Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 12 of 284
Found at i:3874935 original size:16 final size:17
Alignment explanation
Indices: 3874914--3874948 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3874904 GTTTCAGACA
3874914 TTTTGGACTGCT-TTTG
1 TTTTGGACTGCTATTTG
*
3874930 TTTTGGACTTCTATTTG
1 TTTTGGACTGCTATTTG
3874947 TT
1 TT
3874949 GTTTTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.60
Consensus pattern (17 bp):
TTTTGGACTGCTATTTG
Found at i:3877008 original size:112 final size:112
Alignment explanation
Indices: 3876810--3877707 Score: 1778
Period size: 112 Copynumber: 8.0 Consensus size: 112
3876800 ATCTACTTTA
3876810 GACTTCTTATTATGGGCCTACGAGTCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAG
1 GACTTCTTATTATGGGCCTACGA-TCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAG
3876875 TCCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
65 TCCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3876923 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
1 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
3876988 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
66 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3877035 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
1 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
3877100 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
66 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3877147 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
1 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
3877212 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
66 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3877259 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
1 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
3877324 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
66 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3877371 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
1 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
3877436 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
66 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3877483 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
1 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
3877548 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
66 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3877595 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
1 GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
*
3877660 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCATACGCCT
66 CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
3877707 G
1 G
3877708 TATGACCATT
Statistics
Matches: 784, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
112 761 0.97
113 23 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (112 bp):
GACTTCTTATTATGGGCCTACGATCCCAAATCGATCATTGAAAACTAATCGGGACCATTCCGAGT
CCCTAAACCAACTATGAAAATTTCGTCATTGAACAGGTCACACGCCT
Found at i:3879002 original size:46 final size:47
Alignment explanation
Indices: 3878792--3879110 Score: 226
Period size: 46 Copynumber: 6.7 Consensus size: 47
3878782 CGGGCAAGTT
* *
3878792 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTAACATCACCGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTTACATC-CCGAG
* * * *
3878841 GTCGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCACATATCC-AT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-T-ACAT-CCCGAG
* **
3878891 GCCGACGGCATGTCCCAGACATGGTCTTACACT-GAC--ACATTTCGTA-
1 GCCGA-TGCATGTCCCAGACATGGTCTTACACTAG-CTTACATCCCG-AG
* *
3878937 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCCCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCCCGAG
* * *** *
3878983 GCCGATGCATGTCCTAGACAT-GTCTTACACTAGCACT-CATCTTAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC-TTACATCCCGAG
* * *** *
3879029 GCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCT-CATAATGTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-TACATCCCGAG
* * *
3879077 GCCGATGCATGTCTCAGATAT-GTCTTACAATAGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC
3879111 CCACAATAAT
Statistics
Matches: 221, Mismatches: 34, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.05
45 19 0.09
46 68 0.31
47 27 0.12
48 24 0.11
49 35 0.16
50 30 0.14
51 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCCCGAG
Found at i:3879049 original size:138 final size:145
Alignment explanation
Indices: 3878792--3879062 Score: 378
Period size: 138 Copynumber: 1.9 Consensus size: 145
3878782 CGGGCAAGTT
*
3878792 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTAACATCACCGAGGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTAACATCACCGAGGCCGATGCCATGTCCC
* * * *
3878857 AGACATGGTTTTACACTAGCTCTCACATATCCATGCCGACGGCATGTCCCAGACATGGTCTTACA
66 AGACATGGTCTTACACTAGCACTCACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACA
3878922 CTGACACATTTCGTA
131 CTGACACATTTCGTA
* * * *
3878937 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-CCGAGGCCGATG-CATGTCCT
1 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTAACATCACCGAGGCCGATGCCATGTCCC
* *
3878998 AGACAT-GTCTTACACTAGCACTCATC-T-T-AATGCCGATGCCATGTCTCAGACATGGTCTTAC
66 AGACATGGTCTTACACTAGCACTCA-CATATCAATGCCGACGCCATGTCCCAGACATGGTCTTAC
3879059 ACTG
130 ACTG
3879063 GCTCTCATAA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 33 0.29
139 1 0.01
140 17 0.15
141 14 0.12
142 11 0.10
143 17 0.15
144 14 0.12
145 7 0.06
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (145 bp):
GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTAACATCACCGAGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCACTCACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACA
CTGACACATTTCGTA
Found at i:3879080 original size:94 final size:94
Alignment explanation
Indices: 3878843--3879115 Score: 256
Period size: 94 Copynumber: 2.9 Consensus size: 94
3878833 TCACCGAGGT
* * * * * *
3878843 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCACATATCCAT-GCCGACGGCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGCCGA-TGCATGTCCT
**
3878907 AGACATGGTCTTACACT-G-ACACATTTCGTAGC
62 AGACAT-GTCTTACACTAGCACACATTTAATAGC
* *** *
3878939 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCCCGAGGCCGATGCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCTAGA
*
3879001 CATGTCTTACACTAGCACTCATCTTAAT-GC
65 CATGTCTTACACTAGCACACAT-TTAATAGC
*
3879031 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGT-CTCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCT-AGA
* * *
3879095 TATGTCTTACAATAGCCCACA
65 CATGTCTTACACTAGCACACA
3879116 ATAATCCATA
Statistics
Matches: 144, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 17 0.12
93 19 0.13
94 63 0.44
95 15 0.10
96 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAGAC
ATGTCTTACACTAGCACACATTTAATAGC
Found at i:3879104 original size:140 final size:143
Alignment explanation
Indices: 3878792--3879110 Score: 373
Period size: 140 Copynumber: 2.2 Consensus size: 143
3878782 CGGGCAAGTT
*
3878792 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTAACATCACCGAGGTCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTAACATCACCGAGGCCGATGCCATGTCCC
* * * *
3878857 AGACATGGTTTTACACTAGCTCTCACATATCCATGCCGACGGCATGTCCCAGACATGGTCTTACA
64 AGACATGGTCTTACACTAGCACTCACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACA
*
3878922 CTGACACATTTCGTA
129 CTGACACATATCGTA
* * * *
3878937 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTC-CCGAGGCCGATG-CATGTCCTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTAACATCACCGAGGCCGATGCCATGTCCCAG
* *
3879000 ACAT-GTCTTACACTAGCACTCATC-T-T-AATGCCGATGCCATGTCTCAGACATGGTCTTACAC
66 ACATGGTCTTACACTAGCACTCA-CATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACAC
* * *
3879061 TGGCTCTCATAAT-GTG
130 T-G-ACACAT-ATCGTA
* * *
3879077 GCCGATGCATGTCTCAGATATGTCTTACAATAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
3879111 CCACAATAAT
Statistics
Matches: 151, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
138 32 0.21
139 2 0.01
140 53 0.35
141 15 0.10
142 11 0.07
143 17 0.11
144 14 0.09
145 7 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (143 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTAACATCACCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCACTCACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACACT
GACACATATCGTA
Found at i:3881182 original size:7 final size:7
Alignment explanation
Indices: 3881170--3881199 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
3881160 TTCTTGGATG
3881170 ATATATA
1 ATATATA
3881177 ATATATA
1 ATATATA
3881184 ATATATA
1 ATATATA
3881191 ATATATA
1 ATATATA
3881198 AT
1 AT
3881200 TCTATACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:3882258 original size:26 final size:26
Alignment explanation
Indices: 3882229--3882332 Score: 83
Period size: 26 Copynumber: 4.2 Consensus size: 26
3882219 AAAATAAAAC
*
3882229 TTAAAAATATAATATTATTTCAAATA
1 TTAAAAATATAATATTATTTAAAATA
*
3882255 TT-AATAT-TAAT-TTA--TAAAATA
1 TTAAAAATATAATATTATTTAAAATA
* * *** *
3882276 TTAAAAGATAAAAGATTAACAAAAAAA
1 TTAAAA-ATATAATATTATTTAAAATA
*
3882303 TTAAAAATATAATATTATTTCAAATA
1 TTAAAAATATAATATTATTTAAAATA
3882329 TTAA
1 TTAA
3882333 TTTTAATTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
21 8 0.14
22 2 0.03
23 5 0.09
24 6 0.10
25 7 0.12
26 19 0.33
27 11 0.19
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAAAAATATAATATTATTTAAAATA
Found at i:3882276 original size:38 final size:38
Alignment explanation
Indices: 3882232--3882350 Score: 111
Period size: 38 Copynumber: 3.2 Consensus size: 38
3882222 ATAAAACTTA
3882232 AAAATATAATATTATTTCAAATATTAATATTAATTTAT
1 AAAATATAATATTATTTCAAATATTAATATTAATTTAT
** * * * ** *
3882270 AAAATATTAA-A--AGATAAAAGATTAACAAAAAAATTA-
1 AAAATA-TAATATTATTTCAAATATTAA-TATTAATTTAT
*
3882306 AAAATATAATATTATTTCAAATATTAATTTTAATTTAT
1 AAAATATAATATTATTTCAAATATTAATATTAATTTAT
3882344 AAAATAT
1 AAAATAT
3882351 TAAAAGATAA
Statistics
Matches: 58, Mismatches: 17, Indels: 12
0.67 0.20 0.14
Matches are distributed among these distances:
35 3 0.05
36 17 0.29
37 11 0.19
38 24 0.41
39 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (38 bp):
AAAATATAATATTATTTCAAATATTAATATTAATTTAT
Found at i:3882310 original size:74 final size:74
Alignment explanation
Indices: 3882224--3882380 Score: 296
Period size: 74 Copynumber: 2.1 Consensus size: 74
3882214 ATTTGAAAAT
*
3882224 AAAACTTAAAAATATAATATTATTTCAAATATTAATATTAATTTATAAAATATTAAAAGATAAAA
1 AAAAATTAAAAATATAATATTATTTCAAATATTAATATTAATTTATAAAATATTAAAAGATAAAA
3882289 GATTAACAA
66 GATTAACAA
*
3882298 AAAAATTAAAAATATAATATTATTTCAAATATTAATTTTAATTTATAAAATATTAAAAGATAAAA
1 AAAAATTAAAAATATAATATTATTTCAAATATTAATATTAATTTATAAAATATTAAAAGATAAAA
3882363 GATTAACAA
66 GATTAACAA
3882372 AAAAATTAA
1 AAAAATTAA
3882381 TAAAAAACTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (74 bp):
AAAAATTAAAAATATAATATTATTTCAAATATTAATATTAATTTATAAAATATTAAAAGATAAAA
GATTAACAA
Found at i:3882825 original size:12 final size:12
Alignment explanation
Indices: 3882794--3882827 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
3882784 ACAATGCTTT
*
3882794 TGAAAAGTGTTG
1 TGAAAAGTGATG
3882806 TGGAAAAGTGATG
1 T-GAAAAGTGATG
3882819 TGAAAAGTG
1 TGAAAAGTG
3882828 CTTTTGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (12 bp):
TGAAAAGTGATG
Found at i:3883161 original size:14 final size:16
Alignment explanation
Indices: 3883142--3883173 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3883132 GTAATTAGTA
3883142 TTTTAAAA-AAT-ATT
1 TTTTAAAATAATGATT
3883156 TTTTAAAATAATGATT
1 TTTTAAAATAATGATT
3883172 TT
1 TT
3883174 AACACATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAAAATAATGATT
Found at i:3888549 original size:43 final size:42
Alignment explanation
Indices: 3888502--3888595 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
3888492 TCCTAGACGT
*
3888502 GGTCTTACATGTAATCAAACATCGATG-CCACTGTCCCAGACAG
1 GGTCTTACATGAAATCAAACAT-GATGTCCA-TGTCCCAGACAG
* * * * *
3888545 GGTCTTACATGAAATCAGATATGATGTCGATGTCCTAGACAT
1 GGTCTTACATGAAATCAAACATGATGTCCATGTCCCAGACAG
3888587 GGTCTTACA
1 GGTCTTACA
3888596 CATAAAACAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 23 0.52
43 21 0.48
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAACATGATGTCCATGTCCCAGACAG
Found at i:3888592 original size:42 final size:43
Alignment explanation
Indices: 3888492--3888595 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
3888482 AATGCCAACA
* *
3888492 TCCTAGACGTGGTCTTACATGTAATCAAACATCGATGCCACTG
1 TCCTAGACATGGTCTTACATGAAATCAAACATCGATGCCACTG
* * * * *
3888535 TCCCAGACAGGGTCTTACATGAAATCAGATAT-GATGTCGA-TG
1 TCCTAGACATGGTCTTACATGAAATCAAACATCGATG-CCACTG
3888577 TCCTAGACATGGTCTTACA
1 TCCTAGACATGGTCTTACA
3888596 CATAAAACAG
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 23 0.45
43 28 0.55
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACATGAAATCAAACATCGATGCCACTG
Found at i:3890883 original size:11 final size:10
Alignment explanation
Indices: 3890863--3890896 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3890853 GAACTTTTAA
3890863 AATAATTTTT
1 AATAATTTTT
3890873 AATAATCTTTT
1 AATAAT-TTTT
*
3890884 TATAATTTTT
1 AATAATTTTT
3890894 AAT
1 AAT
3890897 TTTTTTCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
AATAATTTTT
Found at i:3896505 original size:55 final size:55
Alignment explanation
Indices: 3896444--3896553 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
3896434 ATAAAATACC
3896444 TTATAATTGTCACACATTTATCACCACAAATGTCGATGAAATTCTGCCAAATATT
1 TTATAATTGTCACACATTTATCACCACAAATGTCGATGAAATTCTGCCAAATATT
*
3896499 TTATAATTGTCACACATTTATCACCACAAATGTCGCTGAAATTCTGCCAAATATT
1 TTATAATTGTCACACATTTATCACCACAAATGTCGATGAAATTCTGCCAAATATT
3896554 AGTTTAGCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (55 bp):
TTATAATTGTCACACATTTATCACCACAAATGTCGATGAAATTCTGCCAAATATT
Found at i:3898713 original size:23 final size:23
Alignment explanation
Indices: 3898663--3898714 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
3898653 AATAAACTTC
* * *
3898663 AAAAATAATAATAGAAATGATCT
1 AAAAGTAATAATAGAAATAACCT
3898686 AAAAGTAATAATAGAAATAACCT
1 AAAAGTAATAATAGAAATAACCT
3898709 AAAAGT
1 AAAAGT
3898715 TATAGTGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.23
Consensus pattern (23 bp):
AAAAGTAATAATAGAAATAACCT
Found at i:3900561 original size:60 final size:59
Alignment explanation
Indices: 3900424--3900572 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 59
3900414 CTATTCAGAA
* * * *
3900424 ATCAGAGT-TAACTAGGCCTCAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTATAG
1 ATCAGAGTAT-ACTGGGCCT-AGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAG
* *
3900484 TATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAG
1 -ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTA-AAG
* *
3900546 -TC-GAGATATATTGGGCCTTGCCCATAT
1 ATCAGAG-TATACTGGGCCTAGCCCATAT
3900573 TAACATAGTT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
59 3 0.04
60 51 0.67
61 19 0.25
62 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAG
Found at i:3900590 original size:20 final size:20
Alignment explanation
Indices: 3900565--3900610 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3900555 ATTGGGCCTT
3900565 GCCCATATT-AACATAGTTGG
1 GCCCATATTCAACATAGTT-G
*
3900585 GCCCAT-TTCAATATAGTTG
1 GCCCATATTCAACATAGTTG
3900604 GCCCATA
1 GCCCATA
3900611 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
GCCCATATTCAACATAGTTG
Found at i:3902748 original size:15 final size:15
Alignment explanation
Indices: 3902730--3902758 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3902720 CTAAATATAC
3902730 AAAATAATAATAATA
1 AAAATAATAATAATA
3902745 AAAATAATAATAAT
1 AAAATAATAATAAT
3902759 GATAACATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAATAATAATA
Found at i:3907483 original size:23 final size:23
Alignment explanation
Indices: 3907456--3907503 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3907446 AGTAGGCATG
3907456 TAAGGTCTAGTATACGAAATGTA
1 TAAGGTCTAGTATACGAAATGTA
* *
3907479 TAAGGTCTGGTATACGAAATTTA
1 TAAGGTCTAGTATACGAAATGTA
3907502 TA
1 TA
3907504 GTCAGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (23 bp):
TAAGGTCTAGTATACGAAATGTA
Found at i:3909046 original size:17 final size:18
Alignment explanation
Indices: 3909024--3909062 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3909014 AGTTTTCAGC
*
3909024 TTTGGAAG-TTTGTTTCA
1 TTTGGAAGATTTCTTTCA
*
3909041 TTTGGAAGATTTCTTTCT
1 TTTGGAAGATTTCTTTCA
3909059 TTTG
1 TTTG
3909063 ATTTTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.15, C:0.08, G:0.21, T:0.56
Consensus pattern (18 bp):
TTTGGAAGATTTCTTTCA
Found at i:3910031 original size:35 final size:30
Alignment explanation
Indices: 3909960--3910019 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
3909950 AGAGGGGGTG
*
3909960 AGCTACACGAGCTTAGTGTAAGGTCAGAAC
1 AGCTACACGAGCTTAGTGTAAAGTCAGAAC
3909990 AGCTACACGAGCTTAGTGTAAAGTCAGAAC
1 AGCTACACGAGCTTAGTGTAAAGTCAGAAC
3910020 TATCTAGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (30 bp):
AGCTACACGAGCTTAGTGTAAAGTCAGAAC
Found at i:3914879 original size:18 final size:18
Alignment explanation
Indices: 3914856--3914892 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3914846 TTAAGTAATG
3914856 AATATATTTTTTTAAGAA
1 AATATATTTTTTTAAGAA
3914874 AATATATTTTTTTAAGAA
1 AATATATTTTTTTAAGAA
3914892 A
1 A
3914893 CTAACTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
AATATATTTTTTTAAGAA
Found at i:3920459 original size:23 final size:23
Alignment explanation
Indices: 3920427--3920470 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3920417 ACTACCATTT
3920427 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
3920450 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
3920471 ATAATATTTA
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:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:3920463 original size:13 final size:11
Alignment explanation
Indices: 3920431--3920473 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
3920421 CCATTTTCTA
*
3920431 AATAAAATAAT
1 AATAAAATATT
3920442 AAT-AAATATCT
1 AATAAAATAT-T
3920453 AAGTAAAATATT
1 AA-TAAAATATT
3920465 AATAAAATA
1 AATAAAATA
3920474 ATATTTAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:3920852 original size:3 final size:3
Alignment explanation
Indices: 3920844--3920871 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3920834 GCCTACTTCT
3920844 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3920872 ACTCCTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3924252 original size:61 final size:60
Alignment explanation
Indices: 3924157--3924278 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 60
3924147 AACTGACCTG
*
3924157 TCACACTTGTGGTCAAGCCACTTTAATTTATGATATTTCGTGCTAATTTTCTACTCGGCA
1 TCACACTTGTGGTCAAGCCACTTTAATTTATGATATTTCGTGCTAATTTTCTACTAGGCA
3924217 NTCACACTTGTGGTCAAGCCACTTTAATTTATGATATTTCGTGCTAATTTTCTACTAGGCA
1 -TCACACTTGTGGTCAAGCCACTTTAATTTATGATATTTCGTGCTAATTTTCTACTAGGCA
3924278 T
1 T
3924279 TCGTACGCCA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 1 0.02
61 59 0.98
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (60 bp):
TCACACTTGTGGTCAAGCCACTTTAATTTATGATATTTCGTGCTAATTTTCTACTAGGCA
Found at i:3926253 original size:19 final size:19
Alignment explanation
Indices: 3926228--3926284 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
3926218 CAAAAATAAA
3926228 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
3926247 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
3926266 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
3926284 A
1 A
3926285 TTTTATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.32
19 23 0.68
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:3926309 original size:25 final size:25
Alignment explanation
Indices: 3926261--3926311 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
3926251 ATTCAAAATA
*
3926261 TTTATAAAAATTCCAAAATTTATAT
1 TTTATAAAAATTCCAAAATATATAT
*
3926286 TTTATAAAAAATTCTAAAAATATATA
1 TTTAT-AAAAATTC-CAAAATATATA
3926312 AAGAAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 8 0.36
27 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTATAAAAATTCCAAAATATATAT
Found at i:3926533 original size:20 final size:20
Alignment explanation
Indices: 3926510--3926548 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3926500 ATAATTTCAC
* *
3926510 TCAATTCGATTCGATTTGAT
1 TCAATTCGACTCGACTTGAT
3926530 TCAATTCGACTCGACTTGA
1 TCAATTCGACTCGACTTGA
3926549 ATTTAATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
TCAATTCGACTCGACTTGAT
Found at i:3926568 original size:31 final size:30
Alignment explanation
Indices: 3926523--3926604 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
3926513 ATTCGATTCG
* *
3926523 ATTTGATTCAATTCGACTCGACTTGAATTT-A
1 ATTTCATTCTATTCGACTC-ACTTG-ATTTGA
*
3926554 ATTTCATTCTATTCGATTTCACTTGATTTGA
1 ATTTCATTCTATTCGA-CTCACTTGATTTGA
3926585 ATTTCATT-TCATTCGACTCA
1 ATTTCATTCT-ATTCGACTCA
3926605 ATTTGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
30 8 0.18
31 34 0.77
32 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (30 bp):
ATTTCATTCTATTCGACTCACTTGATTTGA
Found at i:3927447 original size:20 final size:21
Alignment explanation
Indices: 3927422--3927465 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
3927412 AAAAAATTAC
3927422 TTAAAT-TTATTTTAAAATAT
1 TTAAATATTATTTTAAAATAT
*
3927442 TTAAATATTATTTTAAAATTT
1 TTAAATATTATTTTAAAATAT
3927463 TTA
1 TTA
3927466 TTACTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAATATTATTTTAAAATAT
Found at i:3954655 original size:2 final size:2
Alignment explanation
Indices: 3954648--3954682 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3954638 TGAAAGTTTC
3954648 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3954683 CTAGGGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:3965565 original size:44 final size:44
Alignment explanation
Indices: 3965502--3965591 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
3965492 GACAATCCCG
3965502 AGTCTGATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAA
1 AGTCTGATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAA
*
3965546 AGTCTGATAGCTGACGAACCAAAATCTATAAAATAGAGAATCAA
1 AGTCTGATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAA
3965590 AG
1 AG
3965592 ATTCGGAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (44 bp):
AGTCTGATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAA
Found at i:3966385 original size:102 final size:102
Alignment explanation
Indices: 3966209--3966412 Score: 399
Period size: 102 Copynumber: 2.0 Consensus size: 102
3966199 TCTAGCTACC
3966209 ACACCGTTTCAAATTTTGCCATGGGTTAAGCAAAGAACTTAATGACTAACTCACAAATGCTAAAA
1 ACACCGTTTCAAATTTTGCCATGGGTTAAGCAAAGAACTTAATGACTAACTCACAAATGCTAAAA
3966274 AGAAAATCCAAGAATCATCAATCCACCATCACATGTA
66 AGAAAATCCAAGAATCATCAATCCACCATCACATGTA
*
3966311 ACACCGTTTCAAATTTTGCCATGGGTTAAGCAAAGAACTTAATGATTAACTCACAAATGCTAAAA
1 ACACCGTTTCAAATTTTGCCATGGGTTAAGCAAAGAACTTAATGACTAACTCACAAATGCTAAAA
3966376 AGAAAATCCAAGAATCATCAATCCACCATCACATGTA
66 AGAAAATCCAAGAATCATCAATCCACCATCACATGTA
3966413 TCATTACAAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (102 bp):
ACACCGTTTCAAATTTTGCCATGGGTTAAGCAAAGAACTTAATGACTAACTCACAAATGCTAAAA
AGAAAATCCAAGAATCATCAATCCACCATCACATGTA
Found at i:3968176 original size:116 final size:116
Alignment explanation
Indices: 3967969--3968198 Score: 370
Period size: 116 Copynumber: 2.0 Consensus size: 116
3967959 ATCTCTATCC
* *
3967969 GACACAATAGAAATAGGTACCCCGTGTAATCTTACAATCTGAGAAACATACAATTCAGCTAATTT
1 GACACAATAGAAATAGGTACCCCATGTAATCTCACAATCTGAGAAACATACAATTCAGCTAATTT
* *
3968034 ATCCAATGAATAATCCGTACGTACGGGAATAAAATGAGCCGACTTAGTCTG
66 ATCCAATGAAAAATCCGTACGCACGGGAATAAAATGAGCCGACTTAGTCTG
* * * *
3968085 GACACGATAGAAATAGGTACTCCATGTAATCTCACAATCTGAGAAACATACAATTCGGCTAGTTT
1 GACACAATAGAAATAGGTACCCCATGTAATCTCACAATCTGAGAAACATACAATTCAGCTAATTT
* *
3968150 ATCCAATGAAAAATCCGTACGCACGGGGATAAAGTGAGCCGACTTAGTC
66 ATCCAATGAAAAATCCGTACGCACGGGAATAAAATGAGCCGACTTAGTC
3968199 AGTCTATCAA
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 104 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (116 bp):
GACACAATAGAAATAGGTACCCCATGTAATCTCACAATCTGAGAAACATACAATTCAGCTAATTT
ATCCAATGAAAAATCCGTACGCACGGGAATAAAATGAGCCGACTTAGTCTG
Found at i:3969287 original size:143 final size:143
Alignment explanation
Indices: 3969022--3969300 Score: 432
Period size: 143 Copynumber: 2.0 Consensus size: 143
3969012 GACGCATAGG
* * * *
3969022 CCACAACTCGACCTTCTTGCATCAATACGCAACCCAACCCGAGTAGGGATGCGTCACTATAAATG
1 CCACAACTCGACCTTCTTGCATCAATACACAACCCAACCCAAGTAAGGATGCATCACTATAAATG
* * * *
3969087 ACAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTG
66 ACAAACTCTTTGCCTGATTCAGGCTGCACTAAAACTGGAGCTTCAGTCAAATAAGTTTTCAGTTG
3969152 ATCGAAGCCTTTC
131 ATCGAAGCCTTTC
* *
3969165 CCACAACTCGACCTTCTTGCATCAATACACAACCCAACCCAAGTAAGGATGCATCACTGTAGATG
1 CCACAACTCGACCTTCTTGCATCAATACACAACCCAACCCAAGTAAGGATGCATCACTATAAATG
** * *
3969230 ACAAACTCTTTGCCTGATTCAGGCTGCACTAGTACTGGAGCTTCAGTCAAGTAAGTTTTTAGTTG
66 ACAAACTCTTTGCCTGATTCAGGCTGCACTAAAACTGGAGCTTCAGTCAAATAAGTTTTCAGTTG
3969295 ATCGAA
131 ATCGAA
3969301 ACTTTTCTGA
Statistics
Matches: 122, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 122 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (143 bp):
CCACAACTCGACCTTCTTGCATCAATACACAACCCAACCCAAGTAAGGATGCATCACTATAAATG
ACAAACTCTTTGCCTGATTCAGGCTGCACTAAAACTGGAGCTTCAGTCAAATAAGTTTTCAGTTG
ATCGAAGCCTTTC
Found at i:3969606 original size:102 final size:102
Alignment explanation
Indices: 3969458--3969661 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 102
3969448 CGGAGGCTTC
* *
3969458 CAGTTAAGTATGGCTGAAATTTTGCTCGGGTCAACTCGAATACCCGATGCGGATACCACATGACC
1 CAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGACC
3969523 CAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTA
66 CAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTA
3969560 CAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGACC
1 CAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGACC
*
3969625 CAAGAAGCTAACCTCTCTTAACCAGAACTCGCACTTA
66 CAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTA
3969662 TTGAACTTAG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGACC
CAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTA
Found at i:3973666 original size:40 final size:40
Alignment explanation
Indices: 3973596--3973690 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
3973586 AAACCAAGTA
* * * *
3973596 CCTTTGGGATTTAG-CCGGATATAGCTACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
*
3973635 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
3973675 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
3973691 NNNNNNNNNN
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 13 0.27
40 36 0.73
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:3975567 original size:21 final size:21
Alignment explanation
Indices: 3975543--3975592 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
3975533 AATTAGATTA
3975543 AATTATATATAAAAATTAAAT
1 AATTATATATAAAAATTAAAT
** *
3975564 AATTATAT-TCCATATTAAAT
1 AATTATATATAAAAATTAAAT
3975584 AA-TATATAT
1 AATTATATAT
3975593 TAATTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTATATATAAAAATTAAAT
Found at i:3976287 original size:8 final size:8
Alignment explanation
Indices: 3976276--3976340 Score: 60
Period size: 9 Copynumber: 7.5 Consensus size: 8
3976266 TTAATTTCTT
3976276 AAAATTTA
1 AAAATTTA
3976284 AAAATTTAA
1 AAAATTT-A
3976293 AAAATTTA
1 AAAATTTA
3976301 AAAATTATTA
1 AAAA-T-TTA
*
3976311 AAATTATTA
1 AAAAT-TTA
3976320 AAAATGTATA
1 AAAAT-T-TA
3976330 AAAA-TTA
1 AAAATTTA
3976337 AAAA
1 AAAA
3976341 GAATATTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
7 6 0.12
8 13 0.26
9 19 0.38
10 12 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (8 bp):
AAAATTTA
Found at i:3976298 original size:17 final size:17
Alignment explanation
Indices: 3976276--3976340 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
3976266 TTAATTTCTT
3976276 AAAATTTAAAAATTTAA
1 AAAATTTAAAAATTTAA
*
3976293 AAAATTTAAAAATTATTA
1 AAAATTTAAAAATT-TAA
* *
3976311 AAATTATTAAAAATGTATA
1 AAAAT-TTAAAAATTTA-A
3976330 AAAA-TTAAAAA
1 AAAATTTAAAAA
3976341 GAATATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 21 0.52
18 7 0.17
19 12 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATTTAAAAATTTAA
Found at i:3977877 original size:39 final size:39
Alignment explanation
Indices: 3977821--3977899 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
3977811 ATCTTAAGAA
3977821 ACCAAAAAAATAATTTGCCTTTTTTCACCAACTAACTCT
1 ACCAAAAAAATAATTTGCCTTTTTTCACCAACTAACTCT
* * *
3977860 ACCAAAAATATAGTTTGCCTTTTTTCACCAACTAGCTCT
1 ACCAAAAAAATAATTTGCCTTTTTTCACCAACTAACTCT
3977899 A
1 A
3977900 GCAGAATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.34
Consensus pattern (39 bp):
ACCAAAAAAATAATTTGCCTTTTTTCACCAACTAACTCT
Found at i:3979155 original size:17 final size:17
Alignment explanation
Indices: 3979137--3979182 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
3979127 TAAATTAATA
3979137 AAATAAA-AATAAAAAT
1 AAATAAATAATAAAAAT
*
3979153 AAATAAATAATAAAACT
1 AAATAAATAATAAAAAT
*
3979170 AACTAAAATAATA
1 AAAT-AAATAATA
3979183 TCTTCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 7 0.27
17 11 0.42
18 8 0.31
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAATAATAAAAAT
Found at i:3986401 original size:33 final size:33
Alignment explanation
Indices: 3986359--3986422 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
3986349 ATTATAATCT
* *
3986359 TCCATATTAATAATGTAGAAATCTGTAGGGACC
1 TCCATATTAATAATATAGAAATCTATAGGGACC
3986392 TCCATATTAATAATATAGAAATCTATAGGGA
1 TCCATATTAATAATATAGAAATCTATAGGGA
3986423 AAACTAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (33 bp):
TCCATATTAATAATATAGAAATCTATAGGGACC
Found at i:3989709 original size:17 final size:17
Alignment explanation
Indices: 3989691--3989736 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
3989681 TAAATTAATA
3989691 AAATAAA-AATAAAAAT
1 AAATAAATAATAAAAAT
*
3989707 AAATAAATAATAAAACT
1 AAATAAATAATAAAAAT
*
3989724 AACTAAAATAATA
1 AAAT-AAATAATA
3989737 TCTTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 7 0.27
17 11 0.42
18 8 0.31
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAATAATAAAAAT
Found at i:4001601 original size:47 final size:47
Alignment explanation
Indices: 4001528--4001751 Score: 203
Period size: 47 Copynumber: 4.8 Consensus size: 47
4001518 TATTTGTGTG
*
4001528 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGACGA-T
*
4001577 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGAC-AT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTCGAGACGAT
* * * *
4001621 AAGCCAGTGTAAGA-CATGTCTAGGACAT-GCGTCGGCTACGAGATGAT
1 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGACGAT
* * * * *
4001668 AG-TCAGCGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGA-TAT
1 AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGACGAT
* * *
4001714 GAGCCAGTGTAAGACCATGTCTAGGACATGACATCGGC
1 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
4001752 ACCTTACCCC
Statistics
Matches: 145, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 56 0.39
47 65 0.45
48 19 0.13
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (47 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGACGAT
Found at i:4003364 original size:12 final size:12
Alignment explanation
Indices: 4003347--4003371 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4003337 CTGTATGTTC
4003347 TTTATTTTATTT
1 TTTATTTTATTT
4003359 TTTATTTTATTT
1 TTTATTTTATTT
4003371 T
1 T
4003372 ATTTTCTCAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:4007531 original size:16 final size:18
Alignment explanation
Indices: 4007496--4007533 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4007486 ATCCTTATTT
*
4007496 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
4007514 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
4007530 AAAT
1 AAAT
4007534 TCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:4007789 original size:5 final size:5
Alignment explanation
Indices: 4007779--4007806 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4007769 CTGTGTGTTC
4007779 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
4007807 CTCATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:4009766 original size:26 final size:26
Alignment explanation
Indices: 4009696--4009774 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
4009686 TTTTCTCATC
* * *
4009696 ACAATTTCACCATCAATAAAATTTTG
1 ACAATTTGACCCTCAGTAAAATTTTG
* *
4009722 ACAATTTTACCCTCGGTAAAATTTTG
1 ACAATTTGACCCTCAGTAAAATTTTG
*
4009748 A-AGATTTGACCC-CTAGTAAAACTTTG
1 ACA-ATTTGACCCTC-AGTAAAATTTTG
4009774 A
1 A
4009775 GAAAATTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.05
26 42 0.95
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (26 bp):
ACAATTTGACCCTCAGTAAAATTTTG
Found at i:4015680 original size:39 final size:40
Alignment explanation
Indices: 4015467--4015689 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 40
4015457 TTGAATGCTG
* * * * * *
4015467 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * * *
4015507 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCAAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
4015547 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
4015587 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
4015627 TCCAGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
4015666 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
4015690 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
39 32 0.21
40 116 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:4017870 original size:46 final size:45
Alignment explanation
Indices: 4017719--4017889 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
4017709 ACATATCGGT
* * *
4017719 GCCGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCACA-CATCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATC-TCGA
* *
4017768 TGCCAATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCGTA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-A
4017813 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
4017858 GCCCGATGCATGTCCCAGACATGTCTTACACT
1 G-CCGATGCATGTCCCAGACATGTCTTACACT
4017890 AACTCACATA
Statistics
Matches: 109, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
44 37 0.34
45 4 0.04
46 38 0.35
48 12 0.11
49 12 0.11
50 6 0.06
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
Found at i:4017876 original size:90 final size:94
Alignment explanation
Indices: 4017719--4017890 Score: 248
Period size: 90 Copynumber: 1.9 Consensus size: 94
4017709 ACATATCGGT
*
4017719 GCCGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCC
4017784 AGACATGTCTTACACTAGCACATCTCGTA
66 AGACATGTCTTACACTAGCACATCTCGTA
* * *
4017813 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATC-TCGA-GCCCGATGCATGTC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACA-CATCAATG-CCAATGCATGTC
4017872 CCAGACATGTCTTACACTA
64 CCAGACATGTCTTACACTA
4017891 ACTCACATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
89 1 0.01
90 36 0.50
91 2 0.03
92 14 0.19
93 12 0.17
94 7 0.10
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (94 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCC
AGACATGTCTTACACTAGCACATCTCGTA
Found at i:4022239 original size:152 final size:152
Alignment explanation
Indices: 4021963--4022265 Score: 606
Period size: 152 Copynumber: 2.0 Consensus size: 152
4021953 TCTCGAACTT
4021963 AATTGTCATTCCAAAATGCCAACAAAAATGACCAACATTATTATCAACAATGGGTTGTTTCATTG
1 AATTGTCATTCCAAAATGCCAACAAAAATGACCAACATTATTATCAACAATGGGTTGTTTCATTG
4022028 GGTAAAAACCTGAAGGAGAAGTGAAAGCAAAATCATTGTCCTAGAGCTTTATGTTGGTCCTTTCG
66 GGTAAAAACCTGAAGGAGAAGTGAAAGCAAAATCATTGTCCTAGAGCTTTATGTTGGTCCTTTCG
4022093 GACCAATTAAATATATCAGAAA
131 GACCAATTAAATATATCAGAAA
4022115 AATTGTCATTCCAAAATGCCAACAAAAATGACCAACATTATTATCAACAATGGGTTGTTTCATTG
1 AATTGTCATTCCAAAATGCCAACAAAAATGACCAACATTATTATCAACAATGGGTTGTTTCATTG
4022180 GGTAAAAACCTGAAGGAGAAGTGAAAGCAAAATCATTGTCCTAGAGCTTTATGTTGGTCCTTTCG
66 GGTAAAAACCTGAAGGAGAAGTGAAAGCAAAATCATTGTCCTAGAGCTTTATGTTGGTCCTTTCG
4022245 GACCAATTAAATATATCAGAA
131 GACCAATTAAATATATCAGAA
4022266 TAAACATGAT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (152 bp):
AATTGTCATTCCAAAATGCCAACAAAAATGACCAACATTATTATCAACAATGGGTTGTTTCATTG
GGTAAAAACCTGAAGGAGAAGTGAAAGCAAAATCATTGTCCTAGAGCTTTATGTTGGTCCTTTCG
GACCAATTAAATATATCAGAAA
Found at i:4022927 original size:19 final size:19
Alignment explanation
Indices: 4022903--4022940 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4022893 ACCATTGTCA
4022903 CCCACCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
*
4022922 CCCACCATAATTAAATTTG
1 CCCACCATAATCAAATTTG
4022941 TTACTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
CCCACCATAATCAAATTTG
Found at i:4027632 original size:102 final size:102
Alignment explanation
Indices: 4027456--4027658 Score: 370
Period size: 102 Copynumber: 2.0 Consensus size: 102
4027446 ACATGTTCAC
* * *
4027456 ATAGTTCAAACAATGTGAATATGACAATGCCTTGTACATGAGAAATTCTTCCACCGCAACAATCA
1 ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
*
4027521 AAGGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
66 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
4027558 ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
1 ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
4027623 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCA
66 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCA
4027659 GAAAAGTTTT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (102 bp):
ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
Found at i:4028255 original size:21 final size:19
Alignment explanation
Indices: 4028229--4028319 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 19
4028219 TAATGTTTCT
4028229 TTTAAATCGATTGTCTATATG
1 TTTAAATCGATTGT-T-TATG
*
4028250 TTTAAATCTATTG-TTATG
1 TTTAAATCGATTGTTTATG
* *
4028268 TTGAAAT--ATTGTTTCT-
1 TTTAAATCGATTGTTTATG
4028284 TTTAAATCGATTGTTTATATG
1 TTTAAATCGATTG-TT-TATG
4028305 TTTAAATCGATTGTT
1 TTTAAATCGATTGTT
4028320 ACATTGGAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
16 10 0.17
17 3 0.05
18 14 0.24
19 3 0.05
20 4 0.07
21 25 0.42
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (19 bp):
TTTAAATCGATTGTTTATG
Found at i:4028306 original size:55 final size:55
Alignment explanation
Indices: 4028217--4028429 Score: 257
Period size: 55 Copynumber: 3.9 Consensus size: 55
4028207 AAATTTTTGG
* * * *
4028217 AATAATGTTTCTTTTAAATCGATTGTCTATATGTTTAAATCTATTGTTATGTTGA
1 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
* *
4028272 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTACATTGG
1 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
*** * * **
4028327 AATATCACTTCTTTTAAATCAATTGTTTATATGTCTAAATTAATTGTTATATT-A
1 AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
* * * *
4028381 GAATACTGTTTTTTTTGAATCGATTGTTTATATTTTTAAATCGATTGTT
1 -AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTT
4028430 GTGTAGCATA
Statistics
Matches: 131, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
55 131 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (55 bp):
AATATTGTTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTATATTGA
Found at i:4028406 original size:110 final size:110
Alignment explanation
Indices: 4028225--4028429 Score: 306
Period size: 110 Copynumber: 1.9 Consensus size: 110
4028215 GGAATAATGT
* * * *
4028225 TTCTTTTAAATCGATTGTCTATATGTTTAAATCTATTGTTATGTTGAAATATTGTTTCTTTTAAA
1 TTCTTTTAAATCAATTGTCTATATGTCTAAATCTATTGTTATATTGAAATACTGTTTCTTTTAAA
4028290 TCGATTGTTTATATGTTTAAATCGATTGTTACATTGGAATATCAC
66 TCGATTGTTTATATGTTTAAATCGATTGTTACATTGGAATATCAC
* * *
4028335 TTCTTTTAAATCAATTGTTTATATGTCTAAAT-TAATTGTTATATT-AGAATACTGTTTTTTTTG
1 TTCTTTTAAATCAATTGTCTATATGTCTAAATCT-ATTGTTATATTGA-AATACTGTTTCTTTTA
*
4028398 AATCGATTGTTTATATTTTTAAATCGATTGTT
64 AATCGATTGTTTATATGTTTAAATCGATTGTT
4028430 GTGTAGCATA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
109 2 0.02
110 83 0.98
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (110 bp):
TTCTTTTAAATCAATTGTCTATATGTCTAAATCTATTGTTATATTGAAATACTGTTTCTTTTAAA
TCGATTGTTTATATGTTTAAATCGATTGTTACATTGGAATATCAC
Found at i:4030775 original size:48 final size:48
Alignment explanation
Indices: 4030691--4030783 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
4030681 GCTCATGTGG
* * *
4030691 GTTCATTTTTCTACAAAGGAAGTGTAGTACAGAGACTAGAAGATGTAA
1 GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATGTAA
* *
4030739 GTTCCTTTTTCTACGAAGGAAGTGCAGCACAAAGACTAGAAGATG
1 GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATG
4030784 GAAGCATTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (48 bp):
GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATGTAA
Found at i:4033252 original size:24 final size:24
Alignment explanation
Indices: 4033225--4033283 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
4033215 TACTTAATAC
4033225 TTAAGTAT-ATAATATAATAATATA
1 TTAA-TATAATAATATAATAATATA
4033249 TTAATATAATAATATAATAATATA
1 TTAATATAATAATATAATAATATA
**
4033273 ACAATATAATA
1 TTAATATAATA
4033284 TAATAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 3 0.09
24 29 0.91
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TTAATATAATAATATAATAATATA
Found at i:4033255 original size:16 final size:15
Alignment explanation
Indices: 4033230--4033289 Score: 79
Period size: 16 Copynumber: 4.0 Consensus size: 15
4033220 AATACTTAAG
4033230 TATATAATATAATAA
1 TATATAATATAATAA
4033245 TATATTAATATAATAA
1 TATA-TAATATAATAA
*
4033261 TATAATAATATAA-CA
1 TAT-ATAATATAATAA
4033276 -ATATAATATAATAA
1 TATATAATATAATAA
4033290 AACATAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
13 9 0.22
14 3 0.08
15 5 0.12
16 22 0.55
17 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:4033289 original size:8 final size:8
Alignment explanation
Indices: 4033233--4033283 Score: 84
Period size: 8 Copynumber: 6.4 Consensus size: 8
4033223 ACTTAAGTAT
4033233 ATAATATA
1 ATAATATA
4033241 ATAATATA
1 ATAATATA
*
4033249 TTAATATA
1 ATAATATA
4033257 ATAATATA
1 ATAATATA
4033265 ATAATATA
1 ATAATATA
*
4033273 ACAATATA
1 ATAATATA
4033281 ATA
1 ATA
4033284 TAATAAAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:4033289 original size:24 final size:21
Alignment explanation
Indices: 4033231--4033289 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 21
4033221 ATACTTAAGT
*
4033231 ATATAATATAATAATATATTAA
1 ATATAATATAATAATATA-TCA
*
4033253 TATAATAATATAATAATATAACA
1 -AT-ATAATATAATAATATATCA
4033276 ATATAATATAATAA
1 ATATAATATAATAA
4033290 AACATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.36
22 2 0.06
23 3 0.09
24 16 0.48
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATAATATAATAATATATCA
Found at i:4033299 original size:21 final size:21
Alignment explanation
Indices: 4033231--4033299 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
4033221 ATACTTAAGT
* *
4033231 ATATAATATAATAATATATTA
1 ATATAATATAATAAAATATAA
4033252 ATATAATA-ATATAATAATATAACA
1 ATATAATATA-ATAA-AATAT-A-A
*
4033276 ATATAATATAATAAAACATAA
1 ATATAATATAATAAAATATAA
4033297 ATA
1 ATA
4033300 AACTAAAGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.03
21 16 0.40
22 5 0.12
23 4 0.10
24 13 0.32
25 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAATATAATAAAATATAA
Found at i:4033334 original size:21 final size:21
Alignment explanation
Indices: 4033309--4033353 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4033299 AAACTAAAGT
4033309 AAATAAA-ACAAAGAAAAAGAG
1 AAATAAAGA-AAAGAAAAAGAG
* *
4033330 AAATAAAGAAACGAAACAGAG
1 AAATAAAGAAAAGAAAAAGAG
4033351 AAA
1 AAA
4033354 AATAGGGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (21 bp):
AAATAAAGAAAAGAAAAAGAG
Found at i:4050436 original size:27 final size:24
Alignment explanation
Indices: 4050406--4050475 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 24
4050396 GTTTGAAATC
4050406 AAGATTTGGGTGAAGAAAATGCAAGA
1 AAGATTT-GGTGAAGAAAATG-AAGA
*
4050432 GAAGATTT-GAGAA-AAAATGAAGA
1 -AAGATTTGGTGAAGAAAATGAAGA
* *
4050455 AAGATTT-GTGTAGAAGATGAA
1 AAGATTTGGTGAAGAAAATGAA
4050476 AGTGGTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 10 0.26
23 11 0.29
24 6 0.16
25 4 0.11
27 7 0.18
ACGTcount: A:0.49, C:0.01, G:0.29, T:0.21
Consensus pattern (24 bp):
AAGATTTGGTGAAGAAAATGAAGA
Found at i:4054082 original size:24 final size:24
Alignment explanation
Indices: 4054037--4054083 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4054027 CTGAGTCCTG
* *
4054037 AAGCTCCAACTTCTTTGTCACAAC
1 AAGCACCAACTTCTTTGACACAAC
4054061 AAGCACCAACTTCTGTT-ACACAA
1 AAGCACCAACTTCT-TTGACACAA
4054084 GGTATATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.26
Consensus pattern (24 bp):
AAGCACCAACTTCTTTGACACAAC
Found at i:4056971 original size:5 final size:5
Alignment explanation
Indices: 4056961--4056985 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4056951 CAAGTATATC
4056961 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
4056986 TGGTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:4065605 original size:33 final size:33
Alignment explanation
Indices: 4065568--4065642 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
4065558 CATTACTTAC
* * *
4065568 ATGTATTTATATTTAATGAATGTA-TTAGAGTAG
1 ATGTATCTA-ATTTAATGAATATATTTAGAGAAG
*
4065601 ATGTATCTAGTTTAATGAATATATTTAGAGAAG
1 ATGTATCTAATTTAATGAATATATTTAGAGAAG
4065634 ATGTATCTA
1 ATGTATCTA
4065643 GTAGTCATGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 12 0.32
33 25 0.68
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATCTAATTTAATGAATATATTTAGAGAAG
Found at i:4065616 original size:32 final size:33
Alignment explanation
Indices: 4065579--4065644 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
4065569 TGTATTTATA
* *
4065579 TTTAATGAATGTA-TTAGAGTAGATGTATCTAG
1 TTTAATGAATATATTTAGAGAAGATGTATCTAG
4065611 TTTAATGAATATATTTAGAGAAGATGTATCTAG
1 TTTAATGAATATATTTAGAGAAGATGTATCTAG
4065644 T
1 T
4065645 AGTCATGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (33 bp):
TTTAATGAATATATTTAGAGAAGATGTATCTAG
Found at i:4077255 original size:40 final size:40
Alignment explanation
Indices: 4077224--4077553 Score: 502
Period size: 40 Copynumber: 8.3 Consensus size: 40
4077214 GGACTAAGAT
* * * *
4077224 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
4077264 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
4077304 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
4077344 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
4077384 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
4077424 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
4077464 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
4077504 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
4077543 CCGAAGGCATT
1 CCGAAGGCATT
4077554 TGAACGAGGA
Statistics
Matches: 275, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 34 0.12
40 238 0.87
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:4077308 original size:80 final size:80
Alignment explanation
Indices: 4077171--4077553 Score: 504
Period size: 80 Copynumber: 4.8 Consensus size: 80
4077161 TTGAATGCTG
* * * * * * **
4077171 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
4077234 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * *
4077250 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
4077315 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
4077331 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
4077396 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
*
4077411 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
4077476 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
4077491 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
4077554 TGAACGAGGA
Statistics
Matches: 276, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
79 35 0.13
80 231 0.84
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:4077387 original size:120 final size:120
Alignment explanation
Indices: 4077171--4077553 Score: 504
Period size: 120 Copynumber: 3.2 Consensus size: 120
4077161 TTGAATGCTG
* * * * * **
4077171 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * * * *
4077234 TTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
4077291 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
4077356 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
4077411 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
4077476 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
4077530 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4077554 TGAACGAGGA
Statistics
Matches: 234, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
119 36 0.15
120 189 0.81
121 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
Found at i:4085321 original size:40 final size:39
Alignment explanation
Indices: 4085290--4085499 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
4085280 GGACTAAGAT
* *
4085290 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
4085330 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
4085370 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
4085410 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
4085450 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
4085489 CCGAAGGCATT
1 CCGAAGGCATT
4085500 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:4085453 original size:120 final size:120
Alignment explanation
Indices: 4085237--4085499 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
4085227 TTGAATGCTG
* *
4085237 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
4085301 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
4085357 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
4085420 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
4085476 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4085500 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:4085519 original size:79 final size:80
Alignment explanation
Indices: 4085238--4085534 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
4085228 TGAATGCTGT
* ** * * * **
4085238 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
4085301 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
4085318 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
4085382 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
4085398 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
4085462 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
4085477 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
4085535 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:4100629 original size:44 final size:44
Alignment explanation
Indices: 4100580--4100831 Score: 143
Period size: 44 Copynumber: 5.4 Consensus size: 44
4100570 TATAGTGTTG
4100580 AATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAA
1 AATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAA
* * ** * * * **
4100624 AATCATTTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGT--TG
1 AATCATCTTTATAAAT-AA-TA---T---AATATTTTATCATA-ACTCTAAAA
4100675 AATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAA
1 AATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAA
* * ** * * * **
4100719 AATCATTTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGT--TG
1 AATCATCTTTATAAAT-AA-TA---T---AATATTTTATCATA-ACTCTAAAA
4100770 AATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAA
1 AATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAA
*
4100814 AATCATTTTTATAAATAA
1 AATCATCTTTATAAATAA
4100832 ATTATGGTAA
Statistics
Matches: 149, Mismatches: 37, Indels: 44
0.65 0.16 0.19
Matches are distributed among these distances:
42 6 0.04
43 20 0.13
44 47 0.32
45 4 0.03
46 6 0.04
49 6 0.04
50 4 0.03
51 30 0.20
52 20 0.13
53 6 0.04
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (44 bp):
AATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAA
Found at i:4100671 original size:95 final size:95
Alignment explanation
Indices: 4100564--4100849 Score: 572
Period size: 95 Copynumber: 3.0 Consensus size: 95
4100554 CTATATAAAA
4100564 AAATTATATAGTGTTGAATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAAAATCA
1 AAATTATATAGTGTTGAATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAAAATCA
4100629 TTTTTATAAATAAATTATGGTAAAAAAATT
66 TTTTTATAAATAAATTATGGTAAAAAAATT
4100659 AAATTATATAGTGTTGAATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAAAATCA
1 AAATTATATAGTGTTGAATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAAAATCA
4100724 TTTTTATAAATAAATTATGGTAAAAAAATT
66 TTTTTATAAATAAATTATGGTAAAAAAATT
4100754 AAATTATATAGTGTTGAATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAAAATCA
1 AAATTATATAGTGTTGAATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAAAATCA
4100819 TTTTTATAAATAAATTATGGTAAAAAAATT
66 TTTTTATAAATAAATTATGGTAAAAAAATT
4100849 A
1 A
4100850 TAATGCTTTT
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 191 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (95 bp):
AAATTATATAGTGTTGAATCATCTTTATAAATAATATAATATTTTATCATAACTCTAAAAAATCA
TTTTTATAAATAAATTATGGTAAAAAAATT
Found at i:4100686 original size:51 final size:51
Alignment explanation
Indices: 4100624--4100787 Score: 157
Period size: 51 Copynumber: 3.4 Consensus size: 51
4100614 AACTCTAAAA
*
4100624 AATCATTTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGTTG
1 AATCATCTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGTTG
* ** * * * **
4100675 AATCATCTTTATAAAT-AA-TA---T---AATATTTTATCATA-ACTCTAAAA
1 AATCATCTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGT--TG
*
4100719 AATCATTTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGTTG
1 AATCATCTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGTTG
4100770 AATCATCTTTATAAATAA
1 AATCATCTTTATAAATAA
4100788 TATAATATTT
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 3 0.04
43 10 0.12
44 15 0.18
45 2 0.02
46 3 0.04
49 3 0.04
50 2 0.02
51 32 0.39
52 10 0.12
53 3 0.04
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (51 bp):
AATCATCTTTATAAATAAATTATGGTAAAAAAATTAAATTATATAGTGTTG
Found at i:4108890 original size:36 final size:36
Alignment explanation
Indices: 4108843--4108914 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
4108833 ACATAATAAC
4108843 GAACGTACTCATCGATAATGGGTCAGCGATAAATGT
1 GAACGTACTCATCGATAATGGGTCAGCGATAAATGT
4108879 GAACGTACTCATCGATAATGGGTCAGCGATAAATGT
1 GAACGTACTCATCGATAATGGGTCAGCGATAAATGT
4108915 TATGCCATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (36 bp):
GAACGTACTCATCGATAATGGGTCAGCGATAAATGT
Found at i:4114588 original size:69 final size:70
Alignment explanation
Indices: 4114413--4114588 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
4114403 CTTTCCAAGG
* ** *
4114413 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
4114478 TTTTT
66 GTTTT
* ** * *
4114483 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
4114548 TGTTTT
65 TGTTTT
** *
4114554 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4114589 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:4114965 original size:76 final size:73
Alignment explanation
Indices: 4114588--4114945 Score: 391
Period size: 76 Copynumber: 4.8 Consensus size: 73
4114578 GAGTTAAGCC
* * *
4114588 TTTT-AATTTTTGTTTTT-CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
4114651 CTGAGGTA
66 CTGAGGTA
* * * ** *
4114659 ATTTCAATTTCTGTTGTTAAAAAAAAATCAATTCATATTGCGAGAAATAAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTT-TT--TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
4114724 ACGCTGAGGTA
63 ACGCTGAGGTA
* * * * * ** *
4114735 ATTTCAATTTCT-ATTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
4114799 TTGAGGTA
66 CTGAGGTA
* *
4114807 TTTTCAATTTCTGTTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGT
1 TTTTCAATTTCTGTTTT----TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
*
4114871 TCACATGCTGAGGTA
61 --ACACGCTGAGGTA
*
4114886 TTTTCAATTTCTGTTTTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGTTTTTAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
4114946 ATTACACACT
Statistics
Matches: 241, Mismatches: 31, Indels: 24
0.81 0.10 0.08
Matches are distributed among these distances:
71 3 0.01
72 68 0.28
73 5 0.02
74 2 0.01
75 6 0.02
76 93 0.39
77 36 0.15
79 28 0.12
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:4115141 original size:127 final size:126
Alignment explanation
Indices: 4114831--4115194 Score: 356
Period size: 127 Copynumber: 2.8 Consensus size: 126
4114821 TTTCAAAAAA
* * *
4114831 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
*
4114896 CTGTTTTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTCAGATTACACACTGTGC
64 CTG-TTTT-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGTGC
*
4114960 T
126 C
*** * * * * *
4114961 ATTTTTTTCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATT
1 A---AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
* * * * * * *
4115026 TCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA-ATTTC-TACTTTT
63 TCTGTTT-T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTCAGATTACACACTGTG
4115089 CC
125 CC
* * * *
4115091 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* **
4115156 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
66 GT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
4115195 GCCTCAGGAC
Statistics
Matches: 189, Mismatches: 38, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
126 28 0.15
127 55 0.29
128 2 0.01
130 37 0.20
131 33 0.17
132 3 0.02
133 31 0.16
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (126 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGTGCC
Found at i:4115465 original size:72 final size:73
Alignment explanation
Indices: 4115348--4115616 Score: 452
Period size: 73 Copynumber: 3.7 Consensus size: 73
4115338 TTTGAAAGAA
* *
4115348 TCAACTCATAGTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTG-TT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGCTT
4115412 TTCAAAAT
66 TTCAAAAT
*
4115420 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGCTT
4115485 TTCAAAAT
66 TTCAAAAT
*
4115493 TCAAC-CAATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCT
1 TCAACTC-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGCT
4115557 TTTCAAAAT
65 TTTCAAAAT
* * *
4115566 TCAACCCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
4115617 GAGTTGGGCT
Statistics
Matches: 188, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
72 60 0.32
73 127 0.68
74 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (73 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGCTT
TTCAAAAT
Found at i:4116248 original size:30 final size:30
Alignment explanation
Indices: 4116212--4116325 Score: 192
Period size: 30 Copynumber: 3.8 Consensus size: 30
4116202 ATAAAAAAAC
*
4116212 CTAGCCACTCCTTTTCCACCACCAACTCCA
1 CTAGCCACACCTTTTCCACCACCAACTCCA
4116242 CTAGCCACACCTTTTCCACCACCAACTCCA
1 CTAGCCACACCTTTTCCACCACCAACTCCA
* *
4116272 CTAGCCACTCTTTTTCCACCACCAACTCCA
1 CTAGCCACACCTTTTCCACCACCAACTCCA
*
4116302 CTAGCCACACCTTCTCCACCACCA
1 CTAGCCACACCTTTTCCACCACCA
4116326 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.25, C:0.50, G:0.04, T:0.22
Consensus pattern (30 bp):
CTAGCCACACCTTTTCCACCACCAACTCCA
Found at i:4116919 original size:25 final size:24
Alignment explanation
Indices: 4116820--4117029 Score: 99
Period size: 25 Copynumber: 8.4 Consensus size: 24
4116810 TTGTTATTAT
*
4116820 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TT-ATACTATATTATGTA
* *
4116844 TATATTCTTT-TAATATATTAGGTA
1 TATATT-TTTATACTATATTATGTA
** * *
4116868 TAT-TTTAAATTCTATATTACGTATA
1 TATATTTTTATACTATATTA--TGTA
*
4116893 TATATATTTTATACTATTTTATGTA
1 TATAT-TTTTATACTATATTATGTA
* * *
4116918 TATATCTTTAATATTATATTATATA
1 TATAT-TTTTATACTATATTATGTA
* *
4116943 TATATTTTTTTTTACATGTTATCTTATGTA
1 TATA--TTTTTATAC----TATATTATGTA
*
4116973 TATA-TCTTA-ACTATATTATGTA
1 TATATTTTTATACTATATTATGTA
* *
4116995 TGTATTTTTAACACTATATTATGTA
1 TATATTTTT-ATACTATATTATGTA
*
4117020 CATATTTTTA
1 TATATTTTTA
4117030 ATATTATCAC
Statistics
Matches: 140, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
22 23 0.16
23 13 0.09
24 15 0.11
25 53 0.38
26 8 0.06
27 15 0.11
30 13 0.09
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
TATATTTTTATACTATATTATGTA
Found at i:4117035 original size:20 final size:20
Alignment explanation
Indices: 4117010--4117065 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
4117000 TTTTAACACT
4117010 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
4117030 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
4117049 TTATATATGTACATATT
1 ATAT-TATGTACATATT
4117066 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:4117205 original size:16 final size:15
Alignment explanation
Indices: 4117181--4117228 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4117171 TAATTATTAT
*
4117181 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
4117197 TATTTTAATATTTTA
1 TATTTTAATATTTTA
4117212 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
4117228 T
1 T
4117229 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:4117216 original size:7 final size:8
Alignment explanation
Indices: 4117181--4117232 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4117171 TAATTATTAT
*
4117181 TATTCTAA
1 TATTTTAA
*
4117189 TATTTTGA
1 TATTTTAA
4117197 TATTTTAA
1 TATTTTAA
4117205 TATTTT-A
1 TATTTTAA
4117212 TATTTTATA
1 TATTTTA-A
*
4117221 TATTTTAT
1 TATTTTAA
4117229 TATT
1 TATT
4117233 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:4121819 original size:39 final size:39
Alignment explanation
Indices: 4121750--4121826 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
4121740 GGCGTTTGAA
* *
4121750 CTAAAAACGCCACTATAGATCGAGCATTAGCGGCGCTTC
1 CTAAAAACGCCACTATAGATCGACCATTAGCAGCGCTTC
* * *
4121789 CTAAAAACGCTACTATAGGTTC-ACCTTTAGCAGCGCTT
1 CTAAAAACGCCACTATA-GATCGACCATTAGCAGCGCTT
4121827 TTTCAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 29 0.91
40 3 0.09
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (39 bp):
CTAAAAACGCCACTATAGATCGACCATTAGCAGCGCTTC
Found at i:4123556 original size:46 final size:46
Alignment explanation
Indices: 4123503--4123678 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
4123493 TATTTGGGCA
4123503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
4123549 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
4123596 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
4123642 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4123679 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:4123658 original size:93 final size:93
Alignment explanation
Indices: 4123499--4123671 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
4123489 GGGATATTTG
* *
4123499 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
4123564 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
4123592 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
4123657 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
4123672 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:4125229 original size:32 final size:32
Alignment explanation
Indices: 4125193--4125257 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4125183 TCTTATATAA
4125193 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
1 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
4125225 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
1 TTGTAAAAGAGATAGTATTAATTTTAAAATAT
4125257 T
1 T
4125258 GAATTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (32 bp):
TTGTAAAAGAGATAGTATTAATTTTAAAATAT
Found at i:4125449 original size:14 final size:14
Alignment explanation
Indices: 4125432--4125479 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4125422 GTGTTTATGT
4125432 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
* *
4125446 TTTAAGAATTAGGG
1 TTTAGGATTTAGGG
* *
4125460 ATTAGAAGTTTAGGG
1 TTTAGGA-TTTAGGG
4125475 TTTAG
1 TTTAG
4125480 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:4130378 original size:23 final size:23
Alignment explanation
Indices: 4130348--4130413 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
4130338 TGGCTGCTGT
*
4130348 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
4130371 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
4130394 TGTTTAAATGTTGTAAATTG
1 TGTTTAAATGCTGTAAATTG
4130414 GTGTCTGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:4130402 original size:46 final size:45
Alignment explanation
Indices: 4130348--4130620 Score: 146
Period size: 46 Copynumber: 6.1 Consensus size: 45
4130338 TGGCTGCTGT
4130348 TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTG-AGTGTTTAAATGCTGTAAATTGAAG
* * *
4130394 TGTTTAAATGTTGTAAATTG-GTG------T-CTGGAAATTG-AG
1 TGTTTAAATGCTGCAAATTGAGTGTTTAAATGCTGTAAATTGAAG
* * *
4130430 ATGATTT--ATCGCTG-TAATTGAGT-TATATAAATGTTGTTAATTG-AG
1 -TG-TTTAAAT-GCTGCAAATTGAGTGT-T-TAAATGCTGTAAATTGAAG
*
4130475 ATG-TTAAAGTGCTGCAAATTGAAGTGTTTAAACGCTGTAAATTGAAG
1 -TGTTTAAA-TGCTGCAAATTG-AGTGTTTAAATGCTGTAAATTGAAG
* * * * * *
4130522 TGCTTAAATGTTGCAAATTAAAGTGTTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATT-GAGTG-TTTAAATGCTGTAAATTGAAG
** * * * *
4130569 TGTTTAGTTGTTGGAAATTGAGATGTTT-TATCGCTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAG-TGTTTAAAT-GCTGTAAATTGAAG
4130615 TGTTTA
1 TGTTTA
4130621 GTTGCAAAAC
Statistics
Matches: 176, Mismatches: 26, Indels: 50
0.70 0.10 0.20
Matches are distributed among these distances:
36 9 0.05
37 16 0.09
38 4 0.02
43 2 0.01
44 4 0.02
45 18 0.10
46 77 0.44
47 45 0.26
48 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (45 bp):
TGTTTAAATGCTGCAAATTGAGTGTTTAAATGCTGTAAATTGAAG
Found at i:4130502 original size:23 final size:23
Alignment explanation
Indices: 4130478--4130620 Score: 128
Period size: 23 Copynumber: 6.1 Consensus size: 23
4130468 AATTGAGATG
4130478 TTAAAGTGCTGCAAATTGAAGTGT
1 TTAAA-TGCTGCAAATTGAAGTGT
* * *
4130502 TTAAACGCTGTAAATTGAAGTGC
1 TTAAATGCTGCAAATTGAAGTGT
* *
4130525 TTAAATGTTGCAAATTAAAGTGTT
1 TTAAATGCTGCAAATTGAAGTG-T
* *
4130549 TTAAGTACTGCAAATTGAAGTGT
1 TTAAATGCTGCAAATTGAAGTGT
** * *
4130572 TTAGTTGTTGGAAATTG-AGATGT
1 TTAAATGCTGCAAATTGAAG-TGT
*
4130595 TT-TATCGCTGCAAATTGAAGTGT
1 TTAAAT-GCTGCAAATTGAAGTGT
4130618 TTA
1 TTA
4130621 GTTGCAAAAC
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
22 3 0.03
23 65 0.70
24 25 0.27
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (23 bp):
TTAAATGCTGCAAATTGAAGTGT
Found at i:4130786 original size:19 final size:19
Alignment explanation
Indices: 4130763--4130809 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4130753 ATTTAATCTA
*
4130763 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
4130781 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
4130801 ATTTTTATT
1 ATTTTTATT
4130810 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:4130811 original size:31 final size:30
Alignment explanation
Indices: 4130730--4130819 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
4130720 AAAAGACTTG
*
4130730 CTATA-TTTTATTTATATCTTTATATTTAAT
1 CTATATTTTTATTTTTAT-TTTATATTTAAT
*
4130760 CTA-ATTTTTATTATTTATTTTAGT-TTTGATT
1 CTATATTTTTATT-TTTATTTTA-TATTT-AAT
4130791 CTATATTTTTATTTTTATTTTAATATTTA
1 CTATATTTTTATTTTTATTTT-ATATTTA
4130820 CTAACTTGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
29 1 0.02
30 17 0.33
31 20 0.39
32 13 0.25
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (30 bp):
CTATATTTTTATTTTTATTTTATATTTAAT
Found at i:4130967 original size:11 final size:11
Alignment explanation
Indices: 4130947--4130975 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4130937 TTTAATTTGA
4130947 TAAT-GAATTT
1 TAATAGAATTT
4130957 TAATAGAATTT
1 TAATAGAATTT
4130968 TAATAGAA
1 TAATAGAA
4130976 AATTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (11 bp):
TAATAGAATTT
Found at i:4145887 original size:25 final size:29
Alignment explanation
Indices: 4145858--4145916 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
4145848 TAATATTATC
*
4145858 TTATTT-AATTTAT-ATTT-TTA-AAAAT
1 TTATTTCAATTTATAATTTAATATAAAAT
*
4145883 TTATTTCACTTTATAATTTAATATAAAAT
1 TTATTTCAATTTATAATTTAATATAAAAT
4145912 TTATT
1 TTATT
4145917 ATTAATTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 4 0.14
28 2 0.07
29 10 0.36
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
TTATTTCAATTTATAATTTAATATAAAAT
Found at i:4146675 original size:15 final size:15
Alignment explanation
Indices: 4146655--4146696 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
4146645 GTAGTAAAAA
4146655 TTCAGTACTTAATTT
1 TTCAGTACTTAATTT
4146670 TTCAGTACTTAATTT
1 TTCAGTACTTAATTT
*
4146685 TTCAATACTTAA
1 TTCAGTACTTAA
4146697 AATTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (15 bp):
TTCAGTACTTAATTT
Found at i:4147268 original size:21 final size:21
Alignment explanation
Indices: 4147244--4147322 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
4147234 AATATAAATA
