Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 12 of 131
Found at i:3874746 original size:56 final size:53
Alignment explanation
Indices: 3874513--3874957 Score: 225
Period size: 50 Copynumber: 8.7 Consensus size: 53
3874503 ATAATAACAG
* * * ** * *
3874513 GCCAAAGCCATGTCCCAAACATGGTCTTACATGGGA--TGT--TTCCTGTACT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCAACCTATAAT
* * * ** **
3874562 GCCAATTCCATATCCCAGATATGGTCTTACATGGGAGTTCT-C-A--TATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCAACCTAT-AAT
* * * * **
3874612 GCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCT--TATCT-CGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCAACCTATAAT
* * *
3874661 GCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCACAACCTTAATAAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-CAACC-T-ATAAT
* * ** * *
3874717 GCCAATGCCATGTCCCAGACATGGCCTTACATGGGA--TGT--TTCCTGTACT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCAACCTATAAT
* * * ** **
3874766 GCCAATTCCATATCCCAGATATGGTCTTACATGGGAGTTCT-C-A--TATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCAACCTAT-AAT
* * ** * * ***
3874816 GCCCATGCCATGTCCCAGACATTGTCTTACGGGGGACCTCT--TATCT-CGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCAACCTATAAT
* *
3874866 GCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCACAACCTTAATAAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-CAACC-T-ATAAT
*
3874922 GCCAATGCCATGTCCAAGACATGGTCTTACATGGGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
3874958 TCTTATTCCC
Statistics
Matches: 302, Mismatches: 67, Indels: 47
0.73 0.16 0.11
Matches are distributed among these distances:
49 107 0.35
50 111 0.37
51 7 0.02
52 1 0.00
53 4 0.01
54 4 0.01
56 68 0.23
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (53 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCAACCTATAAT
Found at i:3874902 original size:50 final size:50
Alignment explanation
Indices: 3874561--3874908 Score: 276
Period size: 50 Copynumber: 6.9 Consensus size: 50
3874551 TTTCCTGTAC
* * * **
3874561 TGCCAAT-TCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGT-CATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
* * * * *
3874611 TGCCCATGCCATGTCCCAGACATGGTCTTACG-GGGACCTCTTATCTCGA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
* **
3874660 TGCCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCACAACCTTAAT-AA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCT--C-A---T-ATCGG
* * * ** * * *
3874716 TGCCAATGCCATGTCCCAGACATGGCCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAT-CGG
* * * **
3874765 TGCCAAT-TCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGT-CATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
* * * * * *
3874815 TGCCCATGCCATGTCCCAGACATTGTCTTACGGGGGACCTCTTATCTCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
3874865 TGCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCA
3874909 CAACCTTAAT
Statistics
Matches: 233, Mismatches: 50, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
48 1 0.00
49 79 0.34
50 113 0.48
53 1 0.00
54 1 0.00
56 37 0.16
57 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
Found at i:3889061 original size:44 final size:43
Alignment explanation
Indices: 3889011--3889280 Score: 193
Period size: 44 Copynumber: 6.0 Consensus size: 43
3889001 CGGTTTTAGT
*
3889011 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAAC
* ** *
3889055 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATAAGATC
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GATTG-TATCTTCA-A-C
* * * * * * * *
3889102 TAATTCGACCTACTGCAATTTCAGAGG-TATAAGATT-CATCGTTTTAAT
1 --CTGC-TCC-ACTGCAACTTCAG-GGAGATAAGATTGTATC--TTCAAC
* * *
3889150 CTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTCAAC
* * **
3889194 CTGCTCCATTGCAACTTTAAAGAGATAAGATTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTCAAC
* *
3889238 CTGCTCCACTGCAACTTCAGTGAGATAAGACTTGTAGCTTCAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAA
3889281 ATTGTTTTAC
Statistics
Matches: 173, Mismatches: 38, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 125 0.72
45 10 0.06
46 5 0.03
47 1 0.01
48 2 0.01
49 3 0.02
50 7 0.04
51 16 0.09
52 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAAC
Found at i:3889377 original size:129 final size:128
Alignment explanation
Indices: 3889240--3889658 Score: 367
Period size: 129 Copynumber: 3.2 Consensus size: 128
3889230 TCTTCAACCT
**** * * *
3889240 GCTCCACTGCAACTTCAGTGAGATAAGACTT-GTAGCTTCAAAT-TGTTTTACTGTATCTTTAAG
1 GCTCCACTGCAACTTCAG-GAGATAAGA-TTGGTAGCTTC-AATCTGCACCACTGCAACTTCAAG
* * * *
3889303 AAAATAAAATCTGG-TGCGGTTTGCTCTACTGCAACTTTAGAGAGATAAGATCCATCATTTTAAT
63 AAAATAAAA-CTGGATGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAAT
3889367 CC
127 CC
* * ** * * *
3889369 GCTTCACTGCAACTTCAGGAAGATAGGATTGGTTTCTTCAATCTGCACCGCTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGG-AGATAAGATTGGTAGCTTCAATCTGCACCACTGCAACTTCAAGAA
* * **
3889434 GATAAAACTGGATGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCC
65 AATAAAACTGGATGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCC
* ** ** * * * * *
3889498 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCATTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCA-GGAGATAAGATTGGTAGCTTCAATCTGCACCACTGCAACTTCAAGAA
* * ** ** **
3889563 GATAAGACTGGATGCGATCTGCGCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
65 AATAAAACTGGATGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCC
* * *
3889627 GCTCCACTTCAACTTTAGGGAGATAGGATTGG
1 GCTCCACTGCAACTTCA-GGAGATAAGATTGG
3889659 CTTCTTTGAT
Statistics
Matches: 248, Mismatches: 37, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
128 10 0.04
129 236 0.95
130 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (128 bp):
GCTCCACTGCAACTTCAGGAGATAAGATTGGTAGCTTCAATCTGCACCACTGCAACTTCAAGAAA
ATAAAACTGGATGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCC
Found at i:3889547 original size:44 final size:44
Alignment explanation
Indices: 3889373--3889569 Score: 145
Period size: 44 Copynumber: 4.5 Consensus size: 44
3889363 TAATCCGCTT
* * * * *
3889373 CACTGCAACTTCAGGAAGATAGGATTGGTTTCTTCAATCTGCAC
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCTACTC
* * * * * *
3889417 CGCTGCAACTTCAGGGAGATAAAACTGG---ATGCGATCTGA-TC
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCT-ACTC
* * * * **
3889458 TACTGCAACTTCAGAGAGATAAGATCT-ATTT-TTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGAT-TGGTTTCTTCT-ATCTACTC
* *
3889502 CACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCTACTC
*
3889546 CATTGCAACTTCAGGGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGA
3889570 CTGGATGCGA
Statistics
Matches: 113, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
41 27 0.24
42 1 0.01
43 2 0.02
44 80 0.71
45 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTATCTACTC
Found at i:3889664 original size:129 final size:129
Alignment explanation
Indices: 3889328--3889664 Score: 485
Period size: 129 Copynumber: 2.6 Consensus size: 129
3889318 GCGGTTTGCT
* * * *
3889328 CTACTGCAACTTTAGAGAGATAAGATCCATCATTTTAATCCGCTTCACTGCAACTTCAGGAAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * *
3889393 AGGATTGGTTTCTTCAATCTGCACCGCTGCAACTTCAGGGAGATAAAACTGGATGCGATCTGAT
66 AGGATTGGTTTCTTCAATCTACACCACTGCAACTTCAGGGAGATAAAACTGGATGCGATCTGAG
**
3889457 CTACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
** * * * *
3889522 AGGATTGGTTTCTTCTGTCTACTCCATTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCG
66 AGGATTGGTTTCTTCAATCTACACCACTGCAACTTCAGGGAGATAAAACTGGATGCGATCTGAG
* ** * *
3889586 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTTCAACTTTAGGGAGAT
1 CTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
3889651 AGGATTGGCTTCTT
66 AGGATTGGTTTCTT
3889665 TGATCTGCTT
Statistics
Matches: 187, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 187 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
CTACTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
AGGATTGGTTTCTTCAATCTACACCACTGCAACTTCAGGGAGATAAAACTGGATGCGATCTGAG
Found at i:3889734 original size:45 final size:45
Alignment explanation
Indices: 3889668--3889920 Score: 314
Period size: 45 Copynumber: 5.7 Consensus size: 45
3889658 GCTTCTTTGA
* *
3889668 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* ** * * *
3889713 TATGCTTCATTGTCAGTACAGGAAGGCAAG-GCCGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* *
3889756 ATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGGTATATTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* * * * *
3889802 TCTGCTCCGCTGTCAGTATAGGAAGGTAAG-GCTGGTATCTTCAA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
* *
3889846 TCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
*
3889891 TCTGCTCCGCTGTCAGTACAGGAAGGCAAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG
3889921 GCTGGTGTCT
Statistics
Matches: 174, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 72 0.41
45 100 0.57
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGGTATCTTCAG
Found at i:3889817 original size:89 final size:89
Alignment explanation
Indices: 3889661--3889930 Score: 405
Period size: 89 Copynumber: 3.0 Consensus size: 89
3889651 AGGATTGGCT
* * * * **
3889661 TCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCATTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
3889726 CAGTACAGGAAGGCAAGGCCGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* * *
3889750 TCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGGTATATTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* * *
3889815 CAGTATAGGAAGGTAAGGCTGGTA
66 CAGTACAGGAAGGCAAGGCTGGTG
* *
3889839 TCTTCAATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
3889904 CAGTACAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
3889928 TCT
1 TCT
3889931 ATTTTTATGC
Statistics
Matches: 160, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 160 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTG
Found at i:3890802 original size:19 final size:20
Alignment explanation
Indices: 3890766--3890804 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
3890756 TAATTTAGCC
* *
3890766 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTGTTAATTTAAT
3890786 ATTTTT-TTGTTAATTTAAT
1 ATTTTTATTGTTAATTTAAT
3890805 TTTATATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTTTATTGTTAATTTAAT
Found at i:3901253 original size:19 final size:20
Alignment explanation
Indices: 3901217--3901255 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
3901207 TAATTTAGCC
* *
3901217 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTGTTAATTTAAT
3901237 ATTTTT-TTGTTAATTTAAT
1 ATTTTTATTGTTAATTTAAT
3901256 TTTATATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTTTATTGTTAATTTAAT
Found at i:3905309 original size:27 final size:27
Alignment explanation
Indices: 3905278--3905369 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
3905268 CATCCTATTA
* *
3905278 GCCTTTATGGCATACTTTGAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
***
3905305 GCCTTTGTGGCGTACTCAAAAAGGAAT
1 GCCTTTGTGGCGTACTTTGAAAGGAAT
*
3905332 GCGTTT-TAGGCGTACTTTGAAAGGAAT
1 GCCTTTGT-GGCGTACTTTGAAAGGAAT
3905359 GCCTTTGTGGC
1 GCCTTTGTGGC
3905370 TTATCCTGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (27 bp):
GCCTTTGTGGCGTACTTTGAAAGGAAT
Found at i:3910350 original size:29 final size:30
Alignment explanation
Indices: 3910295--3910378 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 30
3910285 AAGGTTTAGC
* *
3910295 CTTATAAAATAATCAAATGAAGATTAA-AT
1 CTTATAAAATAATTAAATAAAGATTAATAT
*
3910324 CTTATAAAATAATTAAATAATAG-TTAATTT
1 CTTATAAAATAATTAAATAA-AGATTAATAT
*
3910354 CTTTTAAAAT-ATTAAAATAAAGATT
1 CTTATAAAATAATT-AAATAAAGATT
3910379 TCTCAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 27 0.57
30 20 0.43
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (30 bp):
CTTATAAAATAATTAAATAAAGATTAATAT
Found at i:3913380 original size:28 final size:28
Alignment explanation
Indices: 3913340--3913396 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
3913330 ACTAATCATC
*
3913340 ACTCTTAATTTTCTCTAATTATAGTTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
3913368 ACTCTTAATTTTCTCTAATTATAGCTGG
1 ACTCTTAATTTTCTCTAATTATAGCTGG
3913396 A
1 A
3913397 AAAATGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
ACTCTTAATTTTCTCTAATTATAGCTGG
Found at i:3914525 original size:93 final size:93
Alignment explanation
Indices: 3914400--3914586 Score: 367
Period size: 92 Copynumber: 2.0 Consensus size: 93
3914390 ATATTAAATA
3914400 ATTTTATCCATATTTTAATTAAGATATATTTTTTAGGCATTGAAGTTTCAACACTAATATAAACT
1 ATTTTATCCATATTTTAATTAAGATATATTTTTTAGGCATTGAAGTTTCAACACTAATATAAACT
3914465 TTTATACATACAAGCAACCATCATAATT
66 TTTATACATACAAGCAACCATCATAATT
3914493 ATTTTATCCATA-TTTAATTAAGATATATTTTTTAGGCATTGAAGTTTCAACACTAATATAAACT
1 ATTTTATCCATATTTTAATTAAGATATATTTTTTAGGCATTGAAGTTTCAACACTAATATAAACT
3914557 TTTATACATACAAGCAACCATCATAATT
66 TTTATACATACAAGCAACCATCATAATT
3914585 AT
1 AT
3914587 AATATTTATA
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 82 0.87
93 12 0.13
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (93 bp):
ATTTTATCCATATTTTAATTAAGATATATTTTTTAGGCATTGAAGTTTCAACACTAATATAAACT
TTTATACATACAAGCAACCATCATAATT
Found at i:3915794 original size:24 final size:24
Alignment explanation
Indices: 3915767--3915813 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3915757 AAATCAATTA
*
3915767 TATGCA-AAACAATTTTAGAAATAC
1 TATGCATAAAAAATTTTA-AAATAC
*
3915791 TATGTATAAAAAATTTTAAAATA
1 TATGCATAAAAAATTTTAAAATA
3915814 AATAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TATGCATAAAAAATTTTAAAATAC
Found at i:3917714 original size:44 final size:44
Alignment explanation
Indices: 3917651--3917921 Score: 235
Period size: 44 Copynumber: 6.0 Consensus size: 44
3917641 CAGTTTTAGT
*
3917651 CTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* *
3917695 CTGCTCCACAGCAACTTCAGGGAGATAAGGCTTGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
* * * * * * *
3917739 CTGCTTCACTGTAACTTTAGGGAGAAAATG-TTTGATATGATAAGATCTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GACTTG-TAT-CT----TC-AAC
* * * * * *
3917790 TTGAC-CTACTGCAACTTCAGGGAGATAGGA-TAAGTAGCTTCAAT
1 CTG-CTCCACTGCAACTTCAGGGAGATAAGACT-TGTATCTTCAAC
* *
3917834 CTGCTCCATTGCAACTTCAGAGAGATAAGA-TTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAAC
* *
3917878 CTGCTCCACTGCAACTTCAGTGAGATAAGACTTGTAGCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
3917922 TTGTTTTACT
Statistics
Matches: 181, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 141 0.78
45 8 0.04
46 1 0.01
49 1 0.01
50 6 0.03
51 22 0.12
52 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAAC
Found at i:3918152 original size:44 final size:44
Alignment explanation
Indices: 3917797--3918246 Score: 179
Period size: 44 Copynumber: 10.5 Consensus size: 44
3917787 AATTTGACCT
* * * * *
3917797 ACTGCAACTTCAGGGAGATAGGAT-AAGTAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTA-TGGTTTCAATCTGCTCC
* *
3917841 ATTGCAACTTCAGAGAGATAAGA--T-TGGTATCTTCAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATGG--T-TTCAATCTGCTCC
* * * **
3917885 ACTGCAACTTCAGTGAGATAAGA-CT-TGTAGCTTCAA-CTTGTTTT
1 ACTGCAACTTCAGAGAGATAAGATCTATG--GTTTCAATC-TGCTCC
* * * * * * ** *
3917929 ACTGTATCTTTA-AGAAAATAAAATC--TGG-TGCGGTCTGCTCT
1 ACTGCAACTTCAGAG-AGATAAGATCTATGGTTTCAATCTGCTCC
* * ** * * *
3917970 ACTGCAACTTTAGAGAGATAAGATCCATCATTTTAATCCGCTTC
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
*
3918014 ACTGCAACTTCAG-GAAGATAGGA--T-TGGTTTCTTCAATCTGCTCC
1 ACTGCAACTTCAGAG-AGATAAGATCTATGG--T-TTCAATCTGCTCC
* * * * * * * *
3918058 GCTACAACTTCAGGGAGATAAGA-C--TGGATGCGATCTTCTCT
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
** *
3918099 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
* * * * * *
3918143 ACTGCAACTTCAGGGA-ATAA-AAC--TGGATGCGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
* *
3918183 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
* * *
3918227 ACTACAACTTTAGGGAGATA
1 ACTGCAACTTCAGAGAGATA
3918247 GAATTGGCTT
Statistics
Matches: 295, Mismatches: 84, Indels: 54
0.68 0.19 0.12
Matches are distributed among these distances:
40 25 0.08
41 60 0.20
42 9 0.03
43 9 0.03
44 186 0.63
45 5 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTATGGTTTCAATCTGCTCC
Found at i:3918187 original size:40 final size:41
Alignment explanation
Indices: 3918062--3918203 Score: 142
Period size: 40 Copynumber: 3.4 Consensus size: 41
3918052 TGCTCCGCTA
* *
3918062 CAACTTCAGGGAGATAAGACTGGATGCGATCTTCTCTACTG
1 CAACTTCAGGGAGATAAAACTGGATGCGATCTGCTCTACTG
* * *** *** *
3918103 CAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAA-AAC--TGGATGCGATCTGCTCTACTG
3918147 CAACTTCAGGGA-ATAAAACTGGATGCGATCTGCTCTACTG
1 CAACTTCAGGGAGATAAAACTGGATGCGATCTGCTCTACTG
*
3918187 CAACTTCAGAGAGATAA
1 CAACTTCAGGGAGATAA
3918204 GATCTATGGT
Statistics
Matches: 76, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
40 25 0.33
41 20 0.26
42 3 0.04
43 4 0.05
44 24 0.32
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
CAACTTCAGGGAGATAAAACTGGATGCGATCTGCTCTACTG
Found at i:3918196 original size:84 final size:85
Alignment explanation
Indices: 3918014--3918246 Score: 319
Period size: 84 Copynumber: 2.8 Consensus size: 85
3918004 AATCCGCTTC
* * * * *
3918014 ACTGCAACTTCAG-GAAGATAGGAT-TGGTTTCTTCAATCTGCTCCGCTACAACTTCAGGGAGAT
1 ACTGCAACTTCAGAG-AGATAAGATCT-ATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGAT
* *
3918077 AAGACTGGATGCGATCTTCTCT
64 AAAACTGGATGCGATCTGCTCT
*
3918099 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTGCAACTTCAGGGA-ATAA
1 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
3918163 AACTGGATGCGATCTGCTCT
66 AACTGGATGCGATCTGCTCT
** * *
3918183 ACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTACAACTTTAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGATA
3918247 GAATTGGCTT
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
84 77 0.58
85 53 0.40
86 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAGAGAGATAAGATCTATTTTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
AACTGGATGCGATCTGCTCT
Found at i:3918412 original size:89 final size:89
Alignment explanation
Indices: 3918256--3918662 Score: 607
Period size: 89 Copynumber: 4.6 Consensus size: 89
3918246 AGAATTGGCT
* * * * *
3918256 TCTTTGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATCCGCTATCTTCAGTATGCTTCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
3918321 CAGTACAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* *
3918345 TCTTCGATCTGCTTCGCTGTCAGTATAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* *
3918410 CAGTACAAGAAGGCAAGGCTGGTA
66 CAGTACAGGAAGGCAAGGCTGGTG
*
3918434 TCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
* * *
3918499 TAATACAGGAAGGCAAGGCTTGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* ** * * * *
3918523 TCTTCGATCTGCTTCGCTATTTGTACAGGAAAGCAAGATCTGCTATTTTCAGTCTGCTTCGCTAT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
*
3918588 TAGTACAGGAAGGCAAGGCTGGTG
66 CAGTACAGGAAGGCAAGGCTGGTG
* *
3918612 TCTTTGATCTACTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
3918663 CTGATCTATT
Statistics
Matches: 284, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 284 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTG
Found at i:3918964 original size:24 final size:24
Alignment explanation
Indices: 3918937--3918992 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
3918927 GATTGCCCCT
3918937 ACTGTAATCTTCAAAGTTCAATCC
1 ACTGTAATCTTCAAAGTTCAATCC
* *
3918961 ACTGTAATCTTCAAGGTTCAGTCC
1 ACTGTAATCTTCAAAGTTCAATCC
3918985 ACTGTAAT
1 ACTGTAAT
3918993 TTTGGTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTTCAATCC
Found at i:3929673 original size:48 final size:47
Alignment explanation
Indices: 3929610--3929804 Score: 196
Period size: 48 Copynumber: 4.1 Consensus size: 47
3929600 CTACTATGCG
* * *
3929610 CACCGATATTATGTTATGACACAAGGGTGGCACAGACTATGTGCAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCAC-GACTATGTGTAGGC
* * * *
3929658 CACCGATATTCTGTTATAATACAAGGGTGGCACGGACTGTGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCAC-GACTATGTGTAGGC
* * * *
3929706 CACCAATAACCTGTTAAGATACAAGGGTGGCACGAACTATGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGTGGCACG-ACTATGTGTAGGC
* * *
3929754 CACCGAGAATCTGTTATTACACAAAGGTGGTGCA-GAC-AGTGTGTAGGC
1 CACCGATAATCTGTTATGACACAAGGGT-G-GCACGACTA-TGTGTAGGC
3929802 CAC
1 CAC
3929805 TGAGAAATCT
Statistics
Matches: 124, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
47 2 0.02
48 117 0.94
49 2 0.02
50 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (47 bp):
CACCGATAATCTGTTATGACACAAGGGTGGCACGACTATGTGTAGGC
Found at i:3929796 original size:96 final size:96
Alignment explanation
Indices: 3929621--3929804 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
3929611 ACCGATATTA
* * * * *
3929621 TGTTATGACACAAGGGTGGCACAGACTATGTGCAGGCCACCGATATTCTGTTATAATACAAGGGT
1 TGTTAAGACACAAGGGTGGCACAGACTATGTGCAGGCCACCGAGAATCTGTTATAACACAAAGGT
* *
3929686 GGCACGGACTGTGTGTAGGCCACCAATAACC
66 GGCACAGACAGTGTGTAGGCCACCAATAACC
* * *
3929717 TGTTAAGATACAAGGGTGGCAC-GAACTATGTGTAGGCCACCGAGAATCTGTTATTACACAAAGG
1 TGTTAAGACACAAGGGTGGCACAG-ACTATGTGCAGGCCACCGAGAATCTGTTATAACACAAAGG
**
3929781 TGGTGCAGACAGTGTGTAGGCCAC
65 TGGCACAGACAGTGTGTAGGCCAC
3929805 TGAGAAATCT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
TGTTAAGACACAAGGGTGGCACAGACTATGTGCAGGCCACCGAGAATCTGTTATAACACAAAGGT
GGCACAGACAGTGTGTAGGCCACCAATAACC
Found at i:3935046 original size:48 final size:48
Alignment explanation
Indices: 3934992--3935175 Score: 242
Period size: 48 Copynumber: 3.8 Consensus size: 48
3934982 GCAGCGATAT
* *
3934992 TCTGTTATGACATAAGGGTGGCACGGACTGTGTGCAGTCCACCAATAA
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
*
3935040 TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
* * * * * * * *
3935088 CCTGTTAAGATACAAGGGTGGTACGAACTATGTGCAGGCCACCGAGAA
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
* * *
3935136 TCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGGCC
1 TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
3935176 GCCGAGAAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
TCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATAA
Found at i:3940688 original size:22 final size:22
Alignment explanation
Indices: 3940614--3940694 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 22
3940604 AAATAAAATG
* *
3940614 GTTTTCCCTGTAAAAAAC-CAA
1 GTTTTTCCTGTAAAAATCTCAA
3940635 GTTTTTCCTGTAAAAATCT-AA
1 GTTTTTCCTGTAAAAATCTCAA
3940656 GTTATTTCCTGT-AAAATCTCAA
1 GTT-TTTCCTGTAAAAATCTCAA
* *
3940678 CTTTTTCCCTGAAAAAA
1 GTTTTT-CCTGTAAAAA
3940695 ATAAAATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
21 31 0.61
22 16 0.31
23 4 0.08
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (22 bp):
GTTTTTCCTGTAAAAATCTCAA
Found at i:3943912 original size:88 final size:89
Alignment explanation
Indices: 3943810--3943986 Score: 347
Period size: 88 Copynumber: 2.0 Consensus size: 89
3943800 TGAAATTGTA
3943810 CTTTGGCCTCCAAAATGATAAAAATTTGATTTAATCCTTTAAAAATTATAAAACTATAGGCTATT
1 CTTTGGCCTCCAAAATGATAAAAATTTGATTTAATCCTTTAAAAATTATAAAACTATAGGCTATT
3943875 AAAATGACATAATTGCATTTTTAT
66 AAAATGACATAATTGCATTTTTAT
3943899 CTTTGGCCT-CAAAATGATAAAAATTTGATTTAATCCTTTAAAAATTATAAAACTATAGGCTATT
1 CTTTGGCCTCCAAAATGATAAAAATTTGATTTAATCCTTTAAAAATTATAAAACTATAGGCTATT
3943963 AAAATGACATAATTGCATTTTTAT
66 AAAATGACATAATTGCATTTTTAT
3943987 ATCATAAAAA
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 79 0.90
89 9 0.10
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (89 bp):
CTTTGGCCTCCAAAATGATAAAAATTTGATTTAATCCTTTAAAAATTATAAAACTATAGGCTATT
AAAATGACATAATTGCATTTTTAT
Found at i:3949707 original size:20 final size:21
Alignment explanation
Indices: 3949676--3949714 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3949666 AAGTAAGGTT
*
3949676 AAATATCAATTTAACCACTAA
1 AAATATCAATTTAAACACTAA
3949697 AAATA-CAATTTAAACACT
1 AAATATCAATTTAAACACT
3949715 CAAGTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATCAATTTAAACACTAA
Found at i:3951942 original size:27 final size:27
Alignment explanation
Indices: 3951904--3952016 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
3951894 GGTCACCGAG
* *
3951904 ACCCCTGATTTGTGAAATTA-TCGAAAT
1 ACCCCCGATTTGTAAAATTACT-GAAAT
3951931 ACCCCCGATTTGTAAAATTACTGAAAT
1 ACCCCCGATTTGTAAAATTACTGAAAT
* * *
3951958 A-CCTCTAGTTTGTAAAATTA-TCGAAAC
1 ACCCCCGA-TTTGTAAAATTACT-GAAAT
* * *
3951985 ACCCTCAATTTGTGAAATTACTGAAAT
1 ACCCCCGATTTGTAAAATTACTGAAAT
3952012 ACCCC
1 ACCCC
3952017 TTTAGGGTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.07
27 60 0.83
28 7 0.10
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (27 bp):
ACCCCCGATTTGTAAAATTACTGAAAT
Found at i:3951996 original size:54 final size:54
Alignment explanation
Indices: 3951912--3952014 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
3951902 AGACCCCTGA
* * *
3951912 TTTGTGAAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATACCTCTAG
1 TTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTACTGAAATACCTCTAG
* *
3951966 TTTGTAAAATTATCGAAACACCCTCAATTTGTGAAATTACTGAAATACC
1 TTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTACTGAAATACC
3952015 CCTTTAGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTACTGAAATACCTCTAG
Found at i:3952031 original size:27 final size:27
Alignment explanation
Indices: 3952001--3952053 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
3951991 AATTTGTGAA
*
3952001 ATTACTGAAATACCCCTT-TAGGGTAAG
1 ATTACCGAAATA-CCCTTATAGGGTAAG
3952028 ATTACCGAAATACCCTTATAGGGTAA
1 ATTACCGAAATACCCTTATAGGGTAA
3952054 AATGACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
ATTACCGAAATACCCTTATAGGGTAAG
Found at i:3952037 original size:54 final size:53
Alignment explanation
Indices: 3951918--3952043 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 53
3951908 CTGATTTGTG
* * *
3951918 AAATTATCGAAATACCCCCGATTTGTAAAATTACTGAAATACCTCTAGTTTGTA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACTGAAATACCTCTAG-TGGTA
* * *
3951972 AAATTATCGAAACACCCTCAATTTGTGAAATTACTGAAATACCCCTTTAG-GGTA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACTGAAATA--CCTCTAGTGGTA
* *
3952026 AGATTACCGAAATACCCT
1 AAATTATCGAAATACCCT
3952044 TATAGGGTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
54 55 0.90
56 6 0.10
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (53 bp):
AAATTATCGAAATACCCTCAATTTGTAAAATTACTGAAATACCTCTAGTGGTA
Found at i:3952477 original size:28 final size:28
Alignment explanation
Indices: 3952445--3952517 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
3952435 CTACATACTG
*
3952445 TTTCTATATTGGGCTAAGGCCCACCTTA
1 TTTCTGTATTGGGCTAAGGCCCACCTTA
* *
3952473 TTTCTGTATTGGGCTAAGGCCCATCTTG
1 TTTCTGTATTGGGCTAAGGCCCACCTTA
*
3952501 TTTCTGTATCGGGCTAA
1 TTTCTGTATTGGGCTAA
3952518 AGCCTACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (28 bp):
TTTCTGTATTGGGCTAAGGCCCACCTTA
Found at i:3952529 original size:28 final size:27
Alignment explanation
Indices: 3952443--3952534 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 27
3952433 TACTACATAC
*
3952443 TGTTTCTATATTGGGCTAAGGCCCACCT
1 TGTTTCTGTATTGGGCTAAGGCCCA-CT
*
3952471 TATTTCTGTATTGGGCTAAGGCCCATCT
1 TGTTTCTGTATTGGGCTAAGGCCCA-CT
* * *
3952499 TGTTTCTGTATCGGGCTAAAGCCTACAT
1 TGTTTCTGTATTGGGCTAAGGCCCAC-T
3952527 TG-TTCTGT
1 TGTTTCTGT
3952535 TCTGTTACTG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
27 7 0.12
28 49 0.88
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
TGTTTCTGTATTGGGCTAAGGCCCACT
Found at i:3967341 original size:19 final size:20
Alignment explanation
Indices: 3967299--3967341 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
3967289 TCATGCTTTC
*
3967299 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
3967319 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
3967337 TATTC
1 TATTC
3967342 CAGTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:3969679 original size:21 final size:21
Alignment explanation
Indices: 3969655--3969694 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3969645 TTAGAAATGG
*
3969655 ATATTTTTCTGATTTTTTTAT
1 ATATTTTTCTAATTTTTTTAT
3969676 ATATTTTTCTAATTTTTTT
1 ATATTTTTCTAATTTTTTT
3969695 TATCTCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (21 bp):
ATATTTTTCTAATTTTTTTAT
Found at i:3983182 original size:27 final size:28
Alignment explanation
Indices: 3983152--3983234 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 28
3983142 ACTAATGCGA
* * *
3983152 TCCATTTAGGGTTTGCCAGAAAGGC-AT
1 TCCATTCAGAGTTTGCCACAAAGGCTAT
3983179 TCCATTCAGAGTTTGCCACAAAGGCTAT
1 TCCATTCAGAGTTTGCCACAAAGGCTAT
* * *
3983207 T-CTTTCAGAGTTCG-CACAAAAGCTAT
1 TCCATTCAGAGTTTGCCACAAAGGCTAT
3983233 TC
1 TC
3983235 TTAGCTGTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.25
27 33 0.69
28 3 0.06
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (28 bp):
TCCATTCAGAGTTTGCCACAAAGGCTAT
Found at i:3983231 original size:26 final size:27
Alignment explanation
Indices: 3983183--3983236 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
3983173 AGGCATTCCA
* *
3983183 TTCAGAGTTTGCCACAAAGGCTATTCT
1 TTCAGAGTTCGCCACAAAAGCTATTCT
3983210 TTCAGAGTTCG-CACAAAAGCTATTCT
1 TTCAGAGTTCGCCACAAAAGCTATTCT
3983236 T
1 T
3983237 AGCTGTCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (27 bp):
TTCAGAGTTCGCCACAAAAGCTATTCT
Found at i:3988131 original size:11 final size:11
Alignment explanation
Indices: 3988115--3988147 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
3988105 TACACATCAA
3988115 TCATAACATTT
1 TCATAACATTT
3988126 TCATAACATTT
1 TCATAACATTT
3988137 TCATAACATTT
1 TCATAACATTT
3988148 AGAATAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (11 bp):
TCATAACATTT
Found at i:4011649 original size:34 final size:35
Alignment explanation
Indices: 4011593--4011669 Score: 138
Period size: 34 Copynumber: 2.2 Consensus size: 35
4011583 TATTATAAAT
4011593 AAACAAAACATTATGATTAATAAGAGATAAACAAA
1 AAACAAAACATTATGATTAATAAGAGATAAACAAA
4011628 AAACAAAACATT-TGATTAATAAGAGATAAACAAA
1 AAACAAAACATTATGATTAATAAGAGATAAACAAA
*
4011662 AAATAAAA
1 AAACAAAA
4011670 AAACAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 29 0.71
35 12 0.29
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (35 bp):
AAACAAAACATTATGATTAATAAGAGATAAACAAA
Found at i:4013205 original size:44 final size:43
Alignment explanation
Indices: 4013009--4013198 Score: 143
Period size: 44 Copynumber: 4.4 Consensus size: 43
4012999 ATGCGATCTA
* ** *
4013009 CTCTACTGCAACTTCAGAGGGATAAGATCTACTATTTTAATACG
1 CTCTACTGCAACTTCAGAGAGATAAGATCT-GGATTTTAATCCG
* * * * ** **
4013053 CTCCACTGCAACTTTAGGGAGATAAGAT-TGGCTTCTTTTGTCTT
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGG-AT-TTTAATCCG
* *** *
4013097 CTCCACTGCAACTTCAGAGAGATAAGA-CTGGA-TGCGATCTG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTAATCCG
* * *
4013138 CTCTACTACAACTGCAAAGAGATAAGATCTGTGATTTTAATCCG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTG-GATTTTAATCCG
4013182 CTCTACTGCAACTTCAG
1 CTCTACTGCAACTTCAG
4013199 GAAGATAGGA
Statistics
Matches: 109, Mismatches: 31, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
41 27 0.25
42 3 0.03
43 4 0.04
44 75 0.69
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
CTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTAATCCG
Found at i:4013218 original size:129 final size:128
Alignment explanation
Indices: 4012964--4013218 Score: 332
Period size: 129 Copynumber: 2.0 Consensus size: 128
4012954 GCTATATTTG
* * * * * * *
4012964 GTCTGCTCCACTACAACTCCGTGAGATAAGATTGGATGCGATCTACTCTACTGCAACTTCAGAGG
1 GTCTGCTCCACTACAACTCAGAGAGATAAGACTGGATGCGATCTACTCTACTACAACTGCAAAGA
* *
4013029 GATAAGATCTACTATTTTAATACGCTCCACTGCAACTTTAGGGAGATAAGATTGGCTTCTTTT
66 GATAAGATCTACTATTTTAATACGCTCCACTGCAACTTCAGGAAGATAAGATTGGCTTCTTTT
* * *
4013092 GTCTTCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTACAACTGCAAAG
1 GTCTGCTCCACTACAAC-TCAGAGAGATAAGACTGGATGCGATCTACTCTACTACAACTGCAAAG
* * * * *
4013157 AGATAAGATCT-GTGATTTTAATCCGCTCTACTGCAACTTCAGGAAGATAGGATTGGTTTCTT
65 AGATAAGATCTACT-ATTTTAATACGCTCCACTGCAACTTCAGGAAGATAAGATTGGCTTCTT
4013219 CAGCCTGATT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
128 16 0.15
129 92 0.85
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (128 bp):
GTCTGCTCCACTACAACTCAGAGAGATAAGACTGGATGCGATCTACTCTACTACAACTGCAAAGA
GATAAGATCTACTATTTTAATACGCTCCACTGCAACTTCAGGAAGATAAGATTGGCTTCTTTT
Found at i:4013474 original size:44 final size:45
Alignment explanation
Indices: 4013404--4013495 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 45
4013394 GAAGTAAAAT
* * * *
4013404 TTGCTATTCTTAGTCTGCCCCACTGCAACTTCAGGGGGATAGGAC
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGAC
* *
4013449 TTGCT-TTCTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGAC
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGAC
4013493 TTG
1 TTG
4013496 ACGCGATCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 36 0.88
45 5 0.12
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (45 bp):
TTGCTATTCTCAGTCTGCCCCACTGCAACCTCAGGGAGATAAGAC
Found at i:4013588 original size:44 final size:44
Alignment explanation
Indices: 4013501--4013591 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
4013491 ACTTGACGCG
* * *
4013501 ATCCACTCTACTGCAACTTCAGAGACATAGGATCTATTATTTTA
1 ATCCACTCCACTACAACTTCAGAGACATAGGATCTATGATTTTA
* *
4013545 ATCCACTCCACTACAACTTCAGAGAGATAGGAT-TACTGGTTTTA
1 ATCCACTCCACTACAACTTCAGAGACATAGGATCTA-TGATTTTA
4013589 ATC
1 ATC
4013592 TGCTCCGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (44 bp):
ATCCACTCCACTACAACTTCAGAGACATAGGATCTATGATTTTA
Found at i:4013658 original size:44 final size:45
Alignment explanation
Indices: 4013631--4013750 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 45
4013621 CTACCATTTC
* *
4013631 CAACCTATTCCATTACTGACCAGGGAGAT-AGTATTCTCAATCTT
1 CAACCTAATCCACTACTGACCAGGGAGATAAGTATTCTCAATCTT
* * * *
4013675 CAACCTAATCCACTGCTGACCAGGGAGAT-AGGAATCACAATCTT
1 CAACCTAATCCACTACTGACCAGGGAGATAAGTATTCTCAATCTT
* * * * *
4013719 CAACCTATTTCACTGCTGTCTAGGGAGATAAG
1 CAACCTAATCCACTACTGACCAGGGAGATAAG
4013751 AATAGTGGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 63 0.97
45 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (45 bp):
CAACCTAATCCACTACTGACCAGGGAGATAAGTATTCTCAATCTT
Found at i:4013835 original size:44 final size:44
Alignment explanation
Indices: 4013787--4014400 Score: 214
Period size: 44 Copynumber: 14.2 Consensus size: 44
4013777 CTCCTGGGGA
* * *
4013787 AGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * * *
4013831 AGATAAGATCTGCTA-TTTTCAACCTATTCCACTGCTGAC-CAGGG
1 AGATAAGATTTGC-AGTCTTCAACCTACTCCACTACTG-CTTAGGG
* * * * *
4013875 AGATAGGATTCT-CAATCTTCAACCTATTCCAC-AGCTG-TCCAGAG
1 AGATAAGATT-TGCAGTCTTCAACCTACTCCACTA-CTGCT-TAGGG
* * * * * * * * * *
4013919 AGATAGGACTAG-TGGCTTAAATCTGCTTCC-CTACT-CCTGGGG
1 AGATAAGATTTGCAGTCTTCAACCTAC-TCCACTACTGCTTAGGG
** * * * *
4013961 AAGATAAGATTCACCA-TCTTCGATCTCCTCCACTGCTGCTTAGGG
1 -AGATAAGATT-TGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * * *
4014006 AGATAATATCTGCAATTTTCAACCTACTCCACTACCGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * *
4014050 AGATAAG-TCT--AGTCTTCAACCTATTCCACTGCTG-TCCAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCT-TAGGG
* * * * * ** * *
4014091 AGATAGGGTTTG-TGGCTTAAATATGCTTCC-CTACT-CCTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTAC-TCCACTACTGCTTAGGG
* * * ** *
4014133 AAGATAAGATTCGCCGTCTTCCATTTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * *
4014178 AGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* *
4014222 AGATAAG----GCTAGTCTTCAACCTATTCCACTACTG-TGCAGGG
1 AGATAAGATTTGC-AGTCTTCAACCTACTCCACTACTGCT-TAGGG
* * * * * * *
4014263 AGATAGGGTTTGTAG-CTTAAATCTACTTCC-CTACT-CCTACGGA
1 AGATAAGATTTGCAGTCTTCAACCTAC-TCCACTACTGCTTA-GGG
* ** * ** *
4014306 AGATAAGATTCGTTGTCTTCGATTTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
* * * * * * *
4014350 AGATAATATCTGTAATTTTCAACCTACTCCACTACTGCTCAAGG
1 AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
4014394 AGATAAG
1 AGATAAG
4014401 GTCTACAATA
Statistics
Matches: 413, Mismatches: 119, Indels: 76
0.68 0.20 0.12
Matches are distributed among these distances:
40 4 0.01
41 60 0.15
42 9 0.02
43 79 0.19
44 244 0.59
45 17 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCAGTCTTCAACCTACTCCACTACTGCTTAGGG
Found at i:4014122 original size:347 final size:346
Alignment explanation
Indices: 4013713--4014445 Score: 999
Period size: 347 Copynumber: 2.1 Consensus size: 346
4013703 TAGGAATCAC
* * * *
4013713 AATCTTCAACCTATTTCACTGCTGTCTAGGGAGATAAGAATAGTGGCTTAAATCTGCTTCCCTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGAATAGTGGCTTAAATATGCTTCCCTAC
* * *
4013778 TCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
66 TCCTAGGGAAGATAAGATTCGCCGTCTTCCATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
4013843 CTATTTTCAACCTATTCCACTGCTGAC-CAGGGAGAT-AGGATTCTCAATCTTCAACCTATTCCA
131 CAATTTTCAACCTACTCCACTACTG-CTCAGGGAGATAAGG---CT-AATCTTCAACCTATTCCA
* * **
4013906 C-AGCTGTCCAGAGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
191 CTA-CTGTCCAGAGAGATAGGACTAGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGA
*
4013970 TTCACCATCTTCGATCTCCTCCACTGCTGCTTAGGGAGATAATATCTGCAATTTTCAACCTACTC
255 TTCACCATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAATATCTGCAATTTTCAACCTACTC
* *
4014035 CACTACCGCTTAGGGAGATAA-GTCT-
320 CACTACCGCTCAAGGAGATAAGGTCTA
* ** *
4014060 AGTCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGGTTTGTGGCTTAAATATGCTTCCCTAC
1 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGAATAGTGGCTTAAATATGCTTCCCTAC
* *
4014125 TCCTAGGGAAGATAAGATTCGCCGTCTTCCATTTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 TCCTAGGGAAGATAAGATTCGCCGTCTTCCATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
* *
4014190 CAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTAGTCTTCAACCTATTCCACTACT
131 CAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAATCTTCAACCTATTCCACTACT
* * ** * ***
4014255 GTGCAGGGAGATAGGGTTTGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGATTCGTT
196 GTCCAGAGAGATAGGACTAGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGATTCACC
* * * *
4014320 GTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACCTACTCCACTAC
261 ATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAATATCTGCAATTTTCAACCTACTCCACTAC
*
4014385 TGCTCAAGGAGATAAGGTCTA
326 CGCTCAAGGAGATAAGGTCTA
* * *
4014406 CAATATTCAACCTATTCCACTGCTATCCATGGAGATAGGA
1 -AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGA
4014446 CCAGTAACTT
Statistics
Matches: 337, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
344 145 0.43
345 7 0.02
346 1 0.00
347 181 0.54
348 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (346 bp):
AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGAATAGTGGCTTAAATATGCTTCCCTAC
TCCTAGGGAAGATAAGATTCGCCGTCTTCCATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
CAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAATCTTCAACCTATTCCACTACT
GTCCAGAGAGATAGGACTAGTAGCTTAAATCTACTTCCCTACTCCTACGGAAGATAAGATTCACC
ATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAATATCTGCAATTTTCAACCTACTCCACTAC
CGCTCAAGGAGATAAGGTCTA
Found at i:4014166 original size:172 final size:173
Alignment explanation
Indices: 4013652--4014445 Score: 988
Period size: 172 Copynumber: 4.6 Consensus size: 173
4013642 ATTACTGACC
* * * * *
4013652 AGGGAGAT-AGTATTCT-CAATCTTCAACCTAATCCACTGCTGAC-CAGGGAGATAGGAATCACA
1 AGGGAGATAAG-A-TCTGCAATTTTCAACCTACTCCACTACTG-CTCAGGGAGATA--AGTCTCA
* * * *
4013714 ATCTTCAACCTATTTCACTGCTGTCTAGGGAGATAAGAATAGTGGCTTAAATCTGCTTCCCTACT
61 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACT
* * *
4013779 CCTGGGGAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTT
126 CCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
4013827 AGGGAGATAAGATCTGCTATTTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCTCAAT
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTG-CTCAGGGAGATA--AGTCTCAAT
* * *
4013891 CTTCAACCTATTCCACAGCTGTCCAGAGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCC
63 CTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCC
* * * * *
4013956 TGGGGAAGATAAGATTCACCATCTTCGATCTCCTCCACTGCTGCTT
128 TAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
4014002 AGGGAGATAATATCTGCAATTTTCAACCTACTCCACTACCGCTTAGGGAGATAAGTCT-AGTCTT
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGTCTCAATCTT
* * *
4014066 CAACCTATTCCACTGCTGTCCAGGGAGATAGGGTTTGTGGCTTAAATATGCTTCCCTACTCCTAG
66 CAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTAG
* *
4014131 GGAAGATAAGATTCGCCGTCTTCCATTTGCTCCACTACTGCTT
131 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * *
4014174 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCT-AGTCTT
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGTCTCAATCTT
* * * * * * *
4014238 CAACCTATTCCACTACTGTGCAGGGAGATAGGGTTTGTAGCTTAAATCTACTTCCCTACTCCTAC
66 CAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTAG
** *
4014303 GGAAGATAAGATTCGTTGTCTTCGATTTGCTCCACTACTGCTT
131 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
4014346 AGGGAGATAATATCTGTAATTTTCAACCTACTCCACTACTGCTCAAGGAGATAAGGTCTACAATA
1 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAA-GTCT-CAATC
* *
4014411 TTCAACCTATTCCACTGCTATCCATGGAGATAGGA
64 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGA
4014446 CCAGTAACTT
Statistics
Matches: 552, Mismatches: 61, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
172 310 0.56
173 7 0.01
174 4 0.01
175 229 0.41
176 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (173 bp):
AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGTCTCAATCTT
CAACCTATTCCACTGCTGTCCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTAG
GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
Found at i:4014415 original size:44 final size:44
Alignment explanation
Indices: 4014332--4014426 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
4014322 CTTCGATTTG
* * * ** *
4014332 CTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTCAAGGAGATAAGATCTACAATATTCAACCTA
*
4014376 CTCCACTACTGCTCAAGGAGATAAGGTCTACAATATTCAACCTA
1 CTCCACTACTGCTCAAGGAGATAAGATCTACAATATTCAACCTA
*
4014420 TTCCACT
1 CTCCACT
4014427 GCTATCCATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTCAAGGAGATAAGATCTACAATATTCAACCTA
Found at i:4014570 original size:88 final size:88
Alignment explanation
Indices: 4014470--4014716 Score: 343
Period size: 88 Copynumber: 2.8 Consensus size: 88
4014460 CTGCTTTGTC
* *
4014470 GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACTTGCTCCACTGTAAGCCAGGGAGGCAAGGC
1 GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGGC
* *
4014535 TGGTGTCTTCGATCTGCTTCGCT
66 TGGTGTCTTCAATCTGATTCGCT
* ** * * * * *
4014558 GTCGGTGTAGGAAGGCAAGATCTGCTATCTTCAACCTGATCCACTGCAACCCAGGGGGGCAAGGC
1 GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGGC
4014623 TGGTGTCTTCAATCTGATTCGCT
66 TGGTGTCTTCAATCTGATTCGCT
* * *
4014646 GTCAGTACAGGAAGGAAAGAT-TTTCTATTTTCAACCTGCTCCACTACAAGCCAGGGAGGCAAGG
1 GTCAGTACAGGAAGGCAAGATCTGT-TATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGG
4014710 CTGGTGT
65 CTGGTGT
4014717 TTGCATGAAT
Statistics
Matches: 135, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
87 1 0.01
88 134 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (88 bp):
GTCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTCCACTGCAAGCCAGGGAGGCAAGGC
TGGTGTCTTCAATCTGATTCGCT
Found at i:4015759 original size:42 final size:42
Alignment explanation
Indices: 4015692--4015771 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
4015682 GTATAACAAG
*
4015692 ATCACCACATGCCCCAATCTAATCAAAATTTGAACCGCTCTA
1 ATCACCACATACCCCAATCTAATCAAAATTTGAACCGCTCTA
* * * * *
4015734 ATCACCTCATACCCCATTCTGATCAATATTTGAGCCGC
1 ATCACCACATACCCCAATCTAATCAAAATTTGAACCGC
4015772 CCTTTTCCGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.09, T:0.26
Consensus pattern (42 bp):
ATCACCACATACCCCAATCTAATCAAAATTTGAACCGCTCTA
Found at i:4016862 original size:16 final size:17
Alignment explanation
Indices: 4016843--4016875 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4016833 TTGATTTTAA
4016843 TTATTTT-TTTCTTTTT
1 TTATTTTATTTCTTTTT
4016859 TTATTTTGATTTCTTTT
1 TTATTTT-ATTTCTTTT
4016876 ATTTTGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (17 bp):
TTATTTTATTTCTTTTT
Found at i:4016875 original size:15 final size:14
Alignment explanation
Indices: 4016824--4016883 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 14
4016814 CATTTCATCA
4016824 TTTTTTATTTTGAT
1 TTTTTTATTTTGAT
* **
4016838 TTTAATTATTTTTTTCT
1 TTT--TT-TATTTTGAT
4016855 TTTTTTATTTTGAT
1 TTTTTTATTTTGAT
4016869 TTCTTTTATTTTGAT
1 TT-TTTTATTTTGAT
4016884 GATTTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
14 11 0.31
15 14 0.39
16 2 0.06
17 9 0.25
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTGAT
Found at i:4016890 original size:31 final size:31
Alignment explanation
Indices: 4016820--4016891 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
4016810 TTTTCATTTC
*
4016820 ATCATTTTTTATTTTGATTTTAATTATTTTT
1 ATCATTTTTTATTTTGATTTTAATTATTTTG
* * *
4016851 TTCTTTTTTTATTTTGATTTCT-TTTATTTTG
1 ATCATTTTTTATTTTGATTT-TAATTATTTTG
*
4016882 ATGATTTTTT
1 ATCATTTTTT
4016892 TATTGAATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (31 bp):
ATCATTTTTTATTTTGATTTTAATTATTTTG
Found at i:4021328 original size:24 final size:23
Alignment explanation
Indices: 4021301--4021353 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
4021291 ATATAGATGA
*
4021301 TGAAACATATAAA-GATATAGAGTT
1 TGAAACATAAAAAGGATA-A-AGTT
4021325 TGAAA-ATAAAAAGGATAAAGTT
1 TGAAACATAAAAAGGATAAAGTT
*
4021347 TAAAACA
1 TGAAACA
4021354 ATGTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.32
23 8 0.32
24 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.25
Consensus pattern (23 bp):
TGAAACATAAAAAGGATAAAGTT
Found at i:4023093 original size:44 final size:43
Alignment explanation
Indices: 4022901--4023093 Score: 142
Period size: 44 Copynumber: 4.5 Consensus size: 43
4022891 AATCTACTCT
* *
4022901 ACTGCAACTTC-AGAAGGATAAGATCTACGATTTTAATCCGCTCC
1 ACTGCAACTTCAAGGA-GATAAGATCT-GGATTTTAATCCGCTCC
* * * * ** **
4022945 ACTGTAACTTCATGGAGATAGGAT-TGGCTTCTTTTGTCTTCTCC
1 ACTGCAACTTCAAGGAGATAAGATCTGG-AT-TTTAATCCGCTCC
* *** * **
4022989 ACTGCAACTTCAAAGAGATAAGA-CTGGA-TGCGATCTGCTTT
1 ACTGCAACTTCAAGGAGATAAGATCTGGATTTTAATCCGCTCC
*
4023030 ACTGCAACTTCAAAGAGATAAGATCTGTGATTTTAATCCGCTCC
1 ACTGCAACTTCAAGGAGATAAGATCTG-GATTTTAATCCGCTCC
*
4023074 ACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAAGGAGATA
4023094 GGATTGGTTT
Statistics
Matches: 112, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
41 29 0.26
42 4 0.04
43 4 0.04
44 73 0.65
45 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
ACTGCAACTTCAAGGAGATAAGATCTGGATTTTAATCCGCTCC
Found at i:4023106 original size:129 final size:128
Alignment explanation
Indices: 4022852--4023106 Score: 368
Period size: 129 Copynumber: 2.0 Consensus size: 128
4022842 GCTATATTTG
**
4022852 GTCTGCTCCACTACAACTCAGTGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAAG
1 GTCTGCTCCACTACAACTCAAAGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAAG
* *
4022917 GATAAGATCTACGATTTTAATCCGCTCCACTGTAACTTCATGGAGATAGGATTGGCTTCTTTT
66 GATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTTT
* * * * * *
4022980 GTCTTCTCCACTGCAACTTCAAAGAGATAAGACTGGATGCGATCTGCTTTACTGCAACTTCA-AA
1 GTCTGCTCCACTACAAC-TCAAAGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAA
** *
4023044 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT
65 G-GATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTT
4023107 CAATCTGATT
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
128 18 0.16
129 94 0.84
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (128 bp):
GTCTGCTCCACTACAACTCAAAGAGATAAGACTGGACGCAATCTACTCTACTGCAACTTCAGAAG
GATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTTT
Found at i:4023163 original size:50 final size:49
Alignment explanation
Indices: 4023104--4023260 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 49
4023094 GGATTGGTTT
* * *
4023104 CTTCAATCTGATTAACTGCAATGTCAAGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATCTG-TTAACTGCAATGTCAGGGAAGCAAGATTCACTGTTGTAG
* * **** * *
4023154 CTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGATTCACTGTTGTGG
1 CTTCAATCTGTT-AACTGCAATGTCAGGGAAGCAAGATTCACTGTTGTAG
* *
4023204 CTTCAATCTTTTTAATTGCAATGTC-GGGAAAGCAAGATTCACTGTTGTAG
1 CTTCAATC-TGTTAACTGCAATGTCAGGG-AAGCAAGATTCACTGTTGTAG
4023254 CTTCAAT
1 CTTCAAT
4023261 TTGTGCGCTG
Statistics
Matches: 83, Mismatches: 21, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
49 5 0.06
50 75 0.90
51 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (49 bp):
CTTCAATCTGTTAACTGCAATGTCAGGGAAGCAAGATTCACTGTTGTAG
Found at i:4044367 original size:20 final size:22
Alignment explanation
Indices: 4044321--4044368 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
4044311 TGCTAAAGAA
*
4044321 GTTAAAGAAGTTATTTCTAGTCT
1 GTTAAAGAAGTTA-TGCTAGTCT
4044344 GTTAAAGAAGTTA-GCTAG-CT
1 GTTAAAGAAGTTATGCTAGTCT
4044364 GTTAA
1 GTTAA
4044369 GTAAAGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
23 13 0.54
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (22 bp):
GTTAAAGAAGTTATGCTAGTCT
Found at i:4053359 original size:21 final size:20
Alignment explanation
Indices: 4053321--4053360 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4053311 ATATTGTAGT
*
4053321 TGGGCTTGGGTTTAGGTTAA
1 TGGGCTTGAGTTTAGGTTAA
*
4053341 TGGGCTTGTAGTTTGGGTTA
1 TGGGCTTG-AGTTTAGGTTA
4053361 TTTGGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (20 bp):
TGGGCTTGAGTTTAGGTTAA
Found at i:4054189 original size:100 final size:101
Alignment explanation
Indices: 4054059--4054370 Score: 427
Period size: 100 Copynumber: 3.1 Consensus size: 101
4054049 GATTCGCCAT
* *
4054059 CTTCAATCTATTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGA-TTCAATCTGTTCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGT-GACTTCAATCTGTTCC
* * *
4054123 ACTAGACCGCCAAGGAAGTAAGATTTG-TAGTTGTGG
65 CCTAGACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
* * *
4054159 CTTCAATCTATTTAACTGCAATGTCGGGGAAATAAGATTCATCGTCGTGACTTCAACCTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTGACTTCAATCTGTTCCC
*
4054224 CTACG-CCACCAGGGAAGTAAGATTCGCT-GTTGTGG
66 CTA-GACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
* * * * *
4054259 CGTCAATCTCTTTAATTGCAATGTCGGGGAATCAAGATTCGTCGTCGTGACTTCAATTTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTGACTTCAATCTGTTCCC
* *
4054324 CTACACCGCCAGGGAAGTAAGATTCGCCA-TTGTGG
66 CTAGACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
4054359 CTTCAATCTATT
1 CTTCAATCTATT
4054371 CCACTGTAAT
Statistics
Matches: 185, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
99 2 0.01
100 181 0.98
101 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (101 bp):
CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTGACTTCAATCTGTTCCC
CTAGACCGCCAGGGAAGTAAGATTCGCTAGTTGTGG
Found at i:4054213 original size:50 final size:50
Alignment explanation
Indices: 4054059--4054315 Score: 148
Period size: 50 Copynumber: 5.1 Consensus size: 50
4054049 GATTCGCCAT
* *
4054059 CTTCAATCTATTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGA
1 CTTCAATCTATTTAACTGCAATGTCAGGGAAATAAGATTCGTCGTCGT-GA
* ** ** * * * * * * *
4054110 -TTCAATCTGTTCCACTAG-ACCGCCAAGGAAGTAAGATTTGTAGTTGTGG
1 CTTCAATCTATTTAACT-GCAATGTCAGGGAAATAAGATTCGTCGTCGTGA
* *
4054159 CTTCAATCTATTTAACTGCAATGTCGGGGAAATAAGATTCATCGTCGTGA
1 CTTCAATCTATTTAACTGCAATGTCAGGGAAATAAGATTCGTCGTCGTGA
* * *** * * * * *
4054209 CTTCAACCTGTTCCCCTACGCCA--CCAGGGAAGTAAGATTCG-CTGTTGTGG
1 CTTCAATCTATTTAACT--GCAATGTCAGGGAAATAAGATTCGTC-GTCGTGA
* * * *
4054259 CGTCAATCTCTTTAATTGCAATGTC-GGGGAATCAAGATTCGTCGTCGTGA
1 CTTCAATCTATTTAACTGCAATGTCAGGGAAAT-AAGATTCGTCGTCGTGA
4054309 CTTCAAT
1 CTTCAAT
4054316 TTGTTCCCCT
Statistics
Matches: 142, Mismatches: 54, Indels: 21
0.65 0.25 0.10
Matches are distributed among these distances:
48 3 0.02
49 8 0.06
50 126 0.89
51 2 0.01
52 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
CTTCAATCTATTTAACTGCAATGTCAGGGAAATAAGATTCGTCGTCGTGA
Found at i:4058515 original size:42 final size:42
Alignment explanation
Indices: 4058432--4058515 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
4058422 GGCATAGCAA
* * * *
4058432 GATCACCGCATGCCCCATTTTGATCAACATTTGAGTAACTCT
1 GATCACCCCATGCCCCATTCTGATCAAAATTTGAGCAACTCT
* * *
4058474 GATCACCCCATGCCCTATTCTGATTAAAATTTGAGCCACTCT
1 GATCACCCCATGCCCCATTCTGATCAAAATTTGAGCAACTCT
4058516 TTTCGGGTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (42 bp):
GATCACCCCATGCCCCATTCTGATCAAAATTTGAGCAACTCT
Found at i:4058832 original size:304 final size:304
Alignment explanation
Indices: 4058281--4058887 Score: 1090
Period size: 304 Copynumber: 2.0 Consensus size: 304
4058271 AATAGTATGA
4058281 AGACTAGGTGCCCCAGATATTGCAGCTTAAACTTCTCTGTACAAACTTTCTGAAGACCATTCTAA
1 AGACTAGGTGCCCCAGATATTGCAGCTTAAACTTCTCTGTACAAACTTTCTGAAGACCATTCTAA
4058346 GTTTGACATGTGTTTAGGAGATCTACAGTACTCTGTCAATGCTCCAAGATGTCGCGTACCCTTTC
66 GTTTGACATGTGTTTAGGAGATCTACAGTACTCTGTCAATGCTCCAAGATGTCGCGTACCCTTTC
*
4058411 CTACTGATTCAGGCATAGCAAGATCACCGCATGCCCCATTTTGATCAACATTTGAGTAACTCTGA
131 CTACTGATTCAGGCATAGCAAGATCACCGCATGCCCCATTTTGATCAACATTTGAGTAACTCTCA
* * * * * *
4058476 TCACCCCATGCCCTATTCTGATTAAAATTTGAGCCACTCTTTTCGGGTTTTCAACTCAAATCCCC
196 TCACCCCATGCCCTACTCTAATCAAAATTTGAGCCACCCTTTTCGAGTTTTCAACTCAAATCCCA
*
4058541 TTTGGTCTAAGGCACCCTTTGCGGGTTTTCACCTTAGCCTCTCC
261 TTTGGTCTAAGGCACCATTTGCGGGTTTTCACCTTAGCCTCTCC
