Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 145 of 170
Found at i:43588664 original size:66 final size:59
Alignment explanation
Indices: 43588599--43588714 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 59
43588589 TAAAATTATC
* * * * *
43588599 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTATATTAATTATTGTAACAAAATCTAACATTTGATTAGTA
43588657 AAATTATCAAATTATTAATTATATTAATTATTGTAACAAAATCTAACATTTGATTAGT
1 AAATTATCAAATTATTAATTATATTAATTATTGTAACAAAATCTAACATTTGATTAGT
43588715 TTACATTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
58 7 0.13
59 45 0.87
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTATATTAATTATTGTAACAAAATCTAACATTTGATTAGTA
Found at i:43588942 original size:19 final size:19
Alignment explanation
Indices: 43588915--43588960 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
43588905 TCTGTCGGGG
*
43588915 AAATGAAATTGAAAACTAA
1 AAATAAAATTGAAAACTAA
*
43588934 AAATAAAATTGAAAACTTA
1 AAATAAAATTGAAAACTAA
*
43588953 AACTAAAA
1 AAATAAAA
43588961 ACTTAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAATTGAAAACTAA
Found at i:43588961 original size:13 final size:13
Alignment explanation
Indices: 43588927--43588975 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
43588917 ATGAAATTGA
*
43588927 AAACTAAAAA-TA
1 AAACTAAAAACTT
* *
43588939 AAATTGAAAACTT
1 AAACTAAAAACTT
43588952 AAACTAAAAACTT
1 AAACTAAAAACTT
43588965 AAACATAAAAA
1 AAAC-TAAAAA
43588976 TAAATATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACTAAAAACTT
Found at i:43589054 original size:20 final size:20
Alignment explanation
Indices: 43589026--43589066 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
43589016 AATGTCGGGG
*
43589026 AAATGAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
43589046 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
43589066 A
1 A
43589067 CTGTCAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:43590824 original size:104 final size:105
Alignment explanation
Indices: 43590637--43590851 Score: 281
Period size: 104 Copynumber: 2.0 Consensus size: 105
43590627 AAAATTATTT
* *
43590637 TTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTTTTAAAAAAAAATTTCTTAT
1 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAA--TTTTTAAAAAAAAATTTCTTAT
*
43590702 TTTTTTTCCTGTCAGAATCAGATATAAATATACGAAAAAAAAA
64 TTTTTTTCCTGTCAGAATCAAATATAAATATACG-AAAAAAAA
* * **** *
43590745 TTTTGGGTGCTGGCCTATGAATGGCCGGCACCCAGTGC-AA-TTTTAAAAATTTTTTTCTTTTTT
1 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAATTTCTTATTT
* *
43590808 TTTTTCGTTTCAGAATCAAATATAAATATACGAAAAAAAA
66 TTTTTCCTGTCAGAATCAAATATAAATATACGAAAAAAAA
43590848 TTTT
1 TTTT
43590852 CTTTTTCTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
103 12 0.13
104 47 0.49
107 2 0.02
108 34 0.36
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (105 bp):
TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAAATTTCTTATTT
TTTTTCCTGTCAGAATCAAATATAAATATACGAAAAAAAA
Found at i:43595171 original size:21 final size:21
Alignment explanation
Indices: 43595143--43595188 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
43595133 AATTTTGTTA
*
43595143 ATTA-CTATTAATCATTTATT-
1 ATTATCTATCAATCATTT-TTC
*
43595163 ATTATCTATCAATTATTTTTC
1 ATTATCTATCAATCATTTTTC
43595184 ATTAT
1 ATTAT
43595189 GTTGCTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATCTATCAATCATTTTTC
Found at i:43598234 original size:43 final size:43
Alignment explanation
Indices: 43598137--43598303 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 43
43598127 TTACAAAAAT
* * ** * *
43598137 AAACCCCGCTAAAGGTCATGTTCTTTAGCGGCGC-ACCGAAAA
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
* * * *
43598179 AAACAACTGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCGACGC
1 AAAC-GCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
* * * **
43598223 AAACGCCGCTAAAGAACATGATCTTTAGTGGCGCTTTGCTTCAC
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTT-CGACAC
* *
43598267 AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCGCTTT
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTT
43598304 TATAAAAAAC
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 4 0.04
43 55 0.54
44 42 0.42
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
Found at i:43598708 original size:21 final size:21
Alignment explanation
Indices: 43598684--43598755 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
43598674 TTCTTTTGAA
43598684 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
43598705 CCTCTGCTT-TCCTCGCTGCCA-
1 CCTCTGCTTCT-CTCGCTG-CAG
* *
43598726 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
43598747 CCTCTGCTT
1 CCTCTGCTT
43598756 TAAGTTATAG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.03, C:0.47, G:0.17, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:43604246 original size:9 final size:9
Alignment explanation
Indices: 43604232--43604504 Score: 294
Period size: 9 Copynumber: 30.9 Consensus size: 9
43604222 TTTTTATGTA
43604232 TTATGTAAG
1 TTATGTAAG
43604241 TTATGTACTAAG
1 TTATG---TAAG
43604253 TTATGT-A-
1 TTATGTAAG
43604260 TTATGTAAG
1 TTATGTAAG
*
43604269 TTATTTAAG
1 TTATGTAAG
*
43604278 TTGTGT-A-
1 TTATGTAAG
*
43604285 TTATGTGAG
1 TTATGTAAG
43604294 TTATGTAAG
1 TTATGTAAG
*
43604303 TTATGGAAG
1 TTATGTAAG
* *
43604312 TTATTTAAT
1 TTATGTAAG
43604321 TTATGTAAG
1 TTATGTAAG
43604330 TTATGTAAG
1 TTATGTAAG
*
43604339 TTATGTAGG
1 TTATGTAAG
*
43604348 CTATGT-A-
1 TTATGTAAG
* *
43604355 TTATCTAAA
1 TTATGTAAG
*
43604364 TAATGTAAG
1 TTATGTAAG
*
43604373 TTA-GGAATG
1 TTATGTAA-G
43604382 TTATGT-A-
1 TTATGTAAG
43604389 TTATGTAAG
1 TTATGTAAG
43604398 TTATGTAAG
1 TTATGTAAG
43604407 TTATGTAAG
1 TTATGTAAG
* *
43604416 TTATTTAAT
1 TTATGTAAG
43604425 TTATGTAAG
1 TTATGTAAG
43604434 TTATGTAAG
1 TTATGTAAG
* *
43604443 TTATTTAAT
1 TTATGTAAG
43604452 TTATGTAAG
1 TTATGTAAG
43604461 TTATGTAAG
1 TTATGTAAG
*
43604470 TTATGTAAT
1 TTATGTAAG
43604479 TTATGTAAG
1 TTATGTAAG
43604488 TTATGTAAG
1 TTATGTAAG
43604497 TTATGTAA
1 TTATGTAA
43604505 TTAGAAATTT
Statistics
Matches: 219, Mismatches: 32, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
7 21 0.10
8 9 0.04
9 179 0.82
10 1 0.00
12 9 0.04
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:43604537 original size:20 final size:20
Alignment explanation
Indices: 43604514--43604614 Score: 95
Period size: 20 Copynumber: 5.2 Consensus size: 20
43604504 ATTAGAAATT
43604514 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
43604534 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
43604554 TTAT-GT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
43604571 TTATCTTAATATTATATAA-
1 TTATCTTAATATTATATAAG
43604590 TTAATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
43604611 TTAT
1 TTAT
43604615 GTAATTCGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
16 1 0.02
17 9 0.14
18 2 0.03
19 4 0.06
20 45 0.69
21 4 0.06
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.49
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:43604559 original size:57 final size:57
Alignment explanation
Indices: 43604494--43604654 Score: 261
Period size: 57 Copynumber: 2.8 Consensus size: 57
43604484 TAAGTTATGT
43604494 AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAC
1 AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAC
* * *
43604551 GAGTTATGTAATTAGAAATTTTATCTTAATATTATATAA-TTAATCTTAATATTATAT
1 AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTT-ATCTTAATATTAAAC
*
43604608 AAGTTATGTAATTCGAAATTTTATCTTAATATTATCATAAGTTATCT
1 AAGTTATGTAATTAGAAATTTTATCTTAATATTAT-ATAAGTTATCT
43604655 AAAATTAGAA
Statistics
Matches: 96, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
56 2 0.02
57 84 0.88
58 8 0.08
59 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (57 bp):
AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAC
Found at i:43604746 original size:20 final size:20
Alignment explanation
Indices: 43604723--43604821 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
43604713 ATTAGAAATT
43604723 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
43604743 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
43604763 TTAT-GT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
43604780 TTATCTTAATA-T-TATAAG
1 TTATCTTAATATTATATAAG
*
43604798 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
43604818 TTAT
1 TTAT
43604822 GTAATTCGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
16 1 0.02
17 9 0.15
18 13 0.22
19 6 0.10
20 31 0.52
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:43604752 original size:57 final size:56
Alignment explanation
Indices: 43604691--43604860 Score: 270
Period size: 57 Copynumber: 3.0 Consensus size: 56
43604681 AAATTAGAAA
43604691 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATT-TATAAGTTATC
*
43604748 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATA-TTATAAGTAATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTTATAAGTTATC
* ** *
43604803 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATT-TATAAGTTATC
43604860 T
1 T
43604861 AAAATTAGAA
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
55 49 0.47
56 2 0.02
57 54 0.51
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (56 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTTATAAGTTATC
Found at i:43604821 original size:55 final size:55
Alignment explanation
Indices: 43604691--43604847 Score: 242
Period size: 55 Copynumber: 2.8 Consensus size: 55
43604681 AAATTAGAAA
* *
43604691 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATA-T-TATAAGTAATC
*
43604748 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
* * *
43604803 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATT
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATT
43604848 GTATAAGTTA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 51 0.54
56 1 0.01
57 43 0.45
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (55 bp):
TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
Found at i:43604901 original size:112 final size:112
Alignment explanation
Indices: 43604704--43604905 Score: 271
Period size: 112 Copynumber: 1.8 Consensus size: 112
43604694 ATATTAAACG
* * *
43604704 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTAAAAGAGATATGT
** **
43604769 AATTAGAAATTTTATCTTAATATTATAAGTAATCTTAATATTATATA
66 AATTAGAAATTAGAAATTAATATTATAAGTAATCTTAATATTATATA
* * ** *
43604816 AGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATC-TAAAATTAGAAATTGATGTG
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTA-AAAGAGATATG
*
43604880 TACTTAGAAATTAGAAATTAATATTA
65 TAATTAGAAATTAGAAATTAATATTA
43604906 AACGAGTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
111 7 0.09
112 69 0.91
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (112 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTAAAAGAGATATGT
AATTAGAAATTAGAAATTAATATTATAAGTAATCTTAATATTATATA
Found at i:43604941 original size:206 final size:209
Alignment explanation
Indices: 43604495--43604956 Score: 885
Period size: 206 Copynumber: 2.2 Consensus size: 209
43604485 AAGTTATGTA
43604495 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
*
43604560 AATTAGAAATTTTATCTTAATATTATATAATTAATCTTAATATTATATAAGTTATGTAATTCGAA
66 AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
43604625 ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
131 ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
43604690 ATTAATATTAAACG
196 ATTAATATTAAACG
43604704 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
43604769 AATTAGAAATTTTATCTTAATA-T-TATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
66 AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
*
43604832 ATTTTATCTTAATATTGT-ATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
131 ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
43604896 ATTAATATTAAACG
196 ATTAATATTAAACG
43604910 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTA
43604957 GAACGAACTA
Statistics
Matches: 251, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
206 107 0.43
207 56 0.22
208 1 0.00
209 87 0.35
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (209 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
ATTAATATTAAACG
Found at i:43607334 original size:21 final size:21
Alignment explanation
Indices: 43607284--43607342 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
43607274 CCTTAACCGT
*
43607284 AATCTTAAACCCTAAACTATA
1 AATCTTAAACCCTAAACTACA
* *
43607305 AACCTTAAACCCTAAACTCCA
1 AATCTTAAACCCTAAACTACA
* *
43607326 AATCGTAAACCTTAAAC
1 AATCTTAAACCCTAAAC
43607343 CCTAAACACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.24
Consensus pattern (21 bp):
AATCTTAAACCCTAAACTACA
Found at i:43608082 original size:114 final size:114
Alignment explanation
Indices: 43607888--43608483 Score: 734
Period size: 114 Copynumber: 5.2 Consensus size: 114
43607878 AAACGGCGCG
* * * *
43607888 GTTTTGGTTAACA-ATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACTGTGATTTAGCGGCGT
1 GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTATGCTTTAGCGGCGT
* *
43607952 TTTTGCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAACGTTGC
66 TTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
* * * * * * *
43608001 GTTTTGGTTAAGCTTTTTTGCGGCGTTTTTTATAATGCGCTGCTAATACTAAGCTTTAACAGCGT
1 GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTATGCTTTAGCGGCGT
** *
43608066 TTTTATATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGCTGC
66 TTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
* *
43608115 GTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATA-GAGTGCTTTAGCGGCG
1 GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTA-TGCTTTAGCGGCG
* * * ** *
43608179 ATTTTT-TATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGC
65 -TTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
* * *
43608229 GTTTTGGTTAAGATATTTTGTGGCGTTTTTTATAATGCGCCGCTAATACTTTGCTTTAGCGGCGT
1 GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTATGCTTTAGCGGCGT
* * * *
43608294 TTTTGCATAAGCGCCACTAATTCTATTATACCTTAAGATCATACGCTGC
66 TTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
* * * * * *
43608343 GTTTTGGTTAAGATATTTTGCGGCGCTTTATATAA-GCGCCGCTAGTGCTGTGCTTTAGCGACAT
1 GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTATGCTTTAGCGGCGT
* * **
43608407 TTTTGCATAAGCGCCATTAATTCTAATATACCTCAAGATCGTACGCTGC
66 TTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
* * *
43608456 ATTTTGTTTAACAT-TTTCTGCGGCGCTT
1 GTTTTGGTTAAGATATTT-TGCGGCGCTT
43608484 ACAAATAAAC
Statistics
Matches: 422, Mismatches: 55, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
112 3 0.01
113 107 0.25
114 307 0.73
115 5 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (114 bp):
GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTATGCTTTAGCGGCGT
TTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
Found at i:43610523 original size:22 final size:23
Alignment explanation
Indices: 43610495--43610547 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
43610485 TTTTTTAAAA
*
43610495 AATATTT-ATA-TTATATTATTTT
1 AATATTTAATATTTA-ATAATTTT
43610517 AATATTTAATATTTAATAATTTT
1 AATATTTAATATTTAATAATTTT
43610540 ATATATTT
1 A-ATATTT
43610548 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
24 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTTAATATTTAATAATTTT
Found at i:43612792 original size:16 final size:17
Alignment explanation
Indices: 43612751--43612793 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
43612741 TTAAAATTTG
43612751 AAAATTTATGTGGTTTCC
1 AAAATTTATGT-GTTTCC
**
43612769 AATTTTTATGT-TTTCC
1 AAAATTTATGTGTTTCC
43612785 AAAATTTAT
1 AAAATTTAT
43612794 TGTATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (17 bp):
AAAATTTATGTGTTTCC
Found at i:43614888 original size:19 final size:19
Alignment explanation
Indices: 43614856--43614894 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43614846 GGTCTTTGGC
43614856 AAAAATAATACAAAAAAAT
1 AAAAATAATACAAAAAAAT
*
43614875 AAAAA-AATACCAAAATAAT
1 AAAAATAATA-CAAAAAAAT
43614894 A
1 A
43614895 TATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAATACAAAAAAAT
Found at i:43615147 original size:24 final size:23
Alignment explanation
Indices: 43615112--43615156 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
43615102 GATTATCTTG
*
43615112 TTATTATGTTTTTTTGTATAGTTT
1 TTATTATGTTTTGTTGT-TAGTTT
*
43615136 TTATTATTTTTTGTTGTTAGT
1 TTATTATGTTTTGTTGTTAGT
43615157 GTAGTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (23 bp):
TTATTATGTTTTGTTGTTAGTTT
Found at i:43615427 original size:40 final size:40
Alignment explanation
Indices: 43615365--43615440 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
43615355 TTATATTATT
* **
43615365 GTTAGTTATTATTTTTAATAAAACCCTAATTATTATTTTTA
1 GTTAGTTATTATTTTGAATAAAAAACT-ATTATTATTTTTA
*
43615406 GTTAG-TATTATTTTGAGTAAAAAACTATTATTATT
1 GTTAGTTATTATTTTGAATAAAAAACTATTATTATT
43615441 GTTATTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.29
40 17 0.55
41 5 0.16
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (40 bp):
GTTAGTTATTATTTTGAATAAAAAACTATTATTATTTTTA
Found at i:43618845 original size:12 final size:12
Alignment explanation
Indices: 43618828--43618861 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
43618818 GAATGTAATT
*
43618828 GCTCGGGGTCTG
1 GCTCGGGCTCTG
43618840 GCTCGGGCTCTG
1 GCTCGGGCTCTG
*
43618852 GTTCGGGCTC
1 GCTCGGGCTC
43618862 CGGTTCGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.29, G:0.44, T:0.26
Consensus pattern (12 bp):
GCTCGGGCTCTG
Found at i:43620774 original size:154 final size:151
Alignment explanation
Indices: 43620500--43621063 Score: 739
Period size: 154 Copynumber: 3.7 Consensus size: 151
43620490 TCAAAAAAAA
*
43620500 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCGGATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
43620565 AAATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTCATTAAT
66 AAATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT-ATTAAT
43620630 TTAGTGTGTTTTTTAAATAAAT
130 TTAGTGTGTTTTTTAAATAAAT
* * *
43620652 TTAG-AAAATAACCCTTATTTCGGCCCTTTGCTCGTA-TTTTT-CCCTGATTTTATCACTTTTAA
1 TTAGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTAC-TTT-A
43620714 TAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
63 -AAAAA-ATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT-T
* * * * *
43620778 ATTAATTAATTCTATTTTTCTTAAA-AATT
124 ATTAATTTAGTGT-GTTTT-TTAAATAAAT
* *
43620807 TTAGTAAAAAACCTTTATTTCGGCCATTTGTTTGTATTTTTTCCCCTGATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
43620872 AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAA
66 AA-ATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA-TTATTAA
43620937 TTTAGTGTGTTTTTTAAATAAAT
129 TTTAGTGTGTTTTTTAAATAAAT
** * *
43620960 TTAAAAAAATAACCCTTATTTCGGCCCTTTATTCGTATTATTTT-CCC-GAATTTTATTACTTTA
1 TTAGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTATT-TTTTCCCCTG-ATTTTATTACTTTA
* * * * * *
43621023 AATAAATAAATATTTT-TTATTTTGTTATTATACATTTTTTT
63 AAAAAAT-ATTATTTTCTAATTTTATTATTTTACATTATTTT
43621064 GGATTTTATT
Statistics
Matches: 362, Mismatches: 31, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
150 13 0.04
151 12 0.03
152 35 0.10
153 44 0.12
154 185 0.51
155 42 0.12
156 17 0.05
157 14 0.04
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (151 bp):
TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
AAATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTATTAATT
TAGTGTGTTTTTTAAATAAAT
Found at i:43621320 original size:26 final size:27
Alignment explanation
Indices: 43621268--43621321 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
43621258 GGATTTTTTC
* * *
43621268 ATGCTAAATAAATTTCATAAAATATAT
1 ATGCTAAATAAATATAATAAAACATAT
43621295 ATGCTAAATAAA-ATAATAAAACATAT
1 ATGCTAAATAAATATAATAAAACATAT
43621321 A
1 A
43621322 CAATGTACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (27 bp):
ATGCTAAATAAATATAATAAAACATAT
Found at i:43621447 original size:24 final size:24
Alignment explanation
Indices: 43621388--43621448 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
43621378 CTTTTTTTAT
*
43621388 TTCTTTTTCCTTCCTTCCCTCTTC
1 TTCTTTTTCTTTCCTTCCCTCTTC
* * **
43621412 TTCTTCTCCTTTCCTTTTCT-TTC
1 TTCTTTTTCTTTCCTTCCCTCTTC
43621435 ATTCTTTTTCTTTC
1 -TTCTTTTTCTTTC
43621449 TTCTCCTTTC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (24 bp):
TTCTTTTTCTTTCCTTCCCTCTTC
Found at i:43621457 original size:24 final size:23
Alignment explanation
Indices: 43621388--43621463 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 23
43621378 CTTTTTTTAT
*
43621388 TTCTTTTTCCTTCCTTC-CCTCTTC
1 TTCTTTTT-CTTTCTTCTCCT-TTC
* * *
43621412 TTCTTCTCCTTTCCTT-TTCTTTC
1 TTCTTTTTCTTT-CTTCTCCTTTC
43621435 ATTCTTTTTCTTTCTTCTCCTTTCC
1 -TTCTTTTTCTTTCTTCTCCTTT-C
43621460 TTCT
1 TTCT
43621464 CCACCCCACT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 9 0.22
24 30 0.75
25 1 0.03
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.63
Consensus pattern (23 bp):
TTCTTTTTCTTTCTTCTCCTTTC
Found at i:43627417 original size:138 final size:138
Alignment explanation
Indices: 43627169--43627444 Score: 543
Period size: 138 Copynumber: 2.0 Consensus size: 138
43627159 AAGCAGTTTG
43627169 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGGAAGCTCTTGATGAATCTATAA
1 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGGAAGCTCTTGATGAATCTATAA
43627234 ATTGGATTACCGATGTTGTTGAAAAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
66 ATTGGATTACCGATGTTGTTGAAAAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
43627299 CATGCCTA
131 CATGCCTA
43627307 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGGAAGCTCTTGATGAATCTATAA
1 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGGAAGCTCTTGATGAATCTATAA
*
43627372 ATTGGATTACCGATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
66 ATTGGATTACCGATGTTGTTGAAAAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
43627437 CATGCCTA
131 CATGCCTA
43627445 CCATGATCAC
