Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 105 of 187
Found at i:30765427 original size:25 final size:26
Alignment explanation
Indices: 30765371--30765432 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
30765361 ATTTTATCGA
*
30765371 GGGTAAAATTGTCAAAATTTTACCGT
1 GGGTAAAATTGTCAAAATTTAACCGT
* *
30765397 GTGTAAAATTGTCAAAATTTAACTG-
1 GGGTAAAATTGTCAAAATTTAACCGT
*
30765422 GGGTAACATTG
1 GGGTAAAATTG
30765433 GGGTGAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (26 bp):
GGGTAAAATTGTCAAAATTTAACCGT
Found at i:30780906 original size:27 final size:26
Alignment explanation
Indices: 30780854--30780912 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 26
30780844 TATATATAAT
30780854 ATATATATTTGATTAAAAATAAAAAA
1 ATATATATTTGATTAAAAATAAAAAA
30780880 ATATATATTTGATTAAAAATTAAAAAA
1 ATATATATTTGATTAAAAA-TAAAAAA
30780907 ATATAT
1 ATATAT
30780913 TTAATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
ATATATATTTGATTAAAAATAAAAAA
Found at i:30791115 original size:10 final size:10
Alignment explanation
Indices: 30791102--30791335 Score: 102
Period size: 10 Copynumber: 23.4 Consensus size: 10
30791092 TCCTTCCCTC
30791102 TTCTTCTTCT
1 TTCTTCTTCT
* *
30791112 TTCTTTTTTT
1 TTCTTCTTCT
*
30791122 TCTCTTCTCCT
1 T-TCTTCTTCT
*
30791133 TTCCTT-TTTT
1 TT-CTTCTTCT
30791143 TTCCTTCTT-T
1 TT-CTTCTTCT
*
30791153 TTCTTTCTTTT
1 TTC-TTCTTCT
30791164 TTCTTC-TCAT
1 TTCTTCTTC-T
30791174 TTCCTT-TTCT
1 TT-CTTCTTCT
*
30791184 TTCCTCTT-T
1 TTCTTCTTCT
*
30791193 TTCTTTCTTTT
1 TTC-TTCTTCT
30791204 TTCTTC-TCAT
1 TTCTTCTTC-T
30791214 TTCCTT-TTCT
1 TT-CTTCTTCT
*
30791224 TTCCTCTT-T
1 TTCTTCTTCT
*
30791233 TTCTTTCTTTT
1 TTC-TTCTTCT
*
30791244 TTCTTCTCCT
1 TTCTTCTTCT
30791254 TTCCTT-TTCT
1 TT-CTTCTTCT
30791264 TTC--CTTCT
1 TTCTTCTTCT
30791272 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
30791282 TTCCTCTCCT
1 TTCTTCTTCT
30791292 TTCCTT-TTCT
1 TT-CTTCTTCT
*
30791302 TTCTT-TTCC
1 TTCTTCTTCT
*
30791311 TTCAT-TTCT
1 TTCTTCTTCT
30791320 TTCTTTCTTTCT
1 TTC-TTC-TTCT
30791332 TTCT
1 TTCT
30791336 CTCTCCTTCT
Statistics
Matches: 173, Mismatches: 24, Indels: 53
0.69 0.10 0.21
Matches are distributed among these distances:
8 6 0.03
9 33 0.19
10 85 0.49
11 42 0.24
12 7 0.04
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:30791176 original size:17 final size:18
Alignment explanation
Indices: 30791159--30791261 Score: 57
Period size: 18 Copynumber: 5.3 Consensus size: 18
30791149 CTTTTTCTTT
30791159 CTTTTTTCTTCTCATTTC
1 CTTTTTTCTTCTCATTTC
* *
30791177 CTTTTCTT-TCCTCTTTTTC
1 CTTTT-TTCTTCTC-ATTTC
30791196 TTTCTTTTTTCTTCTCATTTC
1 ---CTTTTTTCTTCTCATTTC
* *
30791217 CTTTTCTT-TCCTCTTTTTC
1 CTTTT-TTCTTCTC-ATTTC
*
30791236 TTTCTTTTTTCTTCTCCTTTC
1 ---CTTTTTTCTTCTCATTTC
30791257 CTTTT
1 CTTTT
30791262 CTTTCCTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 24
0.67 0.08 0.25
Matches are distributed among these distances:
18 23 0.35
19 12 0.18
21 12 0.18
22 18 0.28
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (18 bp):
CTTTTTTCTTCTCATTTC
Found at i:30791203 original size:40 final size:41
Alignment explanation
Indices: 30791104--30791332 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 41
30791094 CTTCCCTCTT
*
30791104 CTTCTTCTTTCTTT-TTTTTCTCTTCTCCTTTCCTTTTTTTTC
1 CTTCTT-TTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTTC
*
30791146 CTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTC
*
30791187 C-TCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTC
30791227 C-TCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTC
*
30791267 CTTCTTTTTCTTTC---TTTCCTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTC
*
30791305 TTTTCCTTCATTTCTTTCTTTCTTTCTT
1 -CTT-CTT--TTTCTTTCTTT-TTTCTT
30791333 TCTCTCTCCT
Statistics
Matches: 171, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
38 23 0.13
39 2 0.01
40 82 0.48
41 40 0.23
42 19 0.11
46 5 0.03
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (41 bp):
CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTC
Found at i:30791260 original size:5 final size:5
Alignment explanation
Indices: 30791250--30791312 Score: 58
Period size: 5 Copynumber: 13.0 Consensus size: 5
30791240 TTTTTTCTTC
* * * *
30791250 TCCTT TCCTT TTCTT TCC-T TCTTT TTCTT T-CTT TCCTC TCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
* *
30791298 TTCTT TCTTT TCCTT
1 TCCTT TCCTT TCCTT
30791313 CATTTCTTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 7 0.16
5 38 0.84
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:30791417 original size:27 final size:27
Alignment explanation
Indices: 30791387--30791450 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
30791377 CTGGTGCCAT
30791387 CAATGACTTTGGCACCATCGGTGTCGC
1 CAATGACTTTGGCACCATCGGTGTCGC
* * *
30791414 CAATCACTTTGGCACCTTTGGTGTCGC
1 CAATGACTTTGGCACCATCGGTGTCGC
30791441 CAATGACTTT
1 CAATGACTTT
30791451 CCCTCCACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (27 bp):
CAATGACTTTGGCACCATCGGTGTCGC
Found at i:30795332 original size:21 final size:22
Alignment explanation
Indices: 30795308--30795351 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
30795298 AAAAATTCAA
*
30795308 TAAATAAAAATTAT-TAAATAT
1 TAAATAAAAATAATATAAATAT
*
30795329 TAAATTAAAATAATATAAATAT
1 TAAATAAAAATAATATAAATAT
30795351 T
1 T
30795352 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATAAAAATAATATAAATAT
Found at i:30803685 original size:10 final size:11
Alignment explanation
Indices: 30803670--30803725 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
30803660 AGTATACATA
30803670 TTTTTAAT-TT
1 TTTTTAATATT
30803680 TTTTTAATATT
1 TTTTTAATATT
***
30803691 TTGGAAATATT
1 TTTTTAATATT
30803702 TATTTTAATA--
1 T-TTTTAATATT
30803712 TTTTTAATATT
1 TTTTTAATATT
30803723 TTT
1 TTT
30803726 GATGTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
9 8 0.22
10 9 0.25
11 14 0.39
12 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (11 bp):
TTTTTAATATT
Found at i:30805377 original size:18 final size:18
Alignment explanation
Indices: 30805321--30805377 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
30805311 TGGCACCTCG
* *
30805321 GTTTTTACATATATCTCT
1 GTTTATACATATATCTGT
* *
30805339 GTGTATAGATATATCCATGT
1 GTTTATACATATAT-C-TGT
*
30805359 GTTTCTACATATATCTGT
1 GTTTATACATATATCTGT
30805377 G
1 G
30805378 CAATTATGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 15 0.50
19 2 0.07
20 13 0.43
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (18 bp):
GTTTATACATATATCTGT
Found at i:30811978 original size:18 final size:19
Alignment explanation
Indices: 30811957--30812001 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
30811947 TATTATTACT
30811957 TAATTTTTTAAAATGA-GG
1 TAATTTTTTAAAATGATGG
* * *
30811975 TAATATTTTAGAGTGATGG
1 TAATTTTTTAAAATGATGG
30811994 TAATTTTT
1 TAATTTTT
30812002 AAATTATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (19 bp):
TAATTTTTTAAAATGATGG
Found at i:30821856 original size:85 final size:85
Alignment explanation
Indices: 30821713--30821882 Score: 304
Period size: 85 Copynumber: 2.0 Consensus size: 85
30821703 TTAGAGTAGA
*
30821713 GGTTTAGGCTATTTCTAAATTCCCAAATAACGTAATGAATCATGTCTACAAGCAGCGATTCCAAA
1 GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTCCAAA
*
30821778 CAGTCACCAATTACTTTCGC
66 CACTCACCAATTACTTTCGC
* *
30821798 GGTTTAGGCTATTTCTAAATTCTCAAATAACGCATTGAATCATGTCTACAAGCAGCGATTCCAAA
1 GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTCCAAA
30821863 CACTCACCAATTACTTTCGC
66 CACTCACCAATTACTTTCGC
30821883 CTAGACTCCG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (85 bp):
GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTCCAAA
CACTCACCAATTACTTTCGC
Found at i:30829174 original size:89 final size:89
Alignment explanation
Indices: 30829026--30829504 Score: 739
Period size: 89 Copynumber: 5.4 Consensus size: 89
30829016 CATCTTCGAT
*
30829026 CTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATG
1 CTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATG
** *
30829091 AAGACAAGATCTGCTTTCTCCGAT
66 AAGACAAGATCTGCTTTCTTTGAC
* * *
30829115 CTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATG
1 CTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATG
30829180 AAGACAAGATCTGCTTTCTTTGAC
66 AAGACAAGATCTGCTTTCTTTGAC
* * *
30829204 CTGCTTCGCCACCAGTATGGGAATG-CAAGATCTATTATCTCTGATCTATTTCACGCCAGTACAT
1 CTGCTTCGCCACCAGTATGGGAA-GACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
30829268 GAAGACAAGATCTGCTTTCTTTGAC
65 GAAGACAAGATCTGCTTTCTTTGAC
*
30829293 CTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTACCTTTGATCTACTTCACGCCAGTACATG
1 CTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATG
30829358 AAGACAAGATCTGCTTTCTTTGAC
66 AAGACAAGATCTGCTTTCTTTGAC
* * *
30829382 CTGCTTCACCACCAGTATGGGAAGGCGAAG-TCTGTTATCTCTGATCTACTTCACGCCAGTACAT
1 CTGCTTCGCCACCAGTATGGGAAGAC-AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
**
30829446 GAAGACAAGATCTATTTTCTTTGATC
65 GAAGACAAGATCTGCTTTCTTTGA-C
* * *
30829472 C-GCTTTGCCACTAGTATGGGAAGGCAAGATCTG
1 CTGCTTCGCCACCAGTATGGGAAGACAAGATCTG
30829505 NAGTCAGTTA
Statistics
Matches: 361, Mismatches: 24, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
88 4 0.01
89 351 0.97
90 6 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (89 bp):
CTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATG
AAGACAAGATCTGCTTTCTTTGAC
Found at i:30831994 original size:89 final size:89
Alignment explanation
Indices: 30831842--30832824 Score: 1397
Period size: 89 Copynumber: 11.1 Consensus size: 89
30831832 AAATCCGCCA
* * *
30831842 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
30831907 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * *
30831931 TCTTCGAACTGCTTCACCACCAGTATGGGAAGGCAAGATATGTTATCTTTGATCTACTCCACGCC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
30831996 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
** * * * *
30832020 TCTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACACC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
30832085 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * *
30832109 TCTTTGACCTGCTTCGCCACCAGTATGGGAATGCAAGATCTATTATCTCTGATCTATTTCACGCC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
30832174 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * * *
30832198 TCTTTGACCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTCTCTTTGATCTACTTCCCACC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
30832263 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
30832287 TCTTTGACCTGCTTCACCACCAGTATGGGAAGGCGAAG-TCTGTTATCTCTGATCTACTTCACGC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC-AAGATCTGTTATCTTTGATCTACTTCACGC
**
30832351 CAGTACATGAAGACAAGATCTATTT
65 CAGTACATGAAGACAAGATCTGCTT
* * *
30832376 TCTTTGATCCGCTTTGCCACTAGTATGGGAAGGCAAGATCTGTTATCTCTT-ATCTACTTCACGC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT-TTGATCTACTTCACGC
*
30832440 CAGTACATGAAGACAAGATTTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* *
30832465 TCTTTGATCTG-TCTCGCCACTAGTATGGGAA-G--A-CTCTGTTATCTTTGATCTACTTCACGC
1 TCTTTGATCTGCT-TCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGC
30832525 CAGTACATGAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* * * * *
30832550 TCTTCGATCTGTTTCGCCACCAATATGGGAAGACAAGATCTGTTACCTTTGATCTACTTCACGCC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
*
30832615 AGTACATGAAGACAAGATCTGTTTTT
66 AGTACATGAAGACAAGATCTG--CTT
* * *
30832641 TCCTTCGATCTACTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATCTTTGATCTACTTCACGC
1 T-CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGC
*
30832706 CAGTACATGAAGACAAGATCTACTT
65 CAGTACATGAAGACAAGATCTGCTT
* * *
30832731 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCAAGCC
1 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
*
30832796 AGTACATGAAAACAAGATCTG-TT
66 AGTACATGAAGACAAGATCTGCTT
30832819 ATCTTT
1 -TCTTT
30832825 CCACCTGCTC
Statistics
Matches: 800, Mismatches: 80, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
84 2 0.00
85 73 0.09
86 2 0.00
88 8 0.01
89 627 0.78
90 7 0.01
91 3 0.00
92 78 0.10
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:30832681 original size:48 final size:47
Alignment explanation
Indices: 30831843--30832772 Score: 349
Period size: 44 Copynumber: 20.9 Consensus size: 47
30831833 AATCCGCCAT
* * *
30831843 CTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTG--GTAT
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * *** *
30831888 CTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTT--
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * * * *
30831932 CTTCGAACTGCTTCACCACCAGTATGGGAAGGCAAGATATG--TTAT
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * *** *
30831977 CTTTGATCTAC-TC-CACGCCAGTACATGAAGACAAGATCTGCTTT--
1 CTTCGATCTACTTCGC-CACCAGTATGGGAAGACAAGATCTGTTTTAC
* * *
30832021 CTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG--GTAT
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * *** *
30832066 CTTTGATCTACTTC-ACACCAGTACATGAAGACAAGATCTGCTTT--
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * * *
30832110 CTTTGACCTGCTTCGCCACCAGTATGGGAATG-CAAGATC--TATTAT
1 CTTCGATCTACTTCGCCACCAGTATGGGAA-GACAAGATCTGTTTTAC
* * * *** *
30832155 C-TCTGATCTATTTC-ACGCCAGTACATGAAGACAAGATCTGCTTT--
1 CTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * * *
30832199 CTTTGACCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTCT--
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* *** *
30832244 CTTTGATCTACTTC-CCACCAGTACATGAAGACAAGATCTGCTTT--
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * * * *
30832288 CTTTGACCTGCTTCACCACCAGTATGGGAAGGCGAAG-TCTG--TTAT
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGAC-AAGATCTGTTTTAC
* * *** *
30832333 C-TCTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTATTTT--
1 CTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* ** * * * *
30832377 CTTTGATCCGCTTTGCCACTAGTATGGGAAGGCAAGATCTGTTAT-C
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * *** * *
30832423 TCTT--ATCTACTTC-ACGCCAGTACATGAAGACAAGATTTGCTTT--
1 -CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * *
30832466 CTTTGATCT-GTCTCGCCACTAGTATGGGAAGAC----TCTG--TTAT
1 CTTCGATCTACT-TCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * *** *
30832507 CTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTT--
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
** *
30832551 CTTCGATCTGTTTCGCCACCAATATGGGAAGACAAGATCTG--TTAC
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * *** *
30832596 CTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTTTC
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTTTAC
* * *
30832643 CTTCGATCTACTTCGCCACCAGTATGGGAAGGCGAGATCTG--TTAT
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * * *** **
30832688 CTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTACTTT--
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
* * *
30832732 CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG
1 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
30832773 GTATCTCTGA
Statistics
Matches: 645, Mismatches: 181, Indels: 118
0.68 0.19 0.12
Matches are distributed among these distances:
39 2 0.00
40 12 0.02
41 14 0.02
42 4 0.01
43 15 0.02
44 275 0.43
45 268 0.42
46 17 0.03
47 19 0.03
48 19 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (47 bp):
CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTAC
Found at i:30845089 original size:3 final size:3
Alignment explanation
Indices: 30845081--30845140 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
30845071 GTAAACAATG
* * *
30845081 TAA TAA TAA TGA T-A TAA TGA TAAA TAAA TAAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA TAA TAA TAA TAA TAA
*
30845128 TGA TAA TAA TAA T
1 TAA TAA TAA TAA T
30845141 GGACTAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 2 0.04
3 36 0.75
4 10 0.21
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30845133 original size:18 final size:18
Alignment explanation
Indices: 30845077--30845141 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
30845067 GATAGTAAAC
30845077 AATG-TAATAATAATGATAT
1 AATGATAATAATAATG--AT
30845096 AATGAT-A-AATAA--AT
1 AATGATAATAATAATGAT
30845110 AA--ATAATAATAATGAT
1 AATGATAATAATAATGAT
30845126 AATGATAATAATAATG
1 AATGATAATAATAATG
30845142 GACTAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
12 2 0.05
13 1 0.03
14 9 0.23
16 4 0.10
18 17 0.44
19 5 0.13
20 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (18 bp):
AATGATAATAATAATGAT
Found at i:30846248 original size:16 final size:16
Alignment explanation
Indices: 30846223--30846253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30846213 TTTAAGTGAA
30846223 TTGAAATACTATATGT
1 TTGAAATACTATATGT
*
30846239 TTGAATTACTATATG
1 TTGAAATACTATATG
30846254 ATATGGTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
TTGAAATACTATATGT
Found at i:30849427 original size:24 final size:24
Alignment explanation
Indices: 30849400--30849447 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30849390 TTTAATGTTC
*
30849400 AATTTGATA-TATGTGTTTTTTTTT
1 AATTTGATACT-TGAGTTTTTTTTT
*
30849424 AATTTGGTACTTGAGTTTTTTTTT
1 AATTTGATACTTGAGTTTTTTTTT
30849448 CTCAATTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.65
Consensus pattern (24 bp):
AATTTGATACTTGAGTTTTTTTTT
Found at i:30851810 original size:7 final size:7
Alignment explanation
Indices: 30851798--30851828 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
30851788 AATCATATGT
30851798 TTTATTA
1 TTTATTA
30851805 TTTATTA
1 TTTATTA
30851812 TTTATTA
1 TTTATTA
*
30851819 TATATTA
1 TTTATTA
30851826 TTT
1 TTT
30851829 TTCAACGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:30852877 original size:12 final size:12
Alignment explanation
Indices: 30852860--30852885 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30852850 TGATAAGTGA
30852860 TTCTATTTTCTT
1 TTCTATTTTCTT
30852872 TTCTATTTTCTT
1 TTCTATTTTCTT
30852884 TT
1 TT
30852886 GTGTGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTATTTTCTT
Found at i:30853987 original size:63 final size:63
Alignment explanation
Indices: 30853888--30854016 Score: 215
Period size: 63 Copynumber: 2.0 Consensus size: 63
30853878 CAACCTGATT
*
30853888 TATAACTTAAATTTTGTAATTCAAAATCTATTAAGATGCGCCTCATT-CTCGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCGCCTCATTCCT-GATGTGATAAGAA
* *
30853951 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGTGCCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
30854014 TAT
1 TAT
30854017 CTCTTTGTGA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
63 60 0.97
64 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
Found at i:30854946 original size:35 final size:34
Alignment explanation
Indices: 30854892--30854964 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 34
30854882 AGACCAAGAG
* *
30854892 GATTGAAGGCCAGGGGAGTATGGAAAGTGATTTA
1 GATTGAAGACCAGGGGAGTATGGAAAGTGATTCA
30854926 GATTGAAGACCATGGGGAGTATGGAAAGTGATTCA
1 GATTGAAGACCA-GGGGAGTATGGAAAGTGATTCA
30854961 GATT
1 GATT
30854965 CAGATTGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.33, C:0.07, G:0.36, T:0.25
Consensus pattern (34 bp):
GATTGAAGACCAGGGGAGTATGGAAAGTGATTCA
Found at i:30855192 original size:57 final size:59
Alignment explanation
Indices: 30855131--30855259 Score: 142
Period size: 57 Copynumber: 2.2 Consensus size: 59
30855121 CTCATGAGAT
* * *
30855131 TATATTATAATTTTTATGAATTTATATTT-TAAT-A-ATATTAAGAATGTTATTAAATTA
1 TATATTATAATTTTTATGAAATTATATTTGTAATAACATATTAA-AATATGATTAAATTA
* * *
30855188 TATATTTTTATTTTTATTAAATTATATTTGGTAATAATCATATTAAAATATGATTAAATTA
1 TATATTATAATTTTTATGAAATTATATTT-GTAATAA-CATATTAAAATATGATTAAATTA
30855249 T-TATTA-AATTT
1 TATATTATAATTT
30855260 AATAATAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
57 25 0.42
59 8 0.14
60 5 0.08
61 14 0.24
62 7 0.12
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (59 bp):
TATATTATAATTTTTATGAAATTATATTTGTAATAACATATTAAAATATGATTAAATTA
Found at i:30857944 original size:16 final size:17
Alignment explanation
Indices: 30857912--30857945 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30857902 TAATAGTGGT
*
30857912 TTGAAATGTTAACTTAA
1 TTGAAATATTAACTTAA
30857929 TTGAAATATT-ACTTAA
1 TTGAAATATTAACTTAA
30857945 T
1 T
30857946 GACTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (17 bp):
TTGAAATATTAACTTAA
Found at i:30865598 original size:35 final size:35
Alignment explanation
Indices: 30865512--30865600 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
30865502 AGTACATCGA
* *
30865512 TAATCCAACCATAACACGCCAGATGCTCATACGAGC
1 TAATCCAACCA-AACACGCCAGATGCTCAAAAGAGC
* **
30865548 CAATCCCTCCAAAACACGCCA-ATGCTCAAAAGAGC
1 TAATCCAACC-AAACACGCCAGATGCTCAAAAGAGC
30865583 TAATCCAACCGAAACACG
1 TAATCCAACC-AAACACG