4058585 AGACTAGGTGCCCCAGATATTGCAGCTTAAACTTCTCTGTACAAACTTTCTGAAGACCATTCTAA
1 AGACTAGGTGCCCCAGATATTGCAGCTTAAACTTCTCTGTACAAACTTTCTGAAGACCATTCTAA
4058650 GTTTGACATGTGTTTAGGAGATCTACAGTACTCTGTCAATGCTCCAAGATGTCGCGTACCCTTTC
66 GTTTGACATGTGTTTAGGAGATCTACAGTACTCTGTCAATGCTCCAAGATGTCGCGTACCCTTTC
*
4058715 CTACTGATTCAGGCATAGCAAGATCACCGCATGCCCCATTTTTATCAACATTTGAGTAACTCTCA
131 CTACTGATTCAGGCATAGCAAGATCACCGCATGCCCCATTTTGATCAACATTTGAGTAACTCTCA
* *
4058780 TCACTTCC-TGCCCTACTCTAATCAAAATTTGAGCCGCCCTTTTCGAGTTTTCAACTCAAATCCC
196 TCAC-CCCATGCCCTACTCTAATCAAAATTTGAGCCACCCTTTTCGAGTTTTCAACTCAAATCCC
*
4058844 ATTTGGTCTAAGGCGCCATTTGCGGGTTTTCACCTTAGCCTCTC
260 ATTTGGTCTAAGGCACCATTTGCGGGTTTTCACCTTAGCCTCTC
4058888 TATTTTTACT
Statistics
Matches: 290, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
304 288 0.99
305 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (304 bp):
AGACTAGGTGCCCCAGATATTGCAGCTTAAACTTCTCTGTACAAACTTTCTGAAGACCATTCTAA
GTTTGACATGTGTTTAGGAGATCTACAGTACTCTGTCAATGCTCCAAGATGTCGCGTACCCTTTC
CTACTGATTCAGGCATAGCAAGATCACCGCATGCCCCATTTTGATCAACATTTGAGTAACTCTCA
TCACCCCATGCCCTACTCTAATCAAAATTTGAGCCACCCTTTTCGAGTTTTCAACTCAAATCCCA
TTTGGTCTAAGGCACCATTTGCGGGTTTTCACCTTAGCCTCTCC
Found at i:4058909 original size:15 final size:14
Alignment explanation
Indices: 4058897--4058935 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4058887 CTATTTTTAC
4058897 TTTTTCCATTTTTCA
1 TTTTT-CATTTTTCA
4058912 TTTTTCA-TTTTCA
1 TTTTTCATTTTTCA
4058925 -TTTTCATTTTT
1 TTTTTCATTTTT
4058936 TTACATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 2 0.09
15 5 0.22
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:4058935 original size:7 final size:7
Alignment explanation
Indices: 4058897--4058935 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
4058887 CTATTTTTAC
4058897 TTTTTCCA
1 TTTTT-CA
4058905 TTTTTCA
1 TTTTTCA
4058912 TTTTTCA
1 TTTTTCA
4058919 -TTTTCA
1 TTTTTCA
4058925 -TTTTCA
1 TTTTTCA
4058931 TTTTT
1 TTTTT
4058936 TTACATCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.40
7 13 0.43
8 5 0.17
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:4059476 original size:10 final size:10
Alignment explanation
Indices: 4059431--4059521 Score: 51
Period size: 10 Copynumber: 8.6 Consensus size: 10
4059421 TTGGTAGAAG
*
4059431 TTTTTGTTTC
1 TTTTTGTTTT
4059441 TTTTTGTTTTT
1 TTTTTG-TTTT
*
4059452 ATTTTTATTTATT
1 -TTTTT-GTT-TT
4059465 TTTTTGTTTT
1 TTTTTGTTTT
* * *
4059475 TTGTTCTTCT
1 TTTTTGTTTT
4059485 TTTTTGTTCCTT
1 TTTTTGTT--TT
4059497 TTTTT-TTGTT
1 TTTTTGTT-TT
*
4059507 CTTTT-TTTT
1 TTTTTGTTTT
4059516 TTTTTG
1 TTTTTG
4059522 GAATTTGCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
9 6 0.10
10 29 0.47
11 7 0.11
12 18 0.29
13 2 0.03
ACGTcount: A:0.03, C:0.07, G:0.08, T:0.82
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:4059487 original size:13 final size:12
Alignment explanation
Indices: 4059471--4059515 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 12
4059461 TATTTTTTTG
4059471 TTTTTTGTTCTT
1 TTTTTTGTTCTT
4059483 CTTTTTTGTTCCTTT
1 -TTTTTTGTT-C-TT
4059498 TTTTTTGTTCTT
1 TTTTTTGTTCTT
4059510 TTTTTT
1 TTTTTT
4059516 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.27
13 10 0.33
14 10 0.33
15 2 0.07
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (12 bp):
TTTTTTGTTCTT
Found at i:4059516 original size:13 final size:13
Alignment explanation
Indices: 4059431--4059516 Score: 77
Period size: 14 Copynumber: 6.4 Consensus size: 13
4059421 TTGGTAGAAG
4059431 TTTTTGTTTCTTTT
1 TTTTTG-TTCTTTT
* *
4059445 TGTTT-TTATTTT
1 TTTTTGTTCTTTT
*
4059457 TATTTAT-TTTTTTGT
1 T-TTT-TGTTCTTT-T
*
4059472 TTTTTGTTCTTCT
1 TTTTTGTTCTTTT
4059485 TTTTTGTTCCTTTT
1 TTTTTGTT-CTTTT
4059499 TTTTTGTTCTTTT
1 TTTTTGTTCTTTT
4059512 TTTTT
1 TTTTT
4059517 TTTTGGAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
12 7 0.12
13 22 0.37
14 29 0.48
15 2 0.03
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTTGTTCTTTT
Found at i:4063526 original size:17 final size:17
Alignment explanation
Indices: 4063502--4063542 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
4063492 ATATATTCAC
*
4063502 ATATAAAATA-TAAAAT
1 ATATAAAAAATTAAAAT
*
4063518 ATATAAAAAATTGAAAT
1 ATATAAAAAATTAAAAT
4063535 ATATAAAA
1 ATATAAAA
4063543 CAAAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
ATATAAAAAATTAAAAT
Found at i:4063584 original size:27 final size:27
Alignment explanation
Indices: 4063554--4063611 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
4063544 AAAAAAAACA
* *
4063554 TATAAATA-ATTTTTAAAAAAAAGTATG
1 TATAAATATA-TTATAAAAAAAAGCATG
* *
4063581 TATATATATATTATAAAAAAATGCATG
1 TATAAATATATTATAAAAAAAAGCATG
4063608 TATA
1 TATA
4063612 TGTGAATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (27 bp):
TATAAATATATTATAAAAAAAAGCATG
Found at i:4068439 original size:19 final size:18
Alignment explanation
Indices: 4068409--4068446 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
4068399 TGGTTTTCTC
*
4068409 AAAATGGAAATAGAAATG
1 AAAATGGAAATAAAAATG
4068427 AAAATGAGAAATAAAAATG
1 AAAATG-GAAATAAAAATG
4068446 A
1 A
4068447 TTCTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATAAAAATG
Found at i:4069153 original size:22 final size:22
Alignment explanation
Indices: 4069125--4069170 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4069115 AAGATCATTT
4069125 GGGTGAAAGCCAAAAACATCAA
1 GGGTGAAAGCCAAAAACATCAA
4069147 GGGTGAAAGCCAAAAACATCAA
1 GGGTGAAAGCCAAAAACATCAA
4069169 GG
1 GG
4069171 ATCTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.26, T:0.09
Consensus pattern (22 bp):
GGGTGAAAGCCAAAAACATCAA
Found at i:4070707 original size:12 final size:12
Alignment explanation
Indices: 4070690--4070714 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4070680 GTCGAATCTA
4070690 TTTTTGTATTTG
1 TTTTTGTATTTG
4070702 TTTTTGTATTTG
1 TTTTTGTATTTG
4070714 T
1 T
4070715 ATCTGTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTTGTATTTG
Found at i:4076179 original size:83 final size:84
Alignment explanation
Indices: 4076081--4076250 Score: 333
Period size: 83 Copynumber: 2.0 Consensus size: 84
4076071 TAAAAAATAT
4076081 ATAATTTAGCATTTTATTAAAATTTTTTAATAATTTTCAATTTTTTTAATTTATATATTATAAAA
1 ATAATTTAGCATTTTATTAAAATTTTTTAATAATTTTCAATTTTTTTAATTTATATATTATAAAA
4076146 GTTTGGAAAAGAAATATAA
66 GTTTGGAAAAGAAATATAA
4076165 ATAATTTAGC-TTTTATTAAAATTTTTTAATAATTTTCAATTTTTTTAATTTATATATTATAAAA
1 ATAATTTAGCATTTTATTAAAATTTTTTAATAATTTTCAATTTTTTTAATTTATATATTATAAAA
4076229 GTTTGGAAAAGAAATATAA
66 GTTTGGAAAAGAAATATAA
4076248 ATA
1 ATA
4076251 TTCTGAATTT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 76 0.88
84 10 0.12
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (84 bp):
ATAATTTAGCATTTTATTAAAATTTTTTAATAATTTTCAATTTTTTTAATTTATATATTATAAAA
GTTTGGAAAAGAAATATAA
Found at i:4081606 original size:30 final size:31
Alignment explanation
Indices: 4081569--4081646 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
4081559 TGACGATTTA
4081569 AAAAAAAACCATTT-AACAGTCCAATGACTTT
1 AAAAAAAA-CATTTAAACAGTCCAATGACTTT
* * *
4081600 AAAAAAAACTTTTAAATAGTTCAATGAC-TT
1 AAAAAAAACATTTAAACAGTCCAATGACTTT
* *
4081630 AAATGAAAACTTTTAAA
1 AAA-AAAAACATTTAAA
4081647 TAGTTCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.22
31 32 0.78
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (31 bp):
AAAAAAAACATTTAAACAGTCCAATGACTTT
Found at i:4081625 original size:31 final size:31
Alignment explanation
Indices: 4081590--4081654 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
4081580 TTTAACAGTC
4081590 CAATGACTTTAAA-AAAAACTTTTAAATAGTT
1 CAATGAC-TTAAATAAAAACTTTTAAATAGTT
*
4081621 CAATGACTTAAATGAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
4081652 CAA
1 CAA
4081655 AACTAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTAAATAGTT
Found at i:4081672 original size:29 final size:31
Alignment explanation
Indices: 4081604--4081662 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4081594 GACTTTAAAA
*
4081604 AAAACTTTTAAATAGTTCAATGACTTAAATG
1 AAAACTTTTAAATAGTTCAATAACTTAAATG
4081635 AAAACTTTTAAATAGTTCAA-AAC-TAAAT
1 AAAACTTTTAAATAGTTCAATAACTTAAAT
4081663 TGTAACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 2 0.07
31 20 0.74
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (31 bp):
AAAACTTTTAAATAGTTCAATAACTTAAATG
Found at i:4105039 original size:24 final size:24
Alignment explanation
Indices: 4105012--4105079 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
4105002 AAATTTGTAT
* * *
4105012 TTGCATTTGTATTTGTATCTAAAA
1 TTGCATCTGTATCTGAATCTAAAA
*
4105036 TTGCATCTGTCTCTGAATCTAAAA
1 TTGCATCTGTATCTGAATCTAAAA
* * *
4105060 TTGTATCTATATCTGTATCT
1 TTGCATCTGTATCTGAATCT
4105080 GATCTGTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (24 bp):
TTGCATCTGTATCTGAATCTAAAA
Found at i:4107247 original size:5 final size:5
Alignment explanation
Indices: 4107239--4107268 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4107229 TATATTATTA
4107239 GATAT GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT
4107269 AGCATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:4117464 original size:34 final size:34
Alignment explanation
Indices: 4117426--4117490 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
4117416 TAATGCTTAC
* *
4117426 TGATACTGGAATA-GGCTCAGGCCTAAACTGATAT
1 TGATACT-GAAAAGGGCTCAGGCCCAAACTGATAT
*
4117460 TGATACTGAAAAGGGCTTAGGCCCAAACTGA
1 TGATACTGAAAAGGGCTCAGGCCCAAACTGA
4117491 GATTATTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (34 bp):
TGATACTGAAAAGGGCTCAGGCCCAAACTGATAT
Found at i:4124024 original size:21 final size:20
Alignment explanation
Indices: 4124000--4124066 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
4123990 TACATGGAAT
*
4124000 TAAAAGTTTAAAACTCAAATC
1 TAAAA-TTTAAAACTCAAACC
* *
4124021 TAAAATCCTAAAA-TTAAACC
1 TAAAAT-TTAAAACTCAAACC
*
4124041 TGAAATTTAAAACTCTAAACC
1 TAAAATTTAAAACTC-AAACC
4124062 TAAAA
1 TAAAA
4124067 GTCAAAAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 5 0.14
20 12 0.33
21 19 0.53
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.27
Consensus pattern (20 bp):
TAAAATTTAAAACTCAAACC
Found at i:4124759 original size:185 final size:185
Alignment explanation
Indices: 4124546--4124914 Score: 722
Period size: 185 Copynumber: 2.0 Consensus size: 185
4124536 CGTTGCACCT
4124546 TAATTCAAAGGGTTGATAACTAATATATATAATAAAAATTTGCAAGAACTGTTAGTTAAAAAAAA
1 TAATTCAAAGGGTTGATAACTAATATATATAATAAAAATTTGCAAGAACTGTTAGTTAAAAAAAA
4124611 ATAGTTTTAATTTGAAGTTTTTGTTAGCTTTATACATATTTAAATATTTTTAAAAAATATTATTT
66 ATAGTTTTAATTTGAAGTTTTTGTTAGCTTTATACATATTTAAATATTTTTAAAAAATATTATTT
4124676 TTAATTATATTTATAGATTTTATAATAC-TTTTAGTCTAAGGATTTTTAGTTTTCG
131 TTAATTATATTTATAGATTTTATAATACTTTTTAGTCTAA-GATTTTTAGTTTTCG
4124731 TAATTCAAAGGGTTGATAACTAATATATATAATAAAAATTTGCAAGAACTGTTAGTTAAAAAAAA