4147244 ATAAAATATTATTAAAAATTT
1 ATAAAATATTATTAAAAATTT
* *
4147265 ATAAAATATTA-TAATAA-CT
1 ATAAAATATTATTAAAAATTT
*
4147284 ATTAAAA-ATTATAAAAAAATTT
1 A-TAAAATATTAT-TAAAAATTT
4147306 ATAGAAATATT-TTAAAA
1 ATA-AAATATTATTAAAA
4147323 GTTATAAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
19 6 0.13
20 10 0.22
21 21 0.46
22 6 0.13
23 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
ATAAAATATTATTAAAAATTT
Found at i:4147276 original size:10 final size:10
Alignment explanation
Indices: 4147244--4147322 Score: 56
Period size: 10 Copynumber: 7.6 Consensus size: 10
4147234 AATATAAATA
4147244 ATAAAATATT
1 ATAAAATATT
4147254 ATTAAAA-ATTT
1 A-TAAAATA-TT
4147265 ATAAAATATT
1 ATAAAATATT
4147275 ATAATAACTATT
1 ATAA-AA-TATT
*
4147287 A-AAAATTATA
1 ATAAAA-TATT
*
4147297 AAAAAAT-TT
1 ATAAAATATT
4147306 ATAGAAATATT
1 ATA-AAATATT
*
4147317 TTAAAA
1 ATAAAA
4147323 GTTATAAGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
9 3 0.05
10 27 0.48
11 21 0.38
12 5 0.09
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (10 bp):
ATAAAATATT
Found at i:4147280 original size:29 final size:29
Alignment explanation
Indices: 4147239--4147299 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
4147229 TTTTTAATAT
*
4147239 AAATAATAAAAT-ATTATTAAAAATTTATA
1 AAATAATAAAATAACTATTAAAAA-TTATA
* *
4147268 AAATATTATAATAACTATTAAAAATTATA
1 AAATAATAAAATAACTATTAAAAATTATA
4147297 AAA
1 AAA
4147300 AAATTTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATAATAAAATAACTATTAAAAATTATA
Found at i:4147381 original size:20 final size:20
Alignment explanation
Indices: 4147358--4147416 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
4147348 AAAAGATAGA
*
4147358 AAATAATATAAAACTTATTG
1 AAATAATATAAAAATTATTG
* *
4147378 AAATTATTTAAAAATTA-T-
1 AAATAATATAAAAATTATTG
4147396 AAA-AATCATAAAAATATATTG
1 AAATAAT-ATAAAAAT-TATTG
4147417 CTCTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.07
18 10 0.33
19 3 0.10
20 15 0.50
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AAATAATATAAAAATTATTG
Found at i:4147576 original size:16 final size:16
Alignment explanation
Indices: 4147557--4147608 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
4147547 ACTAGGACTA
* * *
4147557 TAATTGAATAGAGCTG
1 TAATAGAATAAAGTTG
4147573 TAATAGAATAAAGTTG
1 TAATAGAATAAAGTTG
* *
4147589 TAATGGAATATAGTTG
1 TAATAGAATAAAGTTG
4147605 TAAT
1 TAAT
4147609 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (16 bp):
TAATAGAATAAAGTTG
Found at i:4147789 original size:25 final size:26
Alignment explanation
Indices: 4147755--4147804 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
4147745 TAGGTAGATG
*
4147755 ATTATTGTT-ATTAAATTTTAATAAC
1 ATTATTGTTAAATAAATTTTAATAAC
*
4147780 ATTATTGTTAAATACATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
4147805 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAC
Found at i:4147845 original size:61 final size:58
Alignment explanation
Indices: 4147780--4147905 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 58
4147770 TTTTAATAAC
* * * *
4147780 ATTATTGTTAAATACATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATACAATTTAAT-AAAAT---AATAAATAATTTAATAACATTCTTAACATA
* *
4147841 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
4147899 ATTATTA
1 ATTATTA
4147906 ATAATTATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 18 0.31
58 14 0.24
60 5 0.09
61 21 0.36
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:4147917 original size:13 final size:13
Alignment explanation
Indices: 4147899--4147945 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4147889 TCTTAATATA
4147899 ATTATTAATAATT
1 ATTATTAATAATT
4147912 ATTATTAATAATT
1 ATTATTAATAATT
*
4147925 -TCAATATAA-AATT
1 AT-TAT-TAATAATT
4147938 ATTATTAA
1 ATTATTAA
4147946 GAATATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATTAATAATT
Found at i:4147922 original size:57 final size:57
Alignment explanation
Indices: 4147788--4147909 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 57
4147778 ACATTATTGT
* * * *
4147788 TAAATACATTTTAATAAAAATAAAAATAAATAATTTAATCATATTTTAACATAATTATTAT
1 TAAATACAATTTAAT-AAAAT---AATAAATAATTTAATAACATTTTAACATAATTATTAA
* *
4147849 TAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATAATTATTAA
1 TAAATACAATTTAATAAAATAATAAATAATTTAATAACATT-TTAACATAATTATTAA
4147907 TAA
1 TAA
4147910 TTATTATTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
57 18 0.33
58 17 0.31
60 5 0.09
61 14 0.26
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (57 bp):
TAAATACAATTTAATAAAATAATAAATAATTTAATAACATTTTAACATAATTATTAA
Found at i:4148280 original size:25 final size:27
Alignment explanation
Indices: 4148250--4148300 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
4148240 TAAAAAAATC
4148250 AAAACTCATAG-TCCTT-TGTTATTCA
1 AAAACTCATAGTTCCTTATGTTATTCA
*
4148275 AAAACTCATAGTTCTTTATGTTATTC
1 AAAACTCATAGTTCCTTATGTTATTC
4148301 TCGTATAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
26 4 0.17
27 8 0.35
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (27 bp):
AAAACTCATAGTTCCTTATGTTATTCA
Found at i:4150675 original size:73 final size:73
Alignment explanation
Indices: 4150595--4150737 Score: 218
Period size: 73 Copynumber: 2.0 Consensus size: 73
4150585 TACAAGTAAT
* *
4150595 TAACATTTACCAGCTATCAAAGTTGTA-AAAGACCCAGAAAAAAATCAAAAATTGCAAAGAAAAC
1 TAACATTTACAAGCTATCAAAGTTGTAGAAA-ACCCA-AAAAAAATAAAAAATTGCAAAGAAAAC
4150659 A-GAGAAAAA
64 ATGAGAAAAA
* *
4150668 TAACATTTACAAGCTATCGAAGTTGTAGAAAACCCAAGAAAAATAAAAAATTGCAAAGAAAACAT
1 TAACATTTACAAGCTATCAAAGTTGTAGAAAACCCAAAAAAAATAAAAAATTGCAAAGAAAACAT
4150733 GAGAA
66 GAGAA
4150738 TTAAAAAAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
72 26 0.41
73 35 0.55
74 3 0.05
ACGTcount: A:0.55, C:0.14, G:0.13, T:0.17
Consensus pattern (73 bp):
TAACATTTACAAGCTATCAAAGTTGTAGAAAACCCAAAAAAAATAAAAAATTGCAAAGAAAACAT
GAGAAAAA
Found at i:4151016 original size:43 final size:43
Alignment explanation
Indices: 4150930--4151016 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
4150920 TAACATTTTG
* * * **
4150930 ACGCCGATATAGAACATGACCTTTAGCGGCGCTTTTACCACAA
1 ACGCCGATAAAGAACATGACATTTAGCGACAATTTTACCACAA
*
4150973 ACGCCGCTAAAGAACATGACATTTAGCGACAATTTT-CCTACAA
1 ACGCCGATAAAGAACATGACATTTAGCGACAATTTTACC-ACAA
4151016 A
1 A
4151017 GAATGGACCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
ACGCCGATAAAGAACATGACATTTAGCGACAATTTTACCACAA
Found at i:4170057 original size:187 final size:187
Alignment explanation
Indices: 4169738--4170610 Score: 1590
Period size: 187 Copynumber: 4.7 Consensus size: 187
4169728 GGATTTCTTG
* * * * * *
4169738 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CATAT-TATGAGTGCTAGTGTAAGACC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
4169801 ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
66 ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
4169866 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
131 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
4169923 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
*
4169988 ATGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
66 ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
4170053 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
131 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
4170110 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
4170175 ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
66 ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
4170240 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
131 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
4170297 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
4170362 ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
66 ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
4170427 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
131 GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
4170484 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
* * * * *
4170549 ATGTCTGGGACATGGCATCGGCCTCGATGATGA-TAGCCAATGTAAGACCATGTCTGGGACAT
66 ATGTCTGGGACATGGCATTGGCGTAGA-GATGAGT-GCCAGTGTAAGA-CATGTTTGGGACAT
4170611 GGCATCGACA
Statistics
Matches: 670, Mismatches: 13, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
185 35 0.05
186 4 0.01
187 602 0.90
188 16 0.02
189 13 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (187 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAGTATAAGACC
ATGTCTGGGACATGGCATTGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATACATT
GGCCTCGACGATGATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGT
Found at i:4176432 original size:32 final size:29
Alignment explanation
Indices: 4176392--4176485 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 29
4176382 TTTTAATAGT
4176392 TTAATATTAAATTAAATTTAATACTTATC
1 TTAATATTAAATTAAATTTAATACTTATC
* *
4176421 TTAATTGTATTAATTTAATATTAAAGTGAC-TATC
1 TTAA---TATTAAATTAA-ATTTAA-T-ACTTATC
* **
4176455 TTAATATTAAATTTAATTTAATGTTTATC
1 TTAATATTAAATTAAATTTAATACTTATC
4176484 TT
1 TT
4176486 GTAAATAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
29 11 0.22
30 5 0.10
31 9 0.18
32 10 0.20
33 5 0.10
34 9 0.18
35 2 0.04
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.51
Consensus pattern (29 bp):
TTAATATTAAATTAAATTTAATACTTATC
Found at i:4181230 original size:48 final size:48
Alignment explanation
Indices: 4181154--4181292 Score: 215
Period size: 48 Copynumber: 2.9 Consensus size: 48
4181144 AGGGTAAAAT
* * * *
4181154 GCCGGTGCCATGTTCCAAACGTAGTCTTACATTGACTCACATATCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCAAG
* *
4181202 GCTGATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCAAG
*
4181250 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 GCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATA
4181293 ACCCTAGTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCAAG
Done.