30865601 TCAAACAGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
35 26 0.60
36 16 0.37
37 1 0.02
ACGTcount: A:0.39, C:0.35, G:0.12, T:0.13
Consensus pattern (35 bp):
TAATCCAACCAAACACGCCAGATGCTCAAAAGAGC
Found at i:30868215 original size:17 final size:19
Alignment explanation
Indices: 30868193--30868229 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
30868183 TTTAGGGAAT
30868193 AAATT-GAATAAAAT-ACA
1 AAATTGGAATAAAATGACA
*
30868210 AAATTGGTATAAAATGACA
1 AAATTGGAATAAAATGACA
30868229 A
1 A
30868230 TTGACTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (19 bp):
AAATTGGAATAAAATGACA
Found at i:30873949 original size:20 final size:19
Alignment explanation
Indices: 30873926--30874030 Score: 84
Period size: 20 Copynumber: 5.3 Consensus size: 19
30873916 TAAGTGCGTT
30873926 CAGGGGTACTGAAGTACAAA
1 CAGGGGTAC-GAAGTACAAA
* * ** *
30873946 CAGGGGCACGTATGTGTAAT
1 CAGGGGTACG-AAGTACAAA
30873966 CAGGGGTACGAAGTACAAA
1 CAGGGGTACGAAGTACAAA
* * * *
30873985 CAGGGGCACGTATGTGCAAT
1 CAGGGGTACG-AAGTACAAA
30874005 CAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
*
30874025 TAGGGG
1 CAGGGG
30874031 CATGTATGTG
Statistics
Matches: 63, Mismatches: 19, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
19 15 0.24
20 46 0.73
21 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.34, T:0.16
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:30874038 original size:79 final size:81
Alignment explanation
Indices: 30873906--30874085 Score: 247
Period size: 79 Copynumber: 2.2 Consensus size: 81
30873896 AGAGTATAAT
* * ** * * *
30873906 CAGGGGCACTTAAGTGCGTTCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGTAA-TCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
30873970 GGTAC-GAAGTACAAA
66 GGTACTGAAGTACAAA
* *
30873985 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTCAAG
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
30874050 GGTACTGAAGTACAAA
66 GGTACTGAAGTACAAA
* *
30874066 TAGGGACACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
30874086 TCATGCAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 51 0.58
80 9 0.10
81 28 0.32
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (81 bp):
CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
GGTACTGAAGTACAAA
Found at i:30874065 original size:41 final size:41
Alignment explanation
Indices: 30873906--30874088 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 41
30873896 AGAGTATAAT
* * *
30873906 CAGGGGCACTTAAGTGC-GTTCAGGGGTACTGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
*
30873946 CAGGGGCACGTATGTGTAA-TCAGGGGTAC-GAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
*
30873985 CAGGGGCACGTATGTGCAA-TCAGGGGTACCGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
* * *
30874025 TAGGGGCATGTATGTGCAATTCAAGGGTACTGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
* *
30874066 TAGGGACACGTATGTGCAATTCA
1 CAGGGGCACGTATGTGCAATTCA
30874089 TGCAATAATT
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.29
40 51 0.40
41 40 0.31
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.20
Consensus pattern (41 bp):
CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
Found at i:30876904 original size:34 final size:34
Alignment explanation
Indices: 30876815--30876931 Score: 101
Period size: 34 Copynumber: 3.4 Consensus size: 34
30876805 TTCTGATCTT
* * * * * * *
30876815 ATATGAAATTCTAATCTGACATATGCTTCTAGAA
1 ATATGAAATTTTGATCTGATATATGTTTTTGGTA
* * * *
30876849 ATATGACATTCTAATCCGATATATGTTTTTGG-A
1 ATATGAAATTTTGATCTGATATATGTTTTTGGTA
**
30876882 ATTATGGCATTTTGATCTGATATATGTTTTTGGTA
1 A-TATGAAATTTTGATCTGATATATGTTTTTGGTA
30876917 ATATGAAATTTTGAT
1 ATATGAAATTTTGAT
30876932 ATTATATTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 2 0.03
34 65 0.94
35 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (34 bp):
ATATGAAATTTTGATCTGATATATGTTTTTGGTA
Found at i:30879792 original size:17 final size:17
Alignment explanation
Indices: 30879770--30879802 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30879760 CCATCACATT
30879770 AAAGGCACATAAATGTG
1 AAAGGCACATAAATGTG
30879787 AAAGGCACATAAATGT
1 AAAGGCACATAAATGT
30879803 AAGACCCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
AAAGGCACATAAATGTG
Found at i:30881490 original size:20 final size:20
Alignment explanation
Indices: 30881423--30881489 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
30881413 ATATTAAATA
*
30881423 TTTAAAATAAAGAATAACAT
1 TTTAAAATAAAGATTAACAT
* * * * *
30881443 TATAAAAGTAAAAATAAAGAA
1 TTTAAAA-TAAAGATTAACAT
30881464 TTTAAATATAAAGATTAA-AT
1 TTTAAA-ATAAAGATTAACAT
30881484 TTTAAA
1 TTTAAA
30881490 TTTAAATATA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 13 0.37
21 21 0.60
22 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (20 bp):
TTTAAAATAAAGATTAACAT
Found at i:30885420 original size:3 final size:3
Alignment explanation
Indices: 30885412--30885436 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30885402 CTATCTTGTC
30885412 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
30885437 AACTACTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:30886120 original size:30 final size:30
Alignment explanation
Indices: 30886060--30886129 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
30886050 TTAAATTATT
* ** *
30886060 AATGATAAAATTGTACTTTAATTTTTTAAA
1 AATGATAAAATTGTAATTTAATCCTCTAAA
*
30886090 AATGATAAAATTTTAATTTAATCCTCTAAA
1 AATGATAAAATTGTAATTTAATCCTCTAAA
* *
30886120 AGTTATAAAA
1 AATGATAAAA
30886130 ATTAATATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (30 bp):
AATGATAAAATTGTAATTTAATCCTCTAAA
Found at i:30886144 original size:25 final size:23
Alignment explanation
Indices: 30886116--30886181 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
30886106 TTTAATCCTC
30886116 TAAAAGTTATAAAAATTAATATTAT
1 TAAAA-TTATAAAAATT-ATATTAT
* *
30886141 TAAAATAAT-AAAATTATATTTT
1 TAAAATTATAAAAATTATATTAT
**
30886163 TATTATTATAAAAA-TATAT
1 TAAAATTATAAAAATTATAT
30886182 CATTTAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 17 0.49
23 10 0.29
24 3 0.09
25 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAAATTATAAAAATTATATTAT
Found at i:30887670 original size:20 final size:21
Alignment explanation
Indices: 30887645--30887684 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30887635 AAAAAAAGGA
*
30887645 ATTACACTTGAAATA-AAAAT
1 ATTACACTTCAAATATAAAAT
*
30887665 ATTACATTTCAAATATAAAA
1 ATTACACTTCAAATATAAAA
30887685 AATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTACACTTCAAATATAAAAT
Found at i:30889898 original size:33 final size:33
Alignment explanation
Indices: 30889856--30889923 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
30889846 CAACCGAAGT
30889856 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
1 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
30889889 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
1 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
30889922 TA
1 TA
30889924 ACATTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.26, T:0.13
Consensus pattern (33 bp):
TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
Found at i:30896289 original size:35 final size:30
Alignment explanation
Indices: 30896250--30896323 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 30
30896240 TAATTTTAAT
30896250 AATTAAATTTACATTATTAAATCAAAAAATAGAAA-
1 AATTAAATTTAC-TTA--AAAT--AAAAATA-AAAG
30896285 AATTAAA-TTACTTAAAATAAAAATAAAAG
1 AATTAAATTTACTTAAAATAAAAATAAAAG
30896314 AATTAAATTT
1 AATTAAATTT
30896324 CAAATATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 3 0.08
29 14 0.38
30 2 0.05
31 4 0.11
33 3 0.08
34 4 0.11
35 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTAAATTTACTTAAAATAAAAATAAAAG
Found at i:30896336 original size:29 final size:28
Alignment explanation
Indices: 30896274--30896336 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
30896264 TATTAAATCA
*
30896274 AAAAATAGAAAAATTAAATTACTTAAAAT
1 AAAAATAGAAAAATTAAATTA-TCAAAAT
30896303 AAAAATA-AAAGAATTAAATT-TCAAATAT
1 AAAAATAGAAA-AATTAAATTATCAAA-AT
30896331 ACAAAA
1 A-AAAA
30896337 AAGTGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.13
28 6 0.20
29 20 0.67
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (28 bp):
AAAAATAGAAAAATTAAATTATCAAAAT
Found at i:30897877 original size:28 final size:27
Alignment explanation
Indices: 30897819--30897877 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
30897809 GATTTCGCGG
30897819 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAAT-ATTAA
* *
30897847 AAAAGTGGCCTATTTCGGTAAAT-TTAA
1 AAAA-TGGCCCATTCCGGTAAATATTAA
30897874 AAAA
1 AAAA
30897878 AAGGGCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATGGCCCATTCCGGTAAATATTAA
Found at i:30899171 original size:63 final size:63
Alignment explanation
Indices: 30899070--30899198 Score: 150
Period size: 63 Copynumber: 2.0 Consensus size: 63
30899060 TCACAAGTAT
* * * * * * **
30899070 CATAGCATGCACACTCATTCCCCGCATCATCACCTTCAGCTTTGGTTTATTTTACAAAACCAC
1 CATAGCACGCACAATCATTCCCCACATCAACACATTCAGCATAAGTTTATTTTACAAAACCAC
* * * *
30899133 CATAGCACGCACAATTATTCCCTACATCAACACATTCAGCATAAGTTTATTTTACACAAGCAC
1 CATAGCACGCACAATCATTCCCCACATCAACACATTCAGCATAAGTTTATTTTACAAAACCAC
30899196 CAT
1 CAT
30899199 CGTACATGCA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.32, C:0.31, G:0.09, T:0.29
Consensus pattern (63 bp):
CATAGCACGCACAATCATTCCCCACATCAACACATTCAGCATAAGTTTATTTTACAAAACCAC
Found at i:30903335 original size:17 final size:17
Alignment explanation
Indices: 30903313--30903346 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30903303 AAATTAAAAC
30903313 TTAAATCATAATTACCT
1 TTAAATCATAATTACCT
**
30903330 TTAAATTTTAATTACCT
1 TTAAATCATAATTACCT
30903347 ACCAATAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATCATAATTACCT
Found at i:30906847 original size:17 final size:18
Alignment explanation
Indices: 30906815--30906851 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30906805 TGAAATTTAT
*
30906815 CAAGTTTTATTTTAAAAA
1 CAAGTTTTAGTTTAAAAA
30906833 CAAGTTTT-GTTTAAAAA
1 CAAGTTTTAGTTTAAAAA
30906850 CA
1 CA
30906852 TTATATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
CAAGTTTTAGTTTAAAAA
Found at i:30908863 original size:20 final size:20
Alignment explanation
Indices: 30908834--30908943 Score: 86
Period size: 20 Copynumber: 5.5 Consensus size: 20
30908824 AAATTCGAAG
* *
30908834 GTATCGATACTTTTAGTGAA
1 GTATCAATACTTTTAGTAAA
