Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 100 of 202
Found at i:30520356 original size:73 final size:73
Alignment explanation
Indices: 30520200--30520356 Score: 212
Period size: 71 Copynumber: 2.2 Consensus size: 73
30520190 ATATTAATAT
* *
30520200 TATATATTAAT-AATTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTTTTTT
1 TATATATTAATAAATTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTTTATC
* *
30520264 ACATCATA
66 AAATCAAA
*
30520272 TATATATTAATAAATTTTTATA-TTTTAATT-TTTTTACATATATTGTAATGATTTTATTTATAA
1 TATATATTAATAAATTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTT-T-A
*
30520335 TCAAATTAAA
64 TCAAATCAAA
*
30520345 TATATAATAATA
1 TATATATTAATA
30520357 CTCAATTATT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
71 28 0.37
72 20 0.27
73 27 0.36
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (73 bp):
TATATATTAATAAATTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTTTATC
AAATCAAA
Found at i:30521601 original size:35 final size:36
Alignment explanation
Indices: 30521555--30521623 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
30521545 TGTCAGTCGT
30521555 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
30521590 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
30521624 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:30523437 original size:33 final size:33
Alignment explanation
Indices: 30523400--30523466 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
30523390 TGTAATCGTT
*
30523400 AGGGTAAAGAGAGTGAAGAGAGGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAACAGAGGAGCTGTGGAA
* *
30523433 AGGGTGAAGAGAGTGAACAGATGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAACAGAGGAGCTGTGGAA
30523466 A
1 A
30523467 ATGTCTTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.13
Consensus pattern (33 bp):
AGGGTAAAGAGAGTGAACAGAGGAGCTGTGGAA
Found at i:30526458 original size:17 final size:17
Alignment explanation
Indices: 30526431--30526476 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
30526421 TGATAAATCT
30526431 CCGAT-GAGCTTCTAAC
1 CCGATCGAGCTTCTAAC
30526447 CCGATCGAGCTTCTAAC
1 CCGATCGAGCTTCTAAC
30526464 CCGATCGAGCTTC
1 CCGATCGAGCTTC
30526477 CGATAGTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (17 bp):
CCGATCGAGCTTCTAAC
Found at i:30530199 original size:12 final size:12
Alignment explanation
Indices: 30530161--30530205 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
30530151 AAATTTCATA
*
30530161 AAAACATAGTTT
1 AAAACATACTTT
*
30530173 ATAAACAATATTTT
1 A-AAAC-ATACTTT
30530187 AAAACATACTTT
1 AAAACATACTTT
30530199 AAAACAT
1 AAAACAT
30530206 TAACTCTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 14 0.48
13 8 0.28
14 7 0.24
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAACATACTTT
Found at i:30530245 original size:13 final size:13
Alignment explanation
Indices: 30530227--30530263 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30530217 AGAGAACGCG
30530227 TAAAACATATCTT
1 TAAAACATATCTT
*
30530240 TAAAACATAACTT
1 TAAAACATATCTT
30530253 TAAAAACATAT
1 T-AAAACATAT
30530264 ACTGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:30531386 original size:27 final size:26
Alignment explanation
Indices: 30531354--30531454 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 26
30531344 AACATGTTAG
* *
30531354 GAAAGAAAATCCTTTATGGCGTAAAAT
1 GAAAGAAAA-CCTTTGTGGCGTAATAT
30531381 GAAAGAAAAACCTTTGTGGCGTAATAT
1 GAAAG-AAAACCTTTGTGGCGTAATAT
* *
30531408 GAAAGGAACACCTCTGTGGCGTAATAT
1 GAAA-GAAAACCTTTGTGGCGTAATAT
*
30531435 GAAAGAATAGCCTTTGTGGC
1 GAAAGAA-AACCTTTGTGGC
30531455 AAACTCTGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 3 0.05
27 56 0.88
28 5 0.08
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (26 bp):
GAAAGAAAACCTTTGTGGCGTAATAT
Found at i:30534654 original size:50 final size:50
Alignment explanation
Indices: 30534458--30534654 Score: 286
Period size: 50 Copynumber: 3.9 Consensus size: 50
30534448 AGTTCTCATA
* * * * *
30534458 TCGGTGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATC
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
* *
30534508 TCGGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTTATC
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
* *
30534558 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATA
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
* * *
30534608 TCAGTGCCAACGCTATGTCCCAGACAAGGTCTTACAGGGGACCTCTT
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTT
30534655 TACCCAAATG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
Found at i:30538383 original size:56 final size:51
Alignment explanation
Indices: 30538222--30538419 Score: 229
Period size: 50 Copynumber: 3.8 Consensus size: 51
30538212 TTTCTTGTAC
* * ** *
30538222 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATA-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCAG
* * **
30538272 TGCCCATGCCATGTCCCAGACATGGCCTTACGGGGGACCTCTCAT-CTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCAG
*
30538322 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACTTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-AC-TC-A-G
* *
30538377 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30538420 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
50 80 0.65
52 1 0.01
53 2 0.02
54 1 0.01
55 1 0.01
56 39 0.31
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCAG
Found at i:30538896 original size:24 final size:24
Alignment explanation
Indices: 30538868--30538917 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
30538858 ACATGCTGAA
30538868 CATTTTTCCCTTATATGACAACAT
1 CATTTTTCCCTTATATGACAACAT
*
30538892 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTATATGACAACAT
30538916 CA
1 CA
30538918 AATTCTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (24 bp):
CATTTTTCCCTTATATGACAACAT
Found at i:30541837 original size:29 final size:29
Alignment explanation
Indices: 30541795--30541865 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
30541785 AAAGAGGGGA
** * *
30541795 AAGTATCCATCAAGCGAAGTTCGCAAATC
1 AAGTATCCGCCAAGCGAAATCCGCAAATC
* *
30541824 AAGTATCCGCCAAGTGAAATCCGCAAGTC
1 AAGTATCCGCCAAGCGAAATCCGCAAATC
*
30541853 ACGTATCCGCCAA
1 AAGTATCCGCCAA
30541866 ATGCGCCTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.18
Consensus pattern (29 bp):
AAGTATCCGCCAAGCGAAATCCGCAAATC
Found at i:30546206 original size:91 final size:91
Alignment explanation
Indices: 30546048--30546229 Score: 319
Period size: 91 Copynumber: 2.0 Consensus size: 91
30546038 TCTTTTCATT
* * *
30546048 AATTTCCATATCAAATATTAACTTTTCCTTCATAAGAATCATTTATCTAACTTATTTTTCAATTT
1 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
30546113 TCTAGTCAATTCACTATATCCGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
*
30546139 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTTAAATT
1 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
*
30546204 TCTAGTCAATTCACTATATCTGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
30546230 TTGAATAATG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (91 bp):
AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
TCTAGTCAATTCACTATATCCGCTTC
Found at i:30559025 original size:15 final size:15
Alignment explanation
Indices: 30559005--30559034 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30558995 AAATAGGCAA
30559005 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
30559020 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
30559035 AACGAATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:30569785 original size:50 final size:50
Alignment explanation
Indices: 30569657--30569903 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 50
30569647 GATAATAACA
* * * ** * * *
30569657 TGCCAAAGCTATGTCCCATACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
30569706 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
30569756 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** * *
30569806 TGCCAACACCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
30569862 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30569904 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 79 0.50
53 2 0.01
56 39 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:30574605 original size:17 final size:17
Alignment explanation
Indices: 30574583--30574620 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
30574573 ACATGAAAGA
30574583 AATTATGAATCTTTTCC
1 AATTATGAATCTTTTCC
30574600 AATTATGAATCTTTTCC
1 AATTATGAATCTTTTCC
30574617 AATT
1 AATT
30574621 CTGACAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (17 bp):
AATTATGAATCTTTTCC
Found at i:30590546 original size:10 final size:12
Alignment explanation
Indices: 30590519--30590559 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
30590509 CTCACATGCT
30590519 TGTGTGCTAGGC
1 TGTGTGCTAGGC
*
30590531 TGTGTGCTAGGT
1 TGTGTGCTAGGC
*
30590543 TGTGTACTAGGC
1 TGTGTGCTAGGC
*
30590555 CGTGT
1 TGTGT
30590560 AATAGCCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.10, C:0.15, G:0.39, T:0.37
Consensus pattern (12 bp):
TGTGTGCTAGGC
Found at i:30591781 original size:25 final size:25
Alignment explanation
Indices: 30591729--30591824 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
30591719 TCATATACAT
* * *
30591729 GTATGCTCATACGAGCTAT-GAATTA
1 GTATGCTCACACGAGCTGTAG-ATCA
*
30591754 GTATGCTCACTCGAGCTGTAGATCA
1 GTATGCTCACACGAGCTGTAGATCA
* * * * *
30591779 GTATGCTCTCACGTGCTATAAATCG
1 GTATGCTCACACGAGCTGTAGATCA
*
30591804 GTATGCTCACACAAGCTGTAG
1 GTATGCTCACACGAGCTGTAG
30591825 GTCAAAGTGT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 54 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAGATCA
Found at i:30593804 original size:21 final size:21
Alignment explanation
Indices: 30593764--30593815 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
30593754 ATTAACCTGA
*
30593764 GATTT-TTTTCGTTCTTTTTC
1 GATTTCTTTTTGTTCTTTTTC
30593784 GATTTCTTTTTGTT-TTCTTTC
1 GATTTCTTTTTGTTCTT-TTTC
*
30593805 AATTTCTTTTT
1 GATTTCTTTTT
30593816 CAATCTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.08, C:0.13, G:0.08, T:0.71
Consensus pattern (21 bp):
GATTTCTTTTTGTTCTTTTTC
Found at i:30594894 original size:21 final size:22
Alignment explanation
Indices: 30594870--30594928 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
30594860 TTGTCACTCT
30594870 TTTTTTTCCTTTTTTTT-CGTA
1 TTTTTTTCCTTTTTTTTCCGTA
*
30594891 TTTTTTT-ATTTTTTTTCCGTA
1 TTTTTTTCCTTTTTTTTCCGTA
* *
30594912 ATTTCTTCTCTTTTTTT
1 TTTTTTTC-CTTTTTTT
30594929 AAATCCAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 8 0.26
21 16 0.52
23 7 0.23
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (22 bp):
TTTTTTTCCTTTTTTTTCCGTA
Found at i:30598498 original size:15 final size:15
Alignment explanation
Indices: 30598478--30598546 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 15
30598468 TCTCTTTCAA
*
30598478 TTTCTTTTTTCACTT
1 TTTCTTTTTTCAATT
30598493 TTTC-TTTTTCAATT
1 TTTCTTTTTTCAATT
*
30598507 TTTTTTTCATTCTCAA-T
1 TTTCTTT--TT-TCAATT
30598524 TTTCTTTTCTTC-A-T
1 TTTCTTTT-TTCAATT
30598538 TTTCTTTTT
1 TTTCTTTTT