1 TAATTCAAAGGGTTGATAACTAATATATATAATAAAAATTTGCAAGAACTGTTAGTTAAAAAAAA
4124796 ATAGTTTTAATTTGAAGTTTTTGTTAGCTTTATACATATTTAAATATTTTTAAAAAATATTATTT
66 ATAGTTTTAATTTGAAGTTTTTGTTAGCTTTATACATATTTAAATATTTTTAAAAAATATTATTT
4124861 TTAATTATATTTATAGATTTTATAATACTTTTTAGTCTAAGATTTTTAGTTTTC
131 TTAATTATATTTATAGATTTTATAATACTTTTTAGTCTAAGATTTTTAGTTTTC
4124915 TTTTTAGAAT
Statistics
Matches: 183, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
185 172 0.94
186 11 0.06
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (185 bp):
TAATTCAAAGGGTTGATAACTAATATATATAATAAAAATTTGCAAGAACTGTTAGTTAAAAAAAA
ATAGTTTTAATTTGAAGTTTTTGTTAGCTTTATACATATTTAAATATTTTTAAAAAATATTATTT
TTAATTATATTTATAGATTTTATAATACTTTTTAGTCTAAGATTTTTAGTTTTCG
Found at i:4128235 original size:56 final size:56
Alignment explanation
Indices: 4128149--4128260 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
4128139 AATATTCAAA
4128149 TATATTTTTCCTCCTCCTCCACTCCATTCCACATCCTTAATATACTTAACACTCTT
1 TATATTTTTCCTCCTCCTCCACTCCATTCCACATCCTTAATATACTTAACACTCTT
*
4128205 TATATTTTTCCTCCTCCTCCACTCCATTCCACATCCTTAATGTACTTAACACTCTT
1 TATATTTTTCCTCCTCCTCCACTCCATTCCACATCCTTAATATACTTAACACTCTT
4128261 AGAAATAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.22, C:0.36, G:0.01, T:0.41
Consensus pattern (56 bp):
TATATTTTTCCTCCTCCTCCACTCCATTCCACATCCTTAATATACTTAACACTCTT
Found at i:4128665 original size:76 final size:76
Alignment explanation
Indices: 4128522--4128673 Score: 214
Period size: 76 Copynumber: 2.0 Consensus size: 76
4128512 TCACTAAAAT
* * * *
4128522 TCAAATATCTCTTAGTACAAAATTTTTATGGTAGTGTCGTTTATTTATATTGAAACCGGAATAAT
1 TCAAATATCTCTTAGTACAAAATTCTGATGGTAGTGTCATTTATTTATATTGAAACCAGAATAAT
*
4128587 TAAGGAATTTA
66 TAAAGAATTTA
* * * * *
4128598 TCAAATATCTCTTAGTACAAAATTCTGATGGTAGTGTCATTTATTTCTCTTGAAACTAGACTCAT
1 TCAAATATCTCTTAGTACAAAATTCTGATGGTAGTGTCATTTATTTATATTGAAACCAGAATAAT
4128663 TAAAGAATTTA
66 TAAAGAATTTA
4128674 ATCATATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (76 bp):
TCAAATATCTCTTAGTACAAAATTCTGATGGTAGTGTCATTTATTTATATTGAAACCAGAATAAT
TAAAGAATTTA
Found at i:4133187 original size:60 final size:60
Alignment explanation
Indices: 4133094--4133278 Score: 370
Period size: 60 Copynumber: 3.1 Consensus size: 60
4133084 TGAGATATTT
4133094 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
4133154 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
4133214 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
4133274 TGGAT
1 TGGAT
4133279 GTATCTAAGG
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 125 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (60 bp):
TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
Found at i:4146136 original size:18 final size:20
Alignment explanation
Indices: 4146097--4146136 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4146087 TTAACTTTAA
*
4146097 ATGTCAACACGGTCTGGGCT
1 ATGTCAACACGGCCTGGGCT
4146117 ATGTC-ACACGGCCT-GGCT
1 ATGTCAACACGGCCTGGGCT
4146135 AT
1 AT
4146137 ACAGCCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 8 0.42
20 5 0.26
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.25
Consensus pattern (20 bp):
ATGTCAACACGGCCTGGGCT
Found at i:4156762 original size:7 final size:7
Alignment explanation
Indices: 4156750--4156794 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
4156740 TTTGTATCAA
4156750 AAACCCT
1 AAACCCT
4156757 AAACCCT
1 AAACCCT
4156764 AAACCCT
1 AAACCCT
4156771 AAACCCT
1 AAACCCT
4156778 AAACCCT
1 AAACCCT
*
4156785 AAACCAT
1 AAACCCT
4156792 AAA
1 AAA
4156795 TGAATTACGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:4156938 original size:6 final size:6
Alignment explanation
Indices: 4156924--4156971 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
4156914 GGTTTTCTTA
* * *
4156924 AAATGG AAATAG AAATGG AAATGG AAATGA AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
4156972 ATTCTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:4159317 original size:12 final size:12
Alignment explanation
Indices: 4159300--4159325 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4159290 AGGTAGAATC
4159300 TGTTTTTGTATT
1 TGTTTTTGTATT
4159312 TGTTTTTGTATT
1 TGTTTTTGTATT
4159324 TG
1 TG
4159326 CATCTGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.19, T:0.73
Consensus pattern (12 bp):
TGTTTTTGTATT
Found at i:4160837 original size:18 final size:18
Alignment explanation
Indices: 4160783--4160838 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
4160773 AATGAGTTAG
*
4160783 TTCATTTTTTTAATCTAT
1 TTCATTTTTTTTATCTAT
* ** *
4160801 TTTAGTTCATTTTA-GTAT
1 TTCA-TTTTTTTTATCTAT
4160819 TTCATTTTTTTTATCTAT
1 TTCATTTTTTTTATCTAT
4160837 TT
1 TT
4160839 TCTATTGTTC
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
17 7 0.26
18 14 0.52
19 6 0.22
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.68
Consensus pattern (18 bp):
TTCATTTTTTTTATCTAT
Found at i:4171895 original size:21 final size:19
Alignment explanation
Indices: 4171871--4171913 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
4171861 GTCCTAATGC
*
4171871 AATATTAAAAATGCTAACTAA
1 AATATCAAAAATGC-AAC-AA
*
4171892 AATATCCAAAATGCAACAA
1 AATATCAAAAATGCAACAA
4171911 AAT
1 AAT
4171914 GTACGTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 12 0.60
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (19 bp):
AATATCAAAAATGCAACAA
Found at i:4174362 original size:6 final size:6
Alignment explanation
Indices: 4174339--4174430 Score: 64
Period size: 6 Copynumber: 15.5 Consensus size: 6
4174329 TGTCTACATT
* * * * **
4174339 TGTATC TGAATT TGTATC TGTATC TGTATT TGTATT TAAAAT- TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC T-GTATC TGTATC
* * *
4174387 TGTATC TGAATC TGAAAT- TGTATC TATATC TGTATC TG-ATC TGT
1 TGTATC TGTATC TG-TATC TGTATC TGTATC TGTATC TGTATC TGT
4174431 TTGTATAGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
5 9 0.13
6 54 0.79
7 5 0.07
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (6 bp):
TGTATC
Found at i:4174370 original size:30 final size:30
Alignment explanation
Indices: 4174336--4174394 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4174326 ATGTGTCTAC
* *
4174336 ATTTGTATCTGAATTTGTATCTGTATCTGT
1 ATTTGTATCTAAAATTGTATCTGTATCTGT
*
4174366 ATTTGTATTTAAAATTGTATCTGTATCTG
1 ATTTGTATCTAAAATTGTATCTGTATCTG
4174395 AATCTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (30 bp):
ATTTGTATCTAAAATTGTATCTGTATCTGT
Found at i:4174423 original size:24 final size:24
Alignment explanation
Indices: 4174357--4174425 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
4174347 AATTTGTATC
* * *
4174357 TGTATCTGTATTTGTATTTAAAAT
1 TGTATCTGTATCTGTATCTGAAAT
*
4174381 TGTATCTGTATCTGAATCTGAAAT
1 TGTATCTGTATCTGTATCTGAAAT
*
4174405 TGTATCTATATCTGTATCTGA
1 TGTATCTGTATCTGTATCTGA
4174426 TCTGTTTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (24 bp):
TGTATCTGTATCTGTATCTGAAAT
Found at i:4175037 original size:12 final size:12
Alignment explanation
Indices: 4175020--4175057 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
4175010 ATTATTTATG
4175020 TTATATATATTA
1 TTATATATATTA
4175032 TTATAT-TATATA
1 TTATATATAT-TA
4175044 TTATATTATATTA
1 TTATA-TATATTA
4175057 T
1 T
4175058 ATTATATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 3 0.13
12 13 0.57
13 4 0.17
14 3 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATATATATTA
Found at i:4175038 original size:5 final size:5
Alignment explanation
Indices: 4175007--4175064 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
4174997 TTAATACATA
*
4175007 TATAT TAT-T TATGT TATAT ATATTAT TATATT ATATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT -TA-TAT TATA-T -TATAT TATAT TATAT
4175055 TATAT TATAT
1 TATAT TATAT
4175065 GGTAGTAGTG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
4 4 0.09
5 30 0.64
6 6 0.13
7 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:4175040 original size:17 final size:17
Alignment explanation
Indices: 4175004--4175064 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
4174994 ACTTTAATAC
*
4175004 ATATATATTATTTATGTT
1 ATATATATTA-TTATATT
4175022 ATATATATTATTATATT
1 ATATATATTATTATATT
4175039 ATATAT-TATATTATATT
1 ATATATAT-TATTATATT
4175056 ATATTATAT
1 ATA-TATAT
4175065 GGTAGTAGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
16 1 0.03
17 24 0.62
18 13 0.33
19 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATATATATTATTATATT
Found at i:4177752 original size:22 final size:22
Alignment explanation
Indices: 4177724--4177768 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4177714 CAAGATAAGT
4177724 TTCTAGCTTCTTGGTTGTTGTC
1 TTCTAGCTTCTTGGTTGTTGTC
4177746 TTCTAGCTTCTTGGTTGTTGTC
1 TTCTAGCTTCTTGGTTGTTGTC
4177768 T
1 T
4177769 ACAGTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.18, G:0.22, T:0.56
Consensus pattern (22 bp):
TTCTAGCTTCTTGGTTGTTGTC
Found at i:4181993 original size:21 final size:21
Alignment explanation
Indices: 4181967--4182027 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
4181957 TGACACATAA
4181967 GTGCCTGAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
* *
4181988 GTGCCTGATACGGCACACGAG
1 GTGCCTGAAACGACACACGAG
* *
4182009 CTACCTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
4182028 TAAAGTACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 24 0.75
22 1 0.03
23 7 0.22
ACGTcount: A:0.33, C:0.30, G:0.25, T:0.13
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:4183388 original size:61 final size:61
Alignment explanation
Indices: 4183321--4183436 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 61
4183311 TATTTACTTG
* *
4183321 ATAATAAGTAAATATGTAATAATTACTAATTTATGTATTTTATTTTTTCACATGTACTTAA
1 ATAATAAGTAAATATGTAATAATTACTAATATATGTATTTTATTTTTCCACATGTACTTAA
*
4183382 ATAATAAGTAAATGTGTAATAATTACTAATATATGTATTTTATTTTTCCACATGT
1 ATAATAAGTAAATATGTAATAATTACTAATATATGTATTTTATTTTTCCACATGT
4183437 CATCATATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (61 bp):
ATAATAAGTAAATATGTAATAATTACTAATATATGTATTTTATTTTTCCACATGTACTTAA
Found at i:4183552 original size:21 final size:22
Alignment explanation
Indices: 4183526--4183575 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
4183516 ATTAATAAGT
4183526 ATGTAT-ATATATTAATTACAA
1 ATGTATAATATATTAATTACAA
* *
4183547 ATGTATACATATATTTATTACAT
1 ATGTATA-ATATATTAATTACAA
4183570 ATGTAT
1 ATGTAT
4183576 TTACAGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
23 19 0.76
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (22 bp):
ATGTATAATATATTAATTACAA
Found at i:4183566 original size:23 final size:23
Alignment explanation
Indices: 4183532--4183575 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4183522 AAGTATGTAT
4183532 ATATATTAATTACAAATGTATAC
1 ATATATTAATTACAAATGTATAC
* *
4183555 ATATATTTATTACATATGTAT