* *
30908854 GTATCAATAC-TTTACCTTAA
1 GTATCAATACTTTTA-GTAAA
*
30908874 GTATCAATA-TTTT-TTAAAA
1 GTATCAATACTTTTAGT-AAA
* *
30908893 CTATCAATAC-TTTAGCTTAA
1 GTATCAATACTTTTAG-TAAA
30908913 GTATCAATACTTTT-GTTAAA
1 GTATCAATACTTTTAG-TAAA
30908933 GTATCAATACT
1 GTATCAATACT
30908944 GCAATGCCCA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
18 1 0.01
19 17 0.24
20 50 0.69
21 4 0.06
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (20 bp):
GTATCAATACTTTTAGTAAA
Found at i:30908898 original size:39 final size:40
Alignment explanation
Indices: 30908855--30908943 Score: 137
Period size: 39 Copynumber: 2.2 Consensus size: 40
30908845 TTTAGTGAAG
30908855 TATCAATACTTTACCTTAAGTATCAATA-TTTT-TTAAAAC
1 TATCAATACTTTACCTTAAGTATCAATACTTTTGTT-AAAC
* *
30908894 TATCAATACTTTAGCTTAAGTATCAATACTTTTGTTAAAG
1 TATCAATACTTTACCTTAAGTATCAATACTTTTGTTAAAC
30908934 TATCAATACT
1 TATCAATACT
30908944 GCAATGCCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 27 0.59
40 17 0.37
41 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (40 bp):
TATCAATACTTTACCTTAAGTATCAATACTTTTGTTAAAC
Found at i:30917031 original size:68 final size:71
Alignment explanation
Indices: 30916889--30917033 Score: 156
Period size: 68 Copynumber: 2.1 Consensus size: 71
30916879 TATTAAATCT
* * *
30916889 TATTAAATTAATAAAATATTTTTCTACAAGATAAACATTAAATTAAATTTAATATTAAGATAATC
1 TATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAATTAAATTTAATATTAAGATAATA
**
30916954 AGTTGAA
65 AAATGAA
** *
30916961 TATTAAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAATTAAATTTAATGTTAA-ATATATT
1 TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAGATA-A-T
30917022 AAAAT-AA
64 AAAATGAA
30917029 TATTA
1 TATTA
30917034 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
67 3 0.05
68 36 0.57
69 3 0.05
70 1 0.02
71 2 0.03
72 18 0.29
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (71 bp):
TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAGATAATAA
AATGAA
Found at i:30917435 original size:19 final size:19
Alignment explanation
Indices: 30917411--30917453 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
30917401 AAAACATCAT
* *
30917411 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
30917430 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
30917449 ATTAA
1 ATTAA
30917454 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:30918952 original size:22 final size:22
Alignment explanation
Indices: 30918925--30918991 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 22
30918915 CGAATAAACT
**
30918925 GAGAGCAAAAATGTGCTAATCA
1 GAGAGCACTAATGTGCTAATCA
*
30918947 GAGAGCACTAACGTGCTAATAGTCA
1 GAGAGCACTAATGTGCT-A-A-TCA
30918972 GAGAGCACTAATGTGCTAAT
1 GAGAGCACTAATGTGCTAAT
30918992 AATCAGAGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 15 0.39
23 2 0.05
24 2 0.05
25 19 0.50
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (22 bp):
GAGAGCACTAATGTGCTAATCA
Found at i:30918976 original size:25 final size:25
Alignment explanation
Indices: 30918941--30918999 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
30918931 AAAAATGTGC
30918941 TAATCAGAGAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
* *
30918966 TAGTCAGAGAGCACTAATGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
30918991 TAATCAGAG
1 TAATCAGAG
30919000 CACGCGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACGTGCTAA
Found at i:30928779 original size:12 final size:11
Alignment explanation
Indices: 30928764--30928879 Score: 74
Period size: 12 Copynumber: 9.5 Consensus size: 11
30928754 CAATTTCACA
30928764 AAAAAAAGAAAG
1 AAAAAAA-AAAG
30928776 AAAAGAAAAAAG
1 AAAA-AAAAAAG
30928788 AAAAAAAAACA-
1 AAAAAAAAA-AG
*
30928799 AAAGAAAAAAG
1 AAAAAAAAAAG
30928810 AAAAATCAAAGTCAA-
1 AAAAA--AAA---AAG
30928825 AATACAAAAAAATG
1 AA-A-AAAAAAA-G
30928839 AAAATAAAAAAG
1 AAAA-AAAAAAG
*
30928851 AAAAAGAAAAG
1 AAAAAAAAAAG
30928862 AAAAAGAAAAAAG
1 -AAAA-AAAAAAG
30928875 AAAAA
1 AAAAA
30928880 GGAGAGGCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 31
0.71 0.03 0.26
Matches are distributed among these distances:
10 1 0.01
11 24 0.28
12 29 0.34
13 19 0.22
14 2 0.02
15 5 0.06
16 3 0.04
17 2 0.02
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:30928781 original size:9 final size:8
Alignment explanation
Indices: 30928764--30928879 Score: 67
Period size: 9 Copynumber: 13.6 Consensus size: 8
30928754 CAATTTCACA
30928764 AAAAAAAG
1 AAAAAAAG
30928772 AAAGAAAAG
1 AAA-AAAAG
30928781 -AAAAAAG
1 AAAAAAAG
30928788 AAAAAAA-
1 AAAAAAAG
*
30928795 AACAAAAG
1 AAAAAAAG
30928803 -AAAAAAG
1 AAAAAAAG
30928810 AAAAATCAAAG
1 -AAAA--AAAG
* * *
30928821 TCAAAATAC
1 -AAAAAAAG
30928830 AAAAAAATG
1 AAAAAAA-G
*
30928839 AAAATAAAA
1 AAAA-AAAG
30928848 AAGAAAAAG
1 AA-AAAAAG
*
30928857 AAAAGAAAA
1 AAAA-AAAG
30928866 AGAAAAAAG
1 A-AAAAAAG
30928875 AAAAA
1 AAAAA
30928880 GGAGAGGCCA
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
7 17 0.20
8 22 0.27
9 29 0.35
10 8 0.10
11 7 0.08
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:30928788 original size:7 final size:7
Alignment explanation
Indices: 30928765--30928814 Score: 64
Period size: 7 Copynumber: 6.7 Consensus size: 7
30928755 AATTTCACAA
30928765 AAAAAAG
1 AAAAAAG
30928772 AAAGAAAAG
1 -AA-AAAAG
30928781 AAAAAAG
1 AAAAAAG
*
30928788 AAAAAAA
1 AAAAAAG
30928795 AACAAAAG
1 AA-AAAAG
30928803 AAAAAAG
1 AAAAAAG
30928810 AAAAA
1 AAAAA
30928815 TCAAAGTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
7 23 0.61
8 10 0.26
9 5 0.13
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:30928854 original size:5 final size:6
Alignment explanation
Indices: 30928832--30928880 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
30928822 CAAAATACAA
30928832 AAAAATG AAAATA- AAAAAG AAAAAG -AAAAG AAAAAG AAAAAAG AAAAAG
1 AAAAA-G AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG
30928881 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
5 6 0.16
6 21 0.55
7 10 0.26
8 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:30929773 original size:61 final size:61
Alignment explanation
Indices: 30929645--30929773 Score: 165
Period size: 61 Copynumber: 2.1 Consensus size: 61
30929635 ACAAGGGATC
* * * *
30929645 AAGGTGAAAACCCGCAAAGGGCGCTTTGATTCCTAAAAATAATAATAATAAAAAAAAGACC
1 AAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCTAAAAATAATAATAATAAAAAAAAAACA
*
30929706 AAGGTGAAAACCCACAAAGGGCGCTTTGAGTCC-AAAAA-AATAA-AATAAAATAAATAAATA
1 AAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCTAAAAATAATAATAATAAAA-AAA-AAACA
30929766 AATGGTGA
1 AA-GGTGA
30929774 GGCTAAGGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 7 0.12
59 8 0.13
60 9 0.15
61 36 0.60
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (61 bp):
AAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCTAAAAATAATAATAATAAAAAAAAAACA
Found at i:30931280 original size:131 final size:132
Alignment explanation
Indices: 30931112--30931397 Score: 416
Period size: 131 Copynumber: 2.2 Consensus size: 132
30931102 AATAACAGAT
* **
30931112 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
* * *
30931177 GAAGCAAATTTAAGCCATTTGTCCTATCTCCCTGGACAGCAGGGGAATAGGTGGAAGATTGT-AA
66 GAAGCAAATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTGAA
30931241 GC
131 GC
*
30931243 CTTATCTCCCTAAGCAGTGGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
* * * * *
30931308 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAATAGTGGAATAGGTTGAAGGTTGTGAA
66 GAAGCAAATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTGAA
*
30931373 TC
131 GC
*
30931375 C-TATCTCCCT-GGTCAGTAGTGGA
1 CTTATCTCCCTAAG-CAGTAGTGGA
30931398 ATAGGTTGAA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
130 1 0.01
131 133 0.96
132 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (132 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
GAAGCAAATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTGAA
GC
Found at i:30931424 original size:44 final size:43
Alignment explanation
Indices: 30931329--30931441 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
30931319 AAGCCACTAG
* ** ***
30931329 TCCTATCTCCCTGGACAATAGTGGAATAGGTTGAAGGTTGTGAA
1 TCCTATCTCCCTGG-CAGTAGTGGAATAGGTTGAAAATTACAAA
30931373 TCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAAATTACAAA
1 TCCTATCTCCCTGG-CAGTAGTGGAATAGGTTGAAAATTACAAA
* *
30931417 TCTTATCTCCCTAAGCAGTAGTGGA
1 TCCTATCTCCCT-GGCAGTAGTGGA
30931442 GCAGATCGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 58 0.98
45 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
TCCTATCTCCCTGGCAGTAGTGGAATAGGTTGAAAATTACAAA
Found at i:30931789 original size:44 final size:44
Alignment explanation
Indices: 30931741--30932140 Score: 150
Period size: 44 Copynumber: 9.1 Consensus size: 44
30931731 CTTGGTCAGC
*
30931741 AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAAT
1 AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGT
** * * ** *
30931785 AGTGGAGCAGATCGAAGAA-GGCAAATCTTATCTTCCCT-AGGAGT
1 AGTGGAATAGGTTGAA-AATTACAAATCTTATC-TCCCTAAGCAGT
* * * * * * * * * **
30931829 AG-GGAAGCAGATT-TAAGTCACTAGTCCTATCTCCCT-GGACAAC
1 AGTGGAA-TAGGTTGAAAATTACAAATCTTATCTCCCTAAG-CAGT
* * * ** **
30931872 AGGGGAATAGGTGGAAGATTGTAAGCCTTATCTCCCTAAGCAGT
1 AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGT
* * *
30931916 AGTGGAGTAGGTTGAAAATTACAGATCTTATATCCCTAAGCAGT
1 AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGT
** * * ***** * * *
30931960 AGTGGAGCAGATTGAAGACGGTGAATCTTATTTTCCC-CAGAAGT
1 AGTGGAATAGGTTGAAAATTACAAATCTTA-TCTCCCTAAGCAGT
* * *** * * * ** *
30932004 AG-GGAAGCAGGTT-TAAGCCACTAGTCCTATCTCCCTGGGCAGC
1 AGTGGAA-TAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGT
* ** ** *
30932047 AGTGGAATAGGTTGAAGATTGTAAGCCTTACCTCCCTAAGCAGT
1 AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGT
* *
30932091 AGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGT
30932135 AGTGGA
1 AGTGGA
30932141 GCAGATAAAA
Statistics
Matches: 246, Mismatches: 97, Indels: 26
0.67 0.26 0.07
Matches are distributed among these distances:
42 12 0.05
43 38 0.15
44 183 0.74
45 13 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
AGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGT
Found at i:30931961 original size:131 final size:131
Alignment explanation
Indices: 30931722--30931972 Score: 283
Period size: 131 Copynumber: 1.9 Consensus size: 131
30931712 AGGTTGTGAA
* * * * * *
30931722 TCCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAATAG
1 TCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAAATTACAAACCTTATCTCCCTAAGCAATAG
* * *
30931787 TGGAGCAGATCGAAGAAGGCAAATCTTATCTTCCCTAGGAGTAG-GGAAGCAGATTTAAGTCACT
66 TGGAGCAGATCGAAGAAGACAAATCTTATCATCCCTAGCAGTAGTGG-AGCAGATTTAAGTCACT
30931851 AG
130 AG
* ** * *
30931853 TCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTAAGCCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAAATTACAAACCTTATCTCCCTAAGCAATAG
* * * * *
30931918 TGGAGTAGGTTGAA-AATTACAGATCTTAT-ATCCCTAAGCAGTAGTGGAGCAGATT
66 TGGAGCAGATCGAAGAA-GACAAATCTTATCATCCCT-AGCAGTAGTGGAGCAGATT
30931973 GAAGACGGTG
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
130 7 0.07
131 89 0.91
132 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
TCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAAATTACAAACCTTATCTCCCTAAGCAATAG
TGGAGCAGATCGAAGAAGACAAATCTTATCATCCCTAGCAGTAGTGGAGCAGATTTAAGTCACTA
G
Found at i:30932141 original size:44 final size:44
Alignment explanation
Indices: 30931898--30932141 Score: 171
Period size: 44 Copynumber: 5.6 Consensus size: 44
30931888 GATTGTAAGC
30931898 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
* * * ** *
30931942 CTTATATCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGT-GA-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAA-A-ATTACAGAT
* * * * * ***
30931986 CTTATTTTCCC-CAGAAGTAG-GGAAGCAGGTT-TAAGCCACTAG-T
1 CTTA-TCTCCCTAAGCAGTAGTGG-AGTAGGTTGAAAATTAC-AGAT
* ** * * * *
30932029 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTA-AG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAA-AAT-TACAGAT
*
30932073 CTTACCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
30932117 CTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAG
30932142 CAGATAAAAA
Statistics
Matches: 150, Mismatches: 36, Indels: 28
0.70 0.17 0.13
Matches are distributed among these distances:
41 1 0.01
42 8 0.05
43 23 0.15
44 108 0.72
45 8 0.05
46 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
Found at i:30932163 original size:44 final size:44
Alignment explanation
Indices: 30932073--30932155 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
30932063 GATTGTAAGC
* * *
30932073 CTTACCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTACCTCCCTAAGCAGTAGTGGAGCAGGATGAAAATAACAGAT
*
30932117 CTTATCTCCCTAAGCAGTAGTGGAGCA-GAT-AAAA-AACAG
1 CTTACCTCCCTAAGCAGTAGTGGAGCAGGATGAAAATAACAG
30932156 TGAATCTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.11
42 4 0.11
43 2 0.06
44 25 0.71
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (44 bp):
CTTACCTCCCTAAGCAGTAGTGGAGCAGGATGAAAATAACAGAT
Found at i:30932163 original size:175 final size:175
Alignment explanation
Indices: 30931243--30932146 Score: 1341
Period size: 175 Copynumber: 5.2 Consensus size: 175
30931233 GATTGTAAGC
* **
30931243 CTTATCTCCCTAAGCAGTGGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* *
30931308 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAATAGTGGAATAGGTTGAAGGTTGTGAA
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGT-AA
* * * *
30931373 TCC-TATCTCCCT-GGTCAGTAGTGGAATAGGTTGAAAATTACAAAT
130 GCCTTATCTCCCTAAG-CAGTAGTGGAGTAGGTTGAAAATTACAGAT
*
30931418 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTT-CTCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* * * * *
30931482 GAAGCAGATTTAAACCACTAGTCCTATCTCCCTGGACAGCAGGGGAATAGGTGGAAGATTGTATG
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
*
30931547 CCTTAGCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
131 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
* * *
30931592 CTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGGTGAATCTTATTTTCCCCAAGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* * *
30931657 GAAGTAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATATGTTGAAGGTTGTGAA
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGT-AA
* ** * * *
30931722 TCC-TATCT-CCTTGGTCAGCAGTGGAATAGGTTGAAAATTACAAAT
130 GCCTTATCTCCCTAAG-CAGTAGTGGAGTAGGTTGAAAATTACAGAT
* * ** *
30931767 CTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGAAGGCAAATCTTATCTTCCCTAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* * *
30931832 GAAGCAGATTTAAGTCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTAAG
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
30931897 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
131 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
* * * *
30931942 CTTATATCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATTTTCCCCAGAAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* * *
30932007 GAAGCAGGTTTAAGCCACTAGTCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTAAG
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
*
30932072 CCTTACCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
131 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
30932117 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT
30932147 AAAAAACAGT
Statistics
Matches: 650, Mismatches: 72, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
173 3 0.00
174 161 0.25
175 479 0.74
176 7 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (175 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
Found at i:30940264 original size:17 final size:17
Alignment explanation
Indices: 30940242--30940275 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30940232 CTTAGAAGAA
30940242 CTTAGTCCAACAAACTT
1 CTTAGTCCAACAAACTT
*
30940259 CTTAGTCCAACATACTT
1 CTTAGTCCAACAAACTT
30940276 TTTAACATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (17 bp):
CTTAGTCCAACAAACTT
Found at i:30949425 original size:28 final size:27
Alignment explanation
Indices: 30949360--30949425 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
30949350 CATCTTTCAG
**
30949360 TTTTAAATTTTGTCTATTTATTCATTT
1 TTTTAAATTTTGAATATTTATTCATTT
*
30949387 TTTTATTATTTTGAATATTTATTC-TTAGT
1 TTTTA-AATTTTGAATATTTATTCATT--T
30949416 TTTTAAATTT
1 TTTTAAATTT
30949426 ATTCTTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.22
28 19 0.59
29 6 0.19
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTAAATTTTGAATATTTATTCATTT
Found at i:30955513 original size:44 final size:44
Alignment explanation
Indices: 30955463--30955547 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
30955453 AATTAATTAT
30955463 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
1 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
*
30955507 AGAAAATACTTACTAATCTAATCGAGTCATGAATTAGTAGT
1 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGT
30955548 ATGAATCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (44 bp):
AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
Found at i:30956251 original size:9 final size:9
Alignment explanation
Indices: 30956175--30956250 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
30956165 GTAGTGATTC
*
30956175 AATTTGGTT
1 AATTCGGTT
*
30956184 AATTCGGGT
1 AATTCGGTT
**
30956193 AATTCAATT
1 AATTCGGTT
*
30956202 AATTCGATT
1 AATTCGGTT
30956211 AATTCAGG-T
1 AATTC-GGTT
30956220 AATTCGGTT
1 AATTCGGTT
30956229 AATTCGGTT
1 AATTCGGTT
*
30956238 AATTTGGTT
1 AATTCGGTT
30956247 AATT
1 AATT
30956251 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
8 2 0.04
9 54 0.95
10 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30968334 original size:64 final size:64
Alignment explanation
Indices: 30968257--30969211 Score: 1892
Period size: 64 Copynumber: 14.9 Consensus size: 64
30968247 CCAGGTGTCA
*
30968257 AATTATCATTGGGCAAGACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968321 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968385 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968449 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968513 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968577 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968641 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968705 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968769 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968833 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968897 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30968961 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30969025 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
30969089 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
*
30969153 AATTATCATTGGGCAAGACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTA
1 AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTA
30969212 AAAAATGTTT
Statistics
Matches: 889, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 889 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (64 bp):
AATTATCATTGGGCAAAACTTTTATAAAGAATTATAAAAAGGTTGTTAATTTTGTTTTATAAAG
Found at i:30969384 original size:13 final size:13
Alignment explanation
Indices: 30969350--30969377 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30969340 ACCTTAAAAT
30969350 ATATATTATATAC
1 ATATATTATATAC
30969363 ATATATTATATAC
1 ATATATTATATAC
30969376 AT
1 AT
30969378 CAATTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATTATATAC
Found at i:30969466 original size:54 final size:54
Alignment explanation
Indices: 30969399--30969516 Score: 218
Period size: 54 Copynumber: 2.1 Consensus size: 54
30969389 TGCCTTCAAA
30969399 TTTTTAATGTTAGAATTCATATCGTAACATGATCGAGTACTAAAATCTTGAATATG
1 TTTTT-AT-TTAGAATTCATATCGTAACATGATCGAGTACTAAAATCTTGAATATG
30969455 TTTTTATTTAGAATTCATATCGTAACATGATCGAGTACTAAAATCTTGAATATG
1 TTTTTATTTAGAATTCATATCGTAACATGATCGAGTACTAAAATCTTGAATATG
30969509 TTTTTATT
1 TTTTTATT
30969517 AATTAAATAC
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
54 55 0.89
55 2 0.03
56 5 0.08
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (54 bp):
TTTTTATTTAGAATTCATATCGTAACATGATCGAGTACTAAAATCTTGAATATG
Found at i:30973133 original size:49 final size:50
Alignment explanation
Indices: 30973007--30973143 Score: 154
Period size: 49 Copynumber: 2.8 Consensus size: 50
30972997 GGGTAAAGAG
* * * *
30973007 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-CGACAAGAGAAC
* * *
30973058 -TCCCATGTAAGACCATATCTGAGATATGGCATTGGTA-GTACAAGA-AAC
1 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACG-ACAAGAGAAC
* *
30973106 ATCCCATATAAGACCATGTCTGGGATATGGCTTTGGCA
1 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA
30973144 TGTTATTATT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.06
49 36 0.50
50 32 0.44
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACGACAAGAGAAC
Found at i:30973245 original size:50 final size:50
Alignment explanation
Indices: 30973182--30973280 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
30973172 TCCTTATGTT
** * * *
30973182 GGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATG
1 GGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGAGACATGGCATG
* * *
30973232 GGCACCGATATGAGAACTCCCATGTAAGACCATATCTGAGATATGGCAT
1 GGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGAGACATGGCAT
30973281 TGGTAGTACA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.19
Consensus pattern (50 bp):
GGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGAGACATGGCATG
Found at i:30973324 original size:49 final size:49
Alignment explanation
Indices: 30973206--30973334 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 49
30973196 AGGTCCCCCG
* * * * *
30973206 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGATATGGCATTGGCA-CGACAAGAGAACTCCCATA
* * *
30973256 TAAGACCATATCTGAGATATGGCATTGGTA-GTACAAGA-AACATCCCATA
1 TAAGACCATGTCTGGGATATGGCATTGGCACG-ACAAGAGAAC-TCCCATA
*
30973305 TAAGACCATGTCTGGGATATGGCTTTGGCA
1 TAAGACCATGTCTGGGATATGGCATTGGCA
30973335 TGTTATTATT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
48 4 0.06
49 36 0.55
50 25 0.38
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGATATGGCATTGGCACGACAAGAGAACTCCCATA
Found at i:30973338 original size:191 final size:191
Alignment explanation
Indices: 30973014--30973369 Score: 712
Period size: 191 Copynumber: 1.9 Consensus size: 191
30973004 GAGATCCCAT
30973014 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
30973079 AGATATGGCATTGGTAGTACAAGAAACATCCCATATAAGACCATGTCTGGGATATGGCTTTGGCA
66 AGATATGGCATTGGTAGTACAAGAAACATCCCATATAAGACCATGTCTGGGATATGGCTTTGGCA
30973144 TGTTATTATTAGAAAAGAGACCCAAGTATCCTTATGTTGGCACCGAGATGAGAGGTCCCCC
131 TGTTATTATTAGAAAAGAGACCCAAGTATCCTTATGTTGGCACCGAGATGAGAGGTCCCCC
30973205 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
30973270 AGATATGGCATTGGTAGTACAAGAAACATCCCATATAAGACCATGTCTGGGATATGGCTTTGGCA
66 AGATATGGCATTGGTAGTACAAGAAACATCCCATATAAGACCATGTCTGGGATATGGCTTTGGCA
30973335 TGTTATTATTAGAAAAGAGACCCAAGTATCCTTAT
131 TGTTATTATTAGAAAAGAGACCCAAGTATCCTTAT
30973370 TATTCCAATG
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 165 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (191 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
AGATATGGCATTGGTAGTACAAGAAACATCCCATATAAGACCATGTCTGGGATATGGCTTTGGCA
TGTTATTATTAGAAAAGAGACCCAAGTATCCTTATGTTGGCACCGAGATGAGAGGTCCCCC
Found at i:30975310 original size:18 final size:18
Alignment explanation
Indices: 30975287--30975329 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30975277 TACCAAGTGC
*
30975287 GTATCCTAGCCATTATAT
1 GTATCCTAACCATTATAT
*
30975305 GTATCCTAACCCTTATAT
1 GTATCCTAACCATTATAT
*
30975323 GTTTCCT
1 GTATCCT
30975330 TTTCCTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:30979060 original size:126 final size:126
Alignment explanation
Indices: 30978835--30979480 Score: 931
Period size: 126 Copynumber: 5.1 Consensus size: 126
30978825 GGCCAAACAT
*
30978835 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTTCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
30978900 CTACTTGAAGCGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
* * *
30978961 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGCGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
30979026 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAAAAAC-GTCTTTTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTC-AAAACTGTCTTCTCAAAATTATTTTTTCAG
*
30979087 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* * *
30979151 CCTGCTTGAAGCGGTTTTAACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
* * ** * *
30979213 GAACTACTATAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAACAATTTTGTTGGCAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
** * *
30979278 CTGCTTGAAGTATTTTTGACACTATTTGTTTAGAAA-TGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCA-AAACTGTCTTCTCAAAATTATTTTTTCAG
* * * * *
30979339 GAACTACTGTAG-AAAAGAGCATCCACATGGGAGCTTTTTTCATTAATTTTGTTGACAGTGCTTC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * * * *
30979403 CTTCTTGAAGCGTTTTTGGCACTATTTGTTTAGAACTGTCTTTTCAAAATTGTTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
30979464 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
30979481 AAAAACCAAA
Statistics
Matches: 468, Mismatches: 45, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
124 2 0.00
125 113 0.24
126 346 0.74
127 7 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
Found at i:30979599 original size:34 final size:32
Alignment explanation
Indices: 30979552--30979651 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 32
30979542 TATTTTAAAA
*
30979552 AAAAAAAACTAAACCCAATTTTAATTAATTTTCTT
1 AAAAACAA-TAAACCCAA-TTTAATTAATTTT-TT
30979587 AAAAACAATAAACCCAAATTTAATTAATTTATTT
1 AAAAACAATAAACCC-AATTTAATTAATTT-TTT
* ** *
30979621 AAAACCCCTAAACCTTAATTTAATTAATTTT
1 AAAAACAATAAACC-CAATTTAATTAATTTT
30979652 GAAAAAAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
33 1 0.02
34 46 0.81
35 10 0.18
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAAACAATAAACCCAATTTAATTAATTTTTT
Found at i:30979769 original size:21 final size:21
Alignment explanation
Indices: 30979703--30979773 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
30979693 TAAAACCTAG
30979703 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
* ** **
30979724 AATCCTAAACCTTA--CAAACCT
1 AACCCTAAA--TTATTTTAACAA
30979745 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
30979766 AACCCTAA
1 AACCCTAA
30979774 CCCTAAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
19 3 0.08
21 30 0.83
23 3 0.08
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:30979788 original size:42 final size:42
Alignment explanation
Indices: 30979694--30979788 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 42
30979684 AAAAATTCCT
* *
30979694 AAAACCTAGAACCCTAAATTATTTTAACAAAATCCTAAACCTTA
1 AAAACCT--AACCCTAAATTATTTTAACAAAACCCTAAACCCTA
*
30979738 CAAACCTAACCCTAAATTATTTTAACAAAACCCT-AACCCTA
1 AAAACCTAACCCTAAATTATTTTAACAAAACCCTAAACCCTA
30979779 AAAATCCTAA
1 AAAA-CCTAA
30979789 ACTAAAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.20
42 31 0.67
44 6 0.13
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.25
Consensus pattern (42 bp):
AAAACCTAACCCTAAATTATTTTAACAAAACCCTAAACCCTA
Found at i:30980120 original size:19 final size:20
Alignment explanation
Indices: 30980092--30980134 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
30980082 GTCATATAAA
*
30980092 AATT-TAATTTTAAA-ATTT
1 AATTATAATTTAAAACATTT
30980110 AATTATAATTTAAAACATTT
1 AATTATAATTTAAAACATTT
30980130 -ATTAT
1 AATTAT
30980135 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 14 0.64
20 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTATAATTTAAAACATTT
Found at i:30980143 original size:19 final size:20
Alignment explanation
Indices: 30980106--30980143 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
30980096 TAATTTTAAA
*
30980106 ATTTAATTATAATTTAAAAC
1 ATTTAATTATAATTAAAAAC
*
30980126 ATTT-ATTATTATTAAAAA
1 ATTTAATTATAATTAAAAA
30980144 TCTCTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATTATAATTAAAAAC
Found at i:30983231 original size:100 final size:100
Alignment explanation
Indices: 30983058--30983257 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
30983048 TTCCAAAATC
*
30983058 TATAATACACTGAAAGAACACACAAAGTAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
1 TATAATACACTGAAAGAACACACAAAGGAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
30983123 TATAATAAGAACATTCACCACATTTTTCTATTTGG
66 TATAATAAGAACATTCACCACATTTTTCTATTTGG
30983158 TATAATACACTGAAAGAACACACAAAGGAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
1 TATAATACACTGAAAGAACACACAAAGGAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
30983223 TATAATAAGAACATTCACCACATTTTTCTATTTGG
66 TATAATAAGAACATTCACCACATTTTTCTATTTGG
30983258 CCGAATATGA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (100 bp):
TATAATACACTGAAAGAACACACAAAGGAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
TATAATAAGAACATTCACCACATTTTTCTATTTGG
Found at i:30983588 original size:42 final size:43
Alignment explanation
Indices: 30983481--30983596 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
30983471 CTCGTACAAT
* * * *
30983481 GCCAACGTCCCAAACGTGGTCTTACAAGTAATCAAATATCGAT
1 GCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGAC
* * *
30983524 GCCATTGTCCCAAACAGGGTCTTACACGTAATCATATA-CGAC
1 GCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGAC
*
30983566 GCCAATGTCCCAGACATGGTCTTACACGTAA
1 GCCAATGTCCCAAACATGGTCTTACACGTAA
30983597 ATCTCAAATC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGAC
Found at i:30989425 original size:44 final size:43
Alignment explanation
Indices: 30989275--30989430 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 43
30989265 CTCGTACAAA
* *
30989275 GCCAACGTCCTAGACGT-GTCTTACAAGT-AT-TCAAATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATATC-AA-ATCGAT
* *
30989317 GCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAT-ATAT-GAC
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAT-ATCAAATCGAT
* * * *
30989359 GCCAATGTCTCAAACATGGTCTTACACGTAAATATCAAATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGT-AATATCAAATCGAT
30989403 GCCAACGTCCCAGACGTGGTCTTACACG
1 GCCAACGTCCCAGACGTGGTCTTACACG
30989431 ATAACACATT
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
41 2 0.02
42 37 0.42
43 20 0.22
44 29 0.33
46 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAATATCAAATCGAT
Found at i:30990975 original size:72 final size:73
Alignment explanation
Indices: 30990845--30990982 Score: 224
Period size: 72 Copynumber: 1.9 Consensus size: 73
30990835 GATTTTAGAG
* *
30990845 AAAGGTATCACGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCTCGAGATCGTTTAAAACTT
1 AAAGGTATCACGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTT
30990910 GGGGAAAA
66 GGGGAAAA
* * *
30990918 AAAGG-ATCATGCCCAGTAAGTTAGGATACGATCTCTTCTTAATTCCCGAGATTGTTTAAAACTT
1 AAAGGTATCACGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTT
30990982 G
66 G
30990983 AGTTTGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 55 0.92
73 5 0.08
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (73 bp):
AAAGGTATCACGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTT
GGGGAAAA
Found at i:30991838 original size:12 final size:12
Alignment explanation
Indices: 30991800--30991838 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30991790 GAAATATATA
*
30991800 AATAATATCAAT
1 AATAATATTAAT
*
30991812 AATAATAGTAAT
1 AATAATATTAAT
*
30991824 AATAATATTATT
1 AATAATATTAAT
30991836 AAT
1 AAT
30991839 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:30994920 original size:100 final size:100
Alignment explanation
Indices: 30994747--30994946 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
30994737 TTCCAAAATC
30994747 TATAATACACTGAAAGAACACACAAAGTAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
1 TATAATACACTGAAAGAACACACAAAGTAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
30994812 TATAATAAGAACATTCACCACATTTTTCTATTTGG
66 TATAATAAGAACATTCACCACATTTTTCTATTTGG
30994847 TATAATACACTGAAAGAACACACAAAGTAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
1 TATAATACACTGAAAGAACACACAAAGTAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
30994912 TATAATAAGAACATTCACCACATTTTTCTATTTGG
66 TATAATAAGAACATTCACCACATTTTTCTATTTGG
30994947 CCGAATATGA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (100 bp):
TATAATACACTGAAAGAACACACAAAGTAAGCTTAGAAAGCTTAGTAAGTCATCAGCAAATCAAG
TATAATAAGAACATTCACCACATTTTTCTATTTGG
Found at i:30995277 original size:42 final size:43
Alignment explanation
Indices: 30995170--30995285 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
30995160 CTCGTACAAT
* * * *
30995170 GCCAACGTCCCAAACGTGGTCTTACAAGTAATCAAATATCGAT
1 GCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGAC
* * *
30995213 GCCATTGTCCCAAACAGGGTCTTACACGTAATCATATA-CGAC
1 GCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGAC
*
30995255 GCCAATGTCCCAGACATGGTCTTACACGTAA
1 GCCAATGTCCCAAACATGGTCTTACACGTAA
30995286 ATCTCAAATC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGAC
Found at i:31000465 original size:4 final size:4
Alignment explanation
Indices: 31000456--31000531 Score: 50
Period size: 4 Copynumber: 18.5 Consensus size: 4
31000446 AATTTTTATT
* * * *
31000456 TTTA TTTA TTTTA ATTA TTTA -TTA TTTC TTTC TTTC TTTA CTTTA TTTA
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
31000505 -TTA CTTTA TTTTA TTT- TATTA TTTA TT
1 TTTA -TTTA -TTTA TTTA T-TTA TTTA TT
31000532 ACTTATTTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
3 7 0.12
4 37 0.62
5 16 0.27
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:31000480 original size:16 final size:16
Alignment explanation
Indices: 31000447--31000531 Score: 52
Period size: 16 Copynumber: 5.2 Consensus size: 16
31000437 AGGCAACCCA
*
31000447 ATTTTTATTTTTATTT
1 ATTTTAATTTTTATTT
31000463 ATTTTAATTATTTA-TT
1 ATTTTAATT-TTTATTT
*
31000479 ATTTCT--TTCTTTCTTT
1 ATTT-TAATT-TTTATTT
*
31000495 ACTTT-ATTTATTACTTT
1 ATTTTAATTT-TTA-TTT
*
31000512 ATTTTATTTTATTATTT
1 ATTTTAATTT-TTATTT
31000529 ATT
1 ATT
31000532 ACTTATTTGG
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
15 7 0.13
16 23 0.42
17 18 0.33
18 7 0.13
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTAATTTTTATTT
Found at i:31000526 original size:25 final size:25
Alignment explanation
Indices: 31000456--31000539 Score: 84
Period size: 25 Copynumber: 3.3 Consensus size: 25
31000446 AATTTTTATT
31000456 TTTA-TTTATTTTAATTATTTATTA-
1 TTTATTTTATTTT-ATTATTTATTAC
* *
31000480 TTTCTTTCTTTCTTTACTTTATTTATTAC
1 TTTATTT-TAT-TTTA--TTATTTATTAC
31000509 TTTATTTTATTTTATTATTTATTAC
1 TTTATTTTATTTTATTATTTATTAC
31000534 -TTATTT
1 TTTATTT
31000540 GGATATTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
24 9 0.18
25 13 0.26
26 3 0.06
27 7 0.14
28 12 0.24
29 6 0.12
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTATTTTATTTTATTATTTATTAC
Found at i:31001577 original size:13 final size:13
Alignment explanation
Indices: 31001561--31001603 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
31001551 TTCCTAAAGC
31001561 ATAAAAAATATAA
1 ATAAAAAATATAA
* *
31001574 ATAATAAATAAAA
1 ATAAAAAATATAA
*
31001587 ATAAATAA-ATAA
1 ATAAAAAATATAA
31001599 ATAAA
1 ATAAA
31001604 GACAAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAAATATAA
Found at i:31001597 original size:18 final size:17
Alignment explanation
Indices: 31001561--31001603 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
31001551 TTCCTAAAGC
*
31001561 ATAAA-AAATATAAATA
1 ATAAATAAAAATAAATA
31001577 ATAAATAAAAATAAATAA
1 ATAAATAAAAATAAAT-A
31001595 ATAAATAAA
1 ATAAATAAA
31001604 GACAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAATAAAAATAAATA
Found at i:31003849 original size:27 final size:27
Alignment explanation
Indices: 31003811--31003948 Score: 150
Period size: 27 Copynumber: 5.1 Consensus size: 27
31003801 TCTGGACTGC
* * *
31003811 AATACCCTTATAGGGTAACATGACTGT
1 AATACCCCTATAGGGTAAAATGACCGT
* * *
31003838 AATGCCCCTATAGAGTAAAATAACCGT
1 AATACCCCTATAGGGTAAAATGACCGT
* * * *
31003865 AATGCCCTTATAGGGTAAAATAATCGT
1 AATACCCCTATAGGGTAAAATGACCGT
*
31003892 AATACCCCTGTAGGGTAAAATGACCGT
1 AATACCCCTATAGGGTAAAATGACCGT
** *
31003919 AATACCAATGTAGGGTAAAATGACCGT
1 AATACCCCTATAGGGTAAAATGACCGT
31003946 AAT
1 AAT
31003949 GCCCTGGTAG
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAATGACCGT
Found at i:31003878 original size:54 final size:54
Alignment explanation
Indices: 31003811--31003952 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
31003801 TCTGGACTGC
*
31003811 AATACCCTTATAGGGTAACATGACTGTAATGCCCCTATAGAGTAAAATAACCGT
1 AATACCCTTATAGGGTAAAATGACTGTAATGCCCCTATAGAGTAAAATAACCGT
* * * * * *
31003865 AATGCCCTTATAGGGTAAAAT-AATCGTAATACCCCTGTAGGGTAAAATGACCGT
1 AATACCCTTATAGGGTAAAATGACT-GTAATGCCCCTATAGAGTAAAATAACCGT
** * *
31003919 AATACCAATGTAGGGTAAAATGACCGTAATGCCC
1 AATACCCTTATAGGGTAAAATGACTGTAATGCCC
31003953 TGGTAGGTAA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
53 2 0.03
54 69 0.96
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (54 bp):
AATACCCTTATAGGGTAAAATGACTGTAATGCCCCTATAGAGTAAAATAACCGT
Found at i:31003958 original size:27 final size:26
Alignment explanation
Indices: 31003821--31003967 Score: 136
Period size: 27 Copynumber: 5.5 Consensus size: 26
31003811 AATACCCTTA
* * *
31003821 TAGGGTAACATGACTGTAATGCCCCTA
1 TAGGGTAAAATGACCGTAATG-CCCTG
* * *
31003848 TAGAGTAAAATAACCGTAATGCCCTTA
1 TAGGGTAAAATGACCGTAATGCCC-TG
* * *
31003875 TAGGGTAAAATAATCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAAT-GCCCTG
* *
31003902 TAGGGTAAAATGACCGTAATACCAATG
1 TAGGGTAAAATGACCGTAATGCC-CTG
31003929 TAGGGTAAAATGACCGTAATGCCCTGG
1 TAGGGTAAAATGACCGTAATGCCCT-G
31003956 TA-GGT-AAATGAC
1 TAGGGTAAAATGAC
31003968 TATTTTTGCC
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
25 7 0.07
26 9 0.09
27 83 0.81
28 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (26 bp):
TAGGGTAAAATGACCGTAATGCCCTG
Found at i:31004279 original size:31 final size:32
Alignment explanation
Indices: 31004218--31004387 Score: 166
Period size: 32 Copynumber: 5.4 Consensus size: 32
31004208 GCTGCGATGC
*
31004218 TACTGATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
31004250 TACTGATGGCTTTG-GCCTATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
31004281 TACCGATGGCTATGTGCCGATCATTTTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * ***
31004313 TACTGATGG-TTGTGTGCCGCTCATATCACTAC
1 TACTGATGGCTT-TGTGCCGATCATATTACCGT
* * * *
31004345 TACTGATAGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
31004376 TACTTATGGCTT
1 TACTGATGGCTT
31004388 GTAACCATTC
Statistics
Matches: 113, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
31 38 0.34
32 73 0.65
33 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:31004404 original size:22 final size:22
Alignment explanation
Indices: 31004379--31004427 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
31004369 ATTACTGTAC
* *
31004379 TTATGGCTTGTAACCATTCTGT
1 TTATGGCTTATAACCATCCTGT
* * *
31004401 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTTATAACCATCCTGT
31004423 TTATG
1 TTATG
31004428 ACTCTTATCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.47
Consensus pattern (22 bp):
TTATGGCTTATAACCATCCTGT
Found at i:31013326 original size:24 final size:24
Alignment explanation
Indices: 31013299--31013344 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31013289 CAGATGTATT
* *
31013299 TTCATAATCAGATACAGATGCAAA
1 TTCAGAATCAGATACAAATGCAAA
*
31013323 TTCAGATTCAGATACAAATGCA
1 TTCAGAATCAGATACAAATGCA
31013345 GACATAGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (24 bp):
TTCAGAATCAGATACAAATGCAAA
Found at i:31013327 original size:18 final size:18
Alignment explanation
Indices: 31013306--31013346 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
31013296 ATTTTCATAA
*
31013306 TCAGATACAGATGCAAAT
1 TCAGATACAGATACAAAT
*
31013324 TCAGATTCAGATACAAAT
1 TCAGATACAGATACAAAT
*
31013342 GCAGA
1 TCAGA
31013347 CATAGATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
TCAGATACAGATACAAAT
Found at i:31015801 original size:26 final size:26
Alignment explanation
Indices: 31015772--31015878 Score: 135
Period size: 26 Copynumber: 4.1 Consensus size: 26
31015762 TGGAGGAAGT
* *
31015772 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
31015798 ATACTGA-TATTGGCAGCTTTGTTGCG
1 ATACT-ATTACTGGCAGCTTTGCTGCG
*
31015824 ATACTATTACTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
31015850 ATACTATTACGGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
31015876 ATA
1 ATA
31015879 TTGGTGTGTT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.01
26 68 0.99
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:31016028 original size:27 final size:28
Alignment explanation
Indices: 31015968--31016029 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
31015958 GTACTGATAT
* *
31015968 TGTATTGGGCTAAGGCCCACATTGTTAC
1 TGTACTGGGCTAAGGCCCACACTGTTAC
31015996 TGTACTGGGCTAAGG-CCACACTG-TAC
1 TGTACTGGGCTAAGGCCCACACTGTTAC
31016022 TGTTACTG
1 TG-TACTG
31016030 AATAGGGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.16
27 12 0.39
28 14 0.45
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.31
Consensus pattern (28 bp):
TGTACTGGGCTAAGGCCCACACTGTTAC
Found at i:31019636 original size:17 final size:17
Alignment explanation
Indices: 31019600--31019640 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
31019590 AATGAGATAG
*
31019600 AAATAAATAAATAATGA
1 AAATAAATAAATAAGGA
31019617 AAATAAATAAAT-AGGAA
1 AAATAAATAAATAAGG-A
31019634 AAATAAA
1 AAATAAA
31019641 CAAACGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
AAATAAATAAATAAGGA
Found at i:31028130 original size:41 final size:41
Alignment explanation
Indices: 31028069--31028208 Score: 192
Period size: 41 Copynumber: 3.4 Consensus size: 41
31028059 ATTGAAATTT
* *
31028069 TTAAAGTCTAGCAGGTTTAAGGCCGATGATATAATTCAAAC
1 TTAAAGTCTAGCAGGCTTAAGGCCGATGATATAATTCAGAC
*
31028110 TTAAAGTCTAGTAGGCTTAAGGCC-AGTGATATAATTCAGAC
1 TTAAAGTCTAGCAGGCTTAAGGCCGA-TGATATAATTCAGAC
* * * *
31028151 TTAAAGTCTAGCAGGTTTAAGGCCGGTGAAATAATTCGGAC
1 TTAAAGTCTAGCAGGCTTAAGGCCGATGATATAATTCAGAC
*
31028192 TTTAAGTCTAGCAGGCT
1 TTAAAGTCTAGCAGGCT
31028209 AATTGCTGGT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 86 0.99
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (41 bp):
TTAAAGTCTAGCAGGCTTAAGGCCGATGATATAATTCAGAC
Found at i:31034901 original size:50 final size:51
Alignment explanation
Indices: 31034837--31034968 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
31034827 GAGGTCCAAT
* ** *
31034837 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG-AGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACATCCCAC
* * *
31034887 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACATCCCAC
* *
31034938 GTAAGACCATGTTTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
31034969 TGTTATTATC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 38 0.54
51 33 0.46
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (51 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACATCCCAC
Found at i:31038653 original size:109 final size:109
Alignment explanation
Indices: 31038462--31038684 Score: 401
Period size: 109 Copynumber: 2.0 Consensus size: 109
31038452 TAGTCATGTC
* *
31038462 TTTAGTACCACTGCGATTTACACCCATATTACTACTCTGACCAGGGCGTTTGCCCTTCTGCGATG
1 TTTAGCACCACTGCGATTTACACCCATATTACTACTCTGACCAGGGCGTTTACCCTTCTGCGATG
*
31038527 TAGTCAAGGGTTTTACACTCCAGTCATCATTCTCTCCCGTCATT
66 TAGTCAAGGGTTTTACACTCCAGTCATCATTCTCTCCCATCATT
*
31038571 TTTAGCACCACTGCGATTTACACCCGTATTACTACTCTGACCAGGGCGTTTACCCTTCTGCGATG
1 TTTAGCACCACTGCGATTTACACCCATATTACTACTCTGACCAGGGCGTTTACCCTTCTGCGATG
*
31038636 TAGTCAGGGGTTTTACACTCCAGTCATCATTCTCTCCCATCATT
66 TAGTCAAGGGTTTTACACTCCAGTCATCATTCTCTCCCATCATT
31038680 TTTAG
1 TTTAG
31038685 AAATTAAACC
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (109 bp):
TTTAGCACCACTGCGATTTACACCCATATTACTACTCTGACCAGGGCGTTTACCCTTCTGCGATG
TAGTCAAGGGTTTTACACTCCAGTCATCATTCTCTCCCATCATT
Found at i:31043334 original size:96 final size:98
Alignment explanation
Indices: 31043161--31043339 Score: 222
Period size: 96 Copynumber: 1.8 Consensus size: 98
31043151 ATATGAATGA
* * * * *
31043161 TGGCCTGCTCTAGATTCTTCATTGCCATTAGCTTATAATTTTGCTTCGTTTCTTGCTGCAACAAC
1 TGGCCTGATCTAGATTCTCCATTGACATTAGCTTATAATTTTGCTTCATTTCTTGCTCCAACAAC
31043226 CGAGTATTTGTTTCTTTGACAATTAAGTTGAAT
66 CGAGTATTTGTTTCTTTGACAATTAAGTTGAAT
* * * *
31043259 TGGCCTGATCTAGGTTCTCCATTGACA-TAGCTTATCA-TTTGTTTTATTTCTTGCTCCAA-AGA
1 TGGCCTGATCTAGATTCTCCATTGACATTAGCTTATAATTTTGCTTCATTTCTTGCTCCAACA-A
*
31043321 CTGA-TGATTTGTTTCTTTG
65 CCGAGT-ATTTGTTTCTTTG
31043340 GGATTTGAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
95 2 0.03
96 35 0.51
97 9 0.13
98 23 0.33
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (98 bp):
TGGCCTGATCTAGATTCTCCATTGACATTAGCTTATAATTTTGCTTCATTTCTTGCTCCAACAAC
CGAGTATTTGTTTCTTTGACAATTAAGTTGAAT
Found at i:31052794 original size:22 final size:22
Alignment explanation
Indices: 31052769--31052816 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
31052759 TAGGTACAGT
*
31052769 TGCAAAACATA-TAAGATATAGA
1 TGCAAAACAGAGT-AGATATAGA
* *
31052791 TGCAGAATAGAGTAGATATAGA
1 TGCAAAACAGAGTAGATATAGA
31052813 TGCA
1 TGCA
31052817 GATTCCTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.48, C:0.08, G:0.21, T:0.23
Consensus pattern (22 bp):
TGCAAAACAGAGTAGATATAGA
Found at i:31052811 original size:11 final size:12
Alignment explanation
Indices: 31052782--31052819 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
31052772 AAAACATATA
31052782 AGATATAGATGC
1 AGATATAGATGC
*
31052794 AGA-ATAGA-GT
1 AGATATAGATGC
31052804 AGATATAGATGC
1 AGATATAGATGC
31052816 AGAT
1 AGAT
31052820 TCCTACCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.18
11 10 0.45
12 8 0.36
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (12 bp):
AGATATAGATGC
Found at i:31053561 original size:15 final size:14
Alignment explanation
Indices: 31053541--31053570 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31053531 ATATACCAGG
31053541 GAAAAGAAAAGAAAA
1 GAAAAG-AAAGAAAA
31053556 GAAAAGAAAGAAAA
1 GAAAAGAAAGAAAA
31053570 G
1 G
31053571 GGAGAGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
GAAAAGAAAGAAAA
Found at i:31053567 original size:4 final size:5
Alignment explanation
Indices: 31053541--31053570 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
31053531 ATATACCAGG
31053541 GAAAA GAAAA GAAAA GAAAA G-AAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA G
31053571 GGAGAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:31054935 original size:19 final size:19
Alignment explanation
Indices: 31054911--31054947 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31054901 GCATTTTCTG
31054911 TTGTTTCGATGACCCGTAA
1 TTGTTTCGATGACCCGTAA
* *
31054930 TTGTTTTGATGACTCGTA
1 TTGTTTCGATGACCCGTA
31054948 TGCCTAACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGTTTCGATGACCCGTAA
Found at i:31063283 original size:8 final size:8
Alignment explanation
Indices: 31063258--31063307 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
31063248 ATTTTCCTAT
31063258 TTATTTTA
1 TTATTTTA
*
31063266 TT-TATTA
1 TTATTTTA
31063273 TTATTTTA
1 TTATTTTA
31063281 TTATTTTA
1 TTATTTTA
31063289 TTATTTTA
1 TTATTTTA
31063297 TT-TCTTTA
1 TTAT-TTTA
31063305 TTA
1 TTA
31063308 ATTCATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.19
8 30 0.81
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:31063289 original size:16 final size:15
Alignment explanation
Indices: 31063258--31063324 Score: 80
Period size: 16 Copynumber: 4.3 Consensus size: 15
31063248 ATTTTCCTAT
*
31063258 TTATTTTATTTATTA
1 TTATTTTATTTTTTA
31063273 TTATTTTATTATTTTA
1 TTATTTTATT-TTTTA
31063289 TTATTTTATTTCTTTA
1 TTATTTTATTT-TTTA
* * *
31063305 TTAATTCATTTTATA
1 TTATTTTATTTTTTA
31063320 TTATT
1 TTATT
31063325 ACTCTGCTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
15 18 0.40
16 27 0.60
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTATTTTTTA
Found at i:31063322 original size:31 final size:31
Alignment explanation
Indices: 31063258--31063324 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
31063248 ATTTTCCTAT
* * *
31063258 TTATTTTATTTATTATTATTTTATTATTTTA
1 TTATTTTATTTATTATTAATTCATTATTATA
*
31063289 TTATTTTATTTCTTTATTAATTCATT-TTATA
1 TTATTTTATTT-ATTATTAATTCATTATTATA
31063320 TTATT
1 TTATT
31063325 ACTCTGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 20 0.65
32 11 0.35
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (31 bp):
TTATTTTATTTATTATTAATTCATTATTATA
Found at i:31065003 original size:7 final size:6
Alignment explanation
Indices: 31064986--31065090 Score: 104
Period size: 6 Copynumber: 16.8 Consensus size: 6
31064976 TATTTGTTTG
* *
31064986 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTTT ATTTTTT ATGTTT ATGTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT A-TTTTT A-TTTTT ATTTTT ATTTTT
* * *
31065036 ATGTTT ATGTTT ATGTTT ATTTTT ATTTTT AGTTGTTT -TGTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TT-TTT AT-TTTT ATTTTT
*
31065086 CTTTT
1 ATTTT
31065091 CTTGTACTTC
Statistics
Matches: 91, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
6 71 0.78
7 17 0.19
8 3 0.03
ACGTcount: A:0.14, C:0.01, G:0.08, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:31070123 original size:29 final size:30
Alignment explanation
Indices: 31070076--31070132 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
31070066 AATATGATTA
* *
31070076 TATAACATATTATAATTG-TGTATTGAACT
1 TATAACATAGTATAATTGTTGAATTGAACT
31070105 TATAACAT-GTATAACTTGTTGAATTGAA
1 TATAACATAGTATAA-TTGTTGAATTGAA
31070133 TTGAAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 11 0.46
30 8 0.33
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (30 bp):
TATAACATAGTATAATTGTTGAATTGAACT
Found at i:31072319 original size:22 final size:22
Alignment explanation
Indices: 31072273--31072319 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
31072263 ATGGAACAAA
* * **
31072273 GAAAAAACTCAAGTATCAATTT
1 GAAAAAACTCAAATACCAAAAT
31072295 GAAAAAACTCAAATACCAAAAT
1 GAAAAAACTCAAATACCAAAAT
31072317 GAA
1 GAA
31072320 CATTCAAACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19
Consensus pattern (22 bp):
GAAAAAACTCAAATACCAAAAT
Found at i:31076807 original size:31 final size:31
Alignment explanation
Indices: 31076769--31076830 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
31076759 ATCACACGGT
*
31076769 TGTGTGTCAGCCTGTGTGACTCACCCTAGGC
1 TGTGTGTCACCCTGTGTGACTCACCCTAGGC
31076800 TGTGTGTCACCCTGTGTGACTCACCCTAGGC
1 TGTGTGTCACCCTGTGTGACTCACCCTAGGC
31076831 CATGTGACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.13, C:0.31, G:0.27, T:0.29
Consensus pattern (31 bp):
TGTGTGTCACCCTGTGTGACTCACCCTAGGC
Found at i:31076823 original size:14 final size:14
Alignment explanation
Indices: 31076779--31076826 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
31076769 TGTGTGTCAG
31076779 CCTGTGTGACTCAC
1 CCTGTGTGACTCAC
**
31076793 CCTAGGCTGTGTGTCAC
1 CCT--G-TGTGACTCAC
31076810 CCTGTGTGACTCAC
1 CCTGTGTGACTCAC
31076824 CCT
1 CCT
31076827 AGGCCATGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 14 0.52
15 1 0.04
16 1 0.04
17 11 0.41
ACGTcount: A:0.12, C:0.35, G:0.23, T:0.29
Consensus pattern (14 bp):
CCTGTGTGACTCAC
Found at i:31087002 original size:17 final size:17
Alignment explanation
Indices: 31086963--31087010 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
31086953 GGAATTCACC
*
31086963 ATTTGGCGAACTCCAAG
1 ATTTGGCGAACTCTAAG
31086980 ATTTGGCGAACTCTAAGG
1 ATTTGGCGAACTCTAA-G
*
31086998 A-TTGGCAAACTCT
1 ATTTGGCGAACTCT
31087011 TCTATTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 26 0.93
18 2 0.07
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (17 bp):
ATTTGGCGAACTCTAAG
Done.