Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002487.1 Hibiscus syriacus cultivar Beakdansim tig00005073_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: 171479
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:12116 original size:12 final size:13
Alignment explanation
Indices: 12080--12123 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
12070 GCCCCGATTA
12080 CCCGATTACCCGC
1 CCCGATTACCCGC
12093 CCCGATTACCCGC
1 CCCGATTACCCGC
*
12106 CCCGA-TACCCGA
1 CCCGATTACCCGC
12118 CCCGAT
1 CCCGAT
12124 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:12184 original size:24 final size:26
Alignment explanation
Indices: 12157--12217 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
12147 ATATATATAT
*
12157 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
12181 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
12205 AT-ATATATATATA
1 ATAATATAAATATA
12218 CCCGGCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 18 0.58
25 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:12199 original size:19 final size:19
Alignment explanation
Indices: 12175--12214 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12165 AATAAATTTA
12175 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
12194 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
12213 AT
1 AT
12215 ATACCCGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:12259 original size:12 final size:12
Alignment explanation
Indices: 12235--12280 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
12225 CGATTCCCAG
12235 CCCAATA-CCGA
1 CCCAATACCCGA
12246 CCCAATACCCGA
1 CCCAATACCCGA
* *
12258 CCCAATACCTGG
1 CCCAATACCCGA
12270 CCCAATACCCG
1 CCCAATACCCG
12281 TTTAAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:12262 original size:23 final size:24
Alignment explanation
Indices: 12235--12280 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
12225 CGATTCCCAG
12235 CCCAATACC-GACCCAATACCCGA
1 CCCAATACCTGACCCAATACCCGA
*
12258 CCCAATACCTGGCCCAATACCCG
1 CCCAATACCTGACCCAATACCCG
12281 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (24 bp):
CCCAATACCTGACCCAATACCCGA
Found at i:15747 original size:25 final size:25
Alignment explanation
Indices: 15699--15747 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15689 TTTTAATTTT
* *
15699 AACTAAAATATAAAATACTAATAAA
1 AACTAAAATATAAAAAAATAATAAA
*
15724 AACTAAAATATAAAAAAATGATAA
1 AACTAAAATATAAAAAAATAATAA
15748 TCGAATTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (25 bp):
AACTAAAATATAAAAAAATAATAAA
Found at i:15811 original size:28 final size:28
Alignment explanation
Indices: 15780--15842 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
15770 ATATAAAAAA
* *
15780 TTATATT-AGTATATAAAACTAATTTAAT
1 TTATATTAAATATATAAAACTAA-TGAAT
**
15808 TTATATTAAATATATAAAGTTAATGAAT
1 TTATATTAAATATATAAAACTAATGAAT
15836 TTATATT
1 TTATATT
15843 TTACTTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (28 bp):
TTATATTAAATATATAAAACTAATGAAT
Found at i:18803 original size:14 final size:14
Alignment explanation
Indices: 18784--18822 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
18774 TAATGAGAAT
18784 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
18798 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
18812 GAATCTCTGCA
1 TAATCCCTGCA
18823 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:27368 original size:64 final size:64
Alignment explanation
Indices: 27286--27412 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
27276 CTGGTTTGTT
* *
27286 GAAAAGCTTTCCTTCAAATTTGAAAAAGAAGGTATTGCTTTCAGTTCTAAATTTCTAGGTTGCC
1 GAAAAGCTCTACTTCAAATTTGAAAAAGAAGGTATTGCTTTCAGTTCTAAATTTCTAGGTTGCC
27350 GAAAAGCTCTACTTCAAATTTGAAAAAGAAGGTATTGCTTTCAGTTCTAAATTTCTAGGTTGC
1 GAAAAGCTCTACTTCAAATTTGAAAAAGAAGGTATTGCTTTCAGTTCTAAATTTCTAGGTTGC
27413 ATTCCTTTTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (64 bp):
GAAAAGCTCTACTTCAAATTTGAAAAAGAAGGTATTGCTTTCAGTTCTAAATTTCTAGGTTGCC
Found at i:31218 original size:16 final size:16
Alignment explanation
Indices: 31199--31232 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31189 TTAATTTTAT
31199 ATGGGGTAAGATTGAG
1 ATGGGGTAAGATTGAG
31215 ATGGGGTAAGATTGAG
1 ATGGGGTAAGATTGAG
31231 AT
1 AT
31233 CAAAACGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.26
Consensus pattern (16 bp):
ATGGGGTAAGATTGAG
Found at i:31290 original size:2 final size:2
Alignment explanation
Indices: 31285--31320 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
31275 CTTGAAAGTG
*
31285 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31321 GGTTCTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34295 original size:4 final size:4
Alignment explanation
Indices: 34270--34349 Score: 60
Period size: 4 Copynumber: 19.2 Consensus size: 4
34260 CATGTTAGAT
*
34270 ATAA AAAA ATAAA ATAAA ATAA ATAA ATAA ATTCAA CCA-AA AT-A A-AA
1 ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA A-T-AA --ATAA ATAA ATAA
34317 ATAA ATAA A-ATA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA A
34350 GCATAGAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
3 6 0.09
4 42 0.66
5 13 0.20
6 2 0.03
8 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:34336 original size:16 final size:15
Alignment explanation
Indices: 34272--34345 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
34262 TGTTAGATAT
34272 AAAA-AAATAAAAT-
1 AAAATAAATAAAATA
34285 AAAATAAAT-AAAT-
1 AAAATAAATAAAATA
* **
34298 AAATTCAACCAAAATA
1 AAAAT-AAATAAAATA
34314 AAAATAAATAAAATA
1 AAAATAAATAAAATA
34329 ATAAATAAAT-AAATA
1 A-AAATAAATAAAATA
34344 AA
1 AA
34346 TAAAGCATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
13 12 0.24
14 7 0.14
15 19 0.38
16 12 0.24
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:34419 original size:37 final size:34
Alignment explanation
Indices: 34309--34454 Score: 100
Period size: 37 Copynumber: 4.0 Consensus size: 34
34299 AATTCAACCA
34309 AAATAAAAATAAATAAAATAATA-AATAAATAAAT
1 AAATAAAAATAAA-AAAATAATATAATAAATAAAT
* * * *
34343 AAATAAAGCATAGAAAAATGATAGTAA-ATAATAGTAT
1 AAATAAA-AATAAAAAAATAATA-TAATA-AATA-AAT
34380 AAATATAAAATAAAAAAAGTAATATATATAAATAAAT
1 AAATA-AAAATAAAAAAA-TAATATA-ATAAATAAAT
* * *
34417 AAAATAGACATAAAGAAAATGAA-ACAATAAATATAAT
1 -AAATAAAAATAAA-AAAAT-AATATAATAAATA-AAT
34454 A
1 A
34455 TATATAATAA
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
34 15 0.17
35 5 0.06
36 14 0.16
37 31 0.35
38 22 0.25
39 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (34 bp):
AAATAAAAATAAAAAAATAATATAATAAATAAAT
Found at i:35121 original size:37 final size:37
Alignment explanation
Indices: 35039--35177 Score: 160
Period size: 37 Copynumber: 3.8 Consensus size: 37
35029 GTGCTTGTGG
* * * * * * *
35039 ATCCTATCTTTAGGAATTTAAATCTTAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
35076 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATGT-T
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT-TCT
35113 ATCCTATTTTTAGGAGTTTGAATCCT---AAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
35147 ATCCTATTTTTTAGGAGTTTGAATCCTAGCA
1 ATCCTA-TTTTTAGGAGTTTGAATCCTAGCA
35178 GGACGAAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
33 1 0.01
34 12 0.14
35 20 0.23
37 52 0.60
38 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:36016 original size:105 final size:105
Alignment explanation
Indices: 35709--36264 Score: 735
Period size: 105 Copynumber: 5.3 Consensus size: 105
35699 CATTGTTCCA
* * * ** * * *
35709 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTAACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAG
* * * *
35774 CAGCCGTCCCTTCGTTGTGAATTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
** *
35815 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
*
35875 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
*
35915 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
* *
35980 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
*
36020 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
* *
36085 AGCGGTCCATTCGTTGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
36125 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTTTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TTGTTGTTGACAAG
* * *
36190 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
* * *
36231 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
36265 CGCGGATGGC
Statistics
Matches: 403, Mismatches: 38, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
100 82 0.20
101 1 0.00
102 7 0.02
104 5 0.01
105 198 0.49
106 86 0.21
107 3 0.01
109 21 0.05
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:36716 original size:29 final size:26
Alignment explanation
Indices: 36651--36717 Score: 62
Period size: 29 Copynumber: 2.3 Consensus size: 26
36641 GCCTGTCTGG
*
36651 AATCTTGATTCTTGAATCTTCAAATTTT
1 AATC-TGA-TCTTGAATCTTCAAATTTA
36679 AATCCCTGATCTTGAATTCTTCAAATGTTCA
1 AAT--CTGATCTTGAA-TCTTCAAAT-TT-A
36710 AATCTGAT
1 AATCTGAT
36718 GTGCATATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
28 10 0.30
29 17 0.52
30 3 0.09
31 3 0.09
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (26 bp):
AATCTGATCTTGAATCTTCAAATTTA
Found at i:37001 original size:67 final size:65
Alignment explanation
Indices: 36832--37327 Score: 316
Period size: 65 Copynumber: 7.3 Consensus size: 65
36822 AAAGAGATAG
** * *
36832 AATTTGTTTTAAGGGAAA-CGATCTCAAAGATATCTGTTGTTTCATGAGAAACGGTCTCAAGGGA
1 AATTTGTTTTAAGGGAAATAAAT-TCAAAG--AT-T-TTGTTTCAAGAGAAACTGTCTCAAGGGA
*
36896 AACAA
61 GACAA
** *
36901 AATTATGTTTTAAGGGAAATAAATTTGAAGATTTTCTGTTTCAAGAGTAACTGTCTCAAGGGAGA
1 AATT-TGTTTTAAGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGA
36966 CAA
63 CAA
* * ** *
36969 AATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGATAGACGA
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
* * ** * * * *
37034 AATTTGTTTCAAGAGAAACTGTA-TCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAA
1 AATTTGTTTTAAGGGAAA-TAAATTC-A-A-AG-----ATTTTGTTTCAAGAGAAACTGTCTCAA
*
37098 GGGAGACGA
57 GGGAGACAA
* * * * * * * *
37107 AATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
* * ** * *
37172 AATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAA-ATTTTGTTTCAAGGGAAACTATCTCAA
1 AATTTGTTTTAAGGGAAA-----T--A-A-ATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAA
*
37236 GAGAGACAA
57 GGGAGACAA
* * *** * *
37245 AATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAGAAACTGTCTCAATGGAGACA
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACA
37309 A
65 A
*
37310 AATTTGTTTCAAGGGAAA
1 AATTTGTTTTAAGGGAAA
37328 CTGTCTCAAG
Statistics
Matches: 342, Mismatches: 60, Indels: 54
0.75 0.13 0.12
Matches are distributed among these distances:
64 6 0.02
65 133 0.39
66 6 0.02
67 25 0.07
68 37 0.11
69 5 0.01
70 19 0.06
71 3 0.01
72 4 0.01
73 99 0.29
74 5 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (65 bp):
AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
Found at i:37052 original size:36 final size:36
Alignment explanation
Indices: 37000--37347 Score: 318
Period size: 36 Copynumber: 10.0 Consensus size: 36
36990 ATTCAAAGAT
* *
37000 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
37036 TTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * *
37072 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
37109 TTTGTTTCAAAGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
37138 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
37174 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
37210 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
37247 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
*
37275 TTATGTTTCAAGAGAAACTGTCTCAATG-GAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAA
37312 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
37348 CTCTTCTAGT
Statistics
Matches: 251, Mismatches: 37, Indels: 48
0.75 0.11 0.14
Matches are distributed among these distances:
28 4 0.02
29 33 0.13
30 4 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 4 0.02
36 133 0.53
37 68 0.27
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:37113 original size:138 final size:138
Alignment explanation
Indices: 36949--37349 Score: 545
Period size: 138 Copynumber: 2.9 Consensus size: 138
36939 TTTCAAGAGT
* * *
36949 AACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGA
* * * *
37014 AACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAACTTAGTT
66 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTT
37079 CCAAAAGA
131 CCAAAAGA
* * * * *
37087 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGA
* * *
37152 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTT
66 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTT
* **
37217 TCAAGGGA
131 CCAAAAGA
* * * * * * *
37225 AACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAG
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTT-TGTTTCAAGGG
37289 AAACTGTCTCAATG-GAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
65 AAACTGTCTCAA-GAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
37350 CTTCTAGTGA
Statistics
Matches: 229, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
137 3 0.01
138 225 0.98
139 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (138 bp):
AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGA
AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTT
CCAAAAGA
Found at i:37166 original size:102 final size:102
Alignment explanation
Indices: 37036--37220 Score: 282
Period size: 102 Copynumber: 1.8 Consensus size: 102
37026 ATAGACGAAA
*
37036 TTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAG
*
37101 AGACGAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
65 AGACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * * **
37138 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
37203 GACAAAATTTTGTTTCAA
66 GACAAAATTTTGTTTCAA
37221 GGGAAACTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 27 0.36
102 47 0.64
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:37255 original size:73 final size:73
Alignment explanation
Indices: 37131--37347 Score: 276
Period size: 73 Copynumber: 3.1 Consensus size: 73
37121 AAAACATATT
37131 CAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCT
1 CAAA-ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCT
37196 CAAGAGAGA
65 CAAGAGAGA
* *
37205 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA-TGTTTT
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTG-TCT
*
37269 C-A-A-TG-
65 CAAGAGAGA
* *
37274 -----TTTATGTTTCAAGAGAAACTGTCTCAATG-GAGACAAAATTTGTTTCAAGGGAAACTGTC
1 CAAAATTT-TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTTATTTCAAGGGAAACTGTC
37333 TCAAGAGAGA
64 TCAAGAGAGA
37343 CAAAA
1 CAAAA
37348 CTCTTCTAGT
Statistics
Matches: 122, Mismatches: 8, Indels: 26
0.78 0.05 0.17
Matches are distributed among these distances:
64 3 0.02
65 48 0.39
66 4 0.03
67 1 0.01
68 1 0.01
70 1 0.01
71 1 0.01
72 3 0.02
73 56 0.46
74 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (73 bp):
CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTC
AAGAGAGA
Found at i:38331 original size:22 final size:22
Alignment explanation
Indices: 38305--38359 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
38295 TTGTGTTTGG
38305 TCAAAGGTTTGGCATTTGATAC
1 TCAAAGGTTTGGCATTTGATAC
*
38327 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATAC
38349 TCAAAGGTTTG
1 TCAAAGGTTTG
38360 ATGTGATAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATAC
Found at i:39629 original size:23 final size:23
Alignment explanation
Indices: 39603--39647 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
39593 CACCACAGCT
*
39603 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
39626 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
39648 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:40370 original size:65 final size:64
Alignment explanation
Indices: 40260--40405 Score: 220
Period size: 65 Copynumber: 2.2 Consensus size: 64
40250 TTTTCTCATG
* * *
40260 GGGGAATCGGTTCCCCCCTAGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGTTGA
1 GGGGTATCGGTT-CCCCCTAGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGA
* * *
40325 GGGGTATCGGTTCCCCCTGGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATTCGTTGA
1 GGGGTATCGGTTCCCCCT-AGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGA
40390 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
40406 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
64 6 0.08
65 68 0.92
ACGTcount: A:0.16, C:0.26, G:0.27, T:0.32
Consensus pattern (64 bp):
GGGGTATCGGTTCCCCCTAGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGA
Found at i:44203 original size:5 final size:5
Alignment explanation
Indices: 44193--44265 Score: 59
Period size: 5 Copynumber: 15.6 Consensus size: 5
44183 TAGATATAAA
* * **
44193 AAAAT AAAAT AAAAT -AAAT -AAAT AAATT CAACC AAAAT AAAA- ATAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT
44241 AAAAT AAAAT -AAA- AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
44266 GCATAGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
4 19 0.35
5 35 0.64
6 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:45060 original size:34 final size:36
Alignment explanation
Indices: 44983--45080 Score: 139
Period size: 34 Copynumber: 2.8 Consensus size: 36
44973 TTAGTAGAAC
*
44983 TCTATCCTATTTTTAGGAGTTTGAATCCTAACAAAATG
1 TCTATCCTATTTTTAAGAGTTTGAATCCT-A-AAAATG
*
45021 T-TATCCTATTTTTATGAGTTTGAATCCT-AAAAT-
1 TCTATCCTATTTTTAAGAGTTTGAATCCTAAAAATG
45054 TCTATCCTATTTTTAAGAGTTTGAATC
1 TCTATCCTATTTTTAAGAGTTTGAATC
45081 GTAGTAGGAC
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
33 1 0.02
34 29 0.51
37 26 0.46
38 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (36 bp):
TCTATCCTATTTTTAAGAGTTTGAATCCTAAAAATG
Found at i:50416 original size:29 final size:30
Alignment explanation
Indices: 50345--50429 Score: 127
Period size: 29 Copynumber: 2.9 Consensus size: 30
50335 TTTGTATTCT
*
50345 TTCAATTTCACCCCTTGAATTTTAATAAAG
1 TTCAATTTCGCCCCTTGAATTTTAATAAAG
*
50375 TTCAATTTCGCCCCTTGAATTTTTA-AAAG
1 TTCAATTTCGCCCCTTGAATTTTAATAAAG
* *
50404 TTCTATTTTGCCCCTTGAATTTTAAT
1 TTCAATTTCGCCCCTTGAATTTTAAT
50430 TACCATCGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
29 26 0.53
30 23 0.47
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (30 bp):
TTCAATTTCGCCCCTTGAATTTTAATAAAG
Found at i:64359 original size:22 final size:22
Alignment explanation
Indices: 64312--64362 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
64302 CCTCCTATCT
* *
64312 ATAATTTTTTTAAATTTTGACC
1 ATAATTATTTTAAATTTTGACA
*
64334 ATAATTATTTTAAATATTTTA-A
1 ATAATTATTTTAAAT-TTTGACA
64356 ATAATTA
1 ATAATTA
64363 AATTTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
ATAATTATTTTAAATTTTGACA
Found at i:64365 original size:17 final size:16
Alignment explanation
Indices: 64343--64392 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
64333 CATAATTATT
64343 TTAAATATTTTAAATAA
1 TTAAATATTTTAAA-AA
64360 TTAAAT-TTTATAAAAA
1 TTAAATATTT-TAAAAA
*
64376 -TATATA-TTTAAAAA
1 TTAAATATTTTAAAAA
64390 TTA
1 TTA
64393 CTTGATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 6 0.21
15 8 0.28
16 5 0.17
17 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATTTTAAAAA
Found at i:70526 original size:16 final size:16
Alignment explanation
Indices: 70505--70535 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
70495 AATTTTATAT
70505 GGGTAAGATTGAGATG
1 GGGTAAGATTGAGATG
70521 GGGTAAGATTGAGAT
1 GGGTAAGATTGAGAT
70536 CAAAACGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.42, T:0.26
Consensus pattern (16 bp):
GGGTAAGATTGAGATG
Found at i:70593 original size:2 final size:2
Alignment explanation
Indices: 70588--70633 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
70578 CTTGAAAGTG
*
70588 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70630 TA TA
1 TA TA
70634 GGTTCTACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:72692 original size:2 final size:2
Alignment explanation
Indices: 72685--72719 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
72675 TTTCATTTGC
72685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
72720 AAGTATTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78562 original size:29 final size:30
Alignment explanation
Indices: 78491--78575 Score: 127
Period size: 29 Copynumber: 2.9 Consensus size: 30
78481 TTTGTATTCT
*
78491 TTCAATTTCACCCCTTGAATTTTAATAAAG
1 TTCAATTTCGCCCCTTGAATTTTAATAAAG
*
78521 TTCAATTTCGCCCCTTGAATTTTTA-AAAG
1 TTCAATTTCGCCCCTTGAATTTTAATAAAG
* *
78550 TTCTATTTTGCCCCTTGAATTTTAAT
1 TTCAATTTCGCCCCTTGAATTTTAAT
78576 TACCATCGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
29 26 0.53
30 23 0.47
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (30 bp):
TTCAATTTCGCCCCTTGAATTTTAATAAAG
Found at i:85879 original size:17 final size:16
Alignment explanation
Indices: 85857--85906 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
85847 CATAATTATT
85857 TTAAATATTTTAAATAA
1 TTAAATATTTTAAA-AA
85874 TTAAAT-TTTATAAAAA
1 TTAAATATTT-TAAAAA
*
85890 -TATATA-TTTAAAAA
1 TTAAATATTTTAAAAA
85904 TTA
1 TTA
85907 CTTGATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 6 0.21
15 8 0.28
16 5 0.17
17 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATTTTAAAAA
Found at i:93031 original size:23 final size:23
Alignment explanation
Indices: 93005--93049 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
92995 CACCATAGCT
*
93005 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
93028 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
93050 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:93287 original size:149 final size:149
Alignment explanation
Indices: 93017--93331 Score: 578
Period size: 149 Copynumber: 2.1 Consensus size: 149
93007 TATAATTGCA
93017 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
93081 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* * *
93146 CTACAGAATATATATATATC
130 CCAAAGAATATACATATATC
93166 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
93231 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
93296 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
93315 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
93332 CCCTCGACTC
Statistics
Matches: 161, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
148 1 0.01
149 160 0.99
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:94863 original size:21 final size:21
Alignment explanation
Indices: 94839--94883 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94829 TTTTGTTCGT
* *
94839 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
94860 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
94881 TTG
1 TTG
94884 CCCATAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:100798 original size:2 final size:2
Alignment explanation
Indices: 100791--100829 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
100781 ACTTTAATGG
100791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100830 GAATTCTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:103586 original size:2 final size:2
Alignment explanation
Indices: 103579--103609 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
103569 AAAATATCAT
103579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103610 CAACTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105108 original size:60 final size:60
Alignment explanation
Indices: 104963--105137 Score: 194
Period size: 60 Copynumber: 2.9 Consensus size: 60
104953 TTTGGATGAA
* * * *
104963 TTTGGGGATGAATTTGGAAGATTCAAAAGTTT-GGAGACCAATTTAGAAAGAGGGTCATAG
1 TTTGGGGATGAATTTGGAATATTCAAAAGTTTAAG-GACCAATTTAGAATGAGAGTCATAG
* * * * * *
105023 TTTAGGGATAAAATT-AAAGTGTTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG
1 TTTGGGGATGAATTTGGAA-TATTCAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
**
105083 TTTGGGGATGAATTTGGTTTATTCAAAAGTTTAAGGACCAATTT-GAAATGAGAGT
1 TTTGGGGATGAATTTGGAATATTCAAAAGTTTAAGGACCAATTTAG-AATGAGAGT
105138 TATACTTGGG
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
59 3 0.03
60 89 0.96
61 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (60 bp):
TTTGGGGATGAATTTGGAATATTCAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
Found at i:118527 original size:20 final size:21
Alignment explanation
Indices: 118490--118528 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
118480 AATCTCATTT
*
118490 AGTTCTTCTTTTAAATTCTTC
1 AGTTCTTCTTTCAAATTCTTC
*
118511 AGTTC-TCTTTCAGATTCT
1 AGTTCTTCTTTCAAATTCT
118529 GATAGCCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (21 bp):
AGTTCTTCTTTCAAATTCTTC
Found at i:121599 original size:182 final size:182
Alignment explanation
Indices: 121230--121701 Score: 671
Period size: 180 Copynumber: 2.6 Consensus size: 182
121220 GATCCAAATT
* * * * **
121230 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
121295 AAACCGGTAAAGC-ACTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
66 AAACCGGTAAAACGA-TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* **
121359 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCAATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCAATACTTAAA
* ** *
121412 AAAAATGTATCGATCCAAAACGATATACCAAATAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
121477 AAACCAGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** * *
121541 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTAAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCAATACTTAAA
* *
121593 AAAAA-ATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
121657 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
121702 CGTAAGTACG
Statistics
Matches: 256, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
180 95 0.37
181 68 0.27
182 93 0.36
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCAATACTTAAA
Found at i:121645 original size:20 final size:19
Alignment explanation
Indices: 121622--121668 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
121612 CGATATAACA
121622 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
121642 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
121662 GGTAAAA
1 GGTAAAA
121669 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:121670 original size:17 final size:19
Alignment explanation
Indices: 121631--121673 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
121621 AGGTAAAAAT
121631 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
121651 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
121668 ATGATA
1 ATGATA
121674 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:123915 original size:21 final size:21
Alignment explanation
Indices: 123889--123953 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
123879 AAGACAATCA
*
123889 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
123910 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
123931 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
123952 AG
1 AG
123954 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:124029 original size:33 final size:33
Alignment explanation
Indices: 123987--124052 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
123977 AAATAGATGG
*
123987 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
124020 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
124053 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:125870 original size:19 final size:19
Alignment explanation
Indices: 125846--125894 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
125836 AATGTAGGGT
125846 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
125865 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
125884 TAATTTTGTAT
1 TAATTTTGTAT
125895 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:126845 original size:200 final size:200
Alignment explanation
Indices: 126013--126989 Score: 1737
Period size: 200 Copynumber: 4.9 Consensus size: 200
126003 CAATATGGCC
* *
126013 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGCGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
126078 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
126143 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
126208 TGGAA
196 TGGAA
126213 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
126278 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
126342 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
126407 TGGAA
196 TGGAA
126412 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
126477 CCAAAAGTATAATGTAATATGTAATTTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
66 CCAAAAGTATAATGTAATATGTAA-TTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
126542 AGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
130 AGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
126607 ATGGAA
195 ATGGAA
126613 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* * *
126678 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGCATAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
126743 TAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
126808 TGGCA
196 TGGAA
* *
126813 AACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
126878 CCAAAAGTACAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
126943 GAAT-TGGTATATAAT-ATGTATCGACACTATTTAATGTTT-TGTCGATA
131 GAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
126990 CTAATTTAAA
Statistics
Matches: 749, Mismatches: 23, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
199 198 0.26
200 346 0.46
201 205 0.27
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:128464 original size:6 final size:6
Alignment explanation
Indices: 128453--128510 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
128443 CAAGCGGTCA
* * * * *
128453 ATGAAG ATGAAG CTGACG ATGAAG ATGATG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
128501 ATGATG ATGA
1 ATGAAG ATGA
128511 TCCAAACAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:128484 original size:3 final size:3
Alignment explanation
Indices: 128470--128511 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
128460 TGAAGCTGAC
* * *
128470 GAT GAA GAT GAT GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
128512 CCAAACAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:128491 original size:18 final size:18
Alignment explanation
Indices: 128453--128510 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
128443 CAAGCGGTCA
* * *
128453 ATGAAGATGAAGCTGACG
1 ATGAAGATGATGATGAAG
128471 ATGAAGATGATGATGAAG
1 ATGAAGATGATGATGAAG
* *
128489 ATGACGATGATGATGATG
1 ATGAAGATGATGATGAAG
128507 ATGA
1 ATGA
128511 TCCAAACAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGATGATGAAG
Found at i:128511 original size:12 final size:12
Alignment explanation
Indices: 128453--128510 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
128443 CAAGCGGTCA
*
128453 ATGAAGATGAAG
1 ATGATGATGAAG
* *
128465 CTGACGATGAAG
1 ATGATGATGAAG
128477 ATGATGATGAAG
1 ATGATGATGAAG
* *
128489 ATGACGATGATG
1 ATGATGATGAAG
128501 ATGATGATGA
1 ATGATGATGA
128511 TCCAAACAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:130056 original size:183 final size:183
Alignment explanation
Indices: 129725--131025 Score: 2281
Period size: 183 Copynumber: 7.1 Consensus size: 183
129715 AAGTTTTCAT
* * * *
129725 ACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT-T-
1 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTC
* *
129788 AAGAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
65 AA-AAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
129851 TATAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
126 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
*
129909 ACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
1 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
129974 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
130039 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
* *
130092 ACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TA
1 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTC
*
130156 AAAAAGTGTCGACATTTACACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATATA
65 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
* *
130221 ACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATAGAC
130 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
* * *
130275 ACTTTTTAATATTGTGTCGGAACTTTATGTCCATATTGGAAGAAAAATATGTCGATACATTGTCA
1 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
*
130340 AAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAA
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
130405 CCGGTATAAATATACC-GTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
130457 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
1 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
130522 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
*
130587 CCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGAC
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
130640 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
1 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
*
130705 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATATATAATTTTGTAATATAA
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
* * *
130770 CCAGTATAAATATACCGGTTTTATGAGTGTATAGGTCTACAACCTATATCGAC
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
*
130823 ACTTTCTAATATTGTGTCGGAACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
1 ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
*
130888 AAAAGTGTCGACATTTACACATCGGAACCGAