Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
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: 2329927
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:944567 original size:29 final size:29
Alignment explanation
Indices: 944520--944763 Score: 147
Period size: 29 Copynumber: 8.1 Consensus size: 29
944510 TAAAGTTATC
* * *
944520 TTTTATTTTTGTTTTAACTTATTAAATATA
1 TTTTATTTTTATCTTAACTTA-AAAATATA
*
944550 TTTTATTTTT-TCTTAACTTATTAAATATA
1 TTTTATTTTTATCTTAACTTA-AAAATATA
*
944579 -TTTATTTTTATTTTAA-TGTAAAAATATA
1 TTTTATTTTTATCTTAACT-TAAAAATATA
* * * *
944607 TTTTATCTTTCTCATCACTTAAAAATATA
1 TTTTATTTTTATCTTAACTTAAAAATATA
*
944636 TTTT-TTTTAAATATTTTAACTTAATATACATTTAAATA
1 TTTTATTTT---TATCTTAACTTAA-A-A-A--T--ATA
** *
944674 TTTTATTCATATCTTCACTTAAAAATATA
1 TTTTATTTTTATCTTAACTTAAAAATATA
* *
944703 TTTTATTTTTATTTTAAATT-AAAATATA
1 TTTTATTTTTATCTTAACTTAAAAATATA
** * *
944731 TTTTATCATTATCTAAAATTTTAAAAATATA
1 TTTTATTTTTATCT-TAA-CTTAAAAATATA
944762 TT
1 TT
944764 AAAATGTCTT
Statistics
Matches: 169, Mismatches: 27, Indels: 35
0.73 0.12 0.15
Matches are distributed among these distances:
28 39 0.23
29 70 0.41
30 13 0.08
31 20 0.12
32 1 0.01
33 2 0.01
34 2 0.01
35 1 0.01
36 12 0.07
38 7 0.04
39 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.56
Consensus pattern (29 bp):
TTTTATTTTTATCTTAACTTAAAAATATA
Found at i:944749 original size:28 final size:28
Alignment explanation
Indices: 944695--944750 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
944685 TCTTCACTTA
** * *
944695 AAAATATATTTTATTTTTATTTTAAATT
1 AAAATATATTTTATCATTATCTAAAATT
944723 AAAATATATTTTATCATTATCTAAAATT
1 AAAATATATTTTATCATTATCTAAAATT
944751 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (28 bp):
AAAATATATTTTATCATTATCTAAAATT
Found at i:944958 original size:181 final size:180
Alignment explanation
Indices: 944763--945277 Score: 899
Period size: 173 Copynumber: 2.9 Consensus size: 180
944753 AAAAATATAT
* *
944763 TAAAATGTCTTAACTTCAAAATGTATTTTAATTTAAAAATAAAATATAATTTAAGTTAATATATT
1 TAAAATATCTTAACTTCAAAATTTATTTTAATTTAAAAATAAAATATAATTTAAGTTAATATATT
944828 TTAAAAAATAAATTTTAAAAGTTAAGATAATAATAAAATATTTATTTTTATATTAAATTAATAAT
66 TTAAAAAA-AAATTTTAAAAGTTAAGATAATAATAAAATATTTATTTTTATATTAAATTAATAAT
944893 AAAATATTTAAATATATTTTAAGTTAAGGTATTTTAATATTAAATTAATAA
130 AAAATATTTAAATATATTTTAAGTTAAGGTATTTTAATATTAAATTAATAA
944944 TAAAATATCTTAACTTCAAAATTTATTTTAATTTAAAAATAAAATATAATTTAAGTTAATATA--
1 TAAAATATCTTAACTTCAAAATTTATTTTAATTTAAAAATAAAATATAATTTAAGTTAATATATT
945007 TT--AAAAAAA-TTTAAAAGTTAAGATAATAATAAAATATTTATTTTTATATTAAATTAATAATA
66 TTAAAAAAAAATTTTAAAAGTTAAGATAATAATAAAATATTTATTTTTATATTAAATTAATAATA
945069 AAATA-TTAAATATA-TTTAAGTTAAGGTATTTTAATATTAAATTAATAA
131 AAATATTTAAATATATTTTAAGTTAAGGTATTTTAATATTAAATTAATAA
945117 TAAAATATCTTAACTTCAAAATTTATTTTAATTT-AAAATAAAATATAATTTAAGTTAATAT-TT
1 TAAAATATCTTAACTTCAAAATTTATTTTAATTTAAAAATAAAATATAATTTAAGTTAATATATT
**
945180 AAAAAAAAGAAATTTTAAAAGTTAAGATAATAATAAAATATTTA-TTTTATATTAAATTAATAAT
66 TTAAAAAA-AAATTTTAAAAGTTAAGATAATAATAAAATATTTATTTTTATATTAAATTAATAAT
945244 AAAATATTTAAAT-TATTTTAAGTTAAGGTATTTT
130 AAAATATTTAAATATATTTTAAGTTAAGGTATTTT
945278 TTCAAATAAA
Statistics
Matches: 322, Mismatches: 4, Indels: 20
0.93 0.01 0.06
Matches are distributed among these distances:
172 27 0.08
173 68 0.21
174 9 0.03
175 62 0.19
176 34 0.11
177 59 0.18
179 2 0.01
181 61 0.19
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (180 bp):
TAAAATATCTTAACTTCAAAATTTATTTTAATTTAAAAATAAAATATAATTTAAGTTAATATATT
TTAAAAAAAAATTTTAAAAGTTAAGATAATAATAAAATATTTATTTTTATATTAAATTAATAATA
AAATATTTAAATATATTTTAAGTTAAGGTATTTTAATATTAAATTAATAA
Found at i:945024 original size:25 final size:27
Alignment explanation
Indices: 944996--945046 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
944986 AATATAATTT
* *
944996 AAGTTAATATATTAA-AAAA-ATTTAA
1 AAGTTAAGATAATAATAAAATATTTAA
945021 AAGTTAAGATAATAATAAAATATTTA
1 AAGTTAAGATAATAATAAAATATTTA
945047 TTTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 4 0.18
27 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (27 bp):
AAGTTAAGATAATAATAAAATATTTAA
Found at i:945421 original size:30 final size:30
Alignment explanation
Indices: 945385--945460 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
945375 TTTTTACATT
945385 AAAAAAAAT-AAATATATTTAATAAGTTAA
1 AAAAAAAATAAAATATATTTAATAAGTTAA
* *
945414 GAAAAAAATAAAATGTATTTAATAAGTTAA
1 AAAAAAAATAAAATATATTTAATAAGTTAA
*
945444 AACAAAAATAAAATATA
1 AAAAAAAATAAAATATA
945461 ATTTTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 8 0.20
30 33 0.80
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (30 bp):
AAAAAAAATAAAATATATTTAATAAGTTAA
Found at i:951295 original size:39 final size:39
Alignment explanation
Indices: 951241--951427 Score: 302
Period size: 39 Copynumber: 4.8 Consensus size: 39
951231 CCTAATTGTC
* * *
951241 AAATTATTTCACCATAACATTCTTAATTCTTATTTTCTT
1 AAATTATTTCACCATAACATTCTAAATTATTAATTTCTT
951280 AAATTATTTCACCATAACATTCTAAATTATTAATTTCTT
1 AAATTATTTCACCATAACATTCTAAATTATTAATTTCTT
* * *
951319 AAATTATTTCACCATAACATTCTTAATTCTTATTTTCTT
1 AAATTATTTCACCATAACATTCTAAATTATTAATTTCTT
951358 AAATTATTTCACCATAACATTCTAAATTATTAATTTCTT
1 AAATTATTTCACCATAACATTCTAAATTATTAATTTCTT
* *
951397 AAATTATTTCACCCTAACAATCTAAATTATT
1 AAATTATTTCACCATAACATTCTAAATTATT
951428 TCTATTAACT
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 137 1.00
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (39 bp):
AAATTATTTCACCATAACATTCTAAATTATTAATTTCTT
Found at i:951328 original size:78 final size:78
Alignment explanation
Indices: 951241--951424 Score: 341
Period size: 78 Copynumber: 2.4 Consensus size: 78
951231 CCTAATTGTC
951241 AAATTATTTCACCATAACATTCTTAATTCTTATTTTCTTAAATTATTTCACCATAACATTCTAAA
1 AAATTATTTCACCATAACATTCTTAATTCTTATTTTCTTAAATTATTTCACCATAACATTCTAAA
951306 TTATTAATTTCTT
66 TTATTAATTTCTT
951319 AAATTATTTCACCATAACATTCTTAATTCTTATTTTCTTAAATTATTTCACCATAACATTCTAAA
1 AAATTATTTCACCATAACATTCTTAATTCTTATTTTCTTAAATTATTTCACCATAACATTCTAAA
951384 TTATTAATTTCTT
66 TTATTAATTTCTT
* * *
951397 AAATTATTTCACCCTAACAATCTAAATT
1 AAATTATTTCACCATAACATTCTTAATT
951425 ATTTCTATTA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 103 1.00
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (78 bp):
AAATTATTTCACCATAACATTCTTAATTCTTATTTTCTTAAATTATTTCACCATAACATTCTAAA
TTATTAATTTCTT
Found at i:951848 original size:151 final size:152
Alignment explanation
Indices: 951645--951947 Score: 556
Period size: 151 Copynumber: 2.0 Consensus size: 152
951635 CTAGAAATCT
951645 CGGGTATCCTATTTTGAAAACCCCTATATATAGGCTATGGATTTTAGTACATATTTGTTTTTACA
1 CGGGTATCCTATTTTGAAAACCCCTATATATAGGCTATGGATTTTAGTACATATTTGTTTTTACA
*
951710 TGTTAATTTGAAGGATTATATTTGTAGTGACATATTCAAAAATATTTTTGAGAATTGATATACAT
66 TGTTAATTTGAAGGATTATATTTGTAGTGACAAATTCAAAAATATTTTTGAGAATTGATATACAT
*
951775 ATATTAATAATATATTTTTTTA
131 ATATTAATAATATAATTTTTTA
951797 CGGGTA-CCTTATTTTGAAAA-CCCTATATATAGGCTATGGATTTTAGTACATATTTGTTTTTAC
1 CGGGTATCC-TATTTTGAAAACCCCTATATATAGGCTATGGATTTTAGTACATATTTGTTTTTAC
*
951860 ATGTTAATTTGAAGGATTATATTTGTAGTGACAAATTCAAAAATATTTTTGAGAATTGATATGCA
65 ATGTTAATTTGAAGGATTATATTTGTAGTGACAAATTCAAAAATATTTTTGAGAATTGATATACA
951925 TATATTAATAATATAATTTTTTA
130 TATATTAATAATATAATTTTTTA
951948 TATATGAGTG
Statistics
Matches: 147, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
151 130 0.88
152 17 0.12
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (152 bp):
CGGGTATCCTATTTTGAAAACCCCTATATATAGGCTATGGATTTTAGTACATATTTGTTTTTACA
TGTTAATTTGAAGGATTATATTTGTAGTGACAAATTCAAAAATATTTTTGAGAATTGATATACAT
ATATTAATAATATAATTTTTTA
Found at i:955452 original size:27 final size:26
Alignment explanation
Indices: 955395--955458 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
955385 ACATACTATT
**
955395 CATCGATGCACTCAGTGCATTTGATG
1 CATCGATGCACTCAGTGCATTTGAAA
*
955421 CATCGATGCACTCTG-GCTATTTTGAAA
1 CATCGATGCACTCAGTGC-A-TTTGAAA
955448 CATCGAATGCA
1 CATCG-ATGCA
955459 TTTTATGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 15 0.47
27 10 0.31
28 5 0.16
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
CATCGATGCACTCAGTGCATTTGAAA
Found at i:960856 original size:45 final size:45
Alignment explanation
Indices: 960807--960894 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
960797 GAACATCGAA
* * *
960807 TGCATTTTATGCATCGATGCATATA-CCATACATTGATGCACTCAG
1 TGCATTTGATGCATCGATGCACA-AGCCATACATCGATGCACTCAG
* *
960852 TGCATTTGATGTATCGATGCACAAGCCATGCATCGATGCACTC
1 TGCATTTGATGCATCGATGCACAAGCCATACATCGATGCACTC
960895 TGCTATTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAGCCATACATCGATGCACTCAG
Found at i:960905 original size:45 final size:45
Alignment explanation
Indices: 960806--960905 Score: 109
Period size: 45 Copynumber: 2.2 Consensus size: 45
960796 TGAACATCGA
* *
960806 ATGCATTTT-ATGCATCGATGCATATACCATACATTGATGCACTC
1 ATGCATTTTGATGCATCGATGCACATACCATACATCGATGCACTC
* *
960850 AGTGCA-TTTGATGTATCGATGCACA-AGCCATGCATCGATGCACTC
1 A-TGCATTTTGATGCATCGATGCACATA-CCATACATCGATGCACTC
960895 -TGCTATTTTGA
1 ATGC-ATTTTGA
960906 AACATCGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
43 3 0.06
44 6 0.13
45 38 0.81
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (45 bp):
ATGCATTTTGATGCATCGATGCACATACCATACATCGATGCACTC
Found at i:961026 original size:21 final size:21
Alignment explanation
Indices: 961000--961049 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
960990 ACTGATGCAC
*
961000 CGATGCACCATTGGTATGAAT
1 CGATGCACCATGGGTATGAAT
*
961021 CGATGCACCATGGGTATGCAT
1 CGATGCACCATGGGTATGAAT
961042 CGATGCAC
1 CGATGCAC
961050 TGACGCTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
CGATGCACCATGGGTATGAAT
Found at i:962012 original size:389 final size:391
Alignment explanation
Indices: 961288--962061 Score: 1124
Period size: 389 Copynumber: 2.0 Consensus size: 391
961278 AGAACACAAT
* *
961288 TTGTGCTCAATTGTATTTATCTTTGAGTGTTCTTATCTTGTTTTAGAATTGTGCAAACAATCTAC
1 TTGTACTCAATTGTATTTATCTTTGAGTGTTCTTATCTTGTTCTAGAATTGTGCAAACAATCTAC
*
961353 CTTATGCAGTTTTCCTTGCAAGTTTATGAATTTGTATATTTCTCTTTGAAAAAGAGTGTGCTCAA
66 CTTATGCAGTTTTCCTTGCAAGTTTATAAATTTGTATATTTCTCTTTGAAAAAGAGTGTGCTCAA
* *
961418 TAATTGGGGTATAATTCTTGAGGGTGTTGTAAGGTTATCTCTTTGGCCTCAAAAGAAAGAACAAA
131 GAATTGGGGTATAATTATTGAGGGTGTTGTAAGGTTATCTCTTTGGCCTCAAAAGAAAGAACAAA
961483 TTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACATAGACTTTGATTGA
196 TTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACATAGACTTTGATTGA
*
961548 GAAAGTCGAACCACTATAAATCGCTGTGCAAATCTTTTCAATTTTCTGCAAAAGCTTCCACCAAA
261 GAAAGTCGAACCACTATAAATCGCTGTGCAAATATTTTCAATTTTCTGCAAAAGCTTCCACCAAA
*
961613 ATTTTAATTGCCAATTCACCCCCCTCTTGGTCGAT-TCCATCGATCGATTAACTCAACAAACACT
326 ATTTTAATTGCCAATTCACCCCCCTCTTGG-CCATATCCATCGATCGATTAACTCAACAAACACT
961677 TA
390 TA
*
961679 TTGTACTCAATTGTA-TTAT-TCTTGAGTGTTCTT-TCTTTGTTCTAGAATTGTGCAAA-TATCT
1 TTGTACTCAATTGTATTTATCT-TTGAGTGTTCTTATC-TTGTTCTAGAATTGTGCAAACAATC-
* * ** *
961740 TGCCTTATG-AGGATTTT-CTTGTAAGTTTGCA-AAATTTGTAT-TGTTCTCTTTGGGAGAGAGT
63 TACCTTATGCA-G-TTTTCCTTGCAAGTTT--ATAAATTTGTATAT-TTCTCTTTGAAAAAGAGT
* * *
961801 GTTCTCAAGAATTTGTGGTATAATTATTGAGGGAT-TTGTAAGGTTA-CTCTTTGTCCTCAAAAG
123 GTGCTCAAGAA-TTGGGGTATAATTATTGAGGG-TGTTGTAAGGTTATCTCTTTGGCCTCAAAAG
* *
961864 AAAG-ACAAATTAGTGAATTTG-TGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACGTAGT
186 AAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACATAGA
* * * *
961927 CTTTGGTTGAGAAAGTCGAACCACTTTAAATCGTTGTGCAAATATTTTCAATTTTTTGCAAAAGC