30598547 CTCTCACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 1 0.02
14 22 0.48
15 9 0.20
16 1 0.02
17 9 0.20
18 4 0.09
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTTTTTCAATT
Found at i:30598502 original size:14 final size:14
Alignment explanation
Indices: 30598472--30598513 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
30598462 TCAAGCTCTC
*
30598472 TTTCAATTTCT-TT
1 TTTCAATTTTTCTT
*
30598485 TTTCACTTTTTCTT
1 TTTCAATTTTTCTT
30598499 TTTCAATTTTT-TT
1 TTTCAATTTTTCTT
30598512 TT
1 TT
30598514 CATTCTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCAATTTTTCTT
Found at i:30598514 original size:18 final size:18
Alignment explanation
Indices: 30598491--30598610 Score: 64
Period size: 18 Copynumber: 6.3 Consensus size: 18
30598481 CTTTTTTCAC
30598491 TTTTTCTTTTTCAATTTT
1 TTTTTCTTTTTCAATTTT
* *
30598509 TTTTTCATTCTCAATTTTCT
1 TTTTTCTTTTTCAA-TTT-T
*
30598529 TTTCTTCATTTTC--TTTT
1 TTT-TTCTTTTTCAATTTT
** * *
30598546 TCTCTCACTTTTTCGATTTC
1 T-T-TTTCTTTTTCAATTTT
*
30598566 TTTTTCTTTTTCGATTTCT
1 TTTTTCTTTTTCAATTT-T
* *
30598585 TTTTGTTTTCTTTCAATTTC
1 TTTT-TCTT-TTTCAATTTT
30598605 TTTTTC
1 TTTTTC
30598611 AATCTCTTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
17 2 0.03
18 35 0.45
19 10 0.13
20 15 0.19
21 16 0.21
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTTCTTTTTCAATTTT
Found at i:30598552 original size:31 final size:30
Alignment explanation
Indices: 30598472--30598557 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 30
30598462 TCAAGCTCTC
30598472 TTTCAATTTCTTTTTTCA-CT---TTTTCTT
1 TTTCAATTT-TTTTTTCATCTCAATTTTCTT
30598499 TTTCAATTTTTTTTTCATTCTCAATTTTCTTT
1 TTTCAATTTTTTTTTCA-TCTCAATTTTC-TT
*
30598531 TCTTC-ATTTTCTTTTTC-TCTCACTTTT
1 T-TTCAATTTT-TTTTTCATCTCAATTTT
30598558 TCGATTTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
26 8 0.16
27 9 0.18
28 2 0.04
31 14 0.28
32 8 0.16
33 9 0.18
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTCAATTTTTTTTTCATCTCAATTTTCTT
Found at i:30598629 original size:63 final size:61
Alignment explanation
Indices: 30598470--30598629 Score: 134
Period size: 63 Copynumber: 2.6 Consensus size: 61
30598460 TTTCAAGCTC
* *
30598470 TCTTTCAATTTCTTTTTTCA-CT-TTTTCTTTTTCAATTTTTTTTTCATTCTCAATTTTCTTT
1 TCTTTCAATTTC-TTTTTCATCTCTTTTCCTTTTC-TTTTTTTTTTCATTCTCAATTTTCTTT
* ** * *
30598531 TC-TTCATTTTCTTTTTC-TCTCACTTTTTCGATTTCTTTTTCTTTTTCGATT-TC-TTTTTGTT
1 TCTTTCAATTTCTTTTTCATCT--C-TTTTCCTTTTCTTTTT-TTTTTC-ATTCTCAATTTTCTT
30598592 T
61 T
30598593 TCTTTCAATTTCTTTTTCAATCTCTTTCTCCTTTTCT
1 TCTTTCAATTTCTTTTTC-ATCTCTTT-TCCTTTTCT
30598630 CGCTCAATGG
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
59 8 0.10
60 8 0.10
61 2 0.03
62 16 0.20
63 39 0.49
64 3 0.04
65 3 0.04
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.68
Consensus pattern (61 bp):
TCTTTCAATTTCTTTTTCATCTCTTTTCCTTTTCTTTTTTTTTTCATTCTCAATTTTCTTT
Found at i:30603091 original size:41 final size:41
Alignment explanation
Indices: 30603008--30603109 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
30602998 TGATTCAGTA
30603008 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
30603049 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
30603090 CATCGACAATAAGCCTGCTA
1 CACCGGCATTAAGCCTGCTA
30603110 AGCGCTAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 2 0.04
41 52 0.96
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:30603517 original size:2 final size:2
Alignment explanation
Indices: 30603510--30603567 Score: 50
Period size: 2 Copynumber: 30.0 Consensus size: 2
30603500 CAAATTCAAG
* * * *
30603510 TA TA TA TA TA CA TA TA GA TA CA TA TA TA -A T- TA TT TGA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
30603550 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
30603568 CCTTTATACC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:30606506 original size:45 final size:45
Alignment explanation
Indices: 30606437--30606527 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
30606427 AGATACTCCA
* *
30606437 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
*
30606482 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
30606527 T
1 T
30606528 TCACATACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:30606594 original size:51 final size:51
Alignment explanation
Indices: 30606536--30606717 Score: 217
Period size: 51 Copynumber: 3.6 Consensus size: 51
30606526 GTTCACATAC
* **
30606536 TAGCCTGCACATAGTACTACACATGTGA-CTATTACCATCCAATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCTA-TACCATCCGGTACACGTAG
* * * * * *
30606587 TAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAG
1 TAGCCTGCACATAGTACTACACACGTGACCTATACCATCCGGTACACGTAG
* * *
30606638 TAGCCTACACATAGTACTACACATGCGACCTAT--CATTCCGGTACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCTATACCA-TCCGGTACACGTAG
30606688 TAGCCTGCACATAGTACTACACACGTGACC
1 TAGCCTGCACATAGTACTACACACGTGACC
30606718 ATCACTTTCA
Statistics
Matches: 109, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 39 0.36
51 67 0.61
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (51 bp):
TAGCCTGCACATAGTACTACACACGTGACCTATACCATCCGGTACACGTAG
Found at i:30606702 original size:101 final size:101
Alignment explanation
Indices: 30606531--30606715 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
30606521 GTTCGGTTCA
* *
30606531 CATACTAGCCTGCACATAGTACTACACATGTGACTATTACCATCCAATACACGTAGTAGCCTGCA
1 CATACTAGCCTACACATAGTACTACACATGCGACTATTA-CATCCAATACACGTAGTAGCCTGCA
30606596 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* **
30606633 CATAGTAGCCTACACATAGTACTACACATGCGACCTA-T-CATTCCGGTACACGTAGTAGCCTGC
1 CATACTAGCCTACACATAGTACTACACATGCGA-CTATTACA-TCCAATACACGTAGTAGCCTGC
30606696 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
30606716 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 40 0.53
102 31 0.41
103 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (101 bp):
CATACTAGCCTACACATAGTACTACACATGCGACTATTACATCCAATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:30610788 original size:6 final size:6
Alignment explanation
Indices: 30610779--30610805 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30610769 CACCTGCAGA
30610779 CACTAC CACTAC CACTAC CACTAC CAC
1 CACTAC CACTAC CACTAC CACTAC CAC
30610806 CACACTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (6 bp):
CACTAC
Found at i:30616336 original size:27 final size:27
Alignment explanation
Indices: 30616298--30616600 Score: 315
Period size: 27 Copynumber: 11.3 Consensus size: 27
30616288 ATTCATGGGC
* * *
30616298 AAATAACCGAAATACCCCCAAAGGATA
1 AAATGACCGAAATACCCTCAAAGGGTA
*
30616325 AAATGACCGAAATGCCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* ** *
30616352 AAAT-ATTCGAAATACCCTTGAAGGCTA
1 AAATGA-CCGAAATACCCTCAAAGGGTA
* *
30616379 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
30616406 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
*
30616433 AAATGACCAAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-AAAGGGTA
** **
30616460 AAATGACTAAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
** * *
30616487 AAATGACTAAAATACCCTTAAAAGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
30616514 AAATGACTGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* * *
30616541 AAATGACCAAAATACCCTCGAGGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
30616568 AAATGACCAAAATACCC-CATAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
30616594 AAATGAC
1 AAATGAC
30616601 TGTTATACCC
Statistics
Matches: 239, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
26 15 0.06
27 223 0.93
28 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCAAAGGGTA
Found at i:30616446 original size:81 final size:81
Alignment explanation
Indices: 30616307--30616600 Score: 358
Period size: 81 Copynumber: 3.6 Consensus size: 81
30616297 CAAATAACCG
* * * * * * *
30616307 AAATACCCCCAAAGGATAAAATGACCGAAATGCCCTCAAAGGGTAAAAT-ATTCGAAATACCCTT
1 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGA-CCGAAATACCCCT
* * *
30616371 GAAGGCTAAAATGACTG
65 AAAGGGTAAAATGACTA
** * *
30616388 AAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCTA
1 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGACCGAAATACCCCTA
30616453 AAGGGTAAAATGACTA
66 AAGGGTAAAATGACTA
* * * * * *
30616469 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCTTAAAAGGTAAAATGACTGAAATACCCCCA
1 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGACCGAAATACCCCTA
*
30616534 AAGGGTAAAATGACCA
66 AAGGGTAAAATGACTA
* *
30616550 AAATACCCTCGAGGGGTAAAATGACCAAAATACCC-CATAGGGTAAAATGAC
1 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGAC
30616601 TGTTATACCC
Statistics
Matches: 185, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 13 0.07
81 171 0.92
82 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (81 bp):
AAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGACCGAAATACCCCTA
AAGGGTAAAATGACTA
Found at i:30616784 original size:27 final size:26
Alignment explanation
Indices: 30616762--30616846 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
30616752 TGTACTGGTG
30616762 GCTTTGCCACATATACTGTTACTGGCA
1 GCTTTGCCACAT-TACTGTTACTGGCA
** *
30616789 GCTTTGCTGCGTTACTGTTACTGGGCA
1 GCTTTGCCACATTACTGTTACT-GGCA
* * * *
30616816 GCTTTGCTACGTCACTATTACTGGCA
1 GCTTTGCCACATTACTGTTACTGGCA
30616842 GCTTT
1 GCTTT
30616847 ACTACGATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 19 0.37
27 32 0.63
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
GCTTTGCCACATTACTGTTACTGGCA
Found at i:30616811 original size:26 final size:26
Alignment explanation
Indices: 30616775--30616852 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
30616765 TTGCCACATA
*
30616775 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTACGT
30616801 TACTGTTACTGGGCAGCTTTGCTACGT
1 TACTGTTACT-GGCAGCTTTGCTACGT
* * *
30616828 CACTATTACTGGCAGCTTTACTACG
1 TACTGTTACTGGCAGCTTTGCTACG
30616853 ATATTGGTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 24 0.51
27 23 0.49
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACGT
Found at i:30617000 original size:28 final size:30
Alignment explanation
Indices: 30616963--30617038 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
30616953 ATTGCACTAA
*
30616963 TTACTGTATTGGGCTAAGGCTC-C-CACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
*
30616991 TTACTATATTGGGCTAAGGCCCACACACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
*
30617021 TTACTGTAATGGGCTAAG
1 TTACTGTATTGGGCTAAG
30617039 TTCCACACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 20 0.48
29 1 0.02
30 21 0.50
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (30 bp):
TTACTGTATTGGGCTAAGGCCCACACACTG
Found at i:30626794 original size:16 final size:15
Alignment explanation
Indices: 30626770--30626800 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30626760 TAATATGAAT
30626770 GATATGTGATATATG
1 GATATGTGATATATG
30626785 GATATGGTGATATATG
1 GATAT-GTGATATATG
30626801 TATACCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GATATGTGATATATG
Found at i:30629330 original size:45 final size:44
Alignment explanation
Indices: 30629266--30629430 Score: 188