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (138 bp):
GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGGAAGCTCTTGATGAATCTATAA
ATTGGATTACCGATGTTGTTGAAAAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
CATGCCTA
Found at i:43628957 original size:20 final size:20
Alignment explanation
Indices: 43628932--43628971 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43628922 CGTAAAATAA
* *
43628932 TTTCTGGAAACTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
43628952 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
43628972 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:43629171 original size:24 final size:25
Alignment explanation
Indices: 43629136--43629190 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
43629126 ATGATTTATT
43629136 TATA-AATAAATAAATCAA-ATTAAA
1 TATATAATAAAT-AATCAATATTAAA
43629160 TATATAAT-AATAATCAATTATTAAA
1 TATATAATAAATAATCAA-TATTAAA
43629185 -ATATAA
1 TATATAA
43629191 AAGCATTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 6 0.21
24 13 0.46
25 9 0.32
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TATATAATAAATAATCAATATTAAA
Found at i:43629965 original size:32 final size:31
Alignment explanation
Indices: 43629923--43629987 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
43629913 GGCAAATTAC
43629923 AAGAGCAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGCAATTGAATCCTAATAAAAA-TCTTTA
* *
43629955 AAGAGTAATTGAATCCTAATAAAAATTTTTA
1 AAGAGCAATTGAATCCTAATAAAAATCTTTA
43629986 AA
1 AA
43629988 ATTATCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 7 0.23
32 24 0.77
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGCAATTGAATCCTAATAAAAATCTTTA
Found at i:43635535 original size:12 final size:12
Alignment explanation
Indices: 43635517--43635547 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
43635507 AGGTAGGCAA
43635517 CTTTTTTTTGCG
1 CTTTTTTTTGCG
*
43635529 GTTTTTTTTGCG
1 CTTTTTTTTGCG
43635541 CTTTTTT
1 CTTTTTT
43635548 GCTTCTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (12 bp):
CTTTTTTTTGCG
Found at i:43635574 original size:13 final size:14
Alignment explanation
Indices: 43635541--43635574 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
43635531 TTTTTTTGCG
43635541 CTTTTTTGCTTCTT
1 CTTTTTTGCTTCTT
*
43635555 CTTTTTT-CTTTTT
1 CTTTTTTGCTTCTT
43635568 CTTTTTT
1 CTTTTTT
43635575 TTGCTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
CTTTTTTGCTTCTT
Found at i:43638584 original size:19 final size:19
Alignment explanation
Indices: 43638556--43638594 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
43638546 AATTGAGGGA
*
43638556 GGGTTTTAATTCTATTTTT
1 GGGTTCTAATTCTATTTTT
*
43638575 GGGTTCTAATTCTGTTTTT
1 GGGTTCTAATTCTATTTTT
43638594 G
1 G
43638595 CTGTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.08, G:0.21, T:0.59
Consensus pattern (19 bp):
GGGTTCTAATTCTATTTTT
Found at i:43638764 original size:26 final size:24
Alignment explanation
Indices: 43638735--43638786 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
43638725 TCGAAATGAA
*
43638735 TTGAGTGAAATGAGATTTATTTCGAG
1 TTGAGTCAAATGA-ATTTATTT-GAG
*
43638761 TTGAGTCAAATGAATTTGTTTGAG
1 TTGAGTCAAATGAATTTATTTGAG
43638785 TT
1 TT
43638787 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
TTGAGTCAAATGAATTTATTTGAG
Found at i:43639190 original size:18 final size:18
Alignment explanation
Indices: 43639167--43639202 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43639157 ACATAAATTT
*
43639167 ATTATTCAAGTTATTCGA
1 ATTATTCAAATTATTCGA
*
43639185 ATTATTTAAATTATTCGA
1 ATTATTCAAATTATTCGA
43639203 GTTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATTCAAATTATTCGA
Found at i:43640943 original size:18 final size:17
Alignment explanation
Indices: 43640894--43640961 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 17
43640884 AACACTGTTA
* *
43640894 TATAATTTCTAGAGTTTTA
1 TATAATTTTTA-A-TTTTT
43640913 TATAATTTTTAATTTTT
1 TATAATTTTTAATTTTT
*
43640930 TATATTTTTATAATTTTT
1 TATAATTTT-TAATTTTT
43640948 TATAGATATTTTAA
1 TATA-AT-TTTTAA
43640962 AATTTTGAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 12 0.29
18 13 0.31
19 14 0.33
20 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (17 bp):
TATAATTTTTAATTTTT
Found at i:43640949 original size:10 final size:10
Alignment explanation
Indices: 43640918--43640967 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
43640908 TTTTATATAA
43640918 TTTT-TAATT
1 TTTTATAATT
43640927 TTTTAT-A-T
1 TTTTATAATT
43640935 TTTTATAATT
1 TTTTATAATT
*
43640945 TTTTATAGATA
1 TTTTATA-ATT
*
43640956 TTTTAAAATT
1 TTTTATAATT
43640966 TT
1 TT
43640968 GAAGATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 7 0.21
9 6 0.18
10 13 0.38
11 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:43646534 original size:26 final size:24
Alignment explanation
Indices: 43646505--43646556 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
43646495 TCGAAATGAA
*
43646505 TTGAGTGAAATGAGATTTATTTCGAG
1 TTGAGTCAAATGA-ATTTATTT-GAG
*
43646531 TTGAGTCAAATGAATTTGTTTGAG
1 TTGAGTCAAATGAATTTATTTGAG
43646555 TT
1 TT
43646557 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
TTGAGTCAAATGAATTTATTTGAG
Found at i:43646753 original size:17 final size:17
Alignment explanation
Indices: 43646724--43646756 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43646714 AGGCCTCAAA
43646724 TTTATAAATATAATTTT
1 TTTATAAATATAATTTT
43646741 TTTA-AAATAATAATTT
1 TTTATAAAT-ATAATTT
43646757 AGCATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATAAATATAATTTT
Found at i:43646958 original size:18 final size:18
Alignment explanation
Indices: 43646935--43646970 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43646925 ACATAAATTT
*
43646935 ATTATTCAAGTTATTCGA
1 ATTATTCAAATTATTCGA
*
43646953 ATTATTTAAATTATTCGA
1 ATTATTCAAATTATTCGA
43646971 GTTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATTCAAATTATTCGA
Found at i:43651073 original size:13 final size:13
Alignment explanation
Indices: 43651043--43651073 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43651033 CAGGTGTCTG
43651043 TTTTTACATTTTT
1 TTTTTACATTTTT
*
43651056 ATTTTACATTTTT
1 TTTTTACATTTTT
43651069 TTTTT
1 TTTTT
43651074 GTAAGAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTACATTTTT
Found at i:43653717 original size:41 final size:41
Alignment explanation
Indices: 43653633--43653760 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 41
43653623 TTGTATAAAA
* * * * *
43653633 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG--GTACATTT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTA-A-TT
43653674 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
* * *
43653715 CACCGACATC-AAGTCTGCTAAACATAAAGTCTGAAGTAATT
1 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
43653756 CACCG
1 CACCG
43653761 ACATCAAGTC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 71 0.93
42 2 0.03
43 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
Found at i:43653790 original size:41 final size:41
Alignment explanation
Indices: 43653688--43653790 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
43653678 GGCACAAAGC
43653688 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
1 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
*
43653729 CTGCTAAACATAAAGTCTGAAGTAATTCACCGACATCAAGT
1 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
* * *
43653770 CTGCTAGGCATTAAGCCTGAA
1 CTGCTAGACATAAAGTCTGAA
43653791 AATCTCAGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
Found at i:43659765 original size:64 final size:63
Alignment explanation
Indices: 43659647--43659827 Score: 253
Period size: 64 Copynumber: 2.9 Consensus size: 63
43659637 ATTCCAACAC
*
43659647 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAGCTCAAA-AACTTTGTAACCTA
43659708 T
63 T
43659709 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
* * *
43659773 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAACTTT
43659828 AAATATATAT
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
62 18 0.17
63 2 0.02
64 80 0.73
65 9 0.08
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.33
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
Found at i:43659921 original size:20 final size:21
Alignment explanation
Indices: 43659896--43659939 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
43659886 CTCAAAGAAC
43659896 TTATATCATA-CATTCA-AACT
1 TTATAT-ATATCATTCATAACT
*
43659916 TTATATATATGATTCATAACT
1 TTATATATATCATTCATAACT
43659937 TTA
1 TTA
43659940 ATTTCAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATATATATCATTCATAACT
Found at i:43660923 original size:28 final size:28
Alignment explanation
Indices: 43660892--43660948 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
43660882 GTTTGTTTTT
43660892 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
43660920 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
43660948 T
1 T
43660949 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:43671696 original size:41 final size:41
Alignment explanation
Indices: 43671639--43671842 Score: 309
Period size: 41 Copynumber: 5.0 Consensus size: 41
43671629 GCATATTCGG
* *
43671639 ATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * * *
43671680 ATCACCGGTACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
*
43671721 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCCGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
43671762 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
*
43671803 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTAATTCA
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
43671843 ATTCACCAAT
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 147 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:43671738 original size:82 final size:82
Alignment explanation
Indices: 43671633--43671849 Score: 364
Period size: 82 Copynumber: 2.6 Consensus size: 82
43671623 AATTTAGCAT
* * *
43671633 ATTCGGATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGTACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
43671698 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
* *
43671715 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCCGATTCATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
43671780 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
*
43671797 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTAATTCAAT-TCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-AATATCACC
43671850 AATTCCAAAC
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
82 124 0.98
83 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
GCTAGGCTTATAGCCTG
Found at i:43675386 original size:6 final size:7
Alignment explanation
Indices: 43675361--43675436 Score: 50
Period size: 7 Copynumber: 11.0 Consensus size: 7
43675351 CCATTCATAA
43675361 ATTTAAC
1 ATTTAAC
43675368 ATTTAAC
1 ATTTAAC
43675375 ATTTAA-
1 ATTTAAC
*
43675381 ATTTAAT
1 ATTTAAC
**
43675388 AAAT-AC