251 CTTTGATTGAGAAAGTCGAACCACTATAAATCGCTGTGCAAATATTTTCAATTTTCTGCAAAAGC
* * * *
961992 TTCCACCGAAATTTTAATTGCCAATTCACCCTCCTCTTGGCCATATTCGTCGATCGATTAACTCA
316 TTCCACCAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCATATCCATCGATCGATTAACTCA
962057 ACAAA
381 ACAAA
962062 ATTATATATA
Statistics
Matches: 346, Mismatches: 26, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
388 3 0.01
389 168 0.49
390 72 0.21
391 71 0.21
392 31 0.09
393 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (391 bp):
TTGTACTCAATTGTATTTATCTTTGAGTGTTCTTATCTTGTTCTAGAATTGTGCAAACAATCTAC
CTTATGCAGTTTTCCTTGCAAGTTTATAAATTTGTATATTTCTCTTTGAAAAAGAGTGTGCTCAA
GAATTGGGGTATAATTATTGAGGGTGTTGTAAGGTTATCTCTTTGGCCTCAAAAGAAAGAACAAA
TTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACATAGACTTTGATTGA
GAAAGTCGAACCACTATAAATCGCTGTGCAAATATTTTCAATTTTCTGCAAAAGCTTCCACCAAA
ATTTTAATTGCCAATTCACCCCCCTCTTGGCCATATCCATCGATCGATTAACTCAACAAACACTT
A
Found at i:962091 original size:18 final size:18
Alignment explanation
Indices: 962061--962196 Score: 87
Period size: 18 Copynumber: 7.1 Consensus size: 18
962051 AACTCAACAA
962061 AATTATATATAAACTATAT
1 AATTAT-TATAAACTATAT
962080 AATTATTATAAACTATAT
1 AATTATTATAAACTATAT
* ** *
962098 ATATAAATTAT-ATTTATGT
1 A-AT-TATTATAAACTATAT
962117 GAACTATATATATAAACTATGTAT
1 -AA-T-TAT-TATAAACTA--TAT
**
962141 ATAAAATTATAAACTATAT
1 A-ATTATTATAAACTATAT
*
962160 -TTATATTATAAACTATAT
1 AAT-TATTATAAACTATAT
*
962178 AATTATTATAAGCTATAT
1 AATTATTATAAACTATAT
962196 A
1 A
962197 TAAATTATGT
Statistics
Matches: 91, Mismatches: 15, Indels: 23
0.71 0.12 0.18
Matches are distributed among these distances:
18 42 0.46
19 18 0.20
20 10 0.11
21 12 0.13
22 5 0.05
23 1 0.01
24 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
AATTATTATAAACTATAT
Found at i:962104 original size:13 final size:13
Alignment explanation
Indices: 962086--962261 Score: 72
Period size: 13 Copynumber: 12.8 Consensus size: 13
962076 ATATAATTAT
962086 TATAAACTATATA
1 TATAAACTATATA
*
962099 TATAAATTATATTTA
1 TATAAACTATA--TA
* *
962114 TGTGAACTATATA
1 TATAAACTATATA
*
962127 TATAAACTATGTA
1 TATAAACTATATA
*
962140 TATAAAAT-TATA
1 TATAAACTATATA
* * *
962152 AACTATA-TTTATA
1 TA-TAAACTATATA
962165 TTATAAACTATATAA
1 -TATAAACTATAT-A
962180 TTATTATAAGCTATATA
1 -TA-TA-AA-CTATATA
* *
962197 TA-AATTA-TGTTTA
1 TATAA--ACTATATA
* * *
962210 TGTGAATTATATA
1 TATAAACTATATA
* *
962223 TACAAACTATGTA
1 TATAAACTATATA
962236 TATAAACTATATA
1 TATAAACTATATA
962249 TGTATAAACTATA
1 --TATAAACTATA
962262 AAAAGTATAT
Statistics
Matches: 120, Mismatches: 27, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
12 6 0.05
13 68 0.57
14 7 0.06
15 26 0.22
16 4 0.03
17 3 0.03
18 6 0.05
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:962203 original size:18 final size:17
Alignment explanation
Indices: 962138--962204 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
962128 ATAAACTATG
962138 TATATAAAATTATAAAC
1 TATATAAAATTATAAAC
* *
962155 TATATTTATATTATAAAC
1 TATA-TAAAATTATAAAC
* *
962173 TATATAATTATTATAAGC
1 TATATAA-AATTATAAAC
962191 TATATATAAATTAT
1 TATATA-AAATTAT
962205 GTTTATGTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.14
18 35 0.83
19 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (17 bp):
TATATAAAATTATAAAC
Found at i:962231 original size:96 final size:96
Alignment explanation
Indices: 962063--962241 Score: 297
Period size: 96 Copynumber: 1.9 Consensus size: 96
962053 CTCAACAAAA
962063 TTATATATAAACTATATAATTATTATAAACTATATATATAAATTATATTTATGTGAACTATATAT
1 TTATATATAAACTATATAATTATTATAAAC-ATATATATAAATTATATTTATGTGAACTATATAT
*
962128 ATAAACTATGTATATAAAATTATAAACTATAT
65 ACAAACTATGTATATAAAATTATAAACTATAT
* * *
962160 TTATATTATAAACTATATAATTATTATAAGC-TATATATAAATTATGTTTATGTGAATTATATAT
1 TTATA-TATAAACTATATAATTATTATAAACATATATATAAATTATATTTATGTGAACTATATAT
962224 ACAAACTATGTATATAAA
65 ACAAACTATGTATATAAA
962242 CTATATATGT
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
96 48 0.62
97 5 0.06
98 24 0.31
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (96 bp):
TTATATATAAACTATATAATTATTATAAACATATATATAAATTATATTTATGTGAACTATATATA
CAAACTATGTATATAAAATTATAAACTATAT
Found at i:962317 original size:70 final size:70
Alignment explanation
Indices: 962234--962383 Score: 237
Period size: 70 Copynumber: 2.1 Consensus size: 70
962224 ACAAACTATG
* * *
962234 TATATAAACTATATATGTATAAACTATAAAAAGTATATAGTTTATAAAATATTATTTATATTAAT
1 TATATATA-TATATATGTATAAACTATAAAAACTATATAGTTTATAAAATATAATTTATATTAAT
962299 ATAGTA
65 ATAGTA
* **
962305 TATATATATATATATGTATAAACTATATAAACTATATAGTTTATAAGTTATAATTTATATTAATA
1 TATATATATATATATGTATAAACTATAAAAACTATATAGTTTATAAAATATAATTTATATTAATA
962370 TAGTA
66 TAGTA
962375 TATATATAT
1 TATATATAT
962384 GTATGCATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 66 0.90
71 7 0.10
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (70 bp):
TATATATATATATATGTATAAACTATAAAAACTATATAGTTTATAAAATATAATTTATATTAATA
TAGTA
Found at i:962552 original size:7 final size:7
Alignment explanation
Indices: 962533--962594 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
962523 CATACATTAG
962533 GGGTTTA
1 GGGTTTA
962540 -GGTTTA
1 GGGTTTA
962546 GGGTTTA
1 GGGTTTA
962553 GGGTTTA
1 GGGTTTA
***
962560 TTATTTA
1 GGGTTTA
**
962567 AAGTTTA
1 GGGTTTA
*
962574 GGATTTA
1 GGGTTTA
962581 GGGTTTA
1 GGGTTTA
*
962588 AGGTTTA
1 GGGTTTA
962595 TATAAACTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
6 6 0.14
7 37 0.86
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:962867 original size:19 final size:19
Alignment explanation
Indices: 962824--962894 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
962814 AATTTTTCTA
962824 TTCCCTCTAAATTTCCCAAT
1 TTCCCTCTAAATTT-CCAAT
*
962844 TTCCCTCTAAATTAT-CAGT
1 TTCCCTCTAAATT-TCCAAT
* *
962863 TT-CC-CTATATTCTCAAAAT
1 TTCCCTCTAAATT-TC-CAAT
962882 TTCCCTCTAAATT
1 TTCCCTCTAAATT
962895 CCTAAATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 7 0.17
18 2 0.05
19 9 0.22
20 15 0.38
21 7 0.17
ACGTcount: A:0.27, C:0.30, G:0.01, T:0.42
Consensus pattern (19 bp):
TTCCCTCTAAATTTCCAAT
Found at i:962976 original size:2 final size:2
Alignment explanation
Indices: 962969--963010 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
962959 ACTTTGAATA
962969 AT AT AT AT AT AT AT AT -T A- AGT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
963010 A
1 A
963011 ATTAAACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.05
2 34 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:963449 original size:2 final size:2
Alignment explanation
Indices: 963442--963473 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
963432 TTATGTTTAA
963442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
963474 TATTCAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:964121 original size:14 final size:14
Alignment explanation
Indices: 964104--964150 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
964094 ATTATTTCTT
964104 TATATAAATTAAAC
1 TATATAAATTAAAC
964118 TATAT-AATT----
1 TATATAAATTAAAC
964127 TATATAAATTAAAC
1 TATATAAATTAAAC
*
964141 TATATTAATT
1 TATATAAATT
964151 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:964128 original size:23 final size:24
Alignment explanation
Indices: 964102--964151 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
964092 TTATTATTTC
964102 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
964125 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
964149 TTT
1 TTT
964152 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:964222 original size:13 final size:13
Alignment explanation
Indices: 964190--964216 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
964180 TAATTTACAT
964190 TTAAATAATTTTA
1 TTAAATAATTTTA
964203 TTAAATAATTTTA
1 TTAAATAATTTTA
964216 T
1 T
964217 ATAATAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:964423 original size:16 final size:16
Alignment explanation
Indices: 964402--964452 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
964392 TCATTTACAG
964402 GTCAGGTTAAAAACAT
1 GTCAGGTTAAAAACAT
*
964418 GTCAGGTTGAAAACAT
1 GTCAGGTTAAAAACAT
964434 GTCAGGTTAAAAACAT
1 GTCAGGTTAAAAACAT
964450 GTC
1 GTC
964453 GGGTAATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (16 bp):
GTCAGGTTAAAAACAT
Found at i:965132 original size:15 final size:15
Alignment explanation
Indices: 965069--965154 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
965059 TCCAAAAGCT
*
965069 GAGAAGAAGCCTGCC
1 GAGAAGAAGCCAGCC
*
965084 GAGAAGAAGCCAGCA
1 GAGAAGAAGCCAGCC
*** *
965099 GA-AGAGAAAAAAGCT
1 GAGA-AGAAGCCAGCC
965114 GAGAAGAAGCCAGCC
1 GAGAAGAAGCCAGCC
*
965129 GAGAAAAAGCCTAGAGCC
1 GAGAAGAAGCC---AGCC
965147 GAGAAGAA
1 GAGAAGAA
965155 ACTACCCAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
14 1 0.02
15 41 0.76
16 1 0.02
18 11 0.20
ACGTcount: A:0.47, C:0.19, G:0.31, T:0.03
Consensus pattern (15 bp):
GAGAAGAAGCCAGCC
Found at i:968498 original size:32 final size:32
Alignment explanation
Indices: 968461--968523 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
968451 GAAAACATAG
968461 TTTTTAACATATGCATAAATAAAAGTTAAATA
1 TTTTTAACATATGCATAAATAAAAGTTAAATA
*
968493 TTTTTAATATATGCATAAATAAAAGTTAAAT
1 TTTTTAACATATGCATAAATAAAAGTTAAAT
968524 CATATATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (32 bp):
TTTTTAACATATGCATAAATAAAAGTTAAATA
Found at i:970379 original size:22 final size:23
Alignment explanation
Indices: 970335--970391 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
970325 TAAAATAATG
970335 GAAGTGATAATATGTGTGCATAT
1 GAAGTGATAATATGTGTGCATAT
* **
970358 GAAGTGA-ATTATGTGTTTATAT
1 GAAGTGATAATATGTGTGCATAT
970380 GGAAAGTGATAA
1 -G-AAGTGATAA
970392 AATATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 6 0.22
25 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (23 bp):
GAAGTGATAATATGTGTGCATAT
Found at i:970519 original size:17 final size:18
Alignment explanation
Indices: 970493--970534 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
970483 GGATTATCAA
* *
970493 TGGTCCTTCGGGATA-AG
1 TGGTCATTCGGGACATAG
970510 TGGTCATTCGGGACATAG
1 TGGTCATTCGGGACATAG
970528 TGGTCAT
1 TGGTCAT
970535 CCAAGACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (18 bp):
TGGTCATTCGGGACATAG
Found at i:971922 original size:21 final size:21
Alignment explanation
Indices: 971879--971923 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
971869 TATCTTATTA
**
971879 CGATTTCCCAAATTCGCGTTG
1 CGATTTCCCAAATTCGCAATG
* *
971900 CGATTTTCCTAATTCGCAATG
1 CGATTTCCCAAATTCGCAATG
971921 CGA
1 CGA
971924 ATACGTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (21 bp):
CGATTTCCCAAATTCGCAATG
Found at i:971938 original size:20 final size:20
Alignment explanation
Indices: 971913--972070 Score: 183
Period size: 20 Copynumber: 7.9 Consensus size: 20
971903 TTTTCCTAAT
971913 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
971933 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
* *
971953 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
971973 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
971993 TTGGC-ATGCGATTACGTAAA
1 -TCGCAATGCGAATACGTAAA
* *
972013 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
** *
972033 TCGGTATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
972053 TTGCAATGCAAATACGTA
1 TCGCAATGCGAATACGTA
972071 TTCGCATTGC
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
19 3 0.03
20 112 0.95
21 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:971957 original size:40 final size:40