Period size: 45 Copynumber: 3.7 Consensus size: 44
30629256 GATCGGAGAG
*
30629266 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATT-TCGTCTTGA
* * *
30629311 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATT--TATTTCGTCTTGA
* * *
30629357 TCCCATAGTGTCTTTCAACTATGGTCTTATTTATTT-GATTTGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTCG-TCT-TGA
* * *
30629402 TGCCATAGCGTCTTTCAGCTATGGTCTTA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA
30629431 CTCGATAGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 58 0.56
46 36 0.35
47 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.45
Consensus pattern (44 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTCGTCTTGA
Found at i:30629369 original size:46 final size:46
Alignment explanation
Indices: 30629268--30629392 Score: 180
Period size: 46 Copynumber: 2.7 Consensus size: 46
30629258 TCGGAGAGTG
* * *
30629268 CCATGGTGTCTTTCAACCATGGTCTTATTTA-TTCTCGTCTTGATG
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCTCGTCGTGATC
* * *
30629313 CCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCGTGTTC
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCTCGTCGTGATC
*
30629359 CCATAGTGTCTTTCAACTATGGTCTTATTTATTT
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTT
30629393 GATTTGTGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 29 0.41
46 42 0.59
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (46 bp):
CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCTCGTCGTGATC
Found at i:30629447 original size:45 final size:45
Alignment explanation
Indices: 30629398--30629569 Score: 211
Period size: 45 Copynumber: 3.8 Consensus size: 45
30629388 TATTTGATTT
* *
30629398 GTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGATAGAATC
1 GTGATGACATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * * ** *
30629443 GTGATGCCATAACATCTTTCACCTATGGTC-TACTTAAATAGTATC
1 GTGATGACATAACGTCTTTCAGCTATGGTCTTAC-TCGATAGAATC
* *
30629488 GTGATGACATAACGTCTTTTAGCTATGGTCTTACTCGATAGAATT
1 GTGATGACATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * *
30629533 TTTATGACATAACGTCTTTCAGCTATAGTCTTACTCG
1 GTGATGACATAACGTCTTTCAGCTATGGTCTTACTCG
30629570 TTTCTAGTAT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 3 0.03
45 101 0.94
46 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (45 bp):
GTGATGACATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
Found at i:30629492 original size:90 final size:91
Alignment explanation
Indices: 30629397--30629610 Score: 247
Period size: 90 Copynumber: 2.4 Consensus size: 91
30629387 TTATTTGATT
*
30629397 TGTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGCCATAACATCTTT
1 TGTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGACATAACATCTTT
*
30629462 CACCTATGGTC-TACT-TAAATAGTA
66 CACCTATAGTCTTACTCTAAATAGTA
* * * ** * *
30629486 TCGTGATGACATAACGTCTTTTAGCTATGGTCTTACTCGATAGAATTTTTATGACATAACGTCTT
1 T-GTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGACATAACATCTT
* ***
30629551 TCAGCTATAGTCTTACTCGTTTCTAGTA
65 TCACCTATAGTCTTACTC-TAAATAGTA
* *
30629579 TG-G-TGCCATAGTGTCTTTCAACTATGGTCTTA
1 TGTGATGCCATAGCGTCTTTCAGCTATGGTCTTA
30629611 TTTATTTCCT
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
89 1 0.01
90 89 0.86
91 5 0.05
92 1 0.01
93 7 0.07
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (91 bp):
TGTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGACATAACATCTTT
CACCTATAGTCTTACTCTAAATAGTA
Found at i:30640921 original size:27 final size:27
Alignment explanation
Indices: 30640881--30641072 Score: 190
Period size: 27 Copynumber: 7.1 Consensus size: 27
30640871 TAACAGTCAG
**
30640881 TTTACCCTAT-AGGGGTATTTCAATAAT
1 TTTACCC-ATCAGGGGTATTTCGGTAAT
**
30640908 TTTACCCATCAGGGGTATTTTAGTAAT
1 TTTACCCATCAGGGGTATTTCGGTAAT
* * *
30640935 TTTACCCTTCAAGGGTATTTTGGTAAT
1 TTTACCCATCAGGGGTATTTCGGTAAT
* *
30640962 TTTAGCCATC-GAGGGTATTTCGATAAT
1 TTTACCCATCAG-GGGTATTTCGGTAAT
* * * * *
30640989 TTTATCCTTCGGGGGAATTTTGGTAAT
1 TTTACCCATCAGGGGTATTTCGGTAAT
*
30641016 TTTACCCATCGGGGGTATTTCGGTAAT
1 TTTACCCATCAGGGGTATTTCGGTAAT
* **
30641043 TTTACCCTTCAGGGGTATTTCAATAAT
1 TTTACCCATCAGGGGTATTTCGGTAAT
30641070 TTT
1 TTT
30641073 TACGACCTTT
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 136 0.98
28 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (27 bp):
TTTACCCATCAGGGGTATTTCGGTAAT
Found at i:30641032 original size:81 final size:81
Alignment explanation
Indices: 30640881--30641072 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
30640871 TAACAGTCAG
* *
30640881 TTTACCCTAT-AGGGGTATTTCAATAATTTTACCCATCAGGGGTATTTTAGTAATTTTACCCTTC
1 TTTACCC-ATCAGGGGTATTTCAATAATTTTACCCATCAGGGGAATTTTAGTAATTTTACCCATC
*
30640945 AAGGGTATTTTGGTAAT
65 AAGGGTATTTCGGTAAT
* * * * * *
30640962 TTTAGCCATC-GAGGGTATTTCGATAATTTTATCCTTCGGGGGAATTTTGGTAATTTTACCCATC
1 TTTACCCATCAG-GGGTATTTCAATAATTTTACCCATCAGGGGAATTTTAGTAATTTTACCCATC
**
30641026 GGGGGTATTTCGGTAAT
65 AAGGGTATTTCGGTAAT
*
30641043 TTTACCCTTCAGGGGTATTTCAATAATTTT
1 TTTACCCATCAGGGGTATTTCAATAATTTT
30641073 TACGACCTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
80 3 0.03
81 90 0.96
82 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (81 bp):
TTTACCCATCAGGGGTATTTCAATAATTTTACCCATCAGGGGAATTTTAGTAATTTTACCCATCA
AGGGTATTTCGGTAAT
Found at i:30641070 original size:54 final size:54
Alignment explanation
Indices: 30640881--30641072 Score: 224
Period size: 54 Copynumber: 3.6 Consensus size: 54
30640871 TAACAGTCAG
* **
30640881 TTTACCCTAT-AGGGGTATTTCAATAATTTTACCCATCAGGGGTATTTTAGTAAT
1 TTTACCCT-TCAGGGGTATTTCAATAATTTTACCCATCGGGGGTATTTCGGTAAT
* *** * * *
30640935 TTTACCCTTCAAGGGTATTTTGGTAATTTTAGCCATCGAGGGTATTTCGATAAT
1 TTTACCCTTCAGGGGTATTTCAATAATTTTACCCATCGGGGGTATTTCGGTAAT
* * * ***
30640989 TTTATCCTTCGGGGGAATTTTGGTAATTTTACCCATCGGGGGTATTTCGGTAAT
1 TTTACCCTTCAGGGGTATTTCAATAATTTTACCCATCGGGGGTATTTCGGTAAT
30641043 TTTACCCTTCAGGGGTATTTCAATAATTTT
1 TTTACCCTTCAGGGGTATTTCAATAATTTT
30641073 TACGACCTTT
Statistics
Matches: 114, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
53 1 0.01
54 113 0.99
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (54 bp):
TTTACCCTTCAGGGGTATTTCAATAATTTTACCCATCGGGGGTATTTCGGTAAT
Found at i:30642033 original size:15 final size:14
Alignment explanation
Indices: 30642013--30642042 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
30642003 TTTCGGCAAA
30642013 AGAGGAGAGGAGAAG
1 AGAGGAGAGGA-AAG
30642028 AGAGGAGAGGAAAG
1 AGAGGAGAGGAAAG
30642042 A
1 A
30642043 AGTATTCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (14 bp):
AGAGGAGAGGAAAG
Found at i:30642519 original size:25 final size:25
Alignment explanation
Indices: 30642482--30642535 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
30642472 TGAACCTCTG
30642482 ACCTCCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
* **
30642507 ACCTCCTTGCCACACCTGTTTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
30642532 ACCT
1 ACCT
30642536 TGCCACTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.48, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:30646808 original size:658 final size:665
Alignment explanation
Indices: 30645352--30648028 Score: 4208
Period size: 681 Copynumber: 4.0 Consensus size: 665
30645342 CAACTTTCTA
* ** *
30645352 AAATTATGGTCGGTCACCCATGGGAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAACTA
1 AAATTATGGCCGACCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAACTA
*
30645417 TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCGTCAATCAAGCATCATTCTC
66 TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCATCAATCAAGCATCATTCTC
*
30645482 TCTTTTTGTCTTAGCCTTTTCCATTCCCACGCCTAGCATCATCTCTTCATAAAGATTTTAACAAT
131 TCTTTTTCTCTTAGCCTTTTCCATTCCCACGCC-AG-------T-TT-AT--A-A--TT-ACAAT
30645547 TAAGCCTCTTAAAGAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAG
180 TAAGCCTCTTAAAGAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAG
* *
30645612 CAACGAAGGAGTCTCGTCAGTTAGAGTCTTGGGGGCCACTTTGAATTGGGTTTAATCTTTCTTTT
245 CAACGAAGGAGTCTCGTCAGTTAGAGTCTTGGGAGCCACTCTGAATTGGGTTTAATCTTTCTTTT
* *
30645677 CTCTAAATTAATATAAAGATATTTGCTATGTGTTCTTTGTTCTTGTTGACAACAATGTTAGCTTA
310 CTTTAAATTAATATAAAGATATTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGTTAGCTTA
* *
30645742 ATTTTATTTAAGCTAGGATGATTGCTTTGATTTAATAATATTTATTTGATTCATTCTTATAATGT
375 ATTTTATTTAAGCTAGGATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGT
* * *
30645807 TTGTGCTTCAATCGATCATGTTTTCAATTAAAATCAAGTCTATATTTCATTCATATGTGATTGAA
440 TTGTGCCTCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCATTCATACGTGATTGAA
* * *
30645872 ATACACCTGAATTAGCTGAGCGATCCTAACCAGATGACGGCTAATGGATGCATTATTGAAATGTG
505 ATACACCTGAATTAGCTGAGCGATCCTAACCAGACGACGGCTAATGGACGCATAATTGAAATGTG
*
30645937 CATGCTTAATTTAGATCCTAACACGATTAAATTGTAGGTTGCATGACAACTCTAACCAAGCTTTG
570 CATGCTTAATTTAGATCCTAACACGATTAAATTGTAGGTTGCATAACAACTCTAACCAAGCTTTG
**
30646002 TTATCTGCATAGTTTTCGGATTTGTGTGATT
635 TTATCTGCATAGTTTTTAGATTTGTGTGATT
*
30646033 AAATTATGGCCGACCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAATTA
1 AAATTATGGCCGACCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAACTA
* **
30646098 TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCTTCAAGTGTCAATCAAGCATCATTCTC
66 TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCATCAATCAAGCATCATTCTC
* *
30646163 TCTTTTTCTCTTAGCCTTTTCTATTCCCACG-C-G-TT-T-A-T-CAATTAAGCCTCTTAAAGCA
131 TCTTTTTCTCTTAGCCTTTTCCATTCCCACGCCAGTTTATAATTACAATTAAGCCTCTTAAAGAA
*
30646221 CCCTTGGTCGGCCACCTTGGATAACCATCAGCAAAGGAGCAAAGCAAAGCAACGAAGGAGTCTCG
196 CCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAGCAACGAAGGAGTCTCG
* *
30646286 TCAGTTAGAGTCTTGGGGGCCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATATAA
261 TCAGTTAGAGTCTTGGGAGCCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAAATTAATATAA
* * *
30646351 AGATATTTGCTTTGTGTTCTTTTTTATTGTTTACAACAATGTTAGCTTAATTTTATTTAAGCTAG
326 AGATATTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGTTAGCTTAATTTTATTTAAGCTAG
30646416 GATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGTTTGTGCCTCAATCGAT
391 GATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGTTTGTGCCTCAATCGAT
* *
30646481 CATGTTTTCAATTAAAATCAAGTCTGTATTTCATTCATACGTGAAT-AAAGTACACCTAAATTAG
456 CATGTTTTCAATTAAAATCAAGTCTGTATTTCATTCATACGTGATTGAAA-TACACCTGAATTAG
* *
30646545 TTGAGCGATCCTAACCAGACGACAGCTAATGGACGCATAATTGAAATGTGCATGCTTAATTTAGA
520 CTGAGCGATCCTAACCAGACGACGGCTAATGGACGCATAATTGAAATGTGCATGCTTAATTTAGA
*
30646610 TCCTAACACGATTAAATTGTAGGTTGCATAACAACTCCAACCAAGCTTTGTTATCTGCATAGTTT
585 TCCTAACACGATTAAATTGTAGGTTGCATAACAACTCTAACCAAGCTTTGTTATCTGCATAGTTT
*
30646675 TTACATTTGTGTGATT
650 TTAGATTTGTGTGATT
* *
30646691 AAATTATGGTCGGCCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAACTA
1 AAATTATGGCCGACCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAACTA
* *
30646756 TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCATCAATCAAACATCATTCCC
66 TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCATCAATCAAGCATCATTCTC
30646821 TCTTTTTCTCTTAGCCTTTTCCATTCCCACGCCTAGTATCATTTTTTCATAGAGATTTTAGCAAT
131 TCTTTTTCTCTTAGCCTTTTCCATTCCCACGCC-AG--------TTT-AT--A-A--TTA-CAAT
30646886 TAAGCCTCTTAAAGAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAG
180 TAAGCCTCTTAAAGAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAG
* * *
30646951 CAACGAAGGAGTCTCGGCAGTTAGAGTCTTGAGAGCCACTCTGAATTTGGTTTAATCTTTCTTTT
245 CAACGAAGGAGTCTCGTCAGTTAGAGTCTTGGGAGCCACTCTGAATTGGGTTTAATCTTTCTTTT
* * * *
30647016 CTTTAAATTAATATAAAGATGTTTTCTTTGTGTTCTTTGTTCTTGTTTACAACAATTTTAGCTTA
310 CTTTAAATTAATATAAAGATATTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGTTAGCTTA
*
30647081 ATTTTATTTAAGCCAGGATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGT
375 ATTTTATTTAAGCTAGGATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGT
* *
30647146 TTTTGCCTCAATCGATCATGTTTTTAATTAAAATCAAGTCTGTATTTCATTCATACGTGATTGAA
440 TTGTGCCTCAATCGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCATTCATACGTGATTGAA
* * * *
30647211 ATACACCTGAATTAGCTGAGCGATACTAAGCAGACGATGGCTAATGGACGCATAATTGAATTGTG
505 ATACACCTGAATTAGCTGAGCGATCCTAACCAGACGACGGCTAATGGACGCATAATTGAAATGTG
*
30647276 CATGCTTAATTTAGATCCTAACATGATTAAATTGTAGGTTGCATAACAACTCTAACCAAGCTTTG
570 CATGCTTAATTTAGATCCTAACACGATTAAATTGTAGGTTGCATAACAACTCTAACCAAGCTTTG
*
30647341 TTATCTGCATAGTTTTTGGATTTGTGTGATT
635 TTATCTGCATAGTTTTTAGATTTGTGTGATT
* *
30647372 AAATTACGGCCGACCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAAATA
1 AAATTATGGCCGACCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAACTA
*
30647437 TATCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCATCAAT-----ATCATTCTC
66 TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCATCAATCAAGCATCATTCTC
* *
30647497 TCTTTTTCTCTTAGCCTTTTCCATTCCCAC-AC-G-TT-T-A--GCAATTAAGCCTCTTAAAGAA
131 TCTTTTTCTCTTAGCCTTTTCCATTCCCACGCCAGTTTATAATTACAATTAAGCCTCTTAAAGAA
* *
30647555 CCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAGGAACGAAGGAGTCCCG
196 CCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAGCAACGAAGGAGTCTCG
* *
30647620 TCAGTTAGAGTCTTGGGAGCCACTCTGAATTGGGTTTAATATTTATTTTCTTTAAATTAATATAA
261 TCAGTTAGAGTCTTGGGAGCCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAAATTAATATAA
* * * *
30647685 AGATGTTTGCTATGTGTTCTTTGCTCTTGTTTATAACAATGTTAGCTTAATTTTTTTTAAGCTAG
326 AGATATTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGTTAGCTTAATTTTATTTAAGCTAG
*
30647750 GATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGTTTATGCCTCAATCGAT
391 GATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGTTTGTGCCTCAATCGAT
*
30647815 CATGTTTTCAATTAAAATCAAGTCTGTATTTC-TTCATACGTGATTGAAATACACTTGAATTAGC
456 CATGTTTTCAATTAAAATCAAGTCTGTATTTCATTCATACGTGATTGAAATACACCTGAATTAGC
* * *
30647879 TGAGCGATCCTAACCAGCCGACGACTAATGGACGCATAATTGAAATGTGCATGCTCAATTTAGAT
521 TGAGCGATCCTAACCAGACGACGGCTAATGGACGCATAATTGAAATGTGCATGCTTAATTTAGAT
*
30647944 CCTAACACGATTAAATTGTAGGTTGCATAACAACTCTAACCAAGGTTTGTTATCTGCATAGTTTT
586 CCTAACACGATTAAATTGTAGGTTGCATAACAACTCTAACCAAGCTTTGTTATCTGCATAGTTTT
30648009 TAGATTTGTGTGATT
651 TAGATTTGTGTGATT
30648024 AAATT
1 AAATT
30648029 GTTTCAAACC
Statistics
Matches: 1865, Mismatches: 106, Indels: 79
0.91 0.05 0.04
Matches are distributed among these distances:
652 171 0.09
653 296 0.16
657 3 0.00
658 613 0.33
659 1 0.00
660 1 0.00
661 1 0.00
662 1 0.00
663 1 0.00
664 2 0.00
667 1 0.00
669 2 0.00
670 2 0.00
672 1 0.00
673 1 0.00
675 1 0.00
676 39 0.02
678 1 0.00
679 1 0.00
680 1 0.00
681 722 0.39
682 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (665 bp):
AAATTATGGCCGACCACCCATGGAAGATGCTTCAAAAGATGGAAACTCCTATTTTTAGCAAACTA
TCTCTCTCTCCTCACCTATAAATAAGACCCTCTCATCCCTCAAGCATCAATCAAGCATCATTCTC
TCTTTTTCTCTTAGCCTTTTCCATTCCCACGCCAGTTTATAATTACAATTAAGCCTCTTAAAGAA
CCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAGGAGCAAAGCAAAGCAACGAAGGAGTCTCG
TCAGTTAGAGTCTTGGGAGCCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAAATTAATATAA
AGATATTTGCTATGTGTTCTTTGTTCTTGTTTACAACAATGTTAGCTTAATTTTATTTAAGCTAG
GATGATTGCTTTGATTAAATAATATTTATTTGATTCATGCTTATAATGTTTGTGCCTCAATCGAT
CATGTTTTCAATTAAAATCAAGTCTGTATTTCATTCATACGTGATTGAAATACACCTGAATTAGC
TGAGCGATCCTAACCAGACGACGGCTAATGGACGCATAATTGAAATGTGCATGCTTAATTTAGAT
CCTAACACGATTAAATTGTAGGTTGCATAACAACTCTAACCAAGCTTTGTTATCTGCATAGTTTT
TAGATTTGTGTGATT
Found at i:30664348 original size:39 final size:40
Alignment explanation
Indices: 30664234--30664359 Score: 155
Period size: 40 Copynumber: 3.2 Consensus size: 40
30664224 CAAAAGGTCG
* * * *
30664234 AGCATTAGTGGCACTTTTTGAAAAATGCCGCTATAGATCG
1 AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
* * *
30664274 AGCATTAGCGGTGCGTTTTGAAAAACGTCGCTATAGATCA
1 AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
* * *
30664314 AGCATTAGTGGCGC-TTTTCAAAAACGCCGTTATAGACCA
1 AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
30664353 AGCATTA
1 AGCATTA
30664360 CCGGTGCTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 28 0.38
40 45 0.62
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (40 bp):
AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
Found at i:30664369 original size:39 final size:39
Alignment explanation
Indices: 30664249--30664371 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 39
30664239 TAGTGGCACT
* * *
30664249 TTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGTGC
1 TTTTCAAAAACGCCGCTATAGATCAAGCATTAGCGGTGC
* * * *
30664288 GTTTTGAAAAACGTCGCTATAGATCAAGCATTAGTGGCGC
1 -TTTTCAAAAACGCCGCTATAGATCAAGCATTAGCGGTGC
* * *
30664328 TTTTCAAAAACGCCGTTATAGACCAAGCATTACCGGTGC
1 TTTTCAAAAACGCCGCTATAGATCAAGCATTAGCGGTGC
30664367 TTTTC
1 TTTTC
30664372 GTAAAACACC
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 37 0.52
40 34 0.48
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (39 bp):
TTTTCAAAAACGCCGCTATAGATCAAGCATTAGCGGTGC
Found at i:30664378 original size:79 final size:80
Alignment explanation
Indices: 30664214--30664370 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 80
30664204 CATTTATGAC
* * * * * *
30664214 AAAAACGTCGCAAAAGGTCGAGCATTAGTGGCACTTTTTGAAAAATGCCGCTATAGATCGAGCAT
1 AAAAACGTCGCAAAAGATCAAGCATTAGTGGCACTTTTTCAAAAACGCCGCTATAGACCAAGCAT
*
30664279 TAGCGGTGCGTTTTG
66 TACCGGTGCGTTTTG
* * * *
30664294 AAAAACGTCGCTATAGATCAAGCATTAGTGGCGC-TTTTCAAAAACGCCGTTATAGACCAAGCAT
1 AAAAACGTCGCAAAAGATCAAGCATTAGTGGCACTTTTTCAAAAACGCCGCTATAGACCAAGCAT
30664358 TACCGGTGC-TTTT
66 TACCGGTGCGTTTT
30664371 CGTAAAACAC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
78 4 0.06
79 33 0.50
80 29 0.44
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (80 bp):
AAAAACGTCGCAAAAGATCAAGCATTAGTGGCACTTTTTCAAAAACGCCGCTATAGACCAAGCAT
TACCGGTGCGTTTTG
Found at i:30664621 original size:153 final size:151
Alignment explanation
Indices: 30664432--30664707 Score: 358
Period size: 153 Copynumber: 1.8 Consensus size: 151
30664422 TTTAGTGGCG
* * **
30664432 TTAGTGGCACTTTTTAAAAAACGCAGCAATAGATCAAGCATTAGCGATGCTAT-TTGAAAAACGC
1 TTAGTGGCACTTTTTAAAAAACGCAGCAATAGATCAAGAATTAGCGACGCT-TGTCAAAAAACGC
** * * *
30664496 CTCTATAGATCGAGCATTAGCTGCGCTTTT-TGGAAAATGCCGCAAAAATTTTGAGCAAAATAGC
65 CGATATAGATCGAGCATTAGCGGCG-TTTTCTGG-AAACGCCGCAAAAA-GTTGAGCAAAATAGC
30664560 GTTAGCTGCACTTTGTTGTTGAGCT
127 GTTAGCTGCACTTTGTTGTTGAGCT
* * * * *
30664585 TTAGTGGCGCTTTTTAAAAAATGCCGCAATAGATCAAGAATTAGTGGCGCTTGTCAAAAAACGCC
1 TTAGTGGCACTTTTTAAAAAACGCAGCAATAGATCAAGAATTAGCGACGCTTGTCAAAAAACGCC
* *
30664650 GATATAGATCGAGCATTAGCGGTGTTTTCTGGAAACGCCGTAAAAAGTTGAGCAAAAT
66 GATATAGATCGAGCATTAGCGGCGTTTTCTGGAAACGCCGCAAAAAGTTGAGCAAAAT
30664708 GACGTCATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
151 11 0.10
152 17 0.16
153 77 0.73
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (151 bp):
TTAGTGGCACTTTTTAAAAAACGCAGCAATAGATCAAGAATTAGCGACGCTTGTCAAAAAACGCC
GATATAGATCGAGCATTAGCGGCGTTTTCTGGAAACGCCGCAAAAAGTTGAGCAAAATAGCGTTA
GCTGCACTTTGTTGTTGAGCT
Found at i:30664644 original size:40 final size:40
Alignment explanation
Indices: 30664585--30664668 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
30664575 TTGTTGAGCT
* * *
30664585 TTAGTGGCGCTTTTTAAAAAATGCCGCA-ATAGATCAAGAA
1 TTAGTGGCGCTTGTCAAAAAACGCCG-ATATAGATCAAGAA
* *
30664625 TTAGTGGCGCTTGTCAAAAAACGCCGATATAGATCGAGCA
1 TTAGTGGCGCTTGTCAAAAAACGCCGATATAGATCAAGAA
30664665 TTAG
1 TTAG
30664669 CGGTGTTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAGTGGCGCTTGTCAAAAAACGCCGATATAGATCAAGAA
Found at i:30664792 original size:154 final size:155
Alignment explanation
Indices: 30664595--30664893 Score: 386
Period size: 154 Copynumber: 1.9 Consensus size: 155
30664585 TTAGTGGCGC
*
30664595 TTTTTAAAAAATGCCGCAATAGATCAAGAATTAGTGGCGCTTGTCAAAAAACGCCGATATAGATC
1 TTTTTAAAAAATGCCGCAATAGATCAAGAATTAGCGGCGCTTGTCAAAAAACGCCGATATAGATC
** **** *
30664660 GAGCATTAGCGGTG-TTTTCTGGAAACGCCGTAAAAA-GTTGAGCAAAATGACGTCATTTGTTTT
66 GAGCATTAGCGACGCTTTTAACAAAACGCCGTAAAAAGGTTGAG-AAAATGACGTCATTTGTTGT
30664723 TGAGCTTTAGTGGCATAAGCGACATT
130 TGAGCTTTAGTGGCATAAGCGACATT
* * * ** * * *
30664749 TTTTTAAGAAATGCCGCAATAGATCGAGAATTAGCGGTGCTTGTTGAAAAATGTCGCTATAGATC
1 TTTTTAAAAAATGCCGCAATAGATCAAGAATTAGCGGCGCTTGTCAAAAAACGCCGATATAGATC
* * **
30664814 GAGCATTAGCGACGCTTTTAACAAAACTCCGTAAAAAGGTTGAGAAATTGACGTTGTTTGTTGTT
66 GAGCATTAGCGACGCTTTTAACAAAACGCCGTAAAAAGGTTGAGAAAATGACGTCATTTGTTGTT
*
30664879 GAGCTTTTGTGGCAT
131 GAGCTTTAGTGGCAT
30664894 TTTCAAAAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
154 68 0.56
155 48 0.39
156 6 0.05
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (155 bp):
TTTTTAAAAAATGCCGCAATAGATCAAGAATTAGCGGCGCTTGTCAAAAAACGCCGATATAGATC
GAGCATTAGCGACGCTTTTAACAAAACGCCGTAAAAAGGTTGAGAAAATGACGTCATTTGTTGTT
GAGCTTTAGTGGCATAAGCGACATT
Found at i:30665088 original size:28 final size:28
Alignment explanation
Indices: 30665030--30665093 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
30665020 TATTTTGGGA
* *
30665030 TTAGAGTTTTGAGTTTATGGTTTATGGT
1 TTAGAGTTTTGAGTTTAGGGTTTATGAT
* *
30665058 TTAGAG-TTTGTAGTTTGGGGTTTATTAT
1 TTAGAGTTTTG-AGTTTAGGGTTTATGAT
*
30665086 TTATAGTT
1 TTAGAGTT
30665094 AGGGTTTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 4 0.14
28 24 0.83
29 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.55
Consensus pattern (28 bp):
TTAGAGTTTTGAGTTTAGGGTTTATGAT
Found at i:30665092 original size:21 final size:21
Alignment explanation
Indices: 30665055--30665107 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
30665045 TATGGTTTAT
* *
30665055 GGTTTAG-AGTTTGTAGTTTGG
1 GGTTTAGTA-TTTATAGTTAGG
*
30665076 GGTTTATTATTTATAGTTAGG
1 GGTTTAGTATTTATAGTTAGG
*
30665097 GTTTTAGTATT
1 GGTTTAGTATT
30665108 GTTCATGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (21 bp):
GGTTTAGTATTTATAGTTAGG
Found at i:30665286 original size:21 final size:21
Alignment explanation
Indices: 30665251--30665301 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
30665241 TATTTAAGGC
* *
30665251 TTAGGGTGT-AGGTTTATGAT
1 TTAGGGTTTAAGGTTTAAGAT
* *
30665271 TTGGGGTTTAAGGTTTAAGGT
1 TTAGGGTTTAAGGTTTAAGAT
30665292 TTAGGGTTTA
1 TTAGGGTTTA
30665302 TGATTTAGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (21 bp):
TTAGGGTTTAAGGTTTAAGAT
Found at i:30665287 original size:7 final size:7
Alignment explanation
Indices: 30665275--30665349 Score: 50
Period size: 7 Copynumber: 10.9 Consensus size: 7
30665265 TATGATTTGG
30665275 GGTTTAA
1 GGTTTAA
30665282 GGTTTAA
1 GGTTTAA
*
30665289 GGTTTAG
1 GGTTTAA
*
30665296 GGTTTAT
1 GGTTTAA
*
30665303 GATTT-A
1 GGTTTAA
30665309 -GTGTTAA
1 GGT-TTAA
30665316 GAGTTTAA
1 G-GTTTAA
*
30665324 TGTTTACA
1 GGTTTA-A
30665332 -GTTTAA
1 GGTTTAA
*
30665338 GGTGT-A
1 GGTTTAA
30665344 GGTTTA
1 GGTTTA
30665350 TTGGTTAGTG
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
5 1 0.02
6 8 0.15
7 37 0.70
8 5 0.09
9 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:30665860 original size:18 final size:18
Alignment explanation
Indices: 30665837--30665882 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
30665827 CCAACCCACA
*
30665837 TGTTGCATTGCCCTCCTC
1 TGTTGCATCGCCCTCCTC
30665855 TGTTGCATCGCCCTCCTC
1 TGTTGCATCGCCCTCCTC
*
30665873 TGCTGCATCG
1 TGTTGCATCG
30665883 TGCTCCTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.07, C:0.39, G:0.20, T:0.35
Consensus pattern (18 bp):
TGTTGCATCGCCCTCCTC
Found at i:30666230 original size:14 final size:14
Alignment explanation
Indices: 30666211--30666241 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
30666201 TGCTTTAGGA
30666211 AAAAATGGATTTAT
1 AAAAATGGATTTAT
30666225 AAAAATGGATTTAT
1 AAAAATGGATTTAT
30666239 AAA
1 AAA
30666242 CATATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (14 bp):
AAAAATGGATTTAT
Found at i:30667635 original size:9 final size:9
Alignment explanation
Indices: 30667623--30667693 Score: 72
Period size: 9 Copynumber: 7.9 Consensus size: 9
30667613 AAATATATAT
30667623 CATAACTTA
1 CATAACTTA
30667632 CATAACTTA
1 CATAACTTA
*
30667641 CATAA-ATA
1 CATAACTTA
* * *
30667649 TATATCATA
1 CATAACTTA
*
30667658 GCAAAACTTA
1 -CATAACTTA
30667668 CATAACTTA
1 CATAACTTA
*
30667677 CATAATTTA
1 CATAACTTA
30667686 CATAACTT
1 CATAACTT
30667694 TAAAGAATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 5 0.10
9 40 0.80
10 5 0.10
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:30667764 original size:9 final size:9
Alignment explanation
Indices: 30667752--30667844 Score: 105
Period size: 9 Copynumber: 10.0 Consensus size: 9
30667742 TATATCATAT
30667752 CATAACTTA
1 CATAACTTA
*
30667761 CATAACTCA
1 CATAACTTA
*
30667770 CAAAACTTA
1 CATAACTTA
30667779 CATAACTTA
1 CATAACTTA
30667788 CATAACTTA
1 CATAACTTA
* *
30667797 TATATATCATA
1 CATA-A-CTTA
30667808 TCATAACTTA
1 -CATAACTTA
*
30667818 CATAACTCA
1 CATAACTTA
30667827 CATAACTTA
1 CATAACTTA
*
30667836 CGTAACTTA
1 CATAACTTA
30667845 ATTATACTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
9 59 0.84
10 4 0.06
11 4 0.06
12 3 0.04
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:30673706 original size:43 final size:43
Alignment explanation
Indices: 30673524--30673706 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 43
30673514 GAATAGTATT
* * *
30673524 TTTATCGGCGATTGTGATAAAAGCGCCACTAAA--TCATGTT-
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * * *
30673564 TTTAGCAGAGTTTGTGAAAAAAAGTGCCGCTAAAGGTCATGCTA
1 TTTAGCGGCGTTTGTG-ATAAAAGCGCCGCTAAAGGTCATGTTC
*
30673608 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
30673651 TTTAGTGACGTTTGTGATAACAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
*
30673694 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
30673707 TTTCACAAAA
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
40 12 0.10
41 14 0.12
43 78 0.67
44 13 0.11
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:30676521 original size:11 final size:11
Alignment explanation
Indices: 30676507--30676565 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
30676497 CACCACTTCT
30676507 CCACCATAACA
1 CCACCATAACA
* *
30676518 CCACTATACCA
1 CCACCATAACA
* **
30676529 CCACCCTAGTA
1 CCACCATAACA
*
30676540 CCACTATAACA
1 CCACCATAACA
*
30676551 CCACCATAGCA
1 CCACCATAACA
30676562 CCAC
1 CCAC
30676566 TATATCACTA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.37, C:0.46, G:0.03, T:0.14
Consensus pattern (11 bp):
CCACCATAACA
Found at i:30676532 original size:22 final size:22
Alignment explanation
Indices: 30676507--30676569 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
30676497 CACCACTTCT
* *
30676507 CCACCATAACACCACTATACCA
1 CCACCATAGCACCACTATAACA
* *
30676529 CCACCCTAGTACCACTATAACA
1 CCACCATAGCACCACTATAACA
30676551 CCACCATAGCACCACTATA
1 CCACCATAGCACCACTATA
30676570 TCACTACCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.38, C:0.43, G:0.03, T:0.16
Consensus pattern (22 bp):
CCACCATAGCACCACTATAACA
Found at i:30685096 original size:28 final size:28
Alignment explanation
Indices: 30685061--30685114 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
30685051 CAGTAACAGT
*
30685061 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
*
30685089 ACAGTGTGGGCCTAAGCCCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
30685115 TATCACTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:30685327 original size:22 final size:22
Alignment explanation
Indices: 30685293--30685340 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
30685283 GCTAAGAGCC
* *
30685293 ATAAACAGGATAGCTATAAGCT
1 ATAAACAGAATAGCTACAAGCT
* *
30685315 ATAAACATAATAGCTGCAAGCT
1 ATAAACAGAATAGCTACAAGCT
30685337 ATAA
1 ATAA
30685341 GTACAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.23
Consensus pattern (22 bp):
ATAAACAGAATAGCTACAAGCT
Found at i:30685403 original size:32 final size:32
Alignment explanation
Indices: 30685359--30685537 Score: 133
Period size: 32 Copynumber: 5.6 Consensus size: 32
30685349 ATGGGATTGA
* *
30685359 CACAAAGCCATCAGTAGCAGTGATATGACCGG
1 CACACAGCCATCAGTAGCAGTGATATGATCGG
* * * * * * *
30685391 CACACAGTCATCAATAACGGTAACATGATCGA
1 CACACAGCCATCAGTAGCAGTGATATGATCGG
* *
30685423 CACAAAGCCATCAGTAGTAGTGATATGATCGG
1 CACACAGCCATCAGTAGCAGTGATATGATCGG
* ** * * *
30685455 CACACAGCCATTAGTAAAAGGGAAATGATCGA
1 CACACAGCCATCAGTAGCAGTGATATGATCGG
** ** * * *
30685487 CACACAAACATTGGTAACGGTAATATGATCGG
1 CACACAGCCATCAGTAGCAGTGATATGATCGG
*
30685519 CACAAAGCCATCAGTAGCA
1 CACACAGCCATCAGTAGCA
30685538 TCGCAGCAAA
Statistics
Matches: 106, Mismatches: 41, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
32 106 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (32 bp):
CACACAGCCATCAGTAGCAGTGATATGATCGG
Found at i:30685483 original size:64 final size:64
Alignment explanation
Indices: 30685357--30685490 Score: 189
Period size: 64 Copynumber: 2.1 Consensus size: 64
30685347 TAATGGGATT
* * *
30685357 GACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGTCATCAATAACGGTAACATGATC
1 GACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAATAAAGGGAACATGATC
* * * *
30685421 GACACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATTAGTAAAAGGGAA-ATGATC
1 GACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAAT-AAAGGGAACATGATC
30685485 GACACA
1 GACACA
30685491 CAAACATTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 56 0.90
65 6 0.10
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (64 bp):
GACACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAATAAAGGGAACATGATC
Found at i:30685547 original size:23 final size:23
Alignment explanation
Indices: 30685521--30685575 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
30685511 ATGATCGGCA
**
30685521 CAAAGCCATCAGTAGCATCGCAG
1 CAAAGCCATCAACAGCATCGCAG
*
30685544 CAAAGTTGCCATCAACAGTATCGCAG
1 CAAA---GCCATCAACAGCATCGCAG
30685570 CAAAGC
1 CAAAGC
30685576 TGCCAGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
23 6 0.23
26 20 0.77
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.15
Consensus pattern (23 bp):
CAAAGCCATCAACAGCATCGCAG
Found at i:30685736 original size:24 final size:23
Alignment explanation
Indices: 30685705--30685787 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
30685695 GTCATGCTCA
*
30685705 AAATCAGTCATTCAAATCATAGAC
1 AAATCAGTCATTCAAA-CACAGAC
*
30685729 AAATCAGTCATACCAAACACAGAC
1 AAATCAGTCAT-TCAAACACAGAC
* *
30685753 AAATCAGTCATTTAACCACAGAC
1 AAATCAGTCATTCAAACACAGAC
* *
30685776 AAAACAATCATT
1 AAATCAGTCATT
30685788 TGACCACTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 19 0.37
24 28 0.55
25 4 0.08
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
AAATCAGTCATTCAAACACAGAC
Found at i:30685860 original size:27 final size:27
Alignment explanation
Indices: 30685828--30686170 Score: 350
Period size: 27 Copynumber: 12.7 Consensus size: 27
30685818 CCACCAGAGC
* * *
30685828 ATTATGGTCATTTTACCTTGCAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
30685855 ATTATGATCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
30685882 ATTACGGTCATTTTACCTTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
30685909 ATTACAGTCATTTTACCCTACAGTGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
30685936 ATTACAGTCATTTTACCCTATAGCGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
30685963 ATTACGGTCATTTTATCCTACA-GGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
30685989 ATTACGGTCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
30686016 ATT-CTAGTCATTTTACCCTATAGGGGT
1 ATTAC-GGTCATTTTACCCTACAGGGGT
* * *
30686043 ATTGCGGTTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
30686070 ATTACGATCATTTTACCTTAC-GAGGGT
1 ATTACGGTCATTTTACCCTACAG-GGGT
* *
30686097 ATTACGGTCATTTTATCCTACGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
30686124 ATTATGGTCATTTTACCTTACGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
30686151 GTTTCGATCATTTTACCCTA
1 ATTACGGTCATTTTACCCTA
30686171 TTGGGGCATT
Statistics
Matches: 270, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.09
27 243 0.90
28 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:30686176 original size:27 final size:27
Alignment explanation
Indices: 30685828--30686213 Score: 305
Period size: 27 Copynumber: 14.3 Consensus size: 27
30685818 CCACCAGAGC
* * **
30685828 ATTATGGTCATTTTACCTTGCAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * * *
30685855 ATTATGATCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
30685882 ATTACGGTCATTTTACCTTACAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * * *
30685909 ATTACAGTCATTTTACCCTACAGTGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
30685936 ATTACAGTCATTTTACCCTATAGCGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
30685963 ATTACGGTCATTTTATCCTACA-GGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
30685989 ATTACGGTCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*
30686016 ATT-CTAGTCATTTTACCCTATAGGGGT
1 ATTAC-GGTCATTTTACCCTATAGGGGT
* *
30686043 ATTGCGGTTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
*
30686070 ATTACGATCATTTTA-CCT-TACGAGGGT
1 ATTACGGTCATTTTACCCTATA-G-GGGT
* **
30686097 ATTACGGTCATTTTATCCTACGGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * **
30686124 ATTATGGTCATTTTACCTTACGGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * * * *
30686151 GTTTCGATCATTTTACCCTATTGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*** *
30686178 ATTTTAGTCATTTTACCC-ATCGAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
*
30686205 ATTTCGGTC
1 ATTACGGTC
30686214 CAGATACCGA
Statistics
Matches: 301, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 31 0.10
27 263 0.87
28 5 0.02
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGT
Found at i:30687994 original size:20 final size:21
Alignment explanation
Indices: 30687950--30688001 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
30687940 AAAATCCCAC
30687950 AAGTATCGATACTTTTTAAAT
1 AAGTATCGATACTTTTTAAAT
30687971 AAGTATCGATA-TTTTTCAAA-
1 AAGTATCGATACTTTTT-AAAT
30687991 AAGTATCGATA
1 AAGTATCGATA
30688002 AAATAGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
AAGTATCGATACTTTTTAAAT
Found at i:30700009 original size:38 final size:40
Alignment explanation
Indices: 30699902--30700010 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
30699892 GTTTGGATAA
* * *
30699902 AAAACGCCGCTAAAAATCAAGCATTATCGGCGCTTTTAAG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
* * * *
30699942 AAAACACCGCTAAAGATCGAGTATTAGCGGCACTTTT-TG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
* *
30699981 GAAATGCCGCTAAAAAT-GAGCATTAGCGGC
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGC
30700011 GTTTTTCAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 12 0.21
39 14 0.25
40 31 0.54
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
Found at i:30700029 original size:39 final size:39
Alignment explanation
Indices: 30699899--30700035 Score: 125
Period size: 39 Copynumber: 3.5 Consensus size: 39
30699889 GGTGTTTGGA
* * *
30699899 TAAAAAACGCCGCTAAAAATCAAGCATTATCGGCGCTTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTT
* * * *
30699938 TAAGAAAACACCGCTAAAGATCGAGTATTAGCGGCACTTTT
1 TAA-AAAACGCCGCTAAAAATCGAGCATTAGCGGC-GTTTT
** *
30699979 T-GGAAATGCCGCTAAAAAT-GAGCATTAGCGGCGTTTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTT
* *
30700016 TCAAAAAGCGCCGCAAAAAA
1 T-AAAAAACGCCGCTAAAAA
30700036 ACCTAAGCCG
Statistics
Matches: 75, Mismatches: 19, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
37 5 0.07
38 12 0.16
39 28 0.37
40 26 0.35
41 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTT
Found at i:30700172 original size:45 final size:41
Alignment explanation
Indices: 30700057--30700229 Score: 167
Period size: 45 Copynumber: 4.2 Consensus size: 41
30700047 GTTTTCGGGG
* * *
30700057 CTTTAGCGACGTTTTTAAAGAAGCGCCGCTAATTCT-TGAGT
1 CTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATACTCAG-GT
* *
30700098 C-TTAGCG-GGTTTTTGAAGAGGCGCCGCTAATACTCAGGT
1 CTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATACTCAGGT
* *
30700137 CTTTAGCGACGTTTCTTTTTGAAGAAGCGCTGCTAATTCTC-GAGT
1 CTTTAGCGACG----TTTTTGAAGAAGCGCCGCTAATACTCAG-GT
* *
30700182 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTA-TCAGGT
1 CTTTAGCGACGTTTTTGAAGAAGCGCCGCTAA-TACTCAGGT
30700223 CTTTAGC
1 CTTTAGC
30700230 AGTGTTTTTT
Statistics
Matches: 109, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
39 26 0.24
40 13 0.12
41 32 0.29
42 2 0.02
44 1 0.01
45 35 0.32
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (41 bp):
CTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATACTCAGGT
Found at i:30700213 original size:41 final size:41
Alignment explanation
Indices: 30700057--30700238 Score: 183
Period size: 41 Copynumber: 4.4 Consensus size: 41
30700047 GTTTTCGGGG
* *
30700057 CTTTAGCGACGTTTTTAAAGAAGCGCCGCTAATTCT-TGAGT
1 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTCTCAG-GT
* * *
30700098 C-TTAGCGG-GTTTTTGAAGAGGCGCCGCTAATACTCAGGT
1 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTCTCAGGT
* * *
30700137 CTTTAGCGACGTTTCTTTTTGAAGAAGCGCTGCTAATTCTC-GAGT
1 CTTTAGCGGCG----TTTTTAAAGAAGCGCCGCTAATTCTCAG-GT
*
30700182 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTATCAGGT
1 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTCTCAGGT
* *
30700223 CTTTAGCAGTGTTTTT
1 CTTTAGCGGCGTTTTT
30700239 TCAAAAAATA
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
39 26 0.22
40 13 0.11
41 41 0.35
42 1 0.01
44 1 0.01
45 35 0.30
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTCTCAGGT
Found at i:30700229 original size:86 final size:84
Alignment explanation
Indices: 30700068--30700229 Score: 245
Period size: 86 Copynumber: 1.9 Consensus size: 84
30700058 TTTAGCGACG
* * *
30700068 TTTTTAAAGAAGCGCCGCTAATTCTTGAGTCTTAGCGGGTTTTTGAAGAGGCGCCGCTAATACTC
1 TTTTTAAAGAAGCGCCGCTAATTCTCGAGTCTTAGCGGGTTTTTAAAGAAGCGCCGCTAATACTC
30700133 AGGTCTTTAGCGACGTTTC
66 AGGTCTTTAGCGACGTTTC
* *
30700152 TTTTTGAAGAAGCGCTGCTAATTCTCGAGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTA
1 TTTTTAAAGAAGCGCCGCTAATTCTCGAGTC-TTAGCGG-GTTTTTAAAGAAGCGCCGCTAA-TA
30700217 -TCAGGTCTTTAGC
63 CTCAGGTCTTTAGC
30700230 AGTGTTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
84 28 0.40
85 7 0.10
86 33 0.47
87 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (84 bp):
TTTTTAAAGAAGCGCCGCTAATTCTCGAGTCTTAGCGGGTTTTTAAAGAAGCGCCGCTAATACTC
AGGTCTTTAGCGACGTTTC
Found at i:30703166 original size:20 final size:19
Alignment explanation
Indices: 30703134--30703180 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
30703124 CTTAATGCAG
30703134 AAAA-ATAACACAATA-ATA
1 AAAATATAACACAA-ACATA
*
30703152 ACAAATATAATACAAACATA
1 A-AAATATAACACAAACATA
30703172 AAAATATAA
1 AAAATATAA
30703181 AATAAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 12 0.48
20 12 0.48
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATATAACACAAACATA
Found at i:30703187 original size:19 final size:20
Alignment explanation
Indices: 30703149--30703187 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
30703139 TAACACAATA
*
30703149 ATAACAAATATAATACAAAC
1 ATAACAAATATAAAACAAAC
*
30703169 ATAA-AAATATAAAATAAAC
1 ATAACAAATATAAAACAAAC
30703188 CAAAACTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAACAAATATAAAACAAAC
Found at i:30705584 original size:43 final size:43
Alignment explanation
Indices: 30705524--30705614 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
30705514 CTTTGAGTTC
*
30705524 ATTA-CAAGATTTCCTTGATTAAGAAAATGT-ATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAT-TCATTATATCTTTT
* *
30705566 ATTACCAAGATTTACTTGATTAAGAAAATTCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
30705609 ATTACC
1 ATTACC
30705615 TTGCAATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
Found at i:30706028 original size:42 final size:43
Alignment explanation
Indices: 30705982--30706139 Score: 201
Period size: 43 Copynumber: 3.7 Consensus size: 43
30705972 TTTTTACGAG
* * * *
30705982 AAGCGCCGCTAAAGAT-TTGATCTATAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* *
30706024 AAGCGCCGTTAAAGGTCATGGTCTTTCGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* * * *
30706067 AAGCGCCGTTAAAGGTCATGGTCTTTAGCGACATTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* *
30706110 AAGCGCCGCTAAAGGTTATAGTCTTTAGCG
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCG
30706140 ATATTTTTTC
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 14 0.14
43 88 0.86
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
Found at i:30706063 original size:43 final size:43
Alignment explanation
Indices: 30706006--30706139 Score: 205
Period size: 43 Copynumber: 3.1 Consensus size: 43
30705996 ATTTGATCTA
30706006 TAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATGGTCTT
*
30706049 TCGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATGGTCTT
* * * * * *
30706092 TAGCGACATTTGTGAGAAAAGCGCCGCTAAAGGTTATAGTCTT
1 TAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATGGTCTT
30706135 TAGCG
1 TAGCG
30706140 ATATTTTTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 83 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATGGTCTT
Found at i:30706362 original size:16 final size:16
Alignment explanation
Indices: 30706341--30706373 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30706331 CAACTACTGC
30706341 TGTATTAACATTTATT
1 TGTATTAACATTTATT
30706357 TGTATTAACATTTATT
1 TGTATTAACATTTATT
30706373 T
1 T
30706374 AGACACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TGTATTAACATTTATT
Found at i:30706894 original size:43 final size:44
Alignment explanation
Indices: 30706832--30706930 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 44
30706822 TGTCCCAAAC
* **
30706832 ATGGTCTTACATGCAAATCTCGTATCGATGCCAATAGCCCAACT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
* * *
30706876 ATGGTCTTATACG-AAATCTCAAATCGATGCCAATAGTCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
30706919 ATGGTCTTACAC
1 ATGGTCTTACAC
30706931 ATAAACACTG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 37 0.77
44 11 0.23
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
Found at i:30712659 original size:43 final size:44
Alignment explanation
Indices: 30712598--30712696 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
30712588 TGTCTCAAAC
* **
30712598 ATGGTCTTACATGCAAATCTCGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
30712642 ATTGTCTTACACG-AAATCTCAAATCGATGCCAGTAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
30712685 ATGGTCTTACAC
1 ATGGTCTTACAC
30712697 ATAAACACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 38 0.78
44 11 0.22
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:30714731 original size:256 final size:255
Alignment explanation
Indices: 30714273--30714739 Score: 542
Period size: 256 Copynumber: 1.8 Consensus size: 255
30714263 CTTTGGGTAA
* *
30714273 TCACCTTCCTTTAATTCTTTTCCATATGAAACCATAGCCTAGCTATTGTCTTACACAAAATGGTG
1 TCACCTTCCTTTAATTCTTTTCCATATGAAACCATAGCCCAGCTATGGTCTTACACAAAATGGTG
* * * **
30714338 CCATAGCCAATGACTTTTCCTTTCAGAGATTCATATTAGAGATCGTGTTTGCAGTCCCGACGGAC
66 CCATAGCCAATGACTTTTCCTTTCAAAGATTCATATCAGAGATCATGTTTGCAGTCCCGACAAAC
* * * * * *
30714403 CCATTTAGACTCCACCATGGTGAACAAATATAGACTCACTTTAAAGGCTCTCCACACATTGGAAT
131 CCATTTAGACTCCACCATGGTGAACAAACATACACTCACTTGAAAGACTCTCCACACATTAGAAG
30714468 CATTCATTACTCAACACTCGATTCATAAAAACACCCAAATGCAACAAGGGTTTCCTTTTTG
196 CATTCATT-CTCAACACTCGATTCATAAAAACACCCAAATGCAACAAGGGTTTCCTTTTTG
* * ** * *
30714529 TCACCTTTCTTTAGTTCTTTTCCATATGATGCCATAGCCCATCTATGGTCTTACACAATATGGTG
1 TCACCTTCCTTTAATTCTTTTCCATATGAAACCATAGCCCAGCTATGGTCTTACACAAAATGGTG
* * * * ** * *
30714594 TCATGGCC-ATGAACTTTTCCTTTCAAAGTTTCATATCAGAGATTATGTTTTTAGTTCCGATAAA
66 CCATAGCCAATG-ACTTTTCCTTTCAAAGATTCATATCAGAGATCATGTTTGCAGTCCCGACAAA
* * *** * ** * *
30714658 CCTC-TTTAGACTTCACTATGGTGAATGGACATACACTCACTTGACAGACTCTTTATACATTAGT
130 CC-CATTTAGACTCCACCATGGTGAACAAACATACACTCACTTGAAAGACTCTCCACACATTAGA
* *
30714722 AGGATTCATTCTTAACAC
194 AGCATTCATTCTCAACAC
30714740 CCAAATGGTT
Statistics
Matches: 170, Mismatches: 39, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
255 10 0.06
256 159 0.94
257 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (255 bp):
TCACCTTCCTTTAATTCTTTTCCATATGAAACCATAGCCCAGCTATGGTCTTACACAAAATGGTG
CCATAGCCAATGACTTTTCCTTTCAAAGATTCATATCAGAGATCATGTTTGCAGTCCCGACAAAC
CCATTTAGACTCCACCATGGTGAACAAACATACACTCACTTGAAAGACTCTCCACACATTAGAAG
CATTCATTCTCAACACTCGATTCATAAAAACACCCAAATGCAACAAGGGTTTCCTTTTTG
Found at i:30719454 original size:54 final size:55
Alignment explanation
Indices: 30719353--30719506 Score: 251
Period size: 54 Copynumber: 2.8 Consensus size: 55
30719343 GGCATAGTTG
* *
30719353 GTTGCTATGGCATCACATGGGCCAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
1 GTTGCTATGGCATCATATGGGACAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
30719408 GTTGCTATGGCATCATATGGG-CAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
1 GTTGCTATGGCATCATATGGGACAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
*
30719462 GTTGCTATGGCATCATATGGGGACAA--GAAGACCACATAGTGTAAG
1 GTTGCTATGGCATCATAT-GGGACAAGCGAAGACCATATAGTGTAAG
30719507 ACCTAGTCTA
Statistics
Matches: 95, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
54 69 0.73
55 23 0.24
56 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (55 bp):
GTTGCTATGGCATCATATGGGACAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
Found at i:30724023 original size:14 final size:15
Alignment explanation
Indices: 30724004--30724043 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
30723994 GGGAAGTTGG
30724004 GAAATTAGGGAA-AA
1 GAAATTAGGGAAGAA
30724018 GAAATTAGGGAAGAA
1 GAAATTAGGGAAGAA
* *
30724033 TAACTTAGGGA
1 GAAATTAGGGA
30724044 TTTCAGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.03, G:0.30, T:0.17
Consensus pattern (15 bp):
GAAATTAGGGAAGAA
Found at i:30724309 original size:115 final size:116
Alignment explanation
Indices: 30724153--30724364 Score: 313
Period size: 115 Copynumber: 1.8 Consensus size: 116
30724143 AAAAACACCA
* * * ** *
30724153 CTAATGTATAACCTTTTGTGGCGTTTTAGTCAAAATGCCACTAAAAATGTAGCTAAAAA-TA-GC
1 CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAACGCCACTAAAAATACAGCTAAAAACGACGC
*
30724216 ATCGTTTTGTAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
66 --CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
30724269 CTAATGTATAACC-TTTGCGGCGTTTTAGACAAAACGCCACTAAAAATACAGCTAAAAACGACGC
1 CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAACGCCACTAAAAATACAGCTAAAAACGACGC
*
30724333 CGTTTTGCAAACTTTTAATACATATTCGCGGC
66 CGTTTTGCAAACTTTTAATACATATTCACGGC
30724365 GTTTGGACCA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
115 70 0.81
116 14 0.16
117 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (116 bp):
CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAACGCCACTAAAAATACAGCTAAAAACGACGC
CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
Found at i:30724422 original size:41 final size:41
Alignment explanation
Indices: 30724360--30724438 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
30724350 ATACATATTC
30724360 GCGGCGTTTGGACCAAAAATGCCACTATTGCTCAACTTTTT
1 GCGGCGTTTGGACCAAAAATGCCACTATTGCTCAACTTTTT
*
30724401 GCGGTGTTTGGACCAAAAATGCCACTATTGCTCAACTT
1 GCGGCGTTTGGACCAAAAATGCCACTATTGCTCAACTT
30724439 AATTAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (41 bp):
GCGGCGTTTGGACCAAAAATGCCACTATTGCTCAACTTTTT
Found at i:30724958 original size:17 final size:17
Alignment explanation
Indices: 30724936--30724970 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30724926 AAATAGGGGC
30724936 ACAATCAGAAATTTTTT
1 ACAATCAGAAATTTTTT
30724953 ACAATCAGAAATTTTTT
1 ACAATCAGAAATTTTTT
30724970 A
1 A
30724971 GGGGCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (17 bp):
ACAATCAGAAATTTTTT
Found at i:30725529 original size:40 final size:41
Alignment explanation
Indices: 30725485--30725575 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 41
30725475 TTTAGACCAA
*
30725485 AAACGGCACTATTGC-TCACCTT-TTGCGGCATTTTTCTCAT
1 AAACGCCACTATTGCTTCA-CTTATTGCGGCATTTTTCTCAT
* *
30725525 AAACGCCACTATTGCTTGATTTATTGCGGCATTTTTCTGC-T
1 AAACGCCACTATTGCTTCACTTATTGCGGCATTTTTCT-CAT
30725566 -AACGCCACTA
1 AAACGCCACTA
30725576 ATGTATAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
40 26 0.58
41 18 0.40
42 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
AAACGCCACTATTGCTTCACTTATTGCGGCATTTTTCTCAT
Found at i:30728414 original size:9 final size:9
Alignment explanation
Indices: 30728400--30728428 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
30728390 TGGCACCTAC
30728400 AGAGTTGAA
1 AGAGTTGAA
30728409 AGAGTTGAA
1 AGAGTTGAA
30728418 AGAGTTGAA
1 AGAGTTGAA
30728427 AG
1 AG
30728429 CACAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (9 bp):
AGAGTTGAA
Found at i:30741659 original size:3 final size:3
Alignment explanation
Indices: 30741651--30741684 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
30741641 TTGGATTGAT
*
30741651 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30741685 GCAATTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:30746709 original size:18 final size:18
Alignment explanation
Indices: 30746688--30746724 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30746678 TTTTTGATAT
*
30746688 ATTTTTAGATTTTTTAAA
1 ATTTATAGATTTTTTAAA
*
30746706 ATTTATAGTTTTTTTAAA
1 ATTTATAGATTTTTTAAA
30746724 A
1 A
30746725 ATACAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTATAGATTTTTTAAA
Found at i:30746772 original size:19 final size:19
Alignment explanation
Indices: 30746741--30746802 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
30746731 ATTTTAAAAT
*
30746741 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
30746759 TTTTAAAAATTATTTTCAAA
1 TTTTAAAAATTATTTT-GAA
* * *
30746779 TTTTGAAATTTACTTTGATA
1 TTTTAAAAATTATTTTGA-A
30746799 TTTT
1 TTTT
30746803 TGCAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 20 0.57
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:30746781 original size:27 final size:28
Alignment explanation
Indices: 30746730--30746790 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
30746720 TAAAAATACA
30746730 AATTTT-AAAATTTTTATAAATATTTTG
1 AATTTTAAAAATTTTTATAAATATTTTG
*
30746757 AATTTTAAAAATTATTT-TCAA-ATTTTG
1 AATTTTAAAAATT-TTTATAAATATTTTG
*
30746784 AAATTTA
1 AATTTTA
30746791 CTTTGATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 18 0.60
28 9 0.30
29 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
AATTTTAAAAATTTTTATAAATATTTTG
Found at i:30747100 original size:28 final size:27
Alignment explanation
Indices: 30747069--30747128 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
30747059 TATTTTTTAA
*
30747069 TTTTTAATTTAAAATATTTTAAAATACT
1 TTTTTAATTTAAAAT-TTTTAAAATAAT
* ***
30747097 TTTTTATTTTTTTATTTTTAAAATAAT
1 TTTTTAATTTAAAATTTTTAAAATAAT
30747124 TTTTT
1 TTTTT
30747129 GGTGTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTAATTTAAAATTTTTAAAATAAT
Found at i:30748522 original size:6 final size:6
Alignment explanation
Indices: 30748511--30748537 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30748501 CATTAGTTAC
30748511 TTCAAA TTCAAA TTCAAA TTCAAA TTC
1 TTCAAA TTCAAA TTCAAA TTCAAA TTC
30748538 GATAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (6 bp):
TTCAAA
Found at i:30749197 original size:50 final size:50
Alignment explanation
Indices: 30749063--30749199 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
30749053 CCATTTGTGC
* * *
30749063 ACAAGCCACCACTGATTTGCAGATAAACTGCCACTAATAACACTTTGAGG
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
* * *
30749113 ACAAGCCACCACTGATATGCAAATGTACTACCACTTATAACACTTTGTA-G
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTG-AGG
* * *
30749163 ACTAGCCACCACTGATATGTAGATATATTGCCACTTA
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTA
30749200 CTTTGACCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 73 0.99
51 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
Found at i:30753733 original size:50 final size:50
Alignment explanation
Indices: 30753679--30753810 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 50
30753669 GGGAAGCTTC
*
30753679 GGAGAGCCATTTATCGGGAAGCTCATTAGAGCCAATTATCGAAAAGCTCT
1 GGAGAGCCATTTATTGGGAAGCTCATTAGAGCCAATTATCGAAAAGCTCT
* * *
30753729 GGAGAGTCATTTATTGTGAAGCTCATTAGAGCCAATTATCGAGAAGCTCT
1 GGAGAGCCATTTATTGGGAAGCTCATTAGAGCCAATTATCGAAAAGCTCT
* * * *
30753779 AGAGAGCCATTAATTGGGAAGCTTATAAGAGC
1 GGAGAGCCATTTATTGGGAAGCTCATTAGAGC
30753811 TATAATTAGG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (50 bp):
GGAGAGCCATTTATTGGGAAGCTCATTAGAGCCAATTATCGAAAAGCTCT
Found at i:30753834 original size:24 final size:24
Alignment explanation
Indices: 30753771--30753828 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
30753761 CAATTATCGA
* *
30753771 GAAGCTC-TAGAGAGCCATTAATTGG
1 GAAGCTCATA-AGAGCTA-TAATTAG
*
30753796 GAAGCTTATAAGAGCTATAATTAG
1 GAAGCTCATAAGAGCTATAATTAG
30753820 GAAGCTCAT
1 GAAGCTCAT
30753829 GGGAGCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 14 0.50
25 12 0.43
26 2 0.07
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (24 bp):
GAAGCTCATAAGAGCTATAATTAG
Found at i:30753873 original size:73 final size:74
Alignment explanation
Indices: 30753746--30753883 Score: 163
Period size: 73 Copynumber: 1.9 Consensus size: 74
30753736 CATTTATTGT
* *** *
30753746 GAAGCTCATTAGAGCCAATTATCGAGAAGCTCTAGAGAGCCATTAATTGGGAAGCTTATAAGAGC
1 GAAGCTCATGAGAGCCAATTATCGAGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAGAGC
30753811 TATAATTAG
66 TATAATTAG
* * * * *
30753820 GAAGCTCATGGGAGCCAA-TATCGGGAAGCT-TCGGAGAGCCATTTATCAAGAAGCTCATTAGAG
1 GAAGCTCATGAGAGCCAATTATCGAGAAGCTCT-AGAGAGCCATTAATCAAGAAGCTCATAAGAG
30753883 C
65 C
30753884 CAATTATCGA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
72 1 0.02
73 36 0.68
74 16 0.30
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (74 bp):
GAAGCTCATGAGAGCCAATTATCGAGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAGAGC
TATAATTAG
Found at i:30753873 original size:123 final size:124
Alignment explanation
Indices: 30753695--30753924 Score: 356
Period size: 123 Copynumber: 1.9 Consensus size: 124
30753685 CCATTTATCG
* * ***
30753695 GGAAGCTCATTAGAGCCAATTATCGAAAAGCTCTGGAGAGTCATTTATTGTGAAGCTCATTAGAG
1 GGAAGCTCATGAGAGCCAATTATCGAAAAGCTCTGGAGAGCCATTTATCAAGAAGCTCATTAGAG
*
30753760 CCAATTATCGAGAAGCTCTAGAGAGCCATTAATTGGGAAGCTTATAAGAGCTATAATTA
66 CCAATTATCGAGAAGCTCTAGAGAGCCATTAATCGGGAAGCTTATAAGAGCTATAATTA
* **
30753819 GGAAGCTCATGGGAGCCAA-TATCGGGAAGCT-TCGGAGAGCCATTTATCAAGAAGCTCATTAGA
1 GGAAGCTCATGAGAGCCAATTATCGAAAAGCTCT-GGAGAGCCATTTATCAAGAAGCTCATTAGA
30753882 GCCAATTATCGAGAAGCTCTAGAGAGCCATTAATCGGGAAGCT
65 GCCAATTATCGAGAAGCTCTAGAGAGCCATTAATCGGGAAGCT
30753925 CATTAGAGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
122 1 0.01
123 78 0.81
124 17 0.18
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (124 bp):
GGAAGCTCATGAGAGCCAATTATCGAAAAGCTCTGGAGAGCCATTTATCAAGAAGCTCATTAGAG
CCAATTATCGAGAAGCTCTAGAGAGCCATTAATCGGGAAGCTTATAAGAGCTATAATTA
Found at i:30753932 original size:25 final size:24
Alignment explanation
Indices: 30753680--30753932 Score: 163
Period size: 25 Copynumber: 10.2 Consensus size: 24
30753670 GGAAGCTTCG
30753680 GAGAGCCATTTATCGGGAAGCTCAT
1 GAGAGCCA-TTATCGGGAAGCTCAT
* **
30753705 TAGAGCCAATTATCGAAAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
* * *
30753729 GGAGAGTCATTTATTGTGAAGCTCAT
1 -GAGAGCCA-TTATCGGGAAGCTCAT
* *
30753755 TAGAGCCAATTATCGAGAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
* *
30753779 AGAGAGCCATTAATTGGGAAGCTTAT
1 -GAGAGCCATT-ATCGGGAAGCTCAT
* * * **
30753805 AAGAGCTATAATTAGGAAGCTCAT
1 GAGAGCCATTATCGGGAAGCTCAT
* * *
30753829 GGGAGCCAATATCGGGAAGCTTC-G
1 GAGAGCCATTATCGGGAAGC-TCAT
**
30753853 GAGAGCCATTTATCAAGAAGCTCAT
1 GAGAGCCA-TTATCGGGAAGCTCAT
* *
30753878 TAGAGCCAATTATCGAGAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
30753902 AGAGAGCCATTAATCGGGAAGCTCAT
1 -GAGAGCCATT-ATCGGGAAGCTCAT
*
30753928 TAGAG
1 GAGAG
30753933 TTGTGGTGTG
Statistics
Matches: 174, Mismatches: 39, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
24 44 0.25
25 124 0.71
26 6 0.03
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (24 bp):
GAGAGCCATTATCGGGAAGCTCAT
Found at i:30760034 original size:83 final size:81
Alignment explanation
Indices: 30759843--30760037 Score: 198
Period size: 82 Copynumber: 2.4 Consensus size: 81
30759833 TAACTTGTGT
**
30759843 CACACGGCCAAGCCACACGCCCGTGTGCTAGGCTGTGTGAATAATTCGAGCATATTGACTTGCAT
1 CACACGGCCAAGCCACACGCCCGTGTGCTACACTGTGTGAATAATTCGAGCATATTGA-TTGCAT
* **
30759908 TAATAAAGTGTAGGGTT
65 TAATAAAGCGTAGGGGA
* * * * * *
30759925 CACATGGCCAAGCCACATGCCTGTGTGCTACACTGTGTGAATAATTTGAGTAT-TCTG-TTTCA-
1 CACACGGCCAAGCCACACGCCCGTGTGCTACACTGTGTGAATAATTCGAGCATAT-TGATTGCAT
*
30759987 AAATTTAAAAGACGTAGGGGA
65 TAA--T-AAAG-CGTAGGGGA
*
30760008 CACACGGCCAAACCACACGCCCGTGTGCTA
1 CACACGGCCAAGCCACACGCCCGTGTGCTA
30760038 GGTCGTTGAA
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
79 2 0.02
80 4 0.04
81 2 0.02
82 52 0.57
83 32 0.35
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (81 bp):
CACACGGCCAAGCCACACGCCCGTGTGCTACACTGTGTGAATAATTCGAGCATATTGATTGCATT
AATAAAGCGTAGGGGA
Found at i:30761005 original size:25 final size:25
Alignment explanation
Indices: 30760977--30761081 Score: 92
Period size: 25 Copynumber: 4.2 Consensus size: 25
30760967 ATATAACGGA
30760977 AAGCTCTTGCA-AGCCAATTATCGAG
1 AAGCTCTTG-AGAGCCAATTATCGAG
* * * *
30761002 AAGCT-TCGAAGAGCCATTTCTCGGG
1 AAGCTCTTG-AGAGCCAATTATCGAG
30761027 AAGCTCATT-AGAGCCAATTATCGAG
1 AAGCTC-TTGAGAGCCAATTATCGAG
* *
30761052 AAGCTCTAGAGAGCC-ATTAATCGGG
1 AAGCTCTTGAGAGCCAATT-ATCGAG
30761077 AAGCT
1 AAGCT
30761082 TATAAGAGCC
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
24 7 0.11
25 56 0.88
27 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (25 bp):
AAGCTCTTGAGAGCCAATTATCGAG
Found at i:30761016 original size:50 final size:49
Alignment explanation
Indices: 30760962--30761092 Score: 133
Period size: 50 Copynumber: 2.6 Consensus size: 49
30760952 AATCTCAAGT
*
30760962 GAGCCATATAACGGAAAGCTC-TT-GCAAGCCAATTATCGAGAAGCTTCGA-A
1 GAGCCAT-TAACGGGAAGCTCATTAG--AGCCAATTATCGAGAAGC-TCGAGA
** *
30761012 GAGCCATTTCTCGGGAAGCTCATTAGAGCCAATTATCGAGAAGCTCTAGA
1 GAGCCA-TTAACGGGAAGCTCATTAGAGCCAATTATCGAGAAGCTCGAGA
* *
30761062 GAGCCATTAATCGGGAAGCTTATAAGAGCCA
1 GAGCCATTAA-CGGGAAGCTCATTAGAGCCA
30761093 TAATTAGGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
49 5 0.07
50 59 0.87
51 3 0.04
52 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (49 bp):
GAGCCATTAACGGGAAGCTCATTAGAGCCAATTATCGAGAAGCTCGAGA
Found at i:30761089 original size:25 final size:24
Alignment explanation
Indices: 30760988--30761093 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 24
30760978 AGCTCTTGCA
**
30760988 AGCCAATTATCGAGAAGCTTCGAAG
1 AGCC-ATTATCGAGAAGCTTATAAG
* * * *
30761013 AGCCATTTCTCGGGAAGCTCATTAG
1 AGCCA-TTATCGAGAAGCTTATAAG
*
30761038 AGCCAATTATCGAGAAGCTCTA-GAG
1 AGCC-ATTATCGAGAAGCT-TATAAG
*
30761063 AGCCATTAATCGGGAAGCTTATAAG
1 AGCCATT-ATCGAGAAGCTTATAAG
30761088 AGCCAT
1 AGCCAT
30761094 AATTAGGTAG
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
24 6 0.09
25 56 0.88
26 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (24 bp):
AGCCATTATCGAGAAGCTTATAAG
Found at i:30761129 original size:24 final size:25
Alignment explanation
Indices: 30761077--30761129 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
30761067 ATTAATCGGG
30761077 AAGCTTATAAGAGCCATAATTAGGT
1 AAGCTTATAAGAGCCATAATTAGGT
**
30761102 -AGCTTATGCGAGCCA-ATATT-GGT
1 AAGCTTATAAGAGCCATA-ATTAGGT
30761125 AAGCT
1 AAGCT
30761130 CCGGAAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (25 bp):
AAGCTTATAAGAGCCATAATTAGGT
Found at i:30761189 original size:25 final size:26
Alignment explanation
Indices: 30761132--30761207 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 26
30761122 GGTAAGCTCC
* *
30761132 GGAAAGCCATTTATCAGGAAGGTCAT
1 GGAAAGCCAATTATCGGGAAGGTCAT
* *
30761158 -TAGAGCCAATTATCGGGAAGGTC-T
1 GGAAAGCCAATTATCGGGAAGGTCAT
*
30761182 GGAAAGCC-ATTAATCGGGAAGCTCAT
1 GGAAAGCCAATT-ATCGGGAAGGTCAT
30761208 TAGAGTCGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
24 4 0.10
25 35 0.88
26 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (26 bp):
GGAAAGCCAATTATCGGGAAGGTCAT
Found at i:30770407 original size:33 final size:33
Alignment explanation
Indices: 30770370--30770453 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
30770360 GTCAAGACAG
*
30770370 TAAACATGAAATAGAGATAGTCCACCGGAACAA
1 TAAACATAAAATAGAGATAGTCCACCGGAACAA
* ** *
30770403 TAAACACAAAATAGAGATAGTCCAGTGGGACAA
1 TAAACATAAAATAGAGATAGTCCACCGGAACAA
* *
30770436 TAAACATAGAATAAAGAT
1 TAAACATAAAATAGAGAT
30770454 GGCCCGTTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.17
Consensus pattern (33 bp):
TAAACATAAAATAGAGATAGTCCACCGGAACAA
Found at i:30785500 original size:15 final size:15
Alignment explanation
Indices: 30785480--30785509 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30785470 TAGATATACC
30785480 ATTCATTCAACAATT
1 ATTCATTCAACAATT
*
30785495 ATTCATTTAACAATT
1 ATTCATTCAACAATT
30785510 CACATTCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTCATTCAACAATT
Found at i:30785580 original size:13 final size:13
Alignment explanation
Indices: 30785562--30785644 Score: 62
Period size: 13 Copynumber: 6.4 Consensus size: 13
30785552 CATATCTATC
*
30785562 CATATAAACATTT
1 CATATAACCATTT
* * *
30785575 CATAT-AGCACTC
1 CATATAACCATTT
**
30785587 CATATAATTATTT
1 CATATAACCATTT
*
30785600 CCATATAATCGA-TT
1 -CATATAA-CCATTT
*
30785614 CATATAGCCATTT
1 CATATAACCATTT
30785627 CATATAACCATTT
1 CATATAACCATTT
30785640 CATAT
1 CATAT
30785645 GGTCATTTAA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
12 11 0.20
13 33 0.61
14 9 0.17
15 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (13 bp):
CATATAACCATTT
Found at i:30787372 original size:13 final size:14
Alignment explanation
Indices: 30787356--30787385 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
30787346 ATGCTTGATG
30787356 TTAATTGAA-GTAA
1 TTAATTGAATGTAA
30787369 TTAATTGAATGTAA
1 TTAATTGAATGTAA
30787383 TTA
1 TTA
30787386 TTTGTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TTAATTGAATGTAA
Found at i:30798368 original size:2 final size:2
Alignment explanation
Indices: 30798357--30798395 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
30798347 ATTTAATTCA
30798357 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30798396 GGAAAACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:30798583 original size:3 final size:3
Alignment explanation
Indices: 30798575--30798617 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
30798565 AGTAAAAAAC
30798575 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30798618 GGTAATATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30800400 original size:50 final size:50
Alignment explanation
Indices: 30800247--30800400 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 50
30800237 TTGGGGAAAC
* * * *
30800247 AAGATTCACCGATGTGGCTTTAATCTGTTCCATTGCACCTCCT-GGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGTATCGCCTGGGGAGT
* * * * * * ** * * *
30800296 AAGATTCGCCGTTATAGTTTTAATCTTTTTAACTGTAAT-GTC-GGTGAAGA
1 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGT-ATCGCCTGG-GGAGT
30800346 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGTATCGCCTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGTATCGCCTGGGGAGT
30800396 AAGAT
1 AAGAT
30800401 CTGTAATTCT
Statistics
Matches: 74, Mismatches: 26, Indels: 9
0.68 0.24 0.08
Matches are distributed among these distances:
49 30 0.41
50 42 0.57
51 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGTATCGCCTGGGGAGT
Found at i:30800868 original size:132 final size:129
Alignment explanation
Indices: 30800703--30801153 Score: 534
Period size: 132 Copynumber: 3.5 Consensus size: 129
30800693 ACTGTAATAT
* * * * *
30800703 CAGGGAAATAGGATAACTGGCTTTAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCTGCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
*
30800768 CTTTAATCTACTCCACTACAGCTTAGGAAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTG
66 C-TTAATCTACTCCACTACA-CTTAGGAAGGTAAGATCT-AAATCTTCAATCTATTCCACTGCTG
30800833 CC
128 CC
* * * **
30800835 CAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAATCACAGGGACGTAAAATCCACCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
* * * *
30800900 CTTCGATCTACTCCACTACTAATTAGGGAGGTAAGATCTAAAATCTTTAATCTATTCCACTGCTG
66 CTT-AATCTACTCCACTAC-ACTTAGGAAGGTAAGATCT-AAATCTTCAATCTATTCCACTGCTG
*
30800965 CT
128 CC
* * * *
30800967 CAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGCGGTAAAATCTGCCAT
1 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
* * ** *
30801032 C--AACCTACTCCACTGCAACCGA-GAGAGGTAAGGTCTATAATCTTCAATCTATTCCACTGCTG
66 CTTAATCTACTCCACTAC-ACTTAGGA-AGGTAAGATCTA-AATCTTCAATCTATTCCACTGCTG
30801094 CC
128 CC
* *
30801096 CAGGG-AGATAGAATTACCGGCTTCAATGTACTCCACTGTAACCTCAGGG-GGTAAAATC
1 CAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
30801154 CGTAATCAAC
Statistics
Matches: 274, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
128 13 0.05
129 91 0.33
131 2 0.01
132 167 0.61
133 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (129 bp):
CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
CTTAATCTACTCCACTACACTTAGGAAGGTAAGATCTAAATCTTCAATCTATTCCACTGCTGCC
Found at i:30800972 original size:44 final size:44
Alignment explanation
Indices: 30800747--30801102 Score: 138
Period size: 44 Copynumber: 8.2 Consensus size: 44
30800737 GCTGTAACCA
* * * * * *
30800747 CAGGGAGGTAAAATCTGCCATCTTTAATCTACTCCACTACAGCT
1 CAGGGAGGTAAGATCTACAATCTTCAATCTACTCCACTGCTGCT
* * * * *
30800791 TAGGAAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCC
1 CAGGGAGGTAAGATCT-ACAATCTTCAATCTACTCCACTGCTGCT
* * * * * *
30800835 CAGGGAAGT-AGAAT-TACTAGCTTCAATGTACTCCACTG-TAATCA
1 CAGGGAGGTAAG-ATCTACAATCTTCAATCTACTCCACTGCT--GCT
* * * * * * **
30800879 CAGGGACGTAAAATCCACCATCTTCGATCTACTCCACTACTAAT
1 CAGGGAGGTAAGATCTACAATCTTCAATCTACTCCACTGCTGCT
* * * *
30800923 TAGGGAGGTAAGATCTAAAATCTTTAATCTATTCCACTGCTGCT
1 CAGGGAGGTAAGATCTACAATCTTCAATCTACTCCACTGCTGCT
* * *** * * *
30800967 CAGGGAAGTAAAAT-TACTGGCTTCAATGTACTCCACT-ATAACCT
1 CAGGGAGGTAAGATCTACAATCTTCAATCTACTCCACTGCT--GCT
* * * * * **
30801011 CAGGGCGGTAAAATCTGC---CATCAACCTACTCCACTGCAAC-
1 CAGGGAGGTAAGATCTACAATCTTCAATCTACTCCACTGCTGCT
* * * * *
30801051 CGAGAGAGGTAAGGTCTATAATCTTCAATCTATTCCACTGCTGCC
1 C-AGGGAGGTAAGATCTACAATCTTCAATCTACTCCACTGCTGCT
30801096 CAGGGAG
1 CAGGGAG
30801103 ATAGAATTAC
Statistics
Matches: 218, Mismatches: 77, Indels: 34
0.66 0.23 0.10
Matches are distributed among these distances:
40 1 0.00
41 12 0.06
42 17 0.08
43 36 0.17
44 129 0.59
45 22 0.10
46 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
CAGGGAGGTAAGATCTACAATCTTCAATCTACTCCACTGCTGCT
Done.