1 ATTTAAC
* *
43675394 ATAATACC
1 AT-TTAAC
* *
43675402 ATTCATC
1 ATTTAAC
43675409 AATTTAAC
1 -ATTTAAC
43675417 ATTTAAC
1 ATTTAAC
43675424 ATTTAA-
1 ATTTAAC
43675430 ATTTAAC
1 ATTTAAC
43675437 CACATGAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
6 14 0.26
7 32 0.59
8 8 0.15
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTTAAC
Found at i:43675389 original size:49 final size:49
Alignment explanation
Indices: 43675336--43675435 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
43675326 AAATGATATG
43675336 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
1 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
*
43675385 AATAAATACATAATACCATTCATCAATTTAACATTTAACATTTAAATTT
1 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
43675434 AA
1 AA
43675436 CCACATGAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (49 bp):
AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
Found at i:43675435 original size:13 final size:14
Alignment explanation
Indices: 43675361--43675436 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 14
43675351 CCATTCATAA
43675361 ATTTAACATTTAAC
1 ATTTAACATTTAAC
*
43675375 ATTTAA-ATTTAAT
1 ATTTAACATTTAAC
** * *
43675388 AAAT-ACATAATACC
1 ATTTAACAT-TTAAC
* *
43675402 ATTCATCAATTTAAC
1 ATTTAAC-ATTTAAC
43675417 ATTTAACATTTAA-
1 ATTTAACATTTAAC
43675430 ATTTAAC
1 ATTTAAC
43675437 CACATGAACT
Statistics
Matches: 44, Mismatches: 14, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
12 1 0.02
13 17 0.39
14 15 0.34
15 9 0.20
16 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAACATTTAAC
Found at i:43680205 original size:7 final size:7
Alignment explanation
Indices: 43680193--43680226 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
43680183 CCATTAATCA
43680193 ATTTAAC
1 ATTTAAC
43680200 ATTTAAC
1 ATTTAAC
43680207 ATTTAAC
1 ATTTAAC
43680214 ATTTAA-
1 ATTTAAC
43680220 ATTTAAC
1 ATTTAAC
43680227 CATACAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAC
Found at i:43683817 original size:26 final size:26
Alignment explanation
Indices: 43683787--43683840 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
43683777 AAACACCTTA
43683787 ATACTTAGCCATTTTAACAACCATTC
1 ATACTTAGCCATTTTAACAACCATTC
43683813 ATACTTAGCCATTTTAACAACCATTC
1 ATACTTAGCCATTTTAACAACCATTC
43683839 AT
1 AT
43683841 CATCAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (26 bp):
ATACTTAGCCATTTTAACAACCATTC
Found at i:43685123 original size:29 final size:29
Alignment explanation
Indices: 43685066--43685121 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
43685056 AAATTAATTG
43685066 ATTTTAATAATGTAATTTTTATTTTTATA
1 ATTTTAATAATGTAATTTTTATTTTTATA
* *
43685095 ATTTTCAT-ATGTAATTTTT-TTATTATA
1 ATTTTAATAATGTAATTTTTATTTTTATA
43685122 TACATATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
28 11 0.44
29 7 0.28
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (29 bp):
ATTTTAATAATGTAATTTTTATTTTTATA
Found at i:43687060 original size:49 final size:50
Alignment explanation
Indices: 43686967--43687207 Score: 306
Period size: 50 Copynumber: 4.7 Consensus size: 50
43686957 ACATGTCAAA
* ** * *
43686967 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
*
43687018 GCCATGTACCAG-CATGGTCTTACGA-GGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTGCCAAT
43687067 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
43687117 GCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAT
* * *
43687173 GCCATGTCCCAGACATGGACTTACGTGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43687208 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
49 28 0.17
50 85 0.50
51 11 0.07
53 5 0.03
55 2 0.01
56 38 0.22
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:43693278 original size:28 final size:28
Alignment explanation
Indices: 43693237--43693304 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
43693227 GTTAGCTTCT
* *
43693237 ATATATGGTCGGTTCTACCGCCTGAATG
1 ATATATGGTCGGTTCTACCACCTGAATA
* * *
43693265 TTATATGGTTGGTTCTGCCACCTGAATA
1 ATATATGGTCGGTTCTACCACCTGAATA
43693293 ATATATGGTCGG
1 ATATATGGTCGG
43693305 CACTGTCACC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (28 bp):
ATATATGGTCGGTTCTACCACCTGAATA
Found at i:43693325 original size:28 final size:28
Alignment explanation
Indices: 43693238--43693325 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
43693228 TTAGCTTCTA
** * * *
43693238 TATATGGTCGGTTCTACCGCCTGAATGT
1 TATATGGTCGGCACTGCCACCTGAATAT
* ** *
43693266 TATATGGTTGGTTCTGCCACCTGAATAA
1 TATATGGTCGGCACTGCCACCTGAATAT
* *
43693294 TATATGGTCGGCACTGTCACCTGAGTAT
1 TATATGGTCGGCACTGCCACCTGAATAT
43693322 TATA
1 TATA
43693326 GTGTACTAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (28 bp):
TATATGGTCGGCACTGCCACCTGAATAT
Found at i:43693722 original size:15 final size:15
Alignment explanation
Indices: 43693704--43693737 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
43693694 TGATAAATTG
43693704 AAATAAATTAAAAGA
1 AAATAAATTAAAAGA
*
43693719 AAATAAATTGAAAGA
1 AAATAAATTAAAAGA
43693734 AAAT
1 AAAT
43693738 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAATAAATTAAAAGA
Found at i:43696603 original size:17 final size:18
Alignment explanation
Indices: 43696572--43696610 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
43696562 CGGCTATTGT
43696572 TTTTCTTCTTCCTCTCCG
1 TTTTCTTCTTCCTCTCCG
*
43696590 TTTTCTTC-TCCTCTCTG
1 TTTTCTTCTTCCTCTCCG
43696607 TTTT
1 TTTT
43696611 TCTTTCCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.00, C:0.33, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTCTTCTTCCTCTCCG
Found at i:43696611 original size:18 final size:19
Alignment explanation
Indices: 43696569--43696614 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
43696559 CTTCGGCTAT
43696569 TGTTTTTCTTCTTCCTCTC
1 TGTTTTTCTTCTTCCTCTC
*
43696588 CG-TTTTCTTC-TCCTCTC
1 TGTTTTTCTTCTTCCTCTC
43696605 TGTTTTTCTT
1 TGTTTTTCTT
43696615 TCCCTTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 15 0.62
19 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.07, T:0.63
Consensus pattern (19 bp):
TGTTTTTCTTCTTCCTCTC
Found at i:43704177 original size:2 final size:2
Alignment explanation
Indices: 43704170--43704195 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43704160 AACGTTTTAT
43704170 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
43704196 GTTTTAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:43705794 original size:4 final size:4
Alignment explanation
Indices: 43705785--43705809 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
43705775 AACCATCAAA
43705785 ACTC ACTC ACTC ACTC ACTC ACTC A
1 ACTC ACTC ACTC ACTC ACTC ACTC A
43705810 TATTTGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.48, G:0.00, T:0.24
Consensus pattern (4 bp):
ACTC
Found at i:43706982 original size:8 final size:8
Alignment explanation
Indices: 43706971--43707018 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
43706961 TAAATAAAAA
*
43706971 TAAAATTC
1 TAAAAGTC
43706979 TAAAA--C
1 TAAAAGTC
43706985 TAAAA--C
1 TAAAAGTC
43706991 TAA-AGTC
1 TAAAAGTC
43706998 TAAAAGTC
1 TAAAAGTC
43707006 TAAAAGTC
1 TAAAAGTC
43707014 TAAAA
1 TAAAA
43707019 ATAATTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.03
6 10 0.27
7 4 0.11
8 22 0.59
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (8 bp):
TAAAAGTC
Found at i:43707054 original size:9 final size:9
Alignment explanation
Indices: 43707040--43707090 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
43707030 ATGTAGTGAT
*
43707040 TTAATTCTG
1 TTAATTCGG
*
43707049 TTAATTCAG
1 TTAATTCGG
43707058 TTAATTCGG
1 TTAATTCGG
* *
43707067 ATAATCCGG
1 TTAATTCGG
43707076 TTAATTCGG
1 TTAATTCGG
43707085 TTAATT
1 TTAATT
43707091 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (9 bp):
TTAATTCGG
Found at i:43712191 original size:16 final size:16
Alignment explanation
Indices: 43712131--43712202 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
43712121 AAAAATATTT
43712131 TTAAAAATATTTAATTAA
1 TTAAAAATATTTAA-T-A
* **
43712149 TTTAAAATCGGTT-ATA
1 TTAAAAAT-ATTTAATA
* * *
43712165 TTAATATTATTTAATT
1 TTAAAAATATTTAATA
43712181 TTAAAAATATTTAATA
1 TTAAAAATATTTAATA
43712197 TTAAAA
1 TTAAAA
43712203 TAATACAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
15 2 0.05
16 27 0.68
17 1 0.03
18 8 0.20
19 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (16 bp):
TTAAAAATATTTAATA
Found at i:43713805 original size:8 final size:8
Alignment explanation
Indices: 43713792--43713826 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
43713782 CCTCGGGAGC
43713792 ACATATAT
1 ACATATAT
43713800 ACATATAT
1 ACATATAT
43713808 CACATATAT
1 -ACATATAT
43713817 ACATATAT
1 ACATATAT
43713825 AC
1 AC
43713827 TCAAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (8 bp):
ACATATAT
Found at i:43713813 original size:17 final size:17
Alignment explanation
Indices: 43713791--43713824 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43713781 GCCTCGGGAG
43713791 CACATATATACATATAT
1 CACATATATACATATAT
43713808 CACATATATACATATAT
1 CACATATATACATATAT
43713825 ACTCAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
CACATATATACATATAT
Found at i:43714643 original size:69 final size:69
Alignment explanation
Indices: 43714560--43714789 Score: 212
Period size: 69 Copynumber: 3.2 Consensus size: 69
43714550 ATTATTTATA
*
43714560 TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATACTATTTATATTTGTTA
1 TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATATTATTTATATTTGTTA
43714625 TATT
66 TATT
* ** * * ** *
43714629 TATTTATTTGTTCATTATCCTTT-TACCTATTAAATATTTAAATCCAATATTGTTTATATTTGTT
1 TATTTATTTATTCATTATCCTTTAT-TTTTTTAAATACTTAAATTTAATATTATTTATATTTG--
*
43714693 TTACTGGTT
63 TTA-T-ATT
* * * * *
43714702 TATTTATATATTTATCATTCCTTTAAATTTTTTTAAATACTTAAATTTAATATTATCTATATTTA
1 TATTTATTTATTCATTA-TCCTTT--ATTTTTTTAAATACTTAAATTTAATATTATTTATATTTG
*
43714767 TCT-TATC
63 T-TATATT
*
43714774 TATTTATTTAGTCATT
1 TATTTATTTATTCATT
43714790 TATTCGTTAT
Statistics
Matches: 122, Mismatches: 29, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
68 1 0.01
69 51 0.42
71 3 0.02
72 14 0.11
73 16 0.13
74 7 0.06
75 1 0.01
76 28 0.23
77 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (69 bp):
TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATATTATTTATATTTGTTA
TATT
Found at i:43715163 original size:25 final size:25
Alignment explanation
Indices: 43715117--43715164 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
43715107 TAAAAGATAG
* * *
43715117 GTCTATCTTTTGACATGTTTTCTCT
1 GTCTATCTCTTGACACGGTTTCTCT
*
43715142 GTCTGTCTCTTGACACGGTTTCT
1 GTCTATCTCTTGACACGGTTTCT
43715165 TTTTTATCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (25 bp):
GTCTATCTCTTGACACGGTTTCTCT
Found at i:43718977 original size:125 final size:124
Alignment explanation
Indices: 43718738--43719102 Score: 484
Period size: 125 Copynumber: 2.9 Consensus size: 124
43718728 CATGCTACTC
* * * *
43718738 TAGCAAAAGCGCATCCACGTGGGCGCGATTTCATAAATTCTTCTCATAAAGCAGT-CAGCTAGAA
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCA-TCCTGCTAGAA
* * *
43718802 GCCATTGTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGACCAACTG
65 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAGGACCAACTG
* * ** *
43718863 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCAGATCGCATCCTGCTTGAAG
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAG
* * *
43718928 CGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCTATTG
66 CG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCAACTG
* * * *
43718988 TAGCAAAAACGTGTCCACGTA-GGCGCAATTTCACAAATTCTTCTCATAAAGCATCTTAG-TAGA
1 TAGCAAAAGCGCGTCCACG-AGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT-GCTAGA
*
43719051 ATCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAG
64 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAG
43719103 AACCTGAAAA
Statistics
Matches: 211, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
124 48 0.23
125 122 0.58
126 41 0.19
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (124 bp):
TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAG
CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCAACTG
Found at i:43723199 original size:153 final size:153
Alignment explanation
Indices: 43722762--43723427 Score: 929
Period size: 153 Copynumber: 4.4 Consensus size: 153
43722752 ATTTAGTGTG
* * * * *
43722762 TTTTTATTGAAAGTAATAAAA-TCCGGAAAAAATACAAACAAAGGGCCAAAATAAGGGGTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAA-GGATTTTTT
* *
43722826 TAAATTTATTTACAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 TTAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
43722891 ATAATAAAATTAGAAAATAGTATA
130 ATAATAAAATTAGAAAATAATATA
* * *
43722915 TTTTTA---AAAGTAATAAAATCCAAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTT
1 TTTTTATTGAAAGTAATAAAATTC-AGGAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTT
* * * * * *
43722977 TACTAAATTTATTTAAAAAAACACAATTAATTAAAACGTTTCAAACATAATGTACTAAAATAATT
65 T--T-AATTTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATG
43723042 TAAAATAATAAAA-TACGAAAATAATATA
126 TAAAATAATAAAATTA-GAAAATAATATA
* *
43723070 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAATACGAATAAATGGCCGAAATAAGG-TTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTT
43723134 TAATTTATTTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
66 TAATTTA-TTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
43723199 ATAATAAAATTAGAAAATAATATA
130 ATAATAAAATTAGAAAATAATATA
* * *
43723223 TTTTTATTGAAAGTAATAAAATCCAGGAAAAAATACGAACAAATGGCAGAAATAAGAGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAG-GATTTTTT
43723288 TTAATTTATTTAAAAAACACACTAAAT-AATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 TTAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
43723352 ATAATAAAATTAGAAAATAGTATA
130 ATAATAAAATTAGAAAATAATATA
* * * *
43723376 -TTTT-TTAAAAGTAATAAAA-TCTGGGAAAAAATACGAACAAATGACCAAAATA
1 TTTTTATTGAAAGTAATAAAATTC-AGGAAAAAATACGAACAAATGGCCGAAATA
43723428 CGAACAATTG
Statistics
Matches: 461, Mismatches: 37, Indels: 32
0.87 0.07 0.06
Matches are distributed among these distances:
150 13 0.03
151 50 0.11
152 31 0.07
153 193 0.42
154 37 0.08
155 87 0.19
156 7 0.02
157 29 0.06
158 14 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (153 bp):
TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTT
TAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAGAAAATAATATA
Found at i:43723296 original size:308 final size:304
Alignment explanation
Indices: 43722762--43723427 Score: 995
Period size: 308 Copynumber: 2.2 Consensus size: 304
43722752 ATTTAGTGTG
* * *
43722762 TTTTTATTGAAAGTAATAAAATCCGGAAAAAATACAAACAAAGGGCCAAAATAAGGGGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATCGGGAAAAAATACGAACAAATGGCCAAAATAA-GGGTTTTTTT
*
43722827 AAATTTATTTACAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
65 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
*
43722892 TAATAAAATTAGAAAATAGTATATTTTTAAAAGTAATAAAATCCAAGAAAAAAATACGAACAAAG
130 TAATAAAATTAGAAAATAATATATTTTTAAAAGTAATAAAATCCAAGAAAAAAATACGAACAAAG
* * * *
43722957 GGCCGAAATAAGGATTTTTTTACTAAATTTATTTAAAAAAACACAATTAATTAAAACGTTTCAAA
195 GGCAGAAATAAGGATTTTTTTA-TAAATTTATTT-AAAAAACAC-ACTAAATAAAACATTTCAAA
*
43723022 CATAATGTACTAAAATAATTTAAAATAATAAAA-TACGAAAATAATATA
257 CATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATAATATA
* *
43723070 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAATACGAATAAATGGCCGAAATAA-GGTTTTTTT
1 TTTTTATTGAAAGTAATAAAA-TCGGGAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTT
*
43723134 TAATTTATTTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 AAATTTA-TTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
43723199 ATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCC-AGGAAAAAATACGAAC
129 ATAATAAAATTAGAAAATAATATATTTTTA---AAAGTAATAAAATCCAAGAAAAAAATACGAAC
* * *
43723263 AAATGGCAGAAATAA-GAGTTTTTTT-TTAATTTATTTAAAAAACACACTAAATAATACATTTCA
191 AAAGGGCAGAAATAAGGA-TTTTTTTATAAATTTATTTAAAAAACACACTAAATAAAACATTTCA
*
43723326 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATA
255 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATA
* *
43723376 -TTTT-TTAAAAGTAATAAAATCTGGGAAAAAATACGAACAAATGACCAAAATA
1 TTTTTATTGAAAGTAATAAAATC-GGGAAAAAATACGAACAAATGGCCAAAATA
43723428 CGAACAATTG
Statistics
Matches: 328, Mismatches: 22, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
303 2 0.01
304 41 0.12
305 4 0.01
306 59 0.18
307 26 0.08
308 116 0.35
309 30 0.09
310 35 0.11
311 15 0.05
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (304 bp):
TTTTTATTGAAAGTAATAAAATCGGGAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTTA
AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
AATAAAATTAGAAAATAATATATTTTTAAAAGTAATAAAATCCAAGAAAAAAATACGAACAAAGG
GCAGAAATAAGGATTTTTTTATAAATTTATTTAAAAAACACACTAAATAAAACATTTCAAACATA
ATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATA
Found at i:43726440 original size:19 final size:19
Alignment explanation
Indices: 43726416--43726456 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
43726406 CTCATATACA
43726416 AGAAAAGCAGTCAATAGTC
1 AGAAAAGCAGTCAATAGTC
*
43726435 AGAAAAGCGGTCAATAGTC
1 AGAAAAGCAGTCAATAGTC
43726454 AGA
1 AGA
43726457 CTTAAGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (19 bp):
AGAAAAGCAGTCAATAGTC
Found at i:43726974 original size:89 final size:89
Alignment explanation
Indices: 43726869--43727047 Score: 304
Period size: 89 Copynumber: 2.0 Consensus size: 89
43726859 TACATGATTC
* * *
43726869 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCATTCGATGAGAAAACTAAAAACCCA
1 TCAACCAACCCAAATTCTTCCGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
43726934 ATTTGGCAATAATGTTATCCACTT
66 ATTTGGCAATAATGTTATCCACTT
* *
43726958 TCAACCAACCCAAATTCTTCCGGAAAAACCAACAACTTCCACTCGATAAGAAAACTGAAAATCCA
1 TCAACCAACCCAAATTCTTCCGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
*
43727023 ATTTGGCAATAATGTTATCTACTT
66 ATTTGGCAATAATGTTATCCACTT
43727047 T
1 T
43727048 TAAGCCACTG
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (89 bp):
TCAACCAACCCAAATTCTTCCGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
ATTTGGCAATAATGTTATCCACTT
Found at i:43727738 original size:57 final size:59
Alignment explanation
Indices: 43727641--43727754 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 59
43727631 TTATAGAGTT
43727641 AGGAGCCATACCTGATAAAAGAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAA
1 AGGAGCCATACCTGATAAAAGAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAA
43727700 AGGAGCCATACCTGAT-AAA-AAAACCTTCTCAAGAGAAATATTATCGTTGCGAATT
1 AGGAGCCATACCTGATAAAAGAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATT
43727755 GAATTTGAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 36 0.65
58 3 0.05
59 16 0.29
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.25
Consensus pattern (59 bp):
AGGAGCCATACCTGATAAAAGAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAA
Found at i:43730610 original size:42 final size:42
Alignment explanation
Indices: 43730532--43730613 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
43730522 TTAGACAAGA
* *
43730532 TAAGATTTATTCAAGGAAAGAACAGCTATAATGCAACAAAAT
1 TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAAAT
* ***
43730574 TAAGATTTATTTAAGGAAAGAGTTGCAATAACGCAACAAA
1 TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAA
43730614 TTCTTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (42 bp):
TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAAAT
Found at i:43730919 original size:20 final size:22
Alignment explanation
Indices: 43730891--43730933 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
43730881 AAATATAACT
43730891 TTAAGCATATT-TAAA-ACATG
1 TTAAGCATATTATAAACACATG
*
43730911 TTAATCATATTATAAACACATG
1 TTAAGCATATTATAAACACATG
43730933 T
1 T
43730934 GTACTTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAAGCATATTATAAACACATG
Found at i:43735754 original size:24 final size:24
Alignment explanation
Indices: 43735733--43735778 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43735723 AAGATTTATT
43735733 ATTTATTAGTATAATATATTTAGC
1 ATTTATTAGTATAATATATTTAGC
* *
43735757 ATTTATTAGTATAGTTTATTTA
1 ATTTATTAGTATAATATATTTA
43735779 ACTTACTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTAGC
Found at i:43736073 original size:34 final size:34
Alignment explanation
Indices: 43736030--43736099 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
43736020 ATTTGTGTGT
43736030 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
1 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
43736064 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
1 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
43736098 TT
1 TT
43736100 CGTTGCTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (34 bp):
TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
Found at i:43737135 original size:17 final size:17
Alignment explanation
Indices: 43737113--43737148 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43737103 AGGTATGTAC
43737113 CTGATTTACAAAAAAAT
1 CTGATTTACAAAAAAAT
* *
43737130 CTGATTTATAAAAGAAT
1 CTGATTTACAAAAAAAT
43737147 CT
1 CT
43737149 CATCTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (17 bp):
CTGATTTACAAAAAAAT
Found at i:43737717 original size:24 final size:24
Alignment explanation
Indices: 43737689--43737741 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
43737679 TTTTTAGAAA
*
43737689 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
43737713 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
43737737 ATTTA
1 ATTTA
43737742 ACTTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:43740551 original size:7 final size:7
Alignment explanation
Indices: 43740539--43740567 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
43740529 ACGTAGAGGA
43740539 GAAACTT
1 GAAACTT
43740546 GAAACTT
1 GAAACTT
43740553 GAAACTT
1 GAAACTT
43740560 GAAACTT
1 GAAACTT
43740567 G
1 G
43740568 TGTGAATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (7 bp):
GAAACTT
Found at i:43747469 original size:32 final size:31
Alignment explanation
Indices: 43747398--43747475 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
43747388 TAATTATACA
*
43747398 TAAAA-ATGCATGTATATATATATAGATTAT
1 TAAAATATGTATGTATATATATATAGATTAT
* * * *
43747428 AAAATATATGTATGTATATATATGTATATGTTT
1 TAAA-ATATGTATGTATATATATATAGAT-TAT
43747461 TAAAATATGTATGTA
1 TAAAATATGTATGTA
43747476 AAAATACATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 3 0.08
31 1 0.03
32 30 0.77
33 5 0.13
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.44
Consensus pattern (31 bp):
TAAAATATGTATGTATATATATATAGATTAT
Found at i:43756427 original size:33 final size:28
Alignment explanation
Indices: 43756355--43756428 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 28
43756345 TTATATATAC
43756355 TTTTATAAGTTTATAAATTGTTTTAATTT
1 TTTTATAA-TTTATAAATTGTTTTAATTT
*
43756384 TTTTATTAATTTATATATTGTAATATTAAATGTT
1 TTTTA-TAATTTATAAATTGT--T-TT-AAT-TT
43756418 TTTTATAATTT
1 TTTTATAATTT
43756429 TTATTTATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 16 0.42
30 3 0.08
31 1 0.03
32 2 0.05
33 9 0.24
34 7 0.18
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTATAATTTATAAATTGTTTTAATTT
Found at i:43756445 original size:24 final size:25
Alignment explanation
Indices: 43756418--43756476 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
43756408 ATTAAATGTT
**
43756418 TTTTATA-ATTTTTATTTATATTTA
1 TTTTATATATTTTTATAAATATTTA
*
43756442 TTTT-TATATTTTTATAAATTTTTA
1 TTTTATATATTTTTATAAATATTTA
43756466 TTTTATATATT
1 TTTTATATATT
43756477 GAAAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.07
24 22 0.73
25 6 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATATATTTTTATAAATATTTA
Found at i:43756447 original size:12 final size:11
Alignment explanation
Indices: 43756416--43756454 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
43756406 ATATTAAATG
43756416 TTTTTTATAATT
1 TTTTTTAT-ATT
43756428 TTTATTTATATT
1 TTT-TTTATATT
43756440 TATTTTTATATT
1 T-TTTTTATATT
43756452 TTT
1 TTT
43756455 ATAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 16 0.64
13 7 0.28
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTATATT
Found at i:43757915 original size:33 final size:33
Alignment explanation
Indices: 43757825--43758017 Score: 163
Period size: 34 Copynumber: 5.6 Consensus size: 33
43757815 GAACTGTTAG
* *
43757825 GCGAACCCTCATGTTATGTAGTATGATATAGTAT
1 GCGAACCC-CATGTTATATAGTATGACATAGTAT
43757859 GCGAACCCAACCCTCATGTTATATAGTATGACATAGTAT
1 GCG-----AACCC-CATGTTATATAGTATGACATAGTAT
* * *
43757898 GTGAACCCCATGTTATATAATATGACATAGAAT
1 GCGAACCCCATGTTATATAGTATGACATAGTAT
* *
43757931 GCGAACCCCCACGTTATATAGAATGACATAGTAT
1 GCGAA-CCCCATGTTATATAGTATGACATAGTAT
* * * * *
43757965 GCAAATCCTCATGTTCTATTGAATGACAT-GTAT
1 GCGAA-CCCCATGTTATATAGTATGACATAGTAT
* *
43757998 GCAAACACACATGTTATATA
1 GCGAAC-CCCATGTTATATA
43758018 ATATTTGATT
Statistics
Matches: 133, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
32 1 0.01
33 46 0.35
34 55 0.41
39 31 0.23
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (33 bp):
GCGAACCCCATGTTATATAGTATGACATAGTAT
Found at i:43758014 original size:67 final size:67
Alignment explanation
Indices: 43757873--43758017 Score: 159
Period size: 67 Copynumber: 2.2 Consensus size: 67
43757863 ACCCAACCCT
* ** * *
43757873 CATGTTATATAGTATGACATAGTATGTGAACCCCATGTTATATAATATGACATAGAATGCGAACC
1 CATGTTATATAGAATGACATAGTATGCAAACCCCATGTTATATAATATGACATAGAATGCAAACA
*
43757938 CC
66 CA
* * * * *
43757940 CACGTTATATAGAATGACATAGTATGCAAATCCTCATGTTCTATTGA-ATGACAT-GTATGCAAA
1 CATGTTATATAGAATGACATAGTATGCAAA-CCCCATGTTATA-TAATATGACATAGAATGCAAA
43758003 CACA
64 CACA
43758007 CATGTTATATA
1 CATGTTATATA
43758018 ATATTTGATT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
67 45 0.70
68 17 0.27
69 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (67 bp):
CATGTTATATAGAATGACATAGTATGCAAACCCCATGTTATATAATATGACATAGAATGCAAACA
CA
Found at i:43759211 original size:9 final size:9
Alignment explanation
Indices: 43759199--43759244 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
43759189 TAGTTTTTTT
43759199 AATTTTAAA
1 AATTTTAAA
43759208 AATTTTAAA
1 AATTTTAAA
43759217 AATTTTAAA
1 AATTTTAAA
**
43759226 AATTCAAAA
1 AATTTTAAA
*
43759235 AATTATAAA
1 AATTTTAAA
43759244 A
1 A
43759245 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AATTTTAAA
Found at i:43762068 original size:17 final size:17
Alignment explanation
Indices: 43762046--43762079 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43762036 ATAAAACGCA
*
43762046 TTAAAGCATCAAAAAGC
1 TTAAAGAATCAAAAAGC
*
43762063 TTAAAGAATCAATAAGC
1 TTAAAGAATCAAAAAGC
43762080 ATATGAACAA
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:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
TTAAAGAATCAAAAAGC
Found at i:43770042 original size:29 final size:30
Alignment explanation
Indices: 43770005--43770061 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43769995 TTAGGGCCTT
*
43770005 GGGGAAAAA-TGTAATTATGCAAAAGTTTA
1 GGGGAAAAATTGTAATTATGAAAAAGTTTA
* *
43770034 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTGTAATTATGAAAAAGTT
43770062 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (30 bp):
GGGGAAAAATTGTAATTATGAAAAAGTTTA
Found at i:43770478 original size:50 final size:50
Alignment explanation
Indices: 43770400--43770592 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
43770390 ATTTGGGTAA
43770400 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * *
43770450 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * * *
43770500 AGAGGTCCCCCGTGAGACCATGTCTGGGACATGACATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * *
43770550 AGAACATCCCATGTAAGATCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
43770593 TGTTATTATC
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 90 0.74
51 31 0.26
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:43775239 original size:23 final size:23
Alignment explanation
Indices: 43775194--43775245 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
43775184 TTTAGTCCCT
*
43775194 ATATTTATACTTTTAGGAATTTA
1 ATATTTTTACTTTTAGGAATTTA
*
43775217 ATATTTTTACTTCTTA-GATTTTA
1 ATATTTTTACTT-TTAGGAATTTA
43775240 A-ATTTT
1 ATATTTT
43775246 AAATCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 18 0.69
24 3 0.12
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
ATATTTTTACTTTTAGGAATTTA
Found at i:43777908 original size:3 final size:3
Alignment explanation
Indices: 43777900--43777930 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
43777890 GTGTATGTCC
*
43777900 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
43777931 TTATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:43779008 original size:11 final size:11
Alignment explanation
Indices: 43778994--43779052 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
43778984 TAAATATATC
43778994 TAAAATAATAA
1 TAAAATAATAA
43779005 TAAAATTAATAA
1 TAAAA-TAATAA
*
43779017 TAAAATAAAAA
1 TAAAATAATAA
* *
43779028 CT-ATATAATAT
1 -TAAAATAATAA
*
43779039 TTAAATAATAA
1 TAAAATAATAA
43779050 TAA
1 TAA
43779053 TAAAATGACA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 1 0.03
11 25 0.66
12 12 0.32
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:43779016 original size:12 final size:12
Alignment explanation
Indices: 43778994--43779022 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43778984 TAAATATATC
43778994 TAAAA-TAATAA
1 TAAAATTAATAA
43779005 TAAAATTAATAA
1 TAAAATTAATAA
43779017 TAAAAT
1 TAAAAT
43779023 AAAAACTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:43801505 original size:21 final size:21
Alignment explanation
Indices: 43801481--43801536 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
43801471 ATAACTTTTA
*
43801481 AATAATATATAAT-TAATATGT
1 AATAATAAATAATATAA-ATGT
*
43801502 AATAAAAAATAATATAAATGT
1 AATAATAAATAATATAAATGT
*
43801523 AAAAATAAA-AATAT
1 AATAATAAATAATAT
43801537 TTGTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 22 0.73
22 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AATAATAAATAATATAAATGT
Found at i:43807075 original size:26 final size:27
Alignment explanation
Indices: 43807046--43807106 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
43807036 AACTATTTAC
*
43807046 AAATATTTAAATATTATT-AAAA-TAAA
1 AAATATTTAAA-ACTATTGAAAATTAAA
*
43807072 AAATA-GTAAAACTATTGAAAATTAAA
1 AAATATTTAAAACTATTGAAAATTAAA
*
43807098 TAATATTTA
1 AAATATTTA
43807107 GTAATTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.18
25 8 0.29
26 13 0.46
27 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
AAATATTTAAAACTATTGAAAATTAAA
Found at i:43810328 original size:2 final size:2
Alignment explanation
Indices: 43810321--43810351 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43810311 AATGTCAAAT
43810321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43810352 GGTTTTCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43811615 original size:27 final size:27
Alignment explanation
Indices: 43811585--43811652 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
43811575 CGTTCCAGGT
* * *
43811585 TCGGGTCCCTTGGAAAGAGGGTTTATG
1 TCGGGTCCCATCGAAAGAGGGTTCATG
* *
43811612 TCGGGTCCGATCGAGAGAGGGTTCATG
1 TCGGGTCCCATCGAAAGAGGGTTCATG
*
43811639 TCGGGTCCCCTCGA
1 TCGGGTCCCATCGA
43811653 TAATGTTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.22, G:0.37, T:0.25
Consensus pattern (27 bp):
TCGGGTCCCATCGAAAGAGGGTTCATG
Found at i:43815447 original size:3 final size:3
Alignment explanation
Indices: 43815439--43815470 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
43815429 ATGCAGAGCA
43815439 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
43815471 TGAATCGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43826296 original size:58 final size:61
Alignment explanation
Indices: 43826208--43826352 Score: 158
Period size: 58 Copynumber: 2.4 Consensus size: 61
43826198 ATATATTATG
* * *
43826208 ATTTTT-TT-AATTCATACTTTAATAAAAATTATATTAAGAATGTTATT-AAAT-TATATATT-
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATATGATTAAAATATATATATTC
* * * *
43826267 A-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATGATTAAAATATTTATTTTC
1 ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAAATATATATATTC
43826327 ATTTTTATTAAATTATATTTAATAAT
1 ATTTTTATTAAATTATATTTAATAAT
43826353 TATCTTTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
57 7 0.10
58 26 0.36
59 11 0.15
60 5 0.07
61 23 0.32
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (61 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAAATATATATATTC
Found at i:43839287 original size:24 final size:24
Alignment explanation
Indices: 43839260--43839315 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
43839250 GGTATACTTT
*
43839260 AATAATAATAACATAAACT-AAATA
1 AATAA-AATAACATAAAATAAAATA
* *
43839284 AATAAAGTAACTTAAAATAAAATA
1 AATAAAATAACATAAAATAAAATA
43839308 AATGAAAA
1 AAT-AAAA
43839316 ATACACGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.38
24 13 0.50
25 3 0.12
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (24 bp):
AATAAAATAACATAAAATAAAATA
Found at i:43841015 original size:44 final size:43
Alignment explanation
Indices: 43840948--43841860 Score: 441
Period size: 44 Copynumber: 19.9 Consensus size: 43
43840938 TTGCTTCAAT
* * *
43840948 CTTCAATCTACTCCACTGTAACTTCAGGGAGATGAGATCTGTGA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-A
*
43840992 CTTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * * * * * * * * *
43841035 GCTTTAATTTGCTCTACTGCAACTTTAGAGAGATGATACTCGTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * * *
43841079 TCTTCAATCTATTCCATTGTAACTTCAGGGAGATGAGATTTGTAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-A
*
43841124 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTGA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-A
* *
43841168 CTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTATAACTTGTA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG----AT---TTGTA
** * *
43841218 GCTTCAATCTGTTCCACTGC-ACTTCAGGGAAATAAGATTCGCTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA
* * *
43841262 TCTTCAATCTGCTCCATTGCATCTTCAGGGAGATAAGATTTGTGA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-A
* * * *
43841307 CTTTAATCTACTCCATTGTAACTTTAGGGAGATAAGATTTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-A
** * * *
43841351 CTTGTAGCATCAATCTGTTCCACTGC-ACTTTAGGGAAATAAGATTCGCTA
1 C---T----TCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA
* * * *
43841401 TCTTCAATCTGCTCCATTGCATCTTCAGAGAGATAAGATTTGTAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-A
** * * * *
43841446 CTTGTAGCTTTAATCTGTTCCACTGTAAATTCAGGGAAATAAGATTCGCTA
1 C-T-T--C---AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA
* * *
43841497 -TAATCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTA
1 CT--TCAATCTACTCCACTGCAACTTCAGGGAGATAAGA----T---TTGTA
** * * *
43841548 GCTTCAATCTGTTCCACTGC-ACTTCAGAGAAATAAGATTCGCTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA
* * * *
43841592 TCTTCAATCTGCTCCACTACATCTTCAGGGAGATAAGATTTATAA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-A
* * * * * *
43841637 CTTTTAGCTTTAATATATTCCATTGCAACTTCAGGGAAATAATATTCGCTA
1 C--TT--C---AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA
* * * ** * * *
43841688 TATTTAATTTGTTTCACTGCAACTTCAGGGAGATAAGACTTATA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
* * * ** * **
43841732 GCTTTAATCTGCTCTACTATAATTTCAAAGAGATAAGATTTGCTA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA
* *
43841777 TCTTCAATCTACTCCGCTGTAACTTCAGGGAGAT-AGAATTTGTGA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG-ATTTGT-A
* ** * *
43841822 CTTTAATCTTTTCCACTGCCACTTCAGGAAGATAAGATT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
43841861 CGTCACGGTG
Statistics
Matches: 663, Mismatches: 148, Indels: 116
0.72 0.16 0.13
Matches are distributed among these distances:
43 5 0.01
44 332 0.50
45 145 0.22
46 6 0.01
47 1 0.00
48 6 0.01
49 2 0.00
50 52 0.08
51 109 0.16
52 4 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA
Found at i:43841297 original size:139 final size:140
Alignment explanation
Indices: 43840992--43841745 Score: 639
Period size: 139 Copynumber: 5.4 Consensus size: 140
43840982 AGATCTGTGA
* * * *
43840992 CTTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTGT-AGCTTTAATTTGCTCTACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAGCTTTAATCTGCTCCACTGCA
* * * * * * * *
43841056 ACTTTA--GAG---AGA-TGAT-ACTCGTATCTTCAATCTATTCCATTGTAACTTCAGGGAGATG
66 ACTTTAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTG-CACTTCAGGGAAATA
* *
43841114 AGATTTG-TAA
130 AGATTCGCTAT
* * *
43841124 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTGA-CTTTAATCTACTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAGCTTTAATCTGCTCCACTGCA
43841188 ACTTTAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATAA
66 ACTTTAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATAA
43841253 GATTCGCTAT
131 GATTCGCTAT
* * * * *
43841263 CTTCAATCTGCTCCATTGCATCTTCAGGGAGATAAGATTTGTGA-CTTTAATCTACTCCATTGTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAGCTTTAATCTGCTCCACTGCA
* * *
43841327 ACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTTAGGGAAATAA
66 ACTTTAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATAA
43841392 GATTCGCTAT
131 GATTCGCTAT
* * * *
43841402 CTTCAATCTGCTCCATTGCATCTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-----TG-AGCTTTAATCTGCTCC
* * * * ** * * * * *
43841467 ACTGTAAATTCAGGGAAATAAGA--T-TCGC-TATA--ATCAATCTGCTCTACTGCAACTTTAGG
60 ACTGCAACTTTAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGC-ACTTCAGG
* * *
43841526 GAGATAAGATTTGTAACTTGTAG
124 GAAATAAGATTCG---C---TAT
* * * * * * *
43841549 CTTCAATCTGTTCCACTGC-ACTTCAGAGAAATAAGATTCGCT-ATCTTCAATCTGCTCCACTAC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGAGCTTTAATCTGCTCCACTGC
* * * * * * *
43841612 ATCTTCAGGGAGATAAGATTTATAACTTTTAGCTTTAATATATTCCATTGCAACTTCAGGGAAAT
65 AACTTTAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGC-ACTTCAGGGAAAT
*
43841677 AATATTCGCTAT
129 AAGATTCGCTAT
* * * * * * *
43841689 ATTTAATTTGTTTCACTGCAACTTCAGGGAGATAAGACTTAT-AGCTTTAATCTGCTC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAGCTTTAATCTGCTC
43841746 TACTATAATT
Statistics
Matches: 513, Mismatches: 79, Indels: 52
0.80 0.12 0.08
Matches are distributed among these distances:
132 63 0.12
133 1 0.00
134 3 0.01
137 3 0.01
138 21 0.04
139 194 0.38
140 78 0.15
141 35 0.07
142 5 0.01
143 5 0.01
144 7 0.01
145 1 0.00
146 78 0.15
147 19 0.04
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (140 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGAGCTTTAATCTGCTCCACTGCA
ACTTTAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGGGAAATAA
GATTCGCTAT
Found at i:43841364 original size:95 final size:95
Alignment explanation
Indices: 43840946--43841725 Score: 555
Period size: 95 Copynumber: 8.4 Consensus size: 95
43840936 TGTTGCTTCA
* * * * * **
43840946 ATCTTCAATCTACTCCACTGTAACTTCAGGGAGATGAGATCTG-----TG-A-CTTCAATATACT
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
* *
43841004 CCACTGCAACTTCAGGGAGATAAGATTTG-T
66 CCACTGC-ACTTCAGGGAAATAAGATTCGCT
* * * * * * * * *
43841034 AGCTTTAATTTGCTCTACTGCAACTTTAGAGAGAT--GA----T-ACTCGTATCTTCAATCTATT
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
* * * * *
43841092 CCATTGTAACTTCAGGGAGATGAGATTTG-T
66 CCACTG-CACTTCAGGGAAATAAGATTCGCT
* * * * **
43841122 AACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTG-----TG-A-CTTTAATCTACT
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
* *
43841180 CCACTGCAACTTTAGGGAGATAAGATTTATAACTTG-T
66 CCACTGC-ACTTCAGGGAAATAAGA--T-T--C--GCT
* * * * * *
43841217 AGCTTCAATCTGTTCCACTGC-ACTTCAGGGAAATAAGATTCG---C---TATCTTCAATCTGCT
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
* * *
43841275 CCATTGCATCTTCAGGGAGATAAGATTTG-T
66 CCACTGCA-CTTCAGGGAAATAAGATTCGCT
* * * * * *
43841305 GA-CTTTAATCTACTCCATTGTAACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGT
1 -ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGT
*
43841369 TCCACTGCACTTTAGGGAAATAAGATTCGCT
65 TCCACTGCACTTCAGGGAAATAAGATTCGCT
* * * *
43841400 ATCTTCAATCTGCTCCATTGCATCTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTT
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
* *
43841465 CCACTGTAAATTCAGGGAAATAAGATTCGCT
66 CCACTG-CACTTCAGGGAAATAAGATTCGCT
** * *
43841496 ATAATCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
*
43841561 CCACTGCACTTCAGAGAAATAAGATTCGCT
66 CCACTGCACTTCAGGGAAATAAGATTCGCT
* * * * * * *
43841591 ATCTTCAATCTGCTCCACTACATCTTCAGGGAGATAAGATTTATAACTTTTAGCTTTAATATATT
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
* *
43841656 CCATTGCAACTTCAGGGAAATAATATTCGCT
66 CCACTGC-ACTTCAGGGAAATAAGATTCGCT
* * * * *
43841687 ATATTTAATTTGTTTCACTGCAACTTCAGGGAGATAAGA
1 ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
43841726 CTTATAGCTT
Statistics
Matches: 556, Mismatches: 99, Indels: 66
0.77 0.14 0.09
Matches are distributed among these distances:
86 3 0.01
87 1 0.00
88 136 0.24
89 20 0.04
90 4 0.01
91 1 0.00
92 2 0.00
93 1 0.00
94 39 0.07
95 212 0.38
96 137 0.25
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (95 bp):
ATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTT
CCACTGCACTTCAGGGAAATAAGATTCGCT
Found at i:43841541 original size:191 final size:191
Alignment explanation
Indices: 43841326--43841725 Score: 613
Period size: 191 Copynumber: 2.1 Consensus size: 191
43841316 ACTCCATTGT
* *
43841326 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTTAGGGAAATA
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTCAGAGAAATA
* * *
43841391 AGATTCGCTATCTTCAATCTGCTCCATTGCATCTTCAGAGAGATAAGATTTGTAACTTGTAGCTT
66 AGATTCGCTATCTTCAATCTGCTCCACTACATCTTCAGAGAGATAAGATTTATAACTTGTAGCTT
* * *
43841456 TAATCTGTTCCACTGTAAATTCAGGGAAATAAGATTCGCTATAATCAATCTG-CTCTACTGC
131 TAATATATTCCACTGCAAATTCAGGGAAATAAGATTCGCTATAATCAATCTGTCTC-ACTGC
*
43841517 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCACTTCAGAGAAATA
1 AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTCAGAGAAATA
* *
43841582 AGATTCGCTATCTTCAATCTGCTCCACTACATCTTCAGGGAGATAAGATTTATAACTTTTAGCTT
66 AGATTCGCTATCTTCAATCTGCTCCACTACATCTTCAGAGAGATAAGATTTATAACTTGTAGCTT
* * * * * * *
43841647 TAATATATTCCATTGCAACTTCAGGGAAATAATATTCGCTATATTTAATTTGTTTCACTGC
131 TAATATATTCCACTGCAAATTCAGGGAAATAAGATTCGCTATAATCAATCTGTCTCACTGC
*
43841708 AACTTCAGGGAGATAAGA
1 AACTTTAGGGAGATAAGA
43841726 CTTATAGCTT
Statistics
Matches: 189, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
191 187 0.99
192 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (191 bp):
AACTTTAGGGAGATAAGATTTGTAACTTGTAGCATCAATCTGTTCCACTGCACTTCAGAGAAATA
AGATTCGCTATCTTCAATCTGCTCCACTACATCTTCAGAGAGATAAGATTTATAACTTGTAGCTT
TAATATATTCCACTGCAAATTCAGGGAAATAAGATTCGCTATAATCAATCTGTCTCACTGC
Found at i:43848138 original size:42 final size:41
Alignment explanation
Indices: 43848091--43848332 Score: 173
Period size: 42 Copynumber: 5.7 Consensus size: 41
43848081 CAAAAACACT
43848091 GCTAAAGATCATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGA-CATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
* * *
43848133 GCTAAAGGACATGATTTTTAGAGGCGTTTTTTTCTAAGCGCT
1 GCTAAA-GACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
* * *** *
43848175 GCTAAAGGACATGATCTTTAGTGGCGTTTGTGAATATGCGCC
1 GCTAAA-GACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
* ** * * *** *
43848217 GCTAAAGAACATGTTCTTTAATGGCGCTTTGTAGAAAACGCC
1 GCTAAAG-ACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
* * * * *
43848259 GCTAGAGATCATAATTTTTTGCGGCGTTTTTTT-TACAAACGCC
1 GCTAAAGA-CATGATCTTTAGCGGCGTTTTTTTCT--AAGCGCC
*
43848302 GCTAAAGAACAT-ATTCTTTAGCTGCGTTTTT
1 GCTAAAG-ACATGA-TCTTTAGCGGCGTTTTT
43848333 ATACAAAAAC
Statistics
Matches: 157, Mismatches: 36, Indels: 13
0.76 0.17 0.06
Matches are distributed among these distances:
41 2 0.01
42 122 0.78
43 32 0.20
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (41 bp):
GCTAAAGACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCC
Found at i:43848737 original size:21 final size:21
Alignment explanation
Indices: 43848713--43848763 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
43848703 TTCTTTTAAA
*
43848713 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
43848734 CCTCCGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
43848755 CCTCTGCTT
1 CCTCTGCTT
43848764 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.49, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:43850191 original size:26 final size:26
Alignment explanation
Indices: 43850156--43850207 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
43850146 AATGTAAAAG
*
43850156 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
43850182 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
43850208 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:43850345 original size:105 final size:105
Alignment explanation
Indices: 43850078--43850448 Score: 633
Period size: 104 Copynumber: 3.6 Consensus size: 105
43850068 TTGTATATAA
** *
43850078 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
43850143 TGAAATGT-AAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
43850181 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
43850246 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
43850286 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
43850350 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
43850390 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
43850449 ATAACGGTTA
Statistics
Matches: 256, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
103 71 0.28
104 109 0.43
105 75 0.29
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:43855013 original size:45 final size:44
Alignment explanation
Indices: 43854955--43855058 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 44
43854945 TGCAGAAACT
* *
43854955 CATATGCTTAACATTC-GAA-ATGTTTAACATTCAAAACATAGCTTAA
1 CATA-GCTTAACATTCAAAACATGCTTAACATTC-AAA-AT-GCTTAA
* *
43855001 CATAGCTAAACATTCAAAACTATGCTTAACATTCAAAATGTTTAA
1 CATAGCTTAACATTCAAAAC-ATGCTTAACATTCAAAATGCTTAA
43855046 CATAGCTTAACAT
1 CATAGCTTAACAT
43855059 AGTTTTGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
45 27 0.54
46 8 0.16
47 3 0.06
48 12 0.24
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (44 bp):
CATAGCTTAACATTCAAAACATGCTTAACATTCAAAATGCTTAA
Found at i:43855212 original size:39 final size:38
Alignment explanation
Indices: 43855167--43855245 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 38
43855157 CTGAAGAAAC
43855167 TGTGCCAAAACAGA-ATACCAAAAAAAGAATACCAAGTAA
1 TGTGCCAAAACA-ACATACC-AAAAAAGAATACCAAGTAA
* *
43855206 TGTGCCAAAACAATCCTACCAAAACAGAATACCAAGTAA
1 TGTGCCAAAACAA-CATACCAAAAAAGAATACCAAGTAA
43855245 T
1 T
43855246 CCACAAAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 1 0.03
39 31 0.86
40 4 0.11
ACGTcount: A:0.52, C:0.22, G:0.11, T:0.15
Consensus pattern (38 bp):
TGTGCCAAAACAACATACCAAAAAAGAATACCAAGTAA
Found at i:43856584 original size:12 final size:12
Alignment explanation
Indices: 43856567--43856593 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43856557 AAATTATGAA
43856567 ATTATTAATATT
1 ATTATTAATATT
43856579 ATTATTAATATT
1 ATTATTAATATT
43856591 ATT
1 ATT
43856594 TAAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:43857187 original size:22 final size:22
Alignment explanation
Indices: 43857155--43857196 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
43857145 AACCCAAACC
*
43857155 CCAAACTTTAAACCCAAAACTT
1 CCAAACCTTAAACCCAAAACTT
43857177 CCAAACCTTAAACCCAAAAC
1 CCAAACCTTAAACCCAAAAC
43857197 ACTAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.17
Consensus pattern (22 bp):
CCAAACCTTAAACCCAAAACTT
Found at i:43857881 original size:228 final size:228
Alignment explanation
Indices: 43857484--43858113 Score: 825
Period size: 228 Copynumber: 2.8 Consensus size: 228
43857474 AAACCTACAT
** *
43857484 GCGTTTTTACATGAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAG
1 GCGTTTTTACACAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCATTTTGGTTAAG
* * * * * *
43857549 ATATTTTGCAGCGATTCTTACAAAGTGCCTCTAATACTCTGCTTTAGCGGCCTTTTTCCGTAACC
66 ATATTTTGCGGCGTTTCTTAAAAAGCGCCTCTAATACTCTACTTTAGCGGCGTTTTTCCGTAACC
* * *
43857614 GCCACTAATTTTTATATTCATCAAGACCAAACGATGCATTTTGGTTAAGATATCTTGCGGCG-TT
131 GCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGATATCTTGCGGCGTTT
*
43857678 TCATACAAAACGCCGCTAATACTATGCTATAGCG
196 TC-TACAAAACGCCGCTAATACTATGCTATAACG
* *
43857712 GCGTTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAACGCTGCATTTTGGTTAAG
1 GCGTTTTTACACAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCATTTTGGTTAAG
* *
43857777 ATATTTTACGGCGTTTCTTAAAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTTTTTCCGTAACC
66 ATATTTTGCGGCGTTTCTTAAAAAGCGCCTCTAATACTCTACTTTAGCGGCGTTTTTCCGTAACC
*
43857842 GCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCGGCGTTT
131 GCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGATATCTTGCGGCGTTT
* * *
43857907 TCTATAAAATGCCGCTAATACTGTGCTATAACG
196 TCTACAAAACGCCGCTAATACTATGCTATAACG
** * * *
43857940 GCGTTTTTACGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTTTGTTAA
1 GCGTTTTTACACAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGC-ATTTTGGTTAA
* * * * * * * * *
43858005 GATATTTTGTGGCGTTTAC-TAAAAAACGTCGCTAATAATATACTATAGCAGCG-TTTTCCATAA
65 GATATTTTGCGGCGTTT-CTTAAAAAGCGCCTCTAATACTCTACTTTAGCGGCGTTTTTCCGTAA
* * * * ** * *
43858068 ACGCCACCAAATCTAATATACCTCGGGAACAAACGATGCGTTTTGG
129 CCGCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGG
43858114 CTAACAATTT
Statistics
Matches: 353, Mismatches: 46, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
228 298 0.84
229 54 0.15
230 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (228 bp):
GCGTTTTTACACAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCATTTTGGTTAAG
ATATTTTGCGGCGTTTCTTAAAAAGCGCCTCTAATACTCTACTTTAGCGGCGTTTTTCCGTAACC
GCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGATATCTTGCGGCGTTT
TCTACAAAACGCCGCTAATACTATGCTATAACG
Found at i:43858101 original size:114 final size:114
Alignment explanation
Indices: 43857484--43858153 Score: 693
Period size: 114 Copynumber: 5.9 Consensus size: 114
43857474 AAACCTACAT
* * * * *
43857484 GCGTTTTTACATGAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAG
1 GCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCATTTTGGTTAAG
* * * * ** * * *
43857549 ATATTTTGCAGCGATTCTTACAAAGTGCCTCTAATACTCTGCTTTAGCG
66 ATATTTTGCGGCGTTTCATAAAAAACGCCGCTAATACTATGCTATAGCG
* * * * * * *
43857598 GCCTTTTTCCGTAACCGCCACTAATTTTTATATTCATCAAGACCAAACGATGCATTTTGGTTAAG
1 GCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCATTTTGGTTAAG
* *
43857663 ATATCTTGCGGCGTTTCATACAAAACGCCGCTAATACTATGCTATAGCG
66 ATATTTTGCGGCGTTTCATAAAAAACGCCGCTAATACTATGCTATAGCG
* * * *
43857712 GCGTTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAACGCTGCATTTTGGTTAAG
1 GCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCATTTTGGTTAAG
* * * * * * *
43857777 ATATTTTACGGCGTTTCTTAAAAAGCGCCTCTAATACTCTCCTTTAGCG
66 ATATTTTGCGGCGTTTCATAAAAAACGCCGCTAATACTATGCTATAGCG
* * *
43857826 GCGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAG
1 GCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCATTTTGGTTAAG
* * * *
43857891 ATATTTTGCGGCGTTTTC-TATAAAATGCCGCTAATACTGTGCTATAACG
66 ATATTTTGCGGCG-TTTCATAAAAAACGCCGCTAATACTATGCTATAGCG
* * * * *
43857940 GCGTTTTTACGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTTTGTTAA
1 GCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGC-ATTTTGGTTAA
* * * * *
43858005 GATATTTTGTGGCGTTT-ACTAAAAAACGTCGCTAATAATATACTATAGCA
65 GATATTTTGCGGCGTTTCA-TAAAAAACGCCGCTAATACTATGCTATAGCG
* * * ** * * * *
43858055 GCG-TTTTCCATAAACGCCACCAAATCTAATATACCTCGGGAACAAACGATGCGTTTTGGCTAAC
1 GCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCATTTTGGTTAAG
* * *
43858119 A-ATTTTTGCGGTGCTTACA-AATAAACGCCGCTAAT
66 ATA-TTTTGCGGCG-TTTCATAAAAAACGCCGCTAAT
43858154 TGTGCTATAT
Statistics
Matches: 463, Mismatches: 86, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
112 1 0.00
113 31 0.07
114 378 0.82
115 53 0.11
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (114 bp):
GCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCATTTTGGTTAAG
ATATTTTGCGGCGTTTCATAAAAAACGCCGCTAATACTATGCTATAGCG
Found at i:43858175 original size:342 final size:340
Alignment explanation
Indices: 43857499--43858153 Score: 773
Period size: 342 Copynumber: 1.9 Consensus size: 340
43857489 TTTACATGAG
* *
43857499 CGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGAT
1 CGCCACTAATTCTAATATACATCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCAGCGAT
* * * * * *
43857564 TCTTACAAAGTGCCTCTAATACTCTGCTTTAGCGGCCTTTTTCCGTAACCGCCACTAATTTTTAT
66 TCTTACAAAGTGCCGCTAATACTCTGCTATAACGGCCTTTTTACGTAACCGCCACTAATTCTAAT
* *
43857629 ATTCATCAAGACCAAACGATGCATTTTGGTTAAGATATCTTGCGGCGTTTCATACAAAACGCCGC
131 ATACATCAAGACCAAACGATGCATTTTGGTTAAGATATCTTGCGGCGTTTCATAAAAAACGCCGC
* * * * * * * *
43857694 TAATACTATGCTATAGCGGCGTTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAA
196 TAATAATATACTATAGCAGCGTTTTTCCACAAACGCCACCAAATCTAATATACATCAAGAACAAA
* * * * * * *
43857759 CGCTGCATTTTGGTTAAGATATTTTACGGCGTTTCTTAAAAAGCGCCTCTAATACTCTCCTTTAG
261 CGATGCATTTTGGCTAAAATATTTTACGGCGTTAC-TAAAAAACGCCGCTAATA-TCTCCTTTAA
43857824 CGGCGTTTTTCCGTAAC
324 CGGCGTTTTTCCGTAAC
* * * *
43857841 CGCCACTAATTCTTATATACCTCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCGGCGTT
1 CGCCACTAATTCTAATATACATCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCAGCG-A
* * *
43857906 TTCTATA-AAA-TGCCGCTAATACTGTGCTATAACGGCGTTTTTACGTAAGCGCCACTAATTCTA
65 TTCT-TACAAAGTGCCGCTAATACTCTGCTATAACGGCCTTTTTACGTAACCGCCACTAATTCTA
* * * * * *
43857969 ATATACCTCAAGACCAAACGCTGCGTTTTTTGTTAAGATATTTTGTGGCGTTT-ACTAAAAAACG
129 ATATACATCAAGACCAAACGATGC-ATTTTGGTTAAGATATCTTGCGGCGTTTCA-TAAAAAACG
* * * **
43858033 TCGCTAATAATATACTATAGCAGCG-TTTTCCATAAACGCCACCAAATCTAATATACCTCGGGAA
192 CCGCTAATAATATACTATAGCAGCGTTTTTCCACAAACGCCACCAAATCTAATATACATCAAGAA
* * *
43858097 CAAACGATGCGTTTTGGCTAACAAT-TTTTGCGGTGCTTAC-AAATAAACGCCGCTAAT
257 CAAACGATGCATTTTGGCTAA-AATATTTTACGGCG-TTACTAAA-AAACGCCGCTAAT
43858154 TGTGCTATAT
Statistics
Matches: 261, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
341 3 0.01
342 191 0.73
343 65 0.25
344 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (340 bp):
CGCCACTAATTCTAATATACATCAAGACCAAACGATGCATTTTGGTTAAGATATTTTGCAGCGAT
TCTTACAAAGTGCCGCTAATACTCTGCTATAACGGCCTTTTTACGTAACCGCCACTAATTCTAAT
ATACATCAAGACCAAACGATGCATTTTGGTTAAGATATCTTGCGGCGTTTCATAAAAAACGCCGC
TAATAATATACTATAGCAGCGTTTTTCCACAAACGCCACCAAATCTAATATACATCAAGAACAAA
CGATGCATTTTGGCTAAAATATTTTACGGCGTTACTAAAAAACGCCGCTAATATCTCCTTTAACG
GCGTTTTTCCGTAAC
Done.