Alignment explanation
Indices: 971913--972091 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
971903 TTTTCCTAAT
* * *
971913 TCGCAATGCGAATACGTAAATCGCAATGCGAATACATAAA
1 TCGCAATGCGATTACGTAAATCGCAACGCGAATACGTAAA
*
971953 TCGCAACGCGATTACGTAAATCGCAACGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAATCGCAACGCGAATACGTAAA
* *
971993 TTGGC-ATGCGATTACGTAAATCGCAACGCGATTACGTAAA
1 -TCGCAATGCGATTACGTAAATCGCAACGCGAATACGTAAA
** * * * *
972033 TCGGTATGCGATTACGTAAATTGCAATGCAAATACGT-AT
1 TCGCAATGCGATTACGTAAATCGCAACGCGAATACGTAAA
*
972072 TCGCATTGCGATTTACGTAA
1 TCGCAATGCGA-TTACGTAA
972092 TCGTGTTACA
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 11 0.09
40 105 0.88
41 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (40 bp):
TCGCAATGCGATTACGTAAATCGCAACGCGAATACGTAAA
Found at i:972088 original size:20 final size:20
Alignment explanation
Indices: 972065--972135 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
972055 GCAATGCAAA
* *
972065 TACGTATTCGCATTGCGATT
1 TACGTAATCGCGTTGCGATT
* * *
972085 TACGTAATCGTGTTACAATT
1 TACGTAATCGCGTTGCGATT
972105 TACGTAATCGCGTTGCGATT
1 TACGTAATCGCGTTGCGATT
972125 TA-GTAAATCGC
1 TACGT-AATCGC
972136 AACGAGATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 2 0.05
20 40 0.95
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (20 bp):
TACGTAATCGCGTTGCGATT
Found at i:972091 original size:60 final size:60
Alignment explanation
Indices: 971913--972070 Score: 228
Period size: 60 Copynumber: 2.6 Consensus size: 60
971903 TTTTCCTAAT
* *
971913 TCGCAATGCGAATACGTAAATCGCAATGCGAATACATAAATCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATTGCAATGCGAATACGTAAATCGCAACGCGATTACGTAAA
* *
971973 TCGCAACGCGAATACGTAAATTGGC-ATGCGATTACGTAAATCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATT-GCAATGCGAATACGTAAATCGCAACGCGATTACGTAAA
** * *
972033 TCGGTATGCGATTACGTAAATTGCAATGCAAATACGTA
1 TCGCAATGCGAATACGTAAATTGCAATGCGAATACGTA
972071 TTCGCATTGC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
59 2 0.02
60 82 0.95
61 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATTGCAATGCGAATACGTAAATCGCAACGCGATTACGTAAA
Found at i:973020 original size:24 final size:24
Alignment explanation
Indices: 972993--973046 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
972983 GTATTCGAAA
972993 TTTGATATTGGTCAATACTCAGAC
1 TTTGATATTGGTCAATACTCAGAC
* * *
973017 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCAGAC
973041 TTTGAT
1 TTTGAT
973047 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCAGAC
Found at i:975536 original size:14 final size:14
Alignment explanation
Indices: 975517--975580 Score: 56
Period size: 14 Copynumber: 4.2 Consensus size: 14
975507 TCATTTGACT
*
975517 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
975531 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
975550 ATCGCAACGTGAAA
1 ATCGCAACGAGAAA
*
975564 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
975578 ATC
1 ATC
975581 ACAAAGCGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 26 0.63
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:975634 original size:19 final size:19
Alignment explanation
Indices: 975610--975650 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
975600 GCAACGGGAA
975610 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
975629 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
975648 TTT
1 TTT
975651 GTCGTTACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (19 bp):
TTTAGTTTCGCGTTGCGAT
Found at i:975671 original size:33 final size:33
Alignment explanation
Indices: 975620--975713 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
975610 TTTAGTTTCG
* * *
975620 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
975653 CGTTACGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
975686 CGTTGCGATTTTCATTTCGCATTACGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
975714 AGTCATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:975839 original size:14 final size:14
Alignment explanation
Indices: 975820--975856 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
975810 CATCAATTAA
975820 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
975834 ACAAATCATCTTTT
1 ACAAATCAACTTTT
975848 ACAAATCAA
1 ACAAATCAA
975857 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:977256 original size:21 final size:21
Alignment explanation
Indices: 977190--977256 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
977180 GTGAATCGGG
*
977190 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
977210 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
977232 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
977253 CTCT
1 CTCT
977257 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:977275 original size:42 final size:41
Alignment explanation
Indices: 977190--977312 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
977180 GTGAATCGGG
* * * *
977190 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
977232 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
977274 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
977313 TGAGTCTGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:979548 original size:20 final size:19
Alignment explanation
Indices: 979501--979592 Score: 84
Period size: 19 Copynumber: 4.7 Consensus size: 19
979491 GTTGCGATTA
979501 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGA-TTTCATTT
*
979520 TCGCGTTGCGATTTCATTT
1 TCTCGTTGCGATTTCATTT
*
979539 CTCTCGTTGCGATAGTCA-TT
1 -TCTCGTTGCGAT-TTCATTT
979559 TCGT-GTTGCGATTTTCATTT
1 TC-TCGTTGCGA-TTTCATTT
979579 TCAT-GTTGCGATTT
1 TC-TCGTTGCGATTT
979593 TAAGTTTAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
18 5 0.08
19 27 0.44
20 27 0.44
21 3 0.05
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.49
Consensus pattern (19 bp):
TCTCGTTGCGATTTCATTT
Found at i:979558 original size:39 final size:39
Alignment explanation
Indices: 979501--979590 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
979491 GTTGCGATTA
**
979501 TCTCGTTGCGATTTTCATTTCGCGTTGCGA-TTTCATTT
1 TCTCGTTGCGATAGTCATTTCGCGTTGCGATTTTCATTT
*
979539 CTCTCGTTGCGATAGTCATTTCGTGTTGCGATTTTCATTT
1 -TCTCGTTGCGATAGTCATTTCGCGTTGCGATTTTCATTT
979579 TCAT-GTTGCGAT
1 TC-TCGTTGCGAT
979591 TTTAAGTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
39 37 0.80
40 9 0.20
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (39 bp):
TCTCGTTGCGATAGTCATTTCGCGTTGCGATTTTCATTT
Found at i:979593 original size:20 final size:19
Alignment explanation
Indices: 979505--979593 Score: 99
Period size: 20 Copynumber: 4.6 Consensus size: 19
979495 CGATTATCTC
*
979505 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGT
*
979524 GTTGCGA-TTTCATTTCTCT
1 GTTGCGATTTTCATTTC-GT
**
979543 CGTTGCGATAGTCATTTCGT
1 -GTTGCGATTTTCATTTCGT
*
979563 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCA-TTTCGT
979583 GTTGCGATTTT
1 GTTGCGATTTT
979594 AAGTTTAGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
18 9 0.16
19 18 0.31
20 24 0.41
21 7 0.12
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCGT
Found at i:980175 original size:20 final size:20
Alignment explanation
Indices: 980150--980296 Score: 133
Period size: 20 Copynumber: 7.3 Consensus size: 20
980140 AAAAATCGCA
*
980150 TTGCGATTTACGGATATGCG
1 TTGCGATTTACGTATATGCG
*
980170 TTGCGATTTTATGTAT-TGTCG
1 TTGCGA-TTTACGTATATG-CG
* * *
980191 TTGCGATTTACGGATACGCA
1 TTGCGATTTACGTATATGCG
* *
980211 TTGCGATTTACGTAT-TCTCA
1 TTGCGATTTACGTATAT-GCG
*
980231 TTGCGATTTACAG-ATACGCG
1 TTGCGATTTAC-GTATATGCG
980251 TTGCGATTTACGTA-ATCGCG
1 TTGCGATTTACGTATAT-GCG
980271 TTGCGATTTACGTA-ATCGCG
1 TTGCGATTTACGTATAT-GCG
980291 TTGCGA
1 TTGCGA
980297 ATTAGGAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
19 2 0.02
20 87 0.82
21 17 0.16
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGTATATGCG
Found at i:980237 original size:40 final size:40
Alignment explanation
Indices: 980148--980296 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
980138 TTAAAAATCG
* * *
980148 CATTGCGATTTACGGATATGCGTTGCGATTTTATGTATTGT
1 CATTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
* *
980189 CGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCT
1 CATTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* * *
980229 CATTGCGATTTACAGATACGCGTTGCGATTTACGTAATCG
1 CATTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* *
980269 CGTTGCGATTTACGTA-ATCGCGTTGCGA
1 CATTGCGATTTACGGATA-CGCGTTGCGA
980297 ATTAGGAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 68 0.72
41 25 0.27
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (40 bp):
CATTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:980329 original size:20 final size:21
Alignment explanation
Indices: 980293--980337 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
980283 TAATCGCGTT
980293 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
980314 GCGAATTTGG-AAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
980334 GCGA
1 GCGA
980338 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:984365 original size:21 final size:20
Alignment explanation
Indices: 984339--984573 Score: 183
Period size: 21 Copynumber: 11.3 Consensus size: 20
984329 TTTCCAAATT
984339 CGTTGCGATAGTCCAAGTTC
1 CGTTGCGATAGTCCAAGTTC
*
984359 GCGTTGCGATTTATTCCAAGTTC
1 -CGTTGCGA--TAGTCCAAGTTC
984382 GCGTTGCGATAGTCCAAGTT-
1 -CGTTGCGATAGTCCAAGTTC
*
984402 CGTTGCGATAGTCGAAGTT-
1 CGTTGCGATAGTCCAAGTTC
* *
984421 CATTGCGATAGTCGAAGTTC
1 CGTTGCGATAGTCCAAGTTC
* *
984441 TCGTTGCGATTTATTCCAAATT-
1 -CGTTGCGA--TAGTCCAAGTTC
*
984463 CGTTGCGATAGTCGAAGTTC
1 CGTTGCGATAGTCCAAGTTC
* * *
984483 GCATTGCGATTTATTCCAAATT-
1 -CGTTGCGA--TAGTCCAAGTTC
*
984505 CGTTGCGATAGTCAAAGTTC
1 CGTTGCGATAGTCCAAGTTC
* *
984525 GCGTTGCAATTTATTCCAAGTT-
1 -CGTTGCGA--TAGTCCAAGTTC
*
984547 CGTTGCGATAGTCGAAGTTC
1 CGTTGCGATAGTCCAAGTTC
984567 GCGTTGC
1 -CGTTGC
984574 ATTTTTTCTT
Statistics
Matches: 173, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
19 61 0.35
21 67 0.39
23 45 0.26
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCCAAGTTC
Found at i:984376 original size:42 final size:42
Alignment explanation
Indices: 984323--984577 Score: 335
Period size: 42 Copynumber: 6.2 Consensus size: 42
984313 ATTATCGCAA
*
984323 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
* *
984363 TGCGATTTATTCCAAGTTCGCGTTGCGATAGTCCAAGTT--CGT
1 TGCGATTTATTCCAAATT--CGTTGCGATAGTCGAAGTTCGCGT
* * * * *
984405 TGCGA--TAGTCGAAGTTCATTGCGATAGTCGAAGTTCTCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
984445 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCAT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
984487 TGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
* *
984529 TGCAATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
984571 TGC-ATTT
1 TGCGATTT
984578 TTTCTTAAGA
Statistics
Matches: 191, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
38 17 0.09
40 22 0.12
41 6 0.03
42 127 0.66
44 19 0.10
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
Found at i:985432 original size:21 final size:21
Alignment explanation
Indices: 985408--985674 Score: 128
Period size: 21 Copynumber: 12.8 Consensus size: 21
985398 TGCGATTTTG
985408 GACTATCGCAACGCGAACTTC
1 GACTATCGCAACGCGAACTTC
* *
985429 GACTATCGCAA--CGAATTTG
1 GACTATCGCAACGCGAACTTC
* * *
985448 GAATAAATCACAA--CGAACTTG
1 GACT--ATCGCAACGCGAACTTC
* * *
985469 GAATAAATCGCAA--CGAATTTG
1 GACT--ATCGCAACGCGAACTTC
* *
985490 GAATAAATCGCAACGCAAACTTC
1 GACT-A-TCGCAACGCGAACTTC
*
985513 GACTATCGCAA--CGAACTTG
1 GACTATCGCAACGCGAACTTC
* *
985532 GACTATCGCAA--CGAATTTA
1 GACTATCGCAACGCGAACTTC
* *
985551 TAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACGCGAACTTC
** **
985574 GACTATCGCAAATC-AGTTTCC
1 GACTATCGCAACGCGAACTT-C
*
985595 AGA-T-TCGCAACGCAAACTTTC
1 -GACTATCGCAACGCGAAC-TTC
* *
985616 GACTATCACAACGCAAACTTC
1 GACTATCGCAACGCGAACTTC
*
985637 GACTATCGCAACGCGAACTTG
1 GACTATCGCAACGCGAACTTC
*
985658 GACTATCGCAATGCGAA
1 GACTATCGCAACGCGAA
985675 TATGTAAATC
Statistics
Matches: 197, Mismatches: 34, Indels: 30
0.75 0.13 0.11
Matches are distributed among these distances:
19 34 0.17
20 14 0.07
21 116 0.59
22 17 0.09
23 16 0.08
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (21 bp):
GACTATCGCAACGCGAACTTC
Found at i:985559 original size:61 final size:62
Alignment explanation
Indices: 985458--985584 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 62
985448 GAATAAATCA
*
985458 CAACGAACTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCG
1 CAACGAACTTGGAAT-AATCGCAACGAATTTAGAATAAATCGCAACGCAAACTTCGACTATCG
* * *
985521 CAACGAACTTGGACT-ATCGCAACGAATTTATAATAAATCGCAACGCGAACTTCGACTATCG
1 CAACGAACTTGGAATAATCGCAACGAATTTAGAATAAATCGCAACGCAAACTTCGACTATCG
985582 CAA
1 CAA
985585 ATCAGTTTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 46 0.77
63 14 0.23
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (62 bp):
CAACGAACTTGGAATAATCGCAACGAATTTAGAATAAATCGCAACGCAAACTTCGACTATCG
Found at i:985662 original size:42 final size:39
Alignment explanation
Indices: 985405--985668 Score: 158
Period size: 42 Copynumber: 6.4 Consensus size: 39
985395 CGTTGCGATT
*
985405 TTGGACTATCGCAACGCGAACTTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGC-AACTTCGACTATCGCAACGAAC
* * * * *
985445 TTGGAATAAATCACAACG-AACTTGGAATAAATCGCAACGAAT
1 TTGGACT--ATCGCAACGCAACTTCGACT--ATCGCAACGAAC
*
985487 TTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAAC
1 TTGGACT--ATCGCAACGC-AACTTCGACTATCGCAACGAAC
* ** *
985529 TTGGACTATCGCAACG-AATTTATAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCAACTTCGACT--ATCGCAA--CGAAC
* ** **
985571 TTCGACTATCGCAAATCAGTTTCCAGA-T-TCGCAACGCAAAC
1 TTGGACTATCGCAACGCAACTT-C-GACTATCGCAACG--AAC
* *
985612 TTTCGACTATCACAACGCAAACTTCGACTATCGCAACGCGAAC
1 -TTGGACTATCGCAACGC-AACTTCGACTATCGCAA--CGAAC
985655 TTGGACTATCGCAA
1 TTGGACTATCGCAA
985669 TGCGAATATG
Statistics
Matches: 177, Mismatches: 26, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
38 6 0.03
39 2 0.01
40 30 0.17
41 11 0.06
42 100 0.56
43 16 0.09
44 9 0.05
45 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (39 bp):
TTGGACTATCGCAACGCAACTTCGACTATCGCAACGAAC
Found at i:985970 original size:27 final size:27
Alignment explanation
Indices: 985925--985976 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
985915 TTTGTAAAAA
* * * *
985925 AATATAAAATTTATGAATTTAAAATTT
1 AATAAAAAATATATAAATTGAAAATTT
985952 AATAAAAAATATATAAATTGAAAAT
1 AATAAAAAATATATAAATTGAAAAT
985977 AATACAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
AATAAAAAATATATAAATTGAAAATTT
Found at i:986174 original size:17 final size:17
Alignment explanation
Indices: 986152--986201 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
986142 AAACCAAACA
986152 CAATAATGTAACATTCC
1 CAATAATGTAACATTCC
986169 CAATAATGTAACATT-C
1 CAATAATGTAACATTCC
*
986185 CAGTAATGTAACATTCC
1 CAATAATGTAACATTCC
986202 GGTAATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (17 bp):
CAATAATGTAACATTCC
Found at i:986193 original size:16 final size:16
Alignment explanation
Indices: 986155--986207 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
986145 CCAAACACAA
*
986155 TAATGTAACATTCCCAA
1 TAATGTAACATT-CCAG
986172 TAATGTAACATTCCAG
1 TAATGTAACATTCCAG
*
986188 TAATGTAACATTCCGG
1 TAATGTAACATTCCAG
986204 TAAT
1 TAAT
986208 CTTATTCCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 22 0.65
17 12 0.35
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (16 bp):
TAATGTAACATTCCAG
Found at i:987092 original size:179 final size:179
Alignment explanation
Indices: 986792--987149 Score: 716
Period size: 179 Copynumber: 2.0 Consensus size: 179
986782 AAACACTATT
986792 GGGAATGAGTATTTAAGGCTTGGATTTCCCACTTCCTTGTTGAGTGGAAGAGAACAAGGGGGACT
1 GGGAATGAGTATTTAAGGCTTGGATTTCCCACTTCCTTGTTGAGTGGAAGAGAACAAGGGGGACT
986857 CTCGCGCACTGCCGCCGTCCCGTCCCGTCTCGTCTCGTGGTCGTGGTAATACGTGTCTTCGACAC
66 CTCGCGCACTGCCGCCGTCCCGTCCCGTCTCGTCTCGTGGTCGTGGTAATACGTGTCTTCGACAC
986922 GTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAATGC
131 GTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAATGC
986971 GGGAATGAGTATTTAAGGCTTGGATTTCCCACTTCCTTGTTGAGTGGAAGAGAACAAGGGGGACT
1 GGGAATGAGTATTTAAGGCTTGGATTTCCCACTTCCTTGTTGAGTGGAAGAGAACAAGGGGGACT
987036 CTCGCGCACTGCCGCCGTCCCGTCCCGTCTCGTCTCGTGGTCGTGGTAATACGTGTCTTCGACAC
66 CTCGCGCACTGCCGCCGTCCCGTCCCGTCTCGTCTCGTGGTCGTGGTAATACGTGTCTTCGACAC
987101 GTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAATGC
131 GTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAATGC
987150 AATACCACCA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (179 bp):
GGGAATGAGTATTTAAGGCTTGGATTTCCCACTTCCTTGTTGAGTGGAAGAGAACAAGGGGGACT
CTCGCGCACTGCCGCCGTCCCGTCCCGTCTCGTCTCGTGGTCGTGGTAATACGTGTCTTCGACAC
GTCCGCGCGGATACTATCTTTTTAGAGAAAATTCTTAAGAAACAAATGC
Found at i:987204 original size:21 final size:21
Alignment explanation
Indices: 987179--987269 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
987169 ATTTTGGAAA
987179 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGTGAACTTGGACT
* * **
987200 GTCGCAAC--GAATTTGGAAA
1 ATCGCAACGTGAACTTGGACT
* * *
987219 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGTGAACTTGGACT
987240 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGTGAACTTGGACT
987261 ATCGCAACG
1 ATCGCAACG
987270 AATTTGGACT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 14 0.25
21 41 0.75
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (21 bp):
ATCGCAACGTGAACTTGGACT
Found at i:987280 original size:40 final size:40
Alignment explanation
Indices: 987172--987342 Score: 122
Period size: 40 Copynumber: 4.3 Consensus size: 40
987162 CGTTGCGATT
* *
987172 TTGGAAAATCGCAACGTGAACTTGGACTGTCGCAAC--GAAT
1 TTGGAAAATCGCAAC--GAACTTGGACTATCGCAACGTGAAC
*
987212 TTGGAAAATCGCAATGCGAACTTCGACTATCGCAACGTGAAC
1 TTGGAAAATCGCAA--CGAACTTGGACTATCGCAACGTGAAC
** * * *
987254 TTGGACTATCGCAACGAATTTGGAC--T---AACGTAAAT
1 TTGGAAAATCGCAACGAACTTGGACTATCGCAACGTGAAC
* * ** *
987289 TTGGAAAATCACAACGAATTTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAACGAACTTGGACTATCGCAACGTGAAC
**
987329 TTGGACTATCGCAA
1 TTGGAAAATCGCAA
987343 AATCGAGTTG
Statistics
Matches: 103, Mismatches: 19, Indels: 18
0.74 0.14 0.13
Matches are distributed among these distances:
35 28 0.27
37 1 0.01
38 1 0.01
40 57 0.55
42 16 0.16
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (40 bp):
TTGGAAAATCGCAACGAACTTGGACTATCGCAACGTGAAC
Found at i:987293 original size:35 final size:35
Alignment explanation
Indices: 987245--987312 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
987235 CGACTATCGC
* ** *
987245 AACGTGAACTTGGACTATCGCAACGAATTTGGACT
1 AACGTAAACTTGGAAAATCACAACGAATTTGGACT
*
987280 AACGTAAATTTGGAAAATCACAACGAATTTGGA
1 AACGTAAACTTGGAAAATCACAACGAATTTGGA
987313 AAATCGCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (35 bp):
AACGTAAACTTGGAAAATCACAACGAATTTGGACT
Found at i:987332 original size:21 final size:19
Alignment explanation
Indices: 987172--987333 Score: 80
Period size: 21 Copynumber: 8.3 Consensus size: 19
987162 CGTTGCGATT
987172 TTGGAAAATCGCAACGTGAAC
1 TTGGAAAATCGCAAC--GAAC
*** *
987193 TTGGACTGTCGCAACGAAT
1 TTGGAAAATCGCAACGAAC
987212 TTGGAAAATCGCAATGCGAAC
1 TTGGAAAATCGCAA--CGAAC
* **
987233 TTCGACTATCGCAACGTGAAC
1 TTGGAAAATCGCAAC--GAAC
** *
987254 TTGGACTATCGCAACGAAT
1 TTGGAAAATCGCAACGAAC
* * *
987273 TTGGACTAA-CG-TA--AAT
1 TTGGA-AAATCGCAACGAAC
* *
987289 TTGGAAAATCACAACGAAT
1 TTGGAAAATCGCAACGAAC
987308 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAA--CGAAC
987329 TTGGA
1 TTGGA
987334 CTATCGCAAA
Statistics
Matches: 109, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
15 2 0.02
16 9 0.08
17 1 0.01
18 1 0.01
19 41 0.38
20 1 0.01
21 54 0.50
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (19 bp):
TTGGAAAATCGCAACGAAC
Found at i:999331 original size:31 final size:33
Alignment explanation
Indices: 999296--999363 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
999286 TATCCAACTT
*
999296 AAAAATAT-ATTTTA-TCTCATATTAACTTTTA
1 AAAAATATAATTTTATTATCATATTAACTTTTA
*
999327 AAAAATATAATTTTATTATCATTTTAACTTTTA
1 AAAAATATAATTTTATTATCATATTAACTTTTA
999360 AAAA
1 AAAA
999364 TGTATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 8 0.24
32 6 0.18
33 19 0.58
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (33 bp):
AAAAATATAATTTTATTATCATATTAACTTTTA
Found at i:999363 original size:32 final size:30
Alignment explanation
Indices: 999294--999369 Score: 98
Period size: 33 Copynumber: 2.4 Consensus size: 30
999284 CTTATCCAAC
*
999294 TTAAAAATATATTTTATCTCATATTAACTT
1 TTAAAAATATATTTTATATCATATTAACTT
*
999324 TTAAAAAATATAATTTTATTATCATTTTAACTT
1 TT-AAAAATAT-ATTTTA-TATCATATTAACTT
*
999357 TTAAAAATGTATT
1 TTAAAAATATATT
999370 ATATTCTTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 2 0.05
31 11 0.28
32 13 0.32
33 14 0.35
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (30 bp):
TTAAAAATATATTTTATATCATATTAACTT
Found at i:999459 original size:29 final size:28
Alignment explanation
Indices: 999411--999478 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
999401 TATTTATATA
* *
999411 TTAACATAAAAAATATTTTAATCTTATT
1 TTAACTTAAAAAATACTTTAATCTTATT
* * *
999439 TTAGCTTAAAAATATACTTTATTCTTGTT
1 TTAACTTAAAAA-ATACTTTAATCTTATT
999468 TTAACTTAAAA
1 TTAACTTAAAA
999479 TGTACATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (28 bp):
TTAACTTAAAAAATACTTTAATCTTATT
Found at i:999492 original size:30 final size:31
Alignment explanation
Indices: 999291--999574 Score: 127
Period size: 30 Copynumber: 9.4 Consensus size: 31
999281 ATTCTTATCC
* *
999291 AACTTAAAAATAT--ATTTTA-TCTCATATT
1 AACTTAAAAATATACATTTTATTCTTATTTT
* *
999319 AACTTTTAAAAAATATA-ATTTTATTATCATTTT
1 AAC--TT-AAAAATATACATTTTATTCTTATTTT
* * *
999352 AACTTTTAAAAATGT--ATTATATTCTTACTTT
1 AAC--TTAAAAATATACATTTTATTCTTATTTT
* * * *
999383 AAATTATTAAATAT--GTTTTATT-TATATATT
1 AACTTA-AAAATATACATTTTATTCT-TATTTT
* *
999413 AACATAAAAA-AT--ATTTTAATCTTATTTT
1 AACTTAAAAATATACATTTTATTCTTATTTT
* *
999441 AGCTTAAAAATATAC--TTTATTCTTGTTTT
1 AACTTAAAAATATACATTTTATTCTTATTTT
* *
999470 AACTT-AAAATGTACATTTTATTCTTATCTT
1 AACTTAAAAATATACATTTTATTCTTATTTT
* * *
999500 GA-TATAAAAA-ATATATTTTATT-TTAATCTT
1 AACT-TAAAAATATACATTTTATTCTT-ATTTT
* * **
999530 AACTTTAAAAATATATATTTTATTTTTATCGT
1 AAC-TTAAAAATATACATTTTATTCTTATTTT
*
999562 AATTTAAAAATAT
1 AACTTAAAAATAT
999575 TTTTAACATA
Statistics
Matches: 202, Mismatches: 34, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
28 32 0.16
29 29 0.14
30 51 0.25
31 42 0.21
32 32 0.16
33 16 0.08
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (31 bp):
AACTTAAAAATATACATTTTATTCTTATTTT
Found at i:999551 original size:32 final size:31
Alignment explanation
Indices: 999504--999574 Score: 108
Period size: 32 Copynumber: 2.3 Consensus size: 31
999494 TATCTTGATA
*
999504 TAAAAA-ATATATTTTATTTTAATCTTAACTT
1 TAAAAATATATATTTTATTTTAATCGTAA-TT
*
999535 TAAAAATATATATTTTATTTTTATCGTAATT
1 TAAAAATATATATTTTATTTTAATCGTAATT
999566 TAAAAATAT
1 TAAAAATAT
999575 TTTTAACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 17 0.46
32 20 0.54
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (31 bp):
TAAAAATATATATTTTATTTTAATCGTAATT
Found at i:999744 original size:27 final size:29
Alignment explanation
Indices: 999671--999779 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 29
999661 TTAAATTATG
* *
999671 ATAA-AATAAAATATATTTTTAAAATTTAAG
1 ATAAGAATAAAATATATTTTT--AAGTTAAA
** *
999701 ATAAGAACGAAATATATTTTTCAGTTAAA
1 ATAAGAATAAAATATATTTTTAAGTTAAA
* *
999730 ATAA-AA-AAAATATATTTTAAAGTTAAG
1 ATAAGAATAAAATATATTTTTAAGTTAAA
999757 ATAAGAATAAAATAAATATTTTT
1 ATAAGAATAAAAT--ATATTTTT
999780 TTTAAAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
27 21 0.33
28 4 0.06
29 14 0.22
30 4 0.06
31 21 0.33
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (29 bp):
ATAAGAATAAAATATATTTTTAAGTTAAA
Found at i:999770 original size:56 final size:54
Alignment explanation
Indices: 999671--999831 Score: 171
Period size: 56 Copynumber: 2.9 Consensus size: 54
999661 TTAAATTATG
**
999671 ATAAAATAAAATATATTTTTAAAATTTAAGATAAGAACGAAATATATTTTTCAGTTAAA
1 ATAAAA-AAAATATA-TTTTAAAA-TTAAGATAAGAATAAAATATATTTTT--GTTAAA
* *
999730 ATAAAAAAAATATATTTTAAAGTTAAGATAAGAATAAAATAAATATTTTTTTTAAA
1 ATAAAAAAAATATATTTTAAAATTAAGATAAGAATAAAAT--ATATTTTTGTTAAA
* * * *
999786 A-AAATAAAATATTTTCTTAAAATTAAGTTTAGAATAAAATATATTT
1 ATAAAAAAAATATATT-TTAAAATTAAGATAAGAATAAAATATATTT
999832 AATAATTTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
54 6 0.07
55 12 0.13
56 43 0.48
57 7 0.08
58 16 0.18
59 6 0.07
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (54 bp):
ATAAAAAAAATATATTTTAAAATTAAGATAAGAATAAAATATATTTTTGTTAAA
Found at i:999805 original size:21 final size:21
Alignment explanation
Indices: 999765--999807 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
999755 AGATAAGAAT
*
999765 AAAATAAATATTTTTTTTAAA
1 AAAATAAATATTTTTCTTAAA
999786 AAAATAAA-ATATTTTCTTAAA
1 AAAATAAATAT-TTTTCTTAAA
999807 A
1 A
999808 TTAAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATAAATATTTTTCTTAAA
Found at i:1030427 original size:18 final size:18
Alignment explanation
Indices: 1030404--1030446 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1030394 TAAAGCTCCA
* *
1030404 AAGCAAGCTAGCGGGGAG
1 AAGCAAGCTAACGGGAAG
1030422 AAGCAAGCTAACGGGAAG
1 AAGCAAGCTAACGGGAAG
1030440 AATGCAA
1 AA-GCAA
1030447 CAACTCTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.42, C:0.16, G:0.35, T:0.07
Consensus pattern (18 bp):
AAGCAAGCTAACGGGAAG
Found at i:1031453 original size:23 final size:24
Alignment explanation
Indices: 1031435--1031524 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 24
1031425 TTTAAATACT
1031435 AAAATATTA-TTTAAATAAAAAATA
1 AAAATA-TACTTTAAATAAAAAATA
1031459 AAAATATACTTTAAATACTAAAATATA
1 AAAATATACTTTAAATA--AAAA-ATA
*
1031486 ATTAAA-ATA-TTCAAAT-AAAAATA
1 A--AAATATACTTTAAATAAAAAATA
* *
1031509 ATACTATACTTTAAAT
1 AAAATATACTTTAAAT
1031525 TAGGCCTGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 3 0.06
23 12 0.22
24 18 0.33
26 4 0.07
27 10 0.19
28 3 0.06
29 3 0.06
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAATATACTTTAAATAAAAAATA
Found at i:1031472 original size:43 final size:44
Alignment explanation
Indices: 1031419--1031513 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 44
1031409 TATAACTAAT
* *
1031419 AATA-ACTTTAAATACTAAAATATTATTTAAATA-AAAAATAAA
1 AATATACTTTAAATACTAAAATATAATTAAAATATAAAAATAAA
**
1031461 AATATACTTTAAATACTAAAATATAATTAAAATATTCAAATAAA
1 AATATACTTTAAATACTAAAATATAATTAAAATATAAAAATAAA
1031505 AATAATACT
1 AAT-ATACT
1031514 ATACTTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 27 0.59
44 10 0.22
45 5 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (44 bp):
AATATACTTTAAATACTAAAATATAATTAAAATATAAAAATAAA
Found at i:1031483 original size:19 final size:19
Alignment explanation
Indices: 1031413--1031485 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 19
1031403 TGTTTATATA
1031413 ACTAATAATA-ACTTTAAAT
1 ACTAA-AATATACTTTAAAT
1031432 ACTAAAATATTA-TTTAAAT
1 ACTAAAATA-TACTTTAAAT
*
1031451 AAAAAATAAAAATATACTTTAAAT
1 ----ACT-AAAATATACTTTAAAT
1031475 ACTAAAATATA
1 ACTAAAATATA
1031486 ATTAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
18 4 0.09
19 20 0.45
20 3 0.07
23 4 0.09
24 13 0.30
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
ACTAAAATATACTTTAAAT
Found at i:1031725 original size:14 final size:14
Alignment explanation
Indices: 1031706--1031753 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
1031696 ATATTTTTCG
1031706 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
1031720 TTTA---T-GTTCA
1 TTTATGTTCGTTCA
*
1031730 TTTATGTCCGTTCA
1 TTTATGTTCGTTCA
1031744 TTTATGTTCG
1 TTTATGTTCG
1031754 AACAGATGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
14 18 0.64
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:1031741 original size:24 final size:24
Alignment explanation
Indices: 1031706--1031752 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1031696 ATATTTTTCG
*
1031706 TTTATGTTCGTTCATTTATGTTCA
1 TTTATGTCCGTTCATTTATGTTCA
1031730 TTTATGTCCGTTCATTTATGTTC
1 TTTATGTCCGTTCATTTATGTTC
1031753 GAACAGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (24 bp):
TTTATGTCCGTTCATTTATGTTCA
Found at i:1032033 original size:10 final size:10
Alignment explanation
Indices: 1032016--1032069 Score: 63
Period size: 10 Copynumber: 5.1 Consensus size: 10
1032006 GTATTTGTGT
1032016 TGTTCGTTTA
1 TGTTCGTTTA
*
1032026 TATTCGTTTA
1 TGTTCGTTTA
1032036 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
*
1032049 TGTTCGTTTG
1 TGTTCGTTTA
1032059 TGTTCGTTTA
1 TGTTCGTTTA
1032069 T
1 T
1032070 CATTTAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
10 28 0.76
13 9 0.24
ACGTcount: A:0.09, C:0.09, G:0.20, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:1032046 original size:23 final size:20
Alignment explanation
Indices: 1032016--1032069 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 20
1032006 GTATTTGTGT
1032016 TGTTCGTTTATATTCGTTTATTG
1 TGTTCGTTTATATTCG--T-TTG
*
1032039 TGTTCGTTTATGTTCGTTTG
1 TGTTCGTTTATATTCGTTTG
1032059 TGTTCGTTTAT
1 TGTTCGTTTAT
1032070 CATTTAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.47
21 1 0.03
23 15 0.50
ACGTcount: A:0.09, C:0.09, G:0.20, T:0.61
Consensus pattern (20 bp):
TGTTCGTTTATATTCGTTTG
Found at i:1042919 original size:18 final size:18
Alignment explanation
Indices: 1042878--1042920 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1042868 TGATTTTATG
*
1042878 TATTATTTTAAATATATT
1 TATTATTTTAAATAAATT
* *
1042896 TA-TATTTTTATTAAATT
1 TATTATTTTAAATAAATT
1042913 TATTATTT
1 TATTATTT
1042921 ATTGATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATTTTAAATAAATT
Found at i:1044419 original size:22 final size:22
Alignment explanation
Indices: 1044394--1044458 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
1044384 TAATTATTAG
1044394 TTAGTGCGATTGTTATATTTTA
1 TTAGTGCGATTGTTATATTTTA
** *
1044416 TTAGT-TAATT-ATA-ATTATTA
1 TTAGTGCGATTGTTATATT-TTA
* *
1044436 TTAGCGCGATCGTTATATTTTA
1 TTAGTGCGATTGTTATATTTTA
1044458 T
1 T
1044459 GAATTAATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
19 3 0.10
20 9 0.29
21 5 0.16
22 11 0.35
23 3 0.10
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (22 bp):
TTAGTGCGATTGTTATATTTTA
Found at i:1044457 original size:42 final size:43
Alignment explanation
Indices: 1044376--1044468 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
1044366 ATATGCAATT
* * * *
1044376 GTTAATTGTAATTATTAGTTAGTGCGATTGTTATATTTTATTA
1 GTTAATTATAATTATTAGTTAGCGCGATCGTTATATTTTATGA
1044419 GTTAATTATAATTATTA-TTAGCGCGATCGTTATATTTTATGA
1 GTTAATTATAATTATTAGTTAGCGCGATCGTTATATTTTATGA
*
1044461 ATTAATTA
1 GTTAATTA
1044469 ATTAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.64
43 16 0.36
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (43 bp):
GTTAATTATAATTATTAGTTAGCGCGATCGTTATATTTTATGA
Found at i:1046396 original size:24 final size:21
Alignment explanation
Indices: 1046347--1046423 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 21
1046337 TATATATATA
* *
1046347 TATATATATATATTTATAAAATT
1 TATAT-TAAATATTTA-AAAAAT
1046370 TATATTAAATCATTCTAAAAAAGT
1 TATATTAAAT-ATT-TAAAAAA-T
1046394 TATATTTAAAATATTTAAAAAAT
1 TATA-TT-AAATATTTAAAAAAT
1046417 TAT-TTAA
1 TATATTAA
1046424 TTGTTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 4 0.09
23 16 0.34
24 14 0.30
25 5 0.11
26 4 0.09
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (21 bp):
TATATTAAATATTTAAAAAAT
Found at i:1049828 original size:22 final size:20
Alignment explanation
Indices: 1049785--1049828 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1049775 TTCATTGAAA
*
1049785 ATAAATTTTGAAAATGGATT
1 ATAAATTTTGAAAATAGATT
*
1049805 ATAATTTTTAGAAAACTAGATT
1 ATAAATTTT-GAAAA-TAGATT
1049827 AT
1 AT
1049829 GAAAAATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 5 0.25
22 7 0.35
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (20 bp):
ATAAATTTTGAAAATAGATT
Found at i:1049867 original size:35 final size:35
Alignment explanation
Indices: 1049788--1049868 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 35
1049778 ATTGAAAATA
1049788 AATTTTG-AAAATGGATTATAATTTTTAGAAAACT
1 AATTTTGAAAAATGGATTATAATTTTTAGAAAACT
*
1049822 AGATTATGAAAAATGGATTATAATTTTTAGAAAAC-
1 A-ATTTTGAAAAATGGATTATAATTTTTAGAAAACT
1049857 AATTTCTGAAAA
1 AATTT-TGAAAA
1049869 TTATTTTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
34 4 0.10
35 12 0.29
36 26 0.62
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (35 bp):
AATTTTGAAAAATGGATTATAATTTTTAGAAAACT
Found at i:1052663 original size:22 final size:22
Alignment explanation
Indices: 1052622--1052689 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
1052612 CTCGTATAAA
1052622 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
*
1052645 TGCACTGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1052667 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1052689 T
1 T
1052690 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 32 0.74
23 11 0.26
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1052950 original size:30 final size:31
Alignment explanation
Indices: 1052909--1052968 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
1052899 TAGACATAGT
*
1052909 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
1052939 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
1052969 AACTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:1053025 original size:29 final size:29
Alignment explanation
Indices: 1052983--1053054 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
1052973 TTTTCTGCAT
**
1052983 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
1053012 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
1053041 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1053055 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:1053475 original size:67 final size:66
Alignment explanation
Indices: 1053357--1053530 Score: 206
Period size: 67 Copynumber: 2.6 Consensus size: 66
1053347 TTTTTCTCAT
* * * *
1053357 GGGGGAATCGGTTCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT-CCCCCC-TGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCAT-TACG
1053422 ATGA
63 ATGA
* * * *
1053426 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
1053491 A
66 A
* *
1053492 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1053531 AACCCAGAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
65 6 0.06
66 19 0.20
67 50 0.54
68 6 0.06
69 12 0.13
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
A
Found at i:1060776 original size:20 final size:20
Alignment explanation
Indices: 1060735--1060776 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1060725 GACGTTTCAA
*
1060735 AATAAAAAAAAAATGATATT
1 AATAAAAAAAAAATAATATT
* *
1060755 AATAAAAAAATAATAATTTT
1 AATAAAAAAAAAATAATATT
1060775 AA
1 AA
1060777 GGCGTTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AATAAAAAAAAAATAATATT
Found at i:1070616 original size:24 final size:24
Alignment explanation
Indices: 1070567--1070621 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1070557 AAAAATAGGG
*
1070567 TTTTAAAAATAATATTTTTAAGTT
1 TTTTAAAAATAATATTTTTAAATT
*
1070591 TTTTAAATATAA-ATTTTTAAAATT
1 TTTTAAAAATAATATTTTT-AAATT
*
1070615 TTATAAA
1 TTTTAAA
1070622 GATGACACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAAAAATAATATTTTTAAATT
Found at i:1071112 original size:20 final size:20
Alignment explanation
Indices: 1071084--1071138 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1071074 TTGATTTATG
*
1071084 GAATATAAGATTATCGGTGA
1 GAATGTAAGATTATCGGTGA
1071104 GAATGTAAGATTATCGGTGA
1 GAATGTAAGATTATCGGTGA
1071124 GAATGTAAGATTATC
1 GAATGTAAGATTATC
1071139 AGGGAATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (20 bp):
GAATGTAAGATTATCGGTGA
Found at i:1074485 original size:15 final size:16
Alignment explanation
Indices: 1074444--1074501 Score: 66
Period size: 15 Copynumber: 3.6 Consensus size: 16
1074434 CTTTTTTTAA
*
1074444 AAAAT-AATAATATAAT
1 AAAATAAATAA-AAAAT
*
1074460 AATAATTAATAAAAAAT
1 AA-AATAAATAAAAAAT
1074477 AAAA-AAATAAAAAAT
1 AAAATAAATAAAAAAT
1074492 AAAATAAATA
1 AAAATAAATA
1074502 TATAAGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 14 0.38
16 9 0.24
17 9 0.24
18 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAAATAAAAAAT
Found at i:1074681 original size:2 final size:2
Alignment explanation
Indices: 1074674--1074739 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
1074664 TATTAAAGAA
1074674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1074716 AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1074740 AAAAAATAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1074792 original size:44 final size:42
Alignment explanation
Indices: 1074716--1074820 Score: 99
Period size: 46 Copynumber: 2.4 Consensus size: 42
1074706 ATATATATAT
*
1074716 ATATATATATATATATAATATATAAAAAAAT-AAATGAA-AATA
1 ATATATACATATA-ATAATATATAAAAAAATAAAAT-AAGAATA
1074758 ATATATACATATAATAATA-ATAACATGAATAATAAAATAATGAATA
1 ATATATACATATAATAATATATAA-A--AA-AATAAAATAA-GAATA
* *
1074804 AAATATCCATATAATAA
1 ATATATACATATAATAA
1074821 ATAAAGGGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
40 4 0.08
41 7 0.13
42 12 0.23
43 2 0.04
44 5 0.09
45 4 0.08
46 19 0.36
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (42 bp):
ATATATACATATAATAATATATAAAAAAATAAAATAAGAATA
Found at i:1074800 original size:15 final size:18
Alignment explanation
Indices: 1074744--1074808 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 18
1074734 TATATAAAAA
1074744 AATAA-ATGAA-AATAAT
1 AATAACATGAATAATAAT
1074760 -ATATACAT--ATAATAAT
1 AATA-ACATGAATAATAAT
1074776 AATAACATGAATAATAA-
1 AATAACATGAATAATAAT
1074793 AAT-A-ATGAATAA-AAT
1 AATAACATGAATAATAAT
1074808 A
1 A
1074809 TCCATATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.05
15 13 0.31
16 12 0.29
17 8 0.19
18 7 0.17
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAACATGAATAATAAT
Found at i:1074803 original size:12 final size:11
Alignment explanation
Indices: 1074770--1074808 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
1074760 ATATACATAT
1074770 AATAATAATAA
1 AATAATAATAA
*
1074781 CATGAATAATAA
1 AAT-AATAATAA
1074793 AATAATGAATAA
1 AATAAT-AATAA
1074805 AATA
1 AATA
1074809 TCCATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (11 bp):
AATAATAATAA
Found at i:1075216 original size:37 final size:37
Alignment explanation
Indices: 1075166--1075270 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
1075156 GTGCTTGTGG
* * * *
1075166 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
1075203 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
1075240 ATCTTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1075271 GACGAAAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:1076009 original size:106 final size:106
Alignment explanation
Indices: 1075813--1076976 Score: 1908
Period size: 106 Copynumber: 11.0 Consensus size: 106
1075803 GCATTGTTTC
* * * *
1075813 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
** * * *
1075872 GAAGCGATCCCTTCGTCGTGGAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1075913 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1075978 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1076019 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1076084 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1076125 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1076190 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
1076231 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGTTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1076296 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1076337 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1076402 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1076443 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1076508 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1076549 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1076614 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1076655 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1076720 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
1076761 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGAACTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1076826 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1076867 GAGTCCAATATCCTTCGTTGTGAAGTTGAAGTTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
1076932 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1076973 GAGT
1 GAGT
1076977 GTCACGATAT
Statistics
Matches: 999, Mismatches: 59, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
100 38 0.04
101 1 0.00
102 1 0.00
104 3 0.00
105 1 0.00
106 955 0.96
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1077216 original size:36 final size:36
Alignment explanation
Indices: 1077176--1077251 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
1077166 TGTTTGGAGA
* * **
1077176 GAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
* *
1077212 GAAACTATCTCAAGCGAGATAGAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
1077248 GAAA
1 GAAA
1077252 TGTTTTCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:1077361 original size:104 final size:103
Alignment explanation
Indices: 1077151--1077468 Score: 482
Period size: 104 Copynumber: 3.1 Consensus size: 103
1077141 TTCGTTAAAT
* ** *
1077151 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TT-TGTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * * *
1077213 AAACTATCTCAAGCGAGATAGAATTCATTTCAAGGGAAA
66 AAACTATCTCAAG-GAAAAAAAAATCATTTCAAGGGAAA
1077252 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1077317 AAACTATCTCAAGAGAAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAG-GAAAAAAAAATCATTTCAAGGGAAA
*
1077356 TGTTTTCAATGTTTATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
1077421 AAACTATCTC-AGGAAAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGGAAA-AAAAAA-TCATTTCAAGGGAAA
1077460 TGTTTTCAA
1 TGTTTTCAA
1077469 GAGAAACTGT
Statistics
Matches: 201, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
101 46 0.23
102 4 0.02
103 10 0.05
104 141 0.70
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (103 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGGAAAAAAAAATCATTTCAAGGGAAA
Found at i:1077534 original size:90 final size:89
Alignment explanation
Indices: 1077370--1077534 Score: 285
Period size: 90 Copynumber: 1.8 Consensus size: 89
1077360 TTCAATGTTT
*
1077370 ATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAGGA
1 ATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGA
1077435 AAGAAAAAATTAATTTCAAGGGAA
66 AAGAAAAAATTAATTTCAAGGGAA
*
1077459 ATGTTTTCAAGAGAAACTGTCTCAAGGGAGACGAAATTTTCTGTTTCGAGGGAAACTATCTCAAG
1 ATGTTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAG
* *
1077524 CAAGATAAAAT
65 AAAGAAAAAAT
1077535 CTTCTTAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 7 0.10
90 64 0.90
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (89 bp):
ATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGA
AAGAAAAAATTAATTTCAAGGGAA
Found at i:1077626 original size:36 final size:36
Alignment explanation
Indices: 1077585--1077699 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 36
1077575 CTTTCGAGTG
*
1077585 AAAACAATCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAATCTCAAGTGAGACAAATCTTGTTTTAAGA
** * * * **
1077621 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAATCTCAAGTGAGACAAATCTTGTTTTAAGA
* *
1077657 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAATCTCAAGTGAGACAAA-TCTTGTTTTAAGA
1077693 AAAACAA
1 AAAACAA
1077700 ATTTGAGTGA
Statistics
Matches: 60, Mismatches: 18, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 59 0.98
37 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (36 bp):
AAAACAATCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:1077676 original size:72 final size:74
Alignment explanation
Indices: 1077554--1077714 Score: 213
Period size: 72 Copynumber: 2.2 Consensus size: 74
1077544 AAAAACAGCA
* *
1077554 TTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACAATCTCAAGCGAGACAAA-TCTTGTTTTA
1 TTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAATCTCAAGCGAGACAAAGT-ATGTTTTA
1077618 AGAAAAAC-AAT
63 AGAAAAACAAAT
* *
1077629 CTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAG
1 -TTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAATCTCAAGCGAGACAAAGTATGTTTTAAG
1077692 AAAAACAAAT
65 AAAAACAAAT
*
1077702 TTGAGTGAGATAA
1 TTGAGTGAAATAA
1077715 TCATCTGCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
72 48 0.62
73 15 0.19
75 4 0.05
76 11 0.14
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (74 bp):
TTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAATCTCAAGCGAGACAAAGTATGTTTTAAGA
AAAACAAAT
Found at i:1078988 original size:63 final size:64
Alignment explanation
Indices: 1078783--1079002 Score: 241
Period size: 64 Copynumber: 3.5 Consensus size: 64
1078773 TTGAAGGTGT
* * ** *
1078783 ATCGATGCATAGGTAGTGCATCGATGCA-CTCTTTTAAATAGAAAACATCGAATAG-GATTTATG
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATA-AAAACATCGAAT-GCAATTTATG
1078846 C
64 C
* * **
1078847 ATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGTAATTCGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCAATTTATGC
* * * * *
1078911 ATCGATGCATAAGTAGTGCATCGATGCAT-CCCGTT-ATTAATGAACATTGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATAA-AAACATCGAATGCAATTTATGC
* *
1078974 ATCGATGCACAAGTAGTGCATCAATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
1079003 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
62 4 0.03
63 49 0.37
64 72 0.54
65 9 0.07
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCAATTTATGC
Found at i:1079730 original size:30 final size:30
Alignment explanation
Indices: 1079682--1079740 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
1079672 GAACATATGG
* *
1079682 ATAGTTGCCGAGGATCTTTATGACCTCTGA
1 ATAGTTACCGAGGATCTTTATAACCTCTGA
* * *
1079712 ATAGTTACCGGGGTTCTTTGTAACCTCTG
1 ATAGTTACCGAGGATCTTTATAACCTCTG
1079741 GACAGGTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (30 bp):
ATAGTTACCGAGGATCTTTATAACCTCTGA
Found at i:1079766 original size:15 final size:15
Alignment explanation
Indices: 1079746--1079836 Score: 164
Period size: 15 Copynumber: 6.1 Consensus size: 15
1079736 CTCTGGACAG
1079746 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
1079761 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
1079776 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
*
1079791 GTCCTTCGGGATGTA
1 GTCCTTCGGGACGTA
1079806 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
*
1079821 GTCCTTCGGGATGTA
1 GTCCTTCGGGACGTA
1079836 G
1 G
1079837 GAGTCCTACG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 73 1.00
ACGTcount: A:0.13, C:0.24, G:0.34, T:0.29
Consensus pattern (15 bp):
GTCCTTCGGGACGTA
Found at i:1083417 original size:64 final size:64
Alignment explanation
Indices: 1083335--1083559 Score: 248
Period size: 64 Copynumber: 3.5 Consensus size: 64
1083325 TTGAAGGTGT
* *
1083335 ATCGATGCAT-AGGTAGTGCATCGATGCA-CTCTTTTAAATAGAAAACATCGAATAGGATTTATG
1 ATCGATGCATAAGG-AGTGCATCGATGCATCCCTTTTAAATAGAAAACATCGAAT-GAATTTATG
1083398 C
64 C
** **
1083399 ATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-AAAACATCGAATGTAATTCGTGC
1 ATCGATGCATAAGGAGTGCATCGATGCATCCCTTTTAAATAGAAAACATCGAATG-AATTTATGC
* *
1083463 ATCGATGCATAAGTAGTGCATCGATGCATCCCGTTATT-AAT-G--AACATCGAATGCATTTTAT
1 ATCGATGCATAAGGAGTGCATCGATGCATCCC-TT-TTAAATAGAAAACATCGAATG-AATTTAT
1083524 GC
63 GC
* * *
1083526 ATCGATGCACAAGTAGTGCATCGATGCATACCTT
1 ATCGATGCATAAGGAGTGCATCGATGCATCCCTT
1083560 CATTAAAAGA
Statistics
Matches: 140, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
62 2 0.01
63 48 0.34
64 73 0.52
65 15 0.11
66 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGGAGTGCATCGATGCATCCCTTTTAAATAGAAAACATCGAATGAATTTATGC
Found at i:1084318 original size:15 final size:15
Alignment explanation
Indices: 1084298--1084398 Score: 184
Period size: 15 Copynumber: 6.7 Consensus size: 15
1084288 CTCTGGACAG
1084298 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
1084313 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
*
1084328 GTCCTTCGGGATGTA
1 GTCCTTCGGGACGTA
1084343 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
*
1084358 GTCCTTCGGGATGTA
1 GTCCTTCGGGACGTA
1084373 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
1084388 GTCCTTCGGGA
1 GTCCTTCGGGA
1084399 TATAGGAGTC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 82 1.00
ACGTcount: A:0.13, C:0.25, G:0.34, T:0.29
Consensus pattern (15 bp):
GTCCTTCGGGACGTA
Found at i:1086331 original size:182 final size:183
Alignment explanation
Indices: 1086018--1086553 Score: 914
Period size: 183 Copynumber: 2.9 Consensus size: 183
1086008 ATCAGGTTTA
*
1086018 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * * ** * *
1086083 ACCAAGTGTCCGAGTAATGTCAT-GAATTGAATGTAATGTATTCATAAAGCCAGGGCTTTTGAGT
66 ACCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
1086147 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTTAGCTTTAGA-GGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
* *
1086200 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAATACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* *
1086265 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGATTTCGAGTT
66 ACCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
1086330 TCCTCTATAACCAATTACCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
1086383 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
1086448 ACCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGAGCTTTCGAGTT
66 ACCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
1086513 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
1086554 CGGATTTAAT
Statistics
Matches: 332, Mismatches: 20, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
182 157 0.47
183 175 0.53
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
ACCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:1091234 original size:47 final size:47
Alignment explanation
Indices: 1091140--1091231 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 47
1091130 GATAATTACA
* * ** * *
1091140 ATATATATATAGTAATATTAGACTTATAAGTAAAATATTAAAGAAAT
1 ATATATATATAATAATAATAGAAATATAAGTAAAAAAATAAAGAAAT
1091187 ATATATATATAATAATAATA-AAATAT-AGTAAAAAAATAAATGAAA
1 ATATATATATAATAATAATAGAAATATAAGTAAAAAAATAAA-GAAA
1091232 ATAATTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 12 0.32
46 8 0.21
47 18 0.47
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (47 bp):
ATATATATATAATAATAATAGAAATATAAGTAAAAAAATAAAGAAAT
Found at i:1091289 original size:17 final size:18
Alignment explanation
Indices: 1091256--1091291 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1091246 ATATATACAT
*
1091256 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
1091274 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
1091291 A
1 A
1091292 AATCTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:1098433 original size:3 final size:3
Alignment explanation
Indices: 1098425--1098468 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1098415 TAAACAAAAG
* *
1098425 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1098469 AAAACAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1099738 original size:21 final size:22
Alignment explanation
Indices: 1099714--1099768 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
1099704 GAAAGAAAAA
*
1099714 AAAAATAA-AAATGAAATTAAT
1 AAAAATAAGAAATGAAATAAAT
*
1099735 -AAAATAAGAAAAGAAATAAAT
1 AAAAATAAGAAATGAAATAAAT
* *
1099756 AATAATAATAAAT
1 AAAAATAAGAAAT
1099769 ATAAAATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 7 0.26
21 11 0.41
22 9 0.33
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (22 bp):
AAAAATAAGAAATGAAATAAAT
Found at i:1099760 original size:39 final size:36
Alignment explanation
Indices: 1099705--1099777 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 36
1099695 TTGGACCTGG
1099705 AAAGAAAAAAAAAATAAAAATGAAATTAATAAAATAAGA
1 AAAGAAAAAAAAAATAAAAAT-AAA-T-ATAAAATAAGA
* * *
1099744 AAAGAAATAAATAATAATAATAAATATAAAATAA
1 AAAGAAAAAAAAAATAAAAATAAATATAAAATAA
1099778 AATATTTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.29
37 1 0.03
38 3 0.10
39 18 0.58
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (36 bp):
AAAGAAAAAAAAAATAAAAATAAATATAAAATAAGA
Found at i:1099897 original size:34 final size:33
Alignment explanation
Indices: 1099861--1100144 Score: 204
Period size: 34 Copynumber: 8.1 Consensus size: 33
1099851 CTTTCAAAAC
*
1099861 TATATA-ATTTTCAAAAATGTTTTTAAAACTATA
1 TATATATATTTTC-AAAATGTTTTAAAAACTATA
* * *
1099894 CTATATA-AGTTTTCAAAATGATTTCAAAACTTTA
1 -TATATATA-TTTTCAAAATGTTTTAAAAACTATA
*
1099928 TAATATATATGTTTTAAAATGTTTTTTTAAAAA--ACTA
1 T-ATATATAT-TTTCAAAATG---TTTTAAAAACTA-TA
1099965 TAT-T-TATTTTCAAAATGTTTTAAAAACTATA
1 TATATATATTTTCAAAATGTTTTAAAAACTATA
* *
1099996 TAATATACATTTTCAAAAACGTTTTAAAAACTATA
1 T-ATATATATTTTC-AAAATGTTTTAAAAACTATA
1100031 TATTATATTTATTTTCAAAATGTTTTAAAAACTATA
1 TA-TATA--TATTTTCAAAATGTTTTAAAAACTATA
*
1100067 TAATATATAAACATTTTCAAATATGTTTTCAAAACTATA
1 T-ATATAT----ATTTTCAAA-ATGTTTTAAAAACTATA
* *
1100106 TATTACATATATTTTTTAAAAATGTTTT-CAAACTATA
1 TA-T--ATATA--TTTTCAAAATGTTTTAAAAACTATA
1100143 TA
1 TA
1100145 ATTTATATGT
Statistics
Matches: 207, Mismatches: 15, Indels: 53
0.75 0.05 0.19
Matches are distributed among these distances:
30 9 0.04
31 3 0.01
32 3 0.01
33 11 0.05
34 41 0.20
35 40 0.19
36 26 0.13
37 21 0.10
38 24 0.12
39 25 0.12
41 4 0.02
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (33 bp):
TATATATATTTTCAAAATGTTTTAAAAACTATA
Found at i:1099980 original size:102 final size:104
Alignment explanation
Indices: 1099856--1100070 Score: 259
Period size: 102 Copynumber: 2.1 Consensus size: 104
1099846 AAATGCTTTC
* *
1099856 AAAACTATATAATTTTCAAAAATGTTTTTAAAACTATACT-ATATA-AGTTTTC-AAAATGATTT
1 AAAACTATATAATTTTCAAAAATGTTTTAAAAACTATA-TAATATACA-TTTTCAAAAACGATTT
* * *
1099918 CAAAACTTTATAATATATATGTTTT-AAAATGTTTTTTTAA
64 AAAAACTATATAATATATATATTTTCAAAATGTTTTTTTAA
* *
1099958 AAAACTATATTTATTTTC-AAAATGTTTTAAAAACTATATAATATACATTTTCAAAAACGTTTTA
1 AAAACTATA-TAATTTTCAAAAATGTTTTAAAAACTATATAATATACATTTTCAAAAACGATTTA
* *
1100022 AAAACTATATATTATATTTATTTTCAAAATG---TTTT-A
65 AAAACTATATAATATATATATTTTCAAAATGTTTTTTTAA
1100058 AAAACTATATAAT
1 AAAACTATATAAT
1100071 ATATAAACAT
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
99 3 0.03
100 10 0.10
101 5 0.05
102 38 0.39
103 36 0.37
104 6 0.06
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (104 bp):
AAAACTATATAATTTTCAAAAATGTTTTAAAAACTATATAATATACATTTTCAAAAACGATTTAA
AAACTATATAATATATATATTTTCAAAATGTTTTTTTAA
Found at i:1100045 original size:37 final size:37
Alignment explanation
Indices: 1099861--1100152 Score: 222
Period size: 36 Copynumber: 8.2 Consensus size: 37
1099851 CTTTCAAAAC
*
1099861 TATATA-ATTTTCAAAAATGTTTTTAAAACTATACTA-
1 TATATATATTTTCAAAAATGTTTTAAAAACTATA-TAT
* * * * *
1099897 TATA-A-GTTTTC-AAAATGATTTCAAAACTTTATAA
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATAT
* ** *
1099931 TATATATGTTTT--AAAATGTTTTTTTAAA--A-A-AC
1 TATATATATTTTCAAAAATG-TTTTAAAAACTATATAT
*
1099963 TATATTTATTTTC-AAAATGTTTTAAAAACTATATA-
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATAT
* *
1099998 -ATATACATTTTCAAAAACGTTTTAAAAACTATATAT
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATAT
*
1100034 TATATTTATTTTC-AAAATGTTTTAAAAACTATATAAT
1 TATATATATTTTCAAAAATGTTTTAAAAACTATAT-AT
* * * *
1100071 ATATAAACATTTTCAAATATGTTTTCAAAACTATATAT
1 -TATATATATTTTCAAAAATGTTTTAAAAACTATATAT
* * *
1100109 TACATATATTTTTTAAAAATGTTTT-CAAACTATATAAT
1 TATATATA-TTTTCAAAAATGTTTTAAAAACTATAT-AT
1100147 T-TATAT
1 TATATAT
1100153 GTATGTATAT
Statistics
Matches: 208, Mismatches: 31, Indels: 33
0.76 0.11 0.12
Matches are distributed among these distances:
32 18 0.09
33 9 0.04
34 32 0.15
35 35 0.17
36 36 0.17
37 30 0.14
38 29 0.14
39 19 0.09
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (37 bp):
TATATATATTTTCAAAAATGTTTTAAAAACTATATAT
Found at i:1101191 original size:248 final size:247
Alignment explanation
Indices: 1100741--1102126 Score: 1660
Period size: 248 Copynumber: 5.6 Consensus size: 247
1100731 AAATTTGGTT
* * * * * *
1100741 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTTTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGTTGGCAGATAACCCTTTTCAACTTA
* * *
1100806 AGCTATGTTGCAAATGATGTGCCTTGGAGCTAAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCA
65 AGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCA
* * *
1100871 AATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGATCGTAGTCGAACT
130 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
* **
1100936 CGAAGGTCTTTGGTAGATAACCATTCTCGACTTAAGCTATGCTGCAAATGACA
195 CGAAGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * ** *
1100989 TTCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAATTCTTCTCAACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTTTCAACTTA
1101054 AGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCA
65 AGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCA
* * * * * *
1101119 GATAGCCCTTATCAACTTAAGTTATACTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACT
130 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
* * * * * *
1101184 TGAAGGTCTTTGTTGGCAGATAACCCTTTTCGACTTAAGTTATGTTGCAAATGATA
195 CGAAGGTC--T-TTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * **
1101240 TGCCTTGGAGCTGAGCGCAGTCGAACTCGAAGGTC--T-TTGGCAGATAACCCTTCTCGGCTTAA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTTTCAACTTAA
* * * *
1101302 GCTATGCTGCAAATTATATGTCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAG
66 GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAG
* * *
1101367 ATAACCCTTCTCGACTTAATTTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
131 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
1101432 GAAGGTATTTGGTTGGAAGATAACCCTTCTCGACTTAAGCTATGCTCCAAATGATG
196 GAAGGTCTTTGG-T---AGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
** * *
1101488 TGCCTTTAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTATCGACTTAA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTTTCAACTTAA
* * * * * *
1101553 GTTATGTTGAAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGTTCTTTTGG-TGACA
66 GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGCA
* * * * * * * * *
1101617 GATAACCCTTATAGCCTTAAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
130 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAAC
* * * * * * * *
1101682 TCGAGGGTCTTTGGAAGATAGCCTTTATCAACTTAAGCTATGTTGTAAATGATG
194 TCGAAGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
1101736 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACTCTTTTCGAA-TT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTTTC-AACTT
* * * * *
1101800 AAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGG
64 AAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGG
* * * *
1101861 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATAATATGTCTTGGAGCTGGGCGTAGTCGAA
128 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
* * * *
1101926 CTCAAAGGTCTTTGGTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTACAAATGATG
193 CTCGAAGGTC--T--TTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * *
1101985 TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT-TTGTGACAGATAA-CCTTTTTAGCCT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTG-G-CAGATAACCCTTTTCA-ACT
* * *
1102048 TGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGG
63 TAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGG
*
1102113 CAGATAGCCCTTCT
128 CAGATAACCCTTCT
1102127 AGTATTGAGC
Statistics
Matches: 966, Mismatches: 143, Indels: 54
0.83 0.12 0.05
Matches are distributed among these distances:
244 4 0.00
245 26 0.03
246 37 0.04
247 154 0.16
248 345 0.36
249 138 0.14
250 32 0.03
251 177 0.18
252 53 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (247 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTTTCAACTTAA
GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAG
ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
Found at i:1101303 original size:331 final size:330
Alignment explanation
Indices: 1100741--1102124 Score: 1764
Period size: 331 Copynumber: 4.2 Consensus size: 330
1100731 AAATTTGGTT
* * * * *
1100741 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTTTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTTTCAACTTA
* * * *
1100806 AGCTATGTTGCAAATGATGTGCCTTGGAGCTAAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCA
66 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCA
* *
1100871 AATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGATCGTAGTCGAACT
130 GATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
* * *
1100936 CGAAGGTC-TTTGGTAGATAACCATTCTCGACTTAAGCTATGCTGCAAATGACAT-TCCTTGGAG
195 CGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGTCCTTGGAG
* * *
1100999 CTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAATTCTTCTCAACTTAAGTTATGCTG
260 CTGAGCGTAGTCAAACTCGAAGGTCTTT--TTGGCAGATAA-CCTTCTCAACTTAAGTTATGCTG
1101064 CAAATGATG
322 CAAATGATG
* *
1101073 TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTATCAACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTTTCAACTTA
* * *
1101138 AGTTATACTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGTTGGCAG
66 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAG
* *
1101203 ATAACCCTTTTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGCAGTCGAACTC
131 ATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
1101268 GAAGGTC-TTTGGCAGATAACCCTTCTCGGCTTAAGCTATGCTGCAAATTATATGT-CTTGGAGC
196 GAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGTCCTTGGAGC
* *
1101331 TGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAATTTATGCTGC
261 TGAGCGTAGTCAAACTCGAAGGTCTTT--TTGGCAGATAA-CCTTCTCAACTTAAGTTATGCTGC
1101396 AAATGATG
323 AAATGATG
* * * * * *
1101404 TGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGAAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTTTCAACTTA
* *
1101469 AGCTATGCTCCAAATGATGTGCCTTTAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAG
66 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAG
* *
1101534 ATAACCCTTATCGACTTAAGTTATGTTGAAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
131 ATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * * * * * * *
1101599 GAAGTTCTTTTGGTGACAGATAACCCTTATAGCCTTAAGTTATGTTGTAAATGATATGCCCTCGA
196 GAAGGTCTTTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGTCCTTGG
* * * * * * * * *
1101664 AGCTGAGTGTAATCGAACTCGAGGGTC--TTTGGAAGATAGCCTTTATCAACTTAAGCTATGTTG
258 AGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTGGCAGATAACC-TTCTCAACTTAAGTTATGCTG
*
1101727 TAAATGATG
322 CAAATGATG
* * *
1101736 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACTCTTTTCGAA-TT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTTTC-AACTT
* * * * *
1101800 AAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGC
65 AAGCTATGCTGCAAATGATGTGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGC
* * * * *
1101862 AGATAACCCTTCTCGACTTAAGCTATGCTGCAAATAATATGTCTTGGAGCTGGGCGTAGTCGAAC
129 AGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * * *
1101927 TCAAAGGTCTTTGGTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTACAAATGATGTG-CCTT
194 TCGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGTCCTT
* * * *
1101991 GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTGTGACAGATAACCTTTTTAGCCTTGAGTTAT
256 GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTTG-G-CAGATAACCTTCTCA-ACTTAAGTTAT
*
1102056 GCTGTAAATGATG
318 GCTGCAAATGATG
* *
1102069 TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGGCAGATAGCCCTT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTT
1102125 CTAGTATTGA
Statistics
Matches: 919, Mismatches: 116, Indels: 33
0.86 0.11 0.03
Matches are distributed among these distances:
329 27 0.03
330 104 0.11
331 388 0.42
332 230 0.25
333 107 0.12
334 2 0.00
335 35 0.04
336 26 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (330 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTTTCAACTTA
AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAG
ATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGTCCTTGGAGC
TGAGCGTAGTCAAACTCGAAGGTCTTTTTGGCAGATAACCTTCTCAACTTAAGTTATGCTGCAAA
TGATG
Found at i:1102143 original size:84 final size:84
Alignment explanation
Indices: 1100741--1102126 Score: 1680
Period size: 84 Copynumber: 16.7 Consensus size: 84
1100731 AAATTTGGTT
* * * * * *
1100741 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTTTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
1100806 AGCTATGTTGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * *
1100825 TGCCTTGGAGCTAAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
1100890 AGTTATGTTGCAAATGATA
66 AGTTATGCTGCAAATGATG
* *
1100909 TGCCTTGGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGG-T---AGATAACCATTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* **
1100970 AGCTATGCTGCAAATGACA
66 AGTTATGCTGCAAATGATG
* * ** *
1100989 TTCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAATTCTTCTCAACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1101054 AGTTATGCTGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * * *
1101073 TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTATCAACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
*
1101138 AGTTATACTGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * *
1101157 TGCCTTTGAGCTGAGCGTAGTCGAACTTGAAGGTCTTT-GTTGGCAGATAACCCTTTTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
1101221 AGTTATGTTGCAAATGATA
66 AGTTATGCTGCAAATGATG
* *
1101240 TGCCTTGGAGCTGAGCGCAGTCGAACTCGAAGGTC--T--TTGGCAGATAACCCTTCTCGGCTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * *
1101301 AGCTATGCTGCAAATTATA
66 AGTTATGCTGCAAATGATG
* *
1101320 TGTCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
*
1101385 ATTTATGCTGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * *
1101404 TGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGAAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
1101469 AGCTATGCTCCAAATGATG
66 AGTTATGCTGCAAATGATG
** *
1101488 TGCCTTTAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTATCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* * *
1101552 AGTTATGTTGAAAATGATA
66 AGTTATGCTGCAAATGATG
* * * * *
1101571 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGTTCTTTTGG-TGACAGATAACCCTTATAGCCTT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTT
* * *
1101635 AAGTTATGTTGTAAATGATA
65 AAGTTATGCTGCAAATGATG
* * * * * * * * * *
1101655 TGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGAAGATAGCCTTTATCAACTT
1 TG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTT
* * *
1101716 AAGCTATGTTGTAAATGATG
65 AAGTTATGCTGCAAATGATG
* * * *
1101736 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACTCTTTTCGAATTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1101801 AGTTATGCTGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * * *
1101820 TGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAACCCTTCTCGACTT
1 TG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTT
* * *
1101881 AAGCTATGCTGCAAATAATA
65 AAGTTATGCTGCAAATGATG
* * * * *
1101901 TGTCTTGGAGCTGGGCGTAGTCGAACTCAAAGGTCTTTGGTTGGTAGATAACCCTTCTTGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
*
1101966 AGTTATGCTACAAATGATG
66 AGTTATGCTGCAAATGATG
* * * * *
1101985 TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT--TTGTGACAGATAACCTTTTTAGCCT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTG-G-CAGATAACCCTTCTCGACT
* *
1102048 TGAGTTATGCTGTAAATGATG
64 TAAGTTATGCTGCAAATGATG
* * *
1102069 TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
1102127 AGTATTGAGC
Statistics
Matches: 1121, Mismatches: 156, Indels: 50
0.84 0.12 0.04
Matches are distributed among these distances:
80 196 0.17
81 77 0.07
82 7 0.01
83 144 0.13
84 636 0.57
85 58 0.05
86 3 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (84 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
AGTTATGCTGCAAATGATG
Found at i:1102595 original size:21 final size:21
Alignment explanation
Indices: 1102569--1102616 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
1102559 TGATGAATGT
1102569 GATGCACCTAGGTATGTCTAA
1 GATGCACCTAGGTATGTCTAA
1102590 GATGCACCTAGGTATGTCTAA
1 GATGCACCTAGGTATGTCTAA
1102611 GATGCA
1 GATGCA
1102617 TGCAACATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (21 bp):
GATGCACCTAGGTATGTCTAA
Done.