1 ATATATTAATTACAAATGTAT
4183576 TTACAGTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (23 bp):
ATATATTAATTACAAATGTATAC
Found at i:4189183 original size:28 final size:28
Alignment explanation
Indices: 4189151--4189239 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 28
4189141 AATTCAAAGT
4189151 TTAAAACTCAAAATCTAAAATCCTAACA
1 TTAAAACTCAAAATCTAAAATCCTAACA
* * *
4189179 TTAAACCT-GAAATTTAAAA-CTCTAA-A
1 TTAAAACTCAAAATCTAAAATC-CTAACA
** * *
4189205 CCAAAAGTCAAAAGAACTAAAATCCTAACA
1 TTAAAACTC-AAA-ATCTAAAATCCTAACA
4189235 TTAAA
1 TTAAA
4189240 CCTGAAATTT
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
26 6 0.14
27 13 0.30
28 9 0.21
29 10 0.23
30 5 0.12
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (28 bp):
TTAAAACTCAAAATCTAAAATCCTAACA
Found at i:4189242 original size:56 final size:57
Alignment explanation
Indices: 4189165--4189277 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 57
4189155 AACTCAAAAT
4189165 CTAAAATCCTAACATTAAACCTGAAATTTAAAACTCTAAACC-AAAAGTCAAAAGAA
1 CTAAAATCCTAACATTAAACCTGAAATTTAAAACTCTAAACCAAAAAGTCAAAAGAA
4189221 CTAAAATCCTAACATTAAACCTGAAATTTAAAACTCTAAACCAAAAAGTCAAAAGAA
1 CTAAAATCCTAACATTAAACCTGAAATTTAAAACTCTAAACCAAAAAGTCAAAAGAA
4189278 ATACAAGATA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 42 0.75
57 14 0.25
ACGTcount: A:0.54, C:0.19, G:0.05, T:0.21
Consensus pattern (57 bp):
CTAAAATCCTAACATTAAACCTGAAATTTAAAACTCTAAACCAAAAAGTCAAAAGAA
Found at i:4190105 original size:4 final size:4
Alignment explanation
Indices: 4190082--4190120 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
4190072 AGGTGATCTT
*
4190082 TTTA TCTTA TTTA CTTA TTTA TTTA TTTA TTT- TTTA TTT
1 TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4190121 TTGAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.77
5 4 0.13
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:4196515 original size:18 final size:18
Alignment explanation
Indices: 4196486--4196533 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
4196476 AAGAAAACAT
*
4196486 TTTGAAATTGAATAATGA
1 TTTGAAAATGAATAATGA
* *
4196504 TTTGTAAATGAATAATGT
1 TTTGAAAATGAATAATGA
4196522 TTTGAAAATGAA
1 TTTGAAAATGAA
4196534 CGACACGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGAAAATGAATAATGA
Found at i:4200286 original size:11 final size:11
Alignment explanation
Indices: 4200265--4200297 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4200255 TTTTATCTTA
4200265 TTTACTTATTTT
1 TTTA-TTATTTT
4200277 TTTATTATTTT
1 TTTATTATTTT
4200288 TTTATT-TTTT
1 TTTATTATTTT
4200298 GAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 13 0.62
12 4 0.19
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:4203028 original size:24 final size:23
Alignment explanation
Indices: 4202985--4203030 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4202975 ATAAAACATA
*
4202985 ATCAAATAAAAAAATTAAATTAT
1 ATCAAATAAAAAAATGAAATTAT
4203008 ATCAAATTAAAATAAA-GAAATTA
1 ATCAAA-TAAAA-AAATGAAATTA
4203031 AAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 11 0.55
25 3 0.15
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (23 bp):
ATCAAATAAAAAAATGAAATTAT
Found at i:4203067 original size:25 final size:26
Alignment explanation
Indices: 4203026--4203078 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
4203016 AAAATAAAGA
*
4203026 AATTAAAATTTATTTTTTAATA-AAT
1 AATTAAAATTTAGTTTTTAATATAAT
*
4203051 AATT-AAATTTAAGTTTTTAGTATAAT
1 AATTAAAATTT-AGTTTTTAATATAAT
4203077 AA
1 AA
4203079 GTATACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 13 0.54
26 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
AATTAAAATTTAGTTTTTAATATAAT
Found at i:4203215 original size:14 final size:14
Alignment explanation
Indices: 4203175--4203222 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
4203165 AAAATTTATT
4203175 TATTTATTATATAA
1 TATTTATTATATAA
*
4203189 -ATTT-TTAAAATAA
1 TATTTATT-ATATAA
4203202 TATTTATTATATAA
1 TATTTATTATATAA
*
4203216 AATTTAT
1 TATTTAT
4203223 CTTTTGTCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 15 0.54
15 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTTATTATATAA
Found at i:4216181 original size:34 final size:34
Alignment explanation
Indices: 4216137--4216202 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
4216127 AAATAATCTC
*
4216137 AGTTTGGGCCTAAGCCC-TTTTCAGTATCAGTATT
1 AGTTTAGGCCTAAGCCCATTTT-AGTATCAGTATT
*
4216171 AGTTTAGGCCTAAGCCCATTTTAGTATGAGTA
1 AGTTTAGGCCTAAGCCCATTTTAGTATCAGTA
4216203 AGCATTAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (34 bp):
AGTTTAGGCCTAAGCCCATTTTAGTATCAGTATT
Found at i:4216215 original size:34 final size:34
Alignment explanation
Indices: 4216142--4216215 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
4216132 ATCTCAGTTT
*
4216142 GGGCCTAAGCCCTTTTCAGTATCAGTATTAGTTTA
1 GGGCCTAAGCCCTTTTCAGTATCAGTA-TAGATTA
*
4216177 -GGCCTAAGCCCATTTT-AGTATGAGTA-AGCATTA
1 GGGCCTAAGCCC-TTTTCAGTATCAGTATAG-ATTA
4216210 GGGCCT
1 GGGCCT
4216216 TAGTCCATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
32 2 0.06
33 3 0.09
34 25 0.74
35 4 0.12
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (34 bp):
GGGCCTAAGCCCTTTTCAGTATCAGTATAGATTA
Found at i:4217496 original size:20 final size:20
Alignment explanation
Indices: 4217452--4217496 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
4217442 TTTGATAAAC
4217452 TCCC-CCCAATCCCTTAACT
1 TCCCTCCCAATCCCTTAACT
*
4217471 T-TCTCCCATATCCC-TAACT
1 TCCCTCCCA-ATCCCTTAACT
4217490 TCCCTCC
1 TCCCTCC
4217497 TAAAAAACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (20 bp):
TCCCTCCCAATCCCTTAACT
Found at i:4220665 original size:43 final size:42
Alignment explanation
Indices: 4220549--4220694 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 42
4220539 GTTACTCCGT
* * * * * *
4220549 GGAATCAACACTTAGCAACCAAC-TTATATTCAATGATACAG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATAATACGG
* * *
4220590 GGAATCATCACATAGTAACC-CCTTTCACAATCAAGT-ATACGG
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAA-TAATACGG
* *
4220632 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 -GGAATCAGCACTTAGCAACCACCTTTACAATCAATAATACGG
4220675 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
4220695 CGTCGAGGAA
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 19 0.22
42 32 0.37
43 30 0.34
44 5 0.06
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAATAATACGG
Found at i:4220746 original size:41 final size:41
Alignment explanation
Indices: 4220701--4220844 Score: 252
Period size: 41 Copynumber: 3.5 Consensus size: 41
4220691 AACCCGTCGA
*
4220701 GGAATCTGCACTTAGCAACCCCTTCTTGATCAGTGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
*
4220742 GGAATCTGCACTTAGCAACCCCTTTTTGATTAGTGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
* *
4220783 GGAATCTCCACTTAGCAACCCCTTTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
4220824 GGAATCTGCACTTAGCAACCC
1 GGAATCTGCACTTAGCAACCC
4220845 TTTACATTCA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
Found at i:4220755 original size:67 final size:68
Alignment explanation
Indices: 4220633--4220762 Score: 192
Period size: 67 Copynumber: 1.9 Consensus size: 68
4220623 AGTATACGGT
4220633 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCGT
1 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCGT
4220698 CGA
66 CGA
* * * * *
4220701 GGAATCTGCACTTAGCAACC-CCTTCTTG-ATCAGTGATTCGGGGAATCTGCACTTAGCAACCC
1 GGAATCAGCACTTAGCAACCACCTT-TAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCC
4220763 CTTTTTGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
67 35 0.62
68 21 0.38
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (68 bp):
GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCGT
CGA
Found at i:4223486 original size:12 final size:12
Alignment explanation
Indices: 4223469--4223501 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4223459 GTTCACAAAT
4223469 AAAAACATAAAG
1 AAAAACATAAAG
4223481 AAAAACAT-AAG
1 AAAAACATAAAG
4223492 -AAAACATAAA
1 AAAAACATAAA
4223502 AATAACTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 5 0.25
12 8 0.40
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAACATAAAG
Found at i:4233287 original size:26 final size:27
Alignment explanation
Indices: 4233257--4233429 Score: 228
Period size: 27 Copynumber: 6.6 Consensus size: 27
4233247 GGGTATAACA
*
4233257 GTCATTTTACCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
4233283 ATCATTTTA-CCTA-CGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
4233308 GTCATTTTACCCCATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
4233335 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
4233362 GTCATTTTACCCTAT-GGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
4233388 ATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
4233415 GTTATTTTACCCTAT
1 GTCATTTTACCCTAT
4233430 TTTAGGGTAT
Statistics
Matches: 128, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.16
26 35 0.27
27 72 0.56
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:4233338 original size:27 final size:26
Alignment explanation
Indices: 4233228--4233429 Score: 221
Period size: 27 Copynumber: 7.7 Consensus size: 26
4233218 AAGGCCATAA
* **
4233228 CAGTCATTTCATCTCCTA-GGGGTATAA
1 CAGTCATTTTA-C-CCTATGGGGTATTT
4233255 CAGTCATTTTACCCTATGGGGTATTT
1 CAGTCATTTTACCCTATGGGGTATTT
* *
4233281 CAATCATTTTA-CCTACGGGGTATTT
1 CAGTCATTTTACCCTATGGGGTATTT
** *
4233306 TGGTCATTTTACCCCATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
4233333 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
*
4233360 CGGTCATTTTACCCTATGGGGTATTT
1 CAGTCATTTTACCCTATGGGGTATTT
*
4233386 -TGATCATTTTACCCTATAGGGGTATTT
1 CAG-TCATTTTACCCTAT-GGGGTATTT
* *
4233413 CGGTTATTTTACCCTAT
1 CAGTCATTTTACCCTAT
4233430 TTTAGGGTAT
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
25 26 0.17
26 44 0.29
27 81 0.53
28 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
CAGTCATTTTACCCTATGGGGTATTT
Found at i:4233408 original size:53 final size:53
Alignment explanation
Indices: 4233257--4233429 Score: 242
Period size: 53 Copynumber: 3.3 Consensus size: 53
4233247 GGGTATAACA
* * *
4233257 GTCATTTTACCCTATGGGGTATTTCAATCATTTTA-CCTA-CGGGGTATTTTG
1 GTCATTTTACCCTATGGGGTATTTTAATCATTTTACCCTATAGGGGTATTTCG
* * * *
4233308 GTCATTTTACCCCATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTTAATCATTTTACCCTATAGGGGTATTTCG
*
4233362 GTCATTTTACCCTATGGGGTATTTTGATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTTAATCATTTTACCCTATAGGGGTATTTCG
*
4233415 GTTATTTTACCCTAT
1 GTCATTTTACCCTAT
4233430 TTTAGGGTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
51 14 0.13
52 19 0.17
53 52 0.48
54 24 0.22
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGTATTTTAATCATTTTACCCTATAGGGGTATTTCG
Done.