
33992657 TTAATTTACTTAATAAACC
1 TTAATTAACATAATAAACC
33992676 TTA
1 TTA
33992679 TTATTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAATTAACATAATAAACC
Found at i:33996083 original size:38 final size:37
Alignment explanation
Indices: 33996041--33996118 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 37
33996031 ATCAAACACC
33996041 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAACT
1 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAA-T
33996079 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAAT
1 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAAT
33996116 CTA
1 CTA
33996119 AGCTACTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 36 0.90
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (37 bp):
CTACCATTCCAATAATTTCTTAAAAGACATTAAAAAT
Found at i:34001386 original size:51 final size:51
Alignment explanation
Indices: 34001312--34001433 Score: 199
Period size: 51 Copynumber: 2.4 Consensus size: 51
34001302 TCTAATCCTC
*
34001312 TCAATTTCCTTTCAAATTTCCTTCCAAAATCCTCTCAAACCCATATTTAATT
1 TCAATTTCCTCTC-AATTTCCTTCCAAAATCCTCTCAAACCCATATTTAATT
* *
34001364 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATCCTCTCAAACCCATATTTAATT
*
34001415 TCAATTTCCCCTCAATTTC
1 TCAATTTCCTCTCAATTTC
34001434 ATTTTTAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 54 0.82
52 12 0.18
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATCCTCTCAAACCCATATTTAATT
Found at i:34001461 original size:11 final size:11
Alignment explanation
Indices: 34001447--34001471 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34001437 TTTAAAATAA
34001447 TTTTATATTTT
1 TTTTATATTTT
34001458 TTTTATATTTT
1 TTTTATATTTT
34001469 TTT
1 TTT
34001472 AAAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATATTTT
Found at i:34001468 original size:10 final size:10
Alignment explanation
Indices: 34001447--34001499 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
34001437 TTTAAAATAA
34001447 TTTTATATTTT
1 TTTTATA-TTT
34001458 TTTTATATTT
1 TTTTATATTT
* **
34001468 TTTTAAAATAA
1 TTTT-ATATTT
*
34001479 TTTTAAATTT
1 TTTTATATTT
34001489 TTTTATATTT
1 TTTTATATTT
34001499 T
1 T
34001500 CATCAATGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 21 0.60
11 14 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTATATTT
Found at i:34001490 original size:31 final size:32
Alignment explanation
Indices: 34001435--34001499 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
34001425 CTCAATTTCA
*
34001435 TTTTTAAAATAATTTTATATTTTTTTTATATT
1 TTTTTAAAATAATTTTATAATTTTTTTATATT
34001467 TTTTTAAAATAATTTTA-AATTTTTTTATATT
1 TTTTTAAAATAATTTTATAATTTTTTTATATT
34001498 TT
1 TT
34001500 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 15 0.47
32 17 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (32 bp):
TTTTTAAAATAATTTTATAATTTTTTTATATT
Found at i:34002556 original size:15 final size:15
Alignment explanation
Indices: 34002536--34002566 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34002526 CTGCGGACCT
34002536 TGAGGTGTTTGACGA
1 TGAGGTGTTTGACGA
34002551 TGAGGTGTTTGACGA
1 TGAGGTGTTTGACGA
34002566 T
1 T
34002567 TACCATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.39, T:0.35
Consensus pattern (15 bp):
TGAGGTGTTTGACGA
Found at i:34003454 original size:25 final size:25
Alignment explanation
Indices: 34003425--34003606 Score: 104
Period size: 25 Copynumber: 7.6 Consensus size: 25
34003415 TTTAAATTTA
34003425 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
34003450 TTATTTGATGTAATACACATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
34003476 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
34003495 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* *
34003521 TTATTTGATGTAATACACATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
34003547 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
34003566 ATTATTTAATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
*
34003592 TTATTTGATATAATA
1 TTATTTGATGTAATA
34003607 GGCATAGAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 40
0.67 0.11 0.23
Matches are distributed among these distances:
19 2 0.02
20 9 0.08
21 16 0.14
23 4 0.03
24 6 0.05
25 55 0.47
26 26 0.22
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:34003507 original size:71 final size:71
Alignment explanation
Indices: 34003423--34003717 Score: 518
Period size: 71 Copynumber: 4.2 Consensus size: 71
34003413 TATTTAAATT
*
34003423 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACACATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACACATAGAAATTTTTTCGAGTTA
34003488 TTTTGA
66 TTTTGA
*
34003494 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACACATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACACATAGAAATTTTTTCGAGTTA
34003559 TTTTGA
66 TTTTGA
* **
34003565 TATTATTTAATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACACATAGAAATTTTTTCGAGTTA
34003630 TTTTGA
66 TTTTGA
* **
34003636 TATTATTTAATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACACATAGAAATTTTTTCGAGTTA
34003701 TTTTGA
66 TTTTGA
34003707 TATTATTTGAT
1 TATTATTTGAT
34003718 NNNNNNNNNN
Statistics
Matches: 219, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 219 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACACATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:34003709 original size:36 final size:36
Alignment explanation
Indices: 34003595--34003709 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 36
34003585 TAGAAGTTTA
34003595 TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
1 TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
* *** * **** *
34003631 TTTGATATTAT-TTAAT-GTAATAAAATAGAAGTT-T
1 TTTGATATAATAGGCATAGAAATTTTTTCG-AGTTAT
34003665 ATTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
1 -TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
34003702 TTTGATAT
1 TTTGATAT
34003710 TATTTGATNN
Statistics
Matches: 54, Mismatches: 20, Indels: 10
0.64 0.24 0.12
Matches are distributed among these distances:
34 7 0.13
35 16 0.30
36 24 0.44
37 7 0.13
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (36 bp):
TTTGATATAATAGGCATAGAAATTTTTTCGAGTTAT
Found at i:34005076 original size:14 final size:15
Alignment explanation
Indices: 34005058--34005101 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
34005048 AGTAATTTAG
34005058 AAAATTCAATTAATT
1 AAAATTCAATTAATT
* *
34005073 -AAATTTATTTAATT
1 AAAATTCAATTAATT
*
34005087 AAAAATCAATTAATT
1 AAAATTCAATTAATT
34005102 TACTTAGCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTCAATTAATT
Found at i:34006397 original size:31 final size:29
Alignment explanation
Indices: 34006362--34006436 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
34006352 AACGGCTCAA
*
34006362 TGACTAAAATGTTACAACACGATAACATAAG
1 TGACTAAAATGTAACAACAC-A-AACATAAG
* ***
34006393 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACAACACAAACATAAG
34006422 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
34006437 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 22 0.58
30 1 0.03
31 15 0.39
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (29 bp):
TGACTAAAATGTAACAACACAAACATAAG
Found at i:34006830 original size:17 final size:18
Alignment explanation
Indices: 34006810--34006850 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
34006800 TTTGATTTCT
34006810 ATATAAT-AATTTAATTA
1 ATATAATAAATTTAATTA
*
34006827 ATAT-ATAAATTTCATTA
1 ATATAATAAATTTAATTA
34006844 ATCATAA
1 AT-ATAA
34006851 ACTTGATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 15 0.75
18 2 0.10
19 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATAAATTTAATTA
Found at i:34006906 original size:2 final size:2
Alignment explanation
Indices: 34006899--34006925 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34006889 AACTCAATTG
34006899 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34006926 GGGGTGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34014162 original size:201 final size:199
Alignment explanation
Indices: 34013817--34014218 Score: 734
Period size: 201 Copynumber: 2.0 Consensus size: 199
34013807 ATGTTATACT
34013817 CTGTTTGGTGTGTTTATAAGGGACTAGCTCTTTCGAGTATTGATGTGTTTCGGTTGGATTGGCTC
1 CTGTTTGGTGTGTTTATAAGGGACTAGCTCTTTCGAGTATTGATGTGTTTCGGTTGGATTGGCTC
*
34013882 GTGTAACTATCTGGTGTGTTTTGGTTAGACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
66 GTGTAACTATCTGGTGTGTTTTGGTTAAACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
34013947 TTAATCTTTTTTTTTTTGTAGATACTTGGAAGGTTGGATGATCAGG-TCGGCACTCAAGTCACAC
131 TTAATC--TTTTTTTTTGTAGATACTTGGAAGGTTGGATGATC-GGTTCGGCACTCAAGTCACAC
34014011 TATCCAG
193 TATCCAG
*
34014018 CTGTTTGGTGTGTTTATAAGGGACTAGCTCTTTTGAGTATTGATGTGTTTCGGTTGGATTGGCTC
1 CTGTTTGGTGTGTTTATAAGGGACTAGCTCTTTCGAGTATTGATGTGTTTCGGTTGGATTGGCTC
* *
34014083 GTGTGAGTATCTGGTGTGTTTTGGTTAAACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
66 GTGTAACTATCTGGTGTGTTTTGGTTAAACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
34014148 TTAATCTTTTTTTTTGTAGATACTTGGAAGGTTGGATGATCGGTTCGGCACTCAAGTCACACTAT
131 TTAATCTTTTTTTTTGTAGATACTTGGAAGGTTGGATGATCGGTTCGGCACTCAAGTCACACTAT
34014213 CCAG
196 CCAG
34014217 CT
1 CT
34014219 TAATTTCGAT
Statistics
Matches: 196, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
198 2 0.01
199 62 0.32
201 132 0.67
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (199 bp):
CTGTTTGGTGTGTTTATAAGGGACTAGCTCTTTCGAGTATTGATGTGTTTCGGTTGGATTGGCTC
GTGTAACTATCTGGTGTGTTTTGGTTAAACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
TTAATCTTTTTTTTTGTAGATACTTGGAAGGTTGGATGATCGGTTCGGCACTCAAGTCACACTAT
CCAG
Found at i:34015623 original size:18 final size:18
Alignment explanation
Indices: 34015570--34015623 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
34015560 ATTCACCTAA
* *
34015570 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAATT
*
34015589 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
34015607 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
34015624 CAGAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.41, C:0.46, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:34015673 original size:6 final size:6
Alignment explanation
Indices: 34015664--34015706 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
34015654 AAAGAAAATT
* * *
34015664 CTAAAA CTAAAA CTAAAA CTAAAGT CTAAAA ATAAAA ATAAAA
1 CTAAAA CTAAAA CTAAAA CTAAA-A CTAAAA CTAAAA CTAAAA
34015707 AACATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (6 bp):
CTAAAA
Found at i:34015734 original size:9 final size:9
Alignment explanation
Indices: 34015722--34015756 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
34015712 ATAATTTGGA
34015722 TAATTCGGG
1 TAATTCGGG
*
34015731 TAATTCGGT
1 TAATTCGGG
34015740 TAATTCGGG
1 TAATTCGGG
34015749 TAATTCGG
1 TAATTCGG
34015757 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (9 bp):
TAATTCGGG
Found at i:34015743 original size:18 final size:18
Alignment explanation
Indices: 34015722--34015759 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
34015712 ATAATTTGGA
34015722 TAATTCGGGTAATTCGGT
1 TAATTCGGGTAATTCGGT
34015740 TAATTCGGGTAATTCGGT
1 TAATTCGGGTAATTCGGT
34015758 TA
1 TA
34015760 TTTTTTAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (18 bp):
TAATTCGGGTAATTCGGT
Found at i:34016868 original size:24 final size:24
Alignment explanation
Indices: 34016826--34016968 Score: 112
Period size: 24 Copynumber: 5.8 Consensus size: 24
34016816 AAGCTCGTGC
* * *
34016826 GAGCCAATAACAGGTAGCTCCGAA
1 GAGCCATTAACGGGAAGCTCCGAA
*
34016850 GAGCCATTAACGGGAAGCTTC-AGA
1 GAGCCATTAACGGGAAGCTCCGA-A
* * * * *
34016874 TAGCCATATATCAGGAAG-TTCAAA
1 GAGCCAT-TAACGGGAAGCTCCGAA
*
34016898 TGAGCCA-TATCGGGAAGCTCCGAA
1 -GAGCCATTAACGGGAAGCTCCGAA
34016922 GAGCCATTAATCGGGAAGCTCTCGAA
1 GAGCCATTAA-CGGGAAGCTC-CGAA
*
34016948 GAGCCATATAACGGGACGCTC
1 GAGCCAT-TAACGGGAAGCTC
34016969 ATAAGAGCTG
Statistics
Matches: 97, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
23 16 0.16
24 34 0.35
25 24 0.25
26 20 0.21
27 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCCGAA
Found at i:34016879 original size:48 final size:48
Alignment explanation
Indices: 34016826--34016976 Score: 128
Period size: 48 Copynumber: 3.1 Consensus size: 48
34016816 AAGCTCGTGC
*
34016826 GAGCCAATAACAGGTAGCTCCGAAGAGCCATTAACGGGAAGCTTCAG-A
1 GAGCCAATAACAGGAAGCTCCGAAGAGCCATTAACGGGAAGC-TCAGAA
* * * * * *
34016874 TAGCCATATATCAGGAAG-TTCAAATGAGCCA-TATCGGGAAGCTCCGAA
1 GAGCCA-ATAACAGGAAGCTCCGAA-GAGCCATTAACGGGAAGCTCAGAA
* * * *
34016922 GAGCCATTAATCGGGAAGCTCTCGAAGAGCCATATAACGGGACGCTCATAA
1 GAGCCAATAA-CAGGAAGCTC-CGAAGAGCCAT-TAACGGGAAGCTCAGAA
34016973 GAGC
1 GAGC
34016977 TGTGGTTTGT
Statistics
Matches: 78, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
47 5 0.06
48 31 0.40
49 22 0.28
50 3 0.04
51 17 0.22
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (48 bp):
GAGCCAATAACAGGAAGCTCCGAAGAGCCATTAACGGGAAGCTCAGAA
Found at i:34016937 original size:25 final size:25
Alignment explanation
Indices: 34016841--34016968 Score: 108
Period size: 25 Copynumber: 5.2 Consensus size: 25
34016831 AATAACAGGT
34016841 AGCTCCGAAGAGCCATTAA-CGGGA
1 AGCTCCGAAGAGCCATTAATCGGGA
* * *
34016865 AGCTTC-AGATAGCCA-TATATCAGGA
1 AGCTCCGA-AGAGCCATTA-ATCGGGA
* *
34016890 AG-TTCAAATGAGCCA-T-ATCGGGA
1 AGCTCCGAA-GAGCCATTAATCGGGA
34016913 AGCTCCGAAGAGCCATTAATCGGGA
1 AGCTCCGAAGAGCCATTAATCGGGA
34016938 AGCTCTCGAAGAGCCATATAA-CGGGA
1 AGCTC-CGAAGAGCCAT-TAATCGGGA
*
34016964 CGCTC
1 AGCTC
34016969 ATAAGAGCTG
Statistics
Matches: 86, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
23 17 0.20
24 21 0.24
25 25 0.29
26 20 0.23
27 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCGGGA
Found at i:34024025 original size:16 final size:16
Alignment explanation
Indices: 34024004--34024045 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
34023994 AATAATTTGA
*
34024004 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
34024020 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
34024036 TAGTTTTAAT
1 TAATTTTAAT
34024046 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:34024341 original size:19 final size:19
Alignment explanation
Indices: 34024317--34024395 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
34024307 AATTTTGATT
*
34024317 TTTTTTGTAATTCTAATAA
1 TTTTTTATAATTCTAATAA
* * *
34024336 TTTTTTATTATTTTTATAA
1 TTTTTTATAATTCTAATAA
* *
34024355 TTTTTTAT-TTTCT-AGAA
1 TTTTTTATAATTCTAATAA
*
34024372 TTATTTTATAATTCTATTAA
1 TT-TTTTATAATTCTAATAA
34024392 TTTT
1 TTTT
34024396 AATCATTTCC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
17 5 0.11
18 9 0.19
19 29 0.62
20 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTTATAATTCTAATAA
Found at i:34024373 original size:17 final size:16
Alignment explanation
Indices: 34024338--34024380 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
34024328 TCTAATAATT
*
34024338 TTTTATTATTTTTATAA
1 TTTT-TTATTTTTAGAA
34024355 TTTTTTATTTTCTAGAA
1 TTTTTTATTTT-TAGAA
34024372 TTATTTTAT
1 TT-TTTTAT
34024381 AATTCTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 10 0.43
18 6 0.26
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTTATTTTTAGAA
Found at i:34031836 original size:21 final size:21
Alignment explanation
Indices: 34031812--34031851 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34031802 ATTTTGCATG
34031812 CCAGCACACCAATTTTGACCA
1 CCAGCACACCAATTTTGACCA
* *
34031833 CCAGCATACCTATTTTGAC
1 CCAGCACACCAATTTTGAC
34031852 TCGCATAGTT
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:0.30, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
CCAGCACACCAATTTTGACCA
Found at i:34038498 original size:88 final size:86
Alignment explanation
Indices: 34038309--34038516 Score: 226
Period size: 86 Copynumber: 2.4 Consensus size: 86
34038299 CAATGGCAAC
* * * * * *
34038309 GTCCCAGACGTGGTCTTACATG-AAATCAAATATCGATGTCACTGTCCCCGGCAGGGTCTTACAC
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACAC
* * * *
34038373 TAACTCATATACTATGCCGAT
66 TAACGCAAATACGATGCCAAT
* * *
34038394 GTCCCAGGCATGGTCTTACACGTAAATCGCAA-ATCGATGCCAATGTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACACGTAAATC-AAATATCGATGCCAATGTCCCAGACAGGGTCTTACA
34038458 CGTAAATCGCAAAT-CGATGCCAAT
65 C-T-AA-CGCAAATACGATGCCAAT
*
34038482 GTCCCAGACATGGTCTTACACGT-AATCACATATCG
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCG
34038517 GAATCCTATG
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
85 19 0.19
86 34 0.34
87 11 0.11
88 32 0.32
89 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (86 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACAC
TAACGCAAATACGATGCCAAT
Found at i:34038528 original size:44 final size:44
Alignment explanation
Indices: 34038309--34038506 Score: 226
Period size: 44 Copynumber: 4.6 Consensus size: 44
34038299 CAATGGCAAC
* * * * *
34038309 GTCCCAGACGTGGTCTTACATG-AAATC-AAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACACGTAAATCGCAA-ATCGATGCCAAT
* * * * * * *
34038352 GTCCCCGGCAGGGTCTTACAC-T-AA-CTCATATACTATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCGCAAAT-CGATGCCAAT
*
34038394 GTCCCAGGCATGGTCTTACACGTAAATCGCAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCGCAAATCGATGCCAAT
34038438 GTCCCAGACATGGTCTTACACGTAAATCGCAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCGCAAATCGATGCCAAT
34038482 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACATGGTCTTACACGTAA
34038507 TCACATATCG
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.02
42 28 0.21
43 17 0.13
44 78 0.60
45 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCGCAAATCGATGCCAAT
Found at i:34041255 original size:25 final size:25
Alignment explanation
Indices: 34041185--34041271 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
34041175 CAAGCATGCA
* * *
34041185 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGGGAAGCTCATACGAGCTATAT
* **
34041210 AACAGGAAGCTCATATAAGCTA-AGT
1 AACGGGAAGCTCATACGAGCTATA-T
*
34041235 AACGGGAAGCTCATACGAGCTGTAT
1 AACGGGAAGCTCATACGAGCTATAT
* *
34041260 ATCAGGAAGCTC
1 AACGGGAAGCTC
34041272 TTGCAAGCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 1 0.02
25 46 0.96
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
AACGGGAAGCTCATACGAGCTATAT
Found at i:34041286 original size:25 final size:24
Alignment explanation
Indices: 34041258--34041329 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
34041248 TACGAGCTGT
*
34041258 ATATCAGGAAGCTCTTGCA-AGCCAA
1 ATATC-GGAAGCTCATG-AGAGCCAA
34041283 ATATCGAGAAGCTCATGAGAGCCAA
1 ATATCG-GAAGCTCATGAGAGCCAA
* *
34041308 GTATCGGGAAGCTCAAGAGAGC
1 ATATC-GGAAGCTCATGAGAGC
34041330 TATGGTGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.05
25 38 0.93
26 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (24 bp):
ATATCGGAAGCTCATGAGAGCCAA
Found at i:34057721 original size:9 final size:9
Alignment explanation
Indices: 34057707--34057737 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34057697 GTTAAACGAA
34057707 TCGAGTTAT
1 TCGAGTTAT
*
34057716 TCGAGTTAA
1 TCGAGTTAT
34057725 TCGAGTTAT
1 TCGAGTTAT
34057734 TCGA
1 TCGA
34057738 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:34058410 original size:5 final size:5
Alignment explanation
Indices: 34058400--34058425 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34058390 CTCGAAAATT
34058400 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
34058426 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:34058637 original size:9 final size:9
Alignment explanation
Indices: 34058619--34058659 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
34058609 AAATTAAATT
34058619 ATAATAAAA
1 ATAATAAAA
*
34058628 ATACTAAAA
1 ATAATAAAA
*
34058637 ATAATAACA
1 ATAATAAAA
*
34058646 ATATTAAAA
1 ATAATAAAA
34058655 ATAAT
1 ATAAT
34058660 TTATTAAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAATAAAA
Found at i:34058642 original size:18 final size:18
Alignment explanation
Indices: 34058619--34058659 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
34058609 AAATTAAATT
34058619 ATAATAAAAATACTAAAA
1 ATAATAAAAATACTAAAA
* *
34058637 ATAATAACAATATTAAAA
1 ATAATAAAAATACTAAAA
34058655 ATAAT
1 ATAAT
34058660 TTATTAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAATAAAAATACTAAAA
Found at i:34060993 original size:24 final size:24
Alignment explanation
Indices: 34060966--34061013 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
34060956 GTTCAAGTTT
34060966 GAGCCCATAGACTTGAACAACTCC
1 GAGCCCATAGACTTGAACAACTCC
*
34060990 GAGCCTATAGACTTGAACAACTCC
1 GAGCCCATAGACTTGAACAACTCC
34061014 ATCTAGAACC
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:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (24 bp):
GAGCCCATAGACTTGAACAACTCC
Found at i:34063475 original size:5 final size:5
Alignment explanation
Indices: 34063465--34063490 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34063455 GAACAAATAT
34063465 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
34063491 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:34063590 original size:5 final size:5
Alignment explanation
Indices: 34063580--34063605 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34063570 CTCGAAAATT
34063580 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
34063606 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:34063817 original size:9 final size:9
Alignment explanation
Indices: 34063799--34063839 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
34063789 AAATTAAATT
34063799 ATAATAAAA
1 ATAATAAAA
*
34063808 ATACTAAAA
1 ATAATAAAA
*
34063817 ATAATAACA
1 ATAATAAAA
*
34063826 ATATTAAAA
1 ATAATAAAA
34063835 ATAAT
1 ATAAT
34063840 TTATTAAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAATAAAA
Found at i:34063822 original size:18 final size:18
Alignment explanation
Indices: 34063799--34063839 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
34063789 AAATTAAATT
34063799 ATAATAAAAATACTAAAA
1 ATAATAAAAATACTAAAA
* *
34063817 ATAATAACAATATTAAAA
1 ATAATAAAAATACTAAAA
34063835 ATAAT
1 ATAAT
34063840 TTATTAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAATAAAAATACTAAAA
Found at i:34066173 original size:24 final size:24
Alignment explanation
Indices: 34066146--34066193 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
34066136 GTTCAAGTTT
34066146 GAGCCCATAGACTTGAACAACTCC
1 GAGCCCATAGACTTGAACAACTCC
*
34066170 GAGCCTATAGACTTGAACAACTCC
1 GAGCCCATAGACTTGAACAACTCC
34066194 ATCTAGAACC
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:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (24 bp):
GAGCCCATAGACTTGAACAACTCC
Found at i:34070628 original size:24 final size:24
Alignment explanation
Indices: 34070596--34070655 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
34070586 TATGGTGCTT
* *
34070596 CCCGTTAATTGGTCTTCGGAGCTA
1 CCCGTTAATTGCTCTTCAGAGCTA
*
34070620 CCCGTTAATTGCTCTTTAGAGCTA
1 CCCGTTAATTGCTCTTCAGAGCTA
*
34070644 CCTGTTATATTG
1 CCCGTTA-ATTG
34070656 TCCGGATAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (24 bp):
CCCGTTAATTGCTCTTCAGAGCTA
Found at i:34074660 original size:15 final size:15
Alignment explanation
Indices: 34074640--34074681 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
34074630 TACATAAAAC
*
34074640 AAAAGAAAGAATAGA
1 AAAAGAAAGAAAAGA
34074655 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
34074670 AACAGAATAGAA
1 AAAAGAA-AGAA
34074682 GAGACGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:34074738 original size:4 final size:4
Alignment explanation
Indices: 34074731--34074758 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
34074721 GAGAAGGAAG
34074731 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
34074759 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:34076892 original size:17 final size:17
Alignment explanation
Indices: 34076847--34076893 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
34076837 GGCATGTACT
*
34076847 TAAGTAATGTACATACC
1 TAAGTAATGTATATACC
34076864 TAAGTAATGTATATACC
1 TAAGTAATGTATATACC
*
34076881 TAAGTGATGTATA
1 TAAGTAATGTATA
34076894 GGGATTAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (17 bp):
TAAGTAATGTATATACC
Found at i:34085264 original size:44 final size:44
Alignment explanation
Indices: 34085214--34085304 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
34085204 AATTATATTT
*
34085214 TTAATTTCCCATTTAAACTCTGATTAGTGTAAGTTATTTTAATA
1 TTAATTTCCCACTTAAACTCTGATTAGTGTAAGTTATTTTAATA
* *
34085258 TTAATTTCCCACTTAAACTTTGATTAGTGTATGTTATTTTAATA
1 TTAATTTCCCACTTAAACTCTGATTAGTGTAAGTTATTTTAATA
34085302 TTA
1 TTA
34085305 TTTGACCTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (44 bp):
TTAATTTCCCACTTAAACTCTGATTAGTGTAAGTTATTTTAATA
Found at i:34087737 original size:25 final size:25
Alignment explanation
Indices: 34087625--34087754 Score: 154
Period size: 25 Copynumber: 5.2 Consensus size: 25
34087615 AACAGCTATT
* * * *
34087625 ATGAGCTTTCCGATACTCAGCTCGT
1 ATGAGCTTCCCGTTATTCAGCTCGC
* * *
34087650 ATGAGCTTCTCGATACTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
34087675 ATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
*
34087700 ATGAGCTTCCCGTTATTCAGCTTGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
* * *
34087725 ATAAGCTTCCCGTT-TACAGCTCGT
1 ATGAGCTTCCCGTTATTCAGCTCGC
34087749 ATGAGC
1 ATGAGC
34087755 ATACATCTAT
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 12 0.13
25 81 0.87
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:34103759 original size:25 final size:26
Alignment explanation
Indices: 34103721--34103808 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 26
34103711 TTATCCCTAG
*
34103721 TAAAATTTTGACGATTTTACCCCCGA
1 TAAAATTTTGACGATTTTACCCCCAA
* * *
34103747 T-AAATTTTAACGATTTTACTCTCAA
1 TAAAATTTTGACGATTTTACCCCCAA
* * *
34103772 TAAAATTTTGACAATTTTACCCCTAG
1 TAAAATTTTGACGATTTTACCCCCAA
34103798 TAAAATTTTGA
1 TAAAATTTTGA
34103809 GAAAATATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.41
26 30 0.59
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (26 bp):
TAAAATTTTGACGATTTTACCCCCAA
Found at i:34112946 original size:18 final size:17
Alignment explanation
Indices: 34112906--34112947 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
34112896 ATCGTTTCAT
34112906 TTCTTTATCTTTCTTTC
1 TTCTTTATCTTTCTTTC
*
34112923 TCTCTTTATCTTTGTATTC
1 T-TCTTTATCTTTCT-TTC
34112942 TTCTTT
1 TTCTTT
34112948 TAGTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.69
Consensus pattern (17 bp):
TTCTTTATCTTTCTTTC
Found at i:34121209 original size:21 final size:21
Alignment explanation
Indices: 34121185--34121250 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
34121175 CCAATTTGTC
34121185 TTATTAATTATTAAAATCATG
1 TTATTAATTATTAAAATCATG
* * * *
34121206 TTATTTATTATTAATTATTA-A
1 TTATTAATTATTAA-AATCATG
34121227 TTATTAATTATTAAAATCATG
1 TTATTAATTATTAAAATCATG
34121248 TTA
1 TTA
34121251 ATTGATATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.09
21 29 0.83
22 3 0.09
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATTAATTATTAAAATCATG
Found at i:34121216 original size:7 final size:7
Alignment explanation
Indices: 34121206--34121240 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
34121196 TAAAATCATG
*
34121206 TTATTTA
1 TTATTAA
34121213 TTATTAA
1 TTATTAA
34121220 TTATTAA
1 TTATTAA
34121227 TTATTAA
1 TTATTAA
34121234 TTATTAA
1 TTATTAA
34121241 AATCATGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTATTAA
Found at i:34121905 original size:27 final size:27
Alignment explanation
Indices: 34121852--34121907 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
34121842 CAAATTTTTA
34121852 AAAAATAAAAATACTAGTAATTAAATT
1 AAAAATAAAAATACTAGTAATTAAATT
* *
34121879 AAAAATAAAATTTATTAGTAATT-AATT
1 AAAAATAAAA-ATACTAGTAATTAAATT
34121906 AA
1 AA
34121908 GTAGGATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAAATAAAAATACTAGTAATTAAATT
Found at i:34130707 original size:18 final size:17
Alignment explanation
Indices: 34130665--34130707 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
34130655 ATATATTTTT
*
34130665 TATTTTTTAATCAAATA
1 TATTTTTTAATAAAATA
* *
34130682 TACTTTTTATTAAATATA
1 TATTTTTTAATAAA-ATA
34130700 TATTTTTT
1 TATTTTTT
34130708 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTTAATAAAATA
Found at i:34134879 original size:25 final size:26
Alignment explanation
Indices: 34134831--34134879 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
34134821 ACCCCTTTTT
**
34134831 TTTAAAAACAAAAATTTGTTGTCGAC
1 TTTAAAAACAAAAATTTGGAGTCGAC
34134857 TTTAAAAACAAAAA-TTGGAGTCG
1 TTTAAAAACAAAAATTTGGAGTCG
34134880 CCACCAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (26 bp):
TTTAAAAACAAAAATTTGGAGTCGAC
Found at i:34136123 original size:22 final size:22
Alignment explanation
Indices: 34136090--34136150 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
34136080 GGCCCGGCCC
* *
34136090 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAA-TAAAATTAAAACTAA
34136113 TTTTTAATAAAATTAAAACTAA
1 TTTTTAATAAAATTAAAACTAA
* *
34136135 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
34136151 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAACTAA
Found at i:34136163 original size:16 final size:16
Alignment explanation
Indices: 34136126--34136165 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34136116 TTAATAAAAT
* *
34136126 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
34136142 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
34136158 TAAAATTA
1 TAAAATTA
34136166 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:34136788 original size:3 final size:3
Alignment explanation
Indices: 34136780--34136836 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
34136770 TATGTATTGA
** *
34136780 AAT AAT AAT AAT AAT AAT AGC AAT AAT AAT AAT AAT AAT AAT -AC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34136827 AAT AAT AAT A
1 AAT AAT AAT A
34136837 CAATATAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 1 0.02
3 46 0.98
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:34137661 original size:17 final size:17
Alignment explanation
Indices: 34137631--34137664 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34137621 TTTTTACAAC
*
34137631 CTTTTCTCCTTTTTTTT
1 CTTTTCTCCCTTTTTTT
*
34137648 CTTTTTTCCCTTTTTTT
1 CTTTTCTCCCTTTTTTT
34137665 GCTTGCTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTCTCCCTTTTTTT
Found at i:34142481 original size:7 final size:7
Alignment explanation
Indices: 34142469--34142495 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
34142459 AACGCCCTCT
34142469 ATGCTCC
1 ATGCTCC
34142476 ATGCTCC
1 ATGCTCC
34142483 ATGCTCC
1 ATGCTCC
34142490 ATGCTC
1 ATGCTC
34142496 TCTATCTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.41, G:0.15, T:0.30
Consensus pattern (7 bp):
ATGCTCC
Found at i:34145220 original size:17 final size:17
Alignment explanation
Indices: 34145198--34145237 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
34145188 GTTCTTTAAT
34145198 TGAGAACAAGCAACAAA
1 TGAGAACAAGCAACAAA
34145215 TGAGAACAAGCAACAAA
1 TGAGAACAAGCAACAAA
34145232 TGAGAA
1 TGAGAA
34145238 TCCTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.57, C:0.15, G:0.20, T:0.07
Consensus pattern (17 bp):
TGAGAACAAGCAACAAA
Found at i:34162753 original size:126 final size:125
Alignment explanation
Indices: 34162541--34162966 Score: 568
Period size: 126 Copynumber: 3.4 Consensus size: 125
34162531 ATGATTTATC
* * * * * * *
34162541 AGAAGGATTTTTGAAGTCGTGCCCACGTGTACGCGCTTTTGCTACAGTAGGTTCTGAAATAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
34162606 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAGCGCTGCAAGCAGGATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAA-CGCTGCAAGCAGGATGCTATTTG
* * * *
34162667 AGAAGAATTTGTGAAATCGCACCCACGTGAACGCGCATTTGTTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* * * *
34162732 TTTTGAGTTGACGTTTCTGAGCCAATAGTATAAAACAATGCTGCAAGTAGGATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTGCAAGCAGGATGCTATTTG
* *
34162793 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
** * * * * * *
34162858 TTTCGACCTGACGTTTCTAAGCAAATGGTAT-AAAATCGCTTCTAGCAGGATG-TTTTATG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCAGGATGCTATT-TG
* *
34162917 AGAATAATTTGTGAAATCGCGCCCACGTGGATGCGCTTTTGCTACAGTAG
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
34162967 CATGTTTGGG
Statistics
Matches: 263, Mismatches: 35, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
123 3 0.01
124 62 0.24
125 3 0.01
126 193 0.73
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (125 bp):
AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCAGGATGCTATTTG
Found at i:34166145 original size:21 final size:21
Alignment explanation
Indices: 34166119--34166924 Score: 805
Period size: 21 Copynumber: 38.0 Consensus size: 21
34166109 TCAAATTATA
* *
34166119 TTTAAGTTTAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
34166140 TTTAAGTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
34166161 TTTTATTTAAGAGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166182 TTAAAGTTAAGGGTTTAAGG--
1 TTTAAGTTAAGGG-TTAGGGTT
*
34166202 -TTAAGTTAAGGATTTAGGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
*
34166223 TTTAAGTTAAGGATTTAGGG-T
1 TTTAAGTTAAGG-GTTAGGGTT
* *
34166244 TTTAAGTTAAGGGTTTATGATT
1 TTTAAGTTAAGGG-TTAGGGTT
34166266 TTTAAGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGGTT
34166288 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * ***
34166309 TTTTATTTAAGGGTTACTATT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166330 TTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGG-TTAGGGTT
** *
34166352 TTTATTTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
34166373 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
34166395 TTTAAGTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
34166416 TTTAAGTTAAGGGTT----TT
1 TTTAAGTTAAGGGTTAGGGTT
*
34166433 TAGGTTAAGGGTTTAGGG-T----T-
1 T---TTAA--GTTAAGGGTTAGGGTT
34166453 -TTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
34166474 TTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
34166495 TTTAGGTTAAAGGTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
34166516 TTTAAGTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * ** **
34166537 TTTTATTTAAATGTTACAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166558 TTAAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGG-TTAGGGTT
** *
34166580 TTTATTTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166601 TTTAAGTTAAGGATTTAGGGGT
1 TTTAAGTTAAGG-GTTAGGGTT
*
34166623 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
34166645 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166666 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
34166688 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166709 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
34166731 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166752 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
34166774 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166795 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
34166817 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166838 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
34166860 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34166881 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
34166903 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
34166924 T
1 T
34166925 GTTTTTAGGT
Statistics
Matches: 649, Mismatches: 104, Indels: 64
0.79 0.13 0.08
Matches are distributed among these distances:
14 7 0.01
16 5 0.01
17 3 0.00
19 15 0.02
20 5 0.01
21 339 0.52
22 275 0.42
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:34166268 original size:43 final size:43
Alignment explanation
Indices: 34166119--34166924 Score: 846
Period size: 43 Copynumber: 19.0 Consensus size: 43
34166109 TCAAATTATA
* *
34166119 TTTAAGTTTAGGG-TTAAGGTTTTTAAGTTAA-GTGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGT-TTAGGGTT
* * * * * *
34166161 TTTTATTTAAGAG-TTACGGTTTTAAAGTTAAGGGTTTAAGG--
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAA-GGTTTAGGGTT
* *
34166202 -TTAAGTTAAGGATTTAGGGTTTTTAAGTTAAGGATTTAGGG-T
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGG-TTTAGGGTT
* *
34166244 TTTAAGTTAAGGGTTTATGATTTTTAAGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * * ***
34166288 TTTAAGTTAAGGG-TTAGGGTTTTTTATTTAAGGGTTACTATT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* * * ** * *
34166330 TTAAAGTTAAGGGTTTAGGGTATTTATTTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
*
34166373 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GTGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGT-TTAGGGTT
*
34166416 TTTAAGTTAA--G-----GGTTTTTAGGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAA-GGTTTAGGGTT
* * *
34166452 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* *
34166495 TTTAGGTTAAAGG-TTA-GTGTTTTTAAGTTAA-GTGTTAGGGTT
1 TTTAAGTTAAGGGTTTATG-GTTTTTAAGTTAAGGT-TTAGGGTT
* * ** ** * *
34166537 TTTTATTTAAATG-TTACAGTTTTAAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAA-GGTTTAGGGTT
** * *
34166580 TTTATTTTAAGGG-TTACGGTTTTTAAGTTAAGGATTTAGGGGT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGG-TTTAGGGTT
*
34166623 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* *
34166666 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* *
34166709 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* *
34166752 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* *
34166795 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* *
34166838 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
* *
34166881 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
34166924 T
1 T
34166925 GTTTTTAGGT
Statistics
Matches: 669, Mismatches: 68, Indels: 53
0.85 0.09 0.07
Matches are distributed among these distances:
36 24 0.04
37 6 0.01
38 3 0.00
40 10 0.01
41 25 0.04
42 100 0.15
43 462 0.69
44 39 0.06
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGTTTAGGGTT
Found at i:34166337 original size:86 final size:86
Alignment explanation
Indices: 34166119--34166950 Score: 957
Period size: 86 Copynumber: 9.8 Consensus size: 86
34166109 TCAAATTATA
* * * * * *
34166119 TTTAAGTTTAGGG-TTAAGGTTTTTAAGTTAAGTGTTAGGGTTTTTTA-TTTAAGAG-TTACGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGG-TTTTTAGGTTAAGGGTTTATGGT
* *
34166181 TTTAAAGTTAAGGGTTTAAGG--
65 TTTTAAGTTAAGGG-TTAGGGTT
* * * *
34166202 -TTAAGTTAAGGATTTAGGGTTTTTAAGTTAAGGATTTAGGG-TTTTAAGTTAAGGGTTTATGAT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG-GTTAGGGTTTTTAGGTTAAGGGTTTATGGT
34166265 TTTTAAGTTAAGGGTTAAGGGTT
65 TTTTAAGTTAAGGGTT-AGGGTT
* * *** * * * *
34166288 TTTAAGTTAAGGG-TTAGGGTTTTTTATTTAAGGGTTACTATTTTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
** *
34166352 TTTATTTTAAGGGTTACGGTT
66 TTTAAGTTAAGGGTTAGGGTT
* *
34166373 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAA--G-----GGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
*
34166431 TTTAGGTTAAGGGTTTAGGG-T
66 TTTAAGTTAAGGG-TTAGGGTT
* *
34166452 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAGGTTAAAGG-TTA-GTGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATG-GT
*
34166515 TTTTAAGTTAAGTGTTAGGGTT
65 TTTTAAGTTAAGGGTTAGGGTT
* * ** ** * * ** *
34166537 TTTTATTTAAATG-TTACAGTTTTAAAGTTAAGGGTTTAGGATTTTTATTTTAAGGG-TTACGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTATGGT
* *
34166600 TTTTAAGTTAAGGATTTAGGGGT
65 TTTTAAGTTAAGG-GTTAGGGTT
*
34166623 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
34166688 TTTAAGTTAAGGGTTAGGGTT
66 TTTAAGTTAAGGGTTAGGGTT
* *
34166709 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
34166774 TTTAAGTTAAGGGTTAGGGTT
66 TTTAAGTTAAGGGTTAGGGTT
* *
34166795 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
34166860 TTTAAGTTAAGGGTTAGGGTT
66 TTTAAGTTAAGGGTTAGGGTT
* * *
34166881 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTGTTTTTAGGTTAAGGGTTTAA
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA-GG---GTTTTTAGGTTAAGGGTTTAT
34166946 GGTTT
62 GGTTT
34166951 GTCAATTAAA
Statistics
Matches: 651, Mismatches: 71, Indels: 47
0.85 0.09 0.06
Matches are distributed among these distances:
79 65 0.10
80 5 0.01
81 1 0.00
82 15 0.02
83 26 0.04
84 53 0.08
85 78 0.12
86 333 0.51
87 50 0.08
90 25 0.04
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (86 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
TTTAAGTTAAGGGTTAGGGTT
Found at i:34166422 original size:16 final size:16
Alignment explanation
Indices: 34166401--34166446 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
34166391 GGTTTTTAAG
34166401 TTAAGTGTTAGGGTTT
1 TTAAGTGTTAGGGTTT
*
34166417 TTAAGT-TAAGGGTTT
1 TTAAGTGTTAGGGTTT
34166432 TT-AG-GTTAAGGGTTT
1 TTAAGTGTT-AGGGTTT
34166447 AGGGTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.12
15 17 0.65
16 6 0.23
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (16 bp):
TTAAGTGTTAGGGTTT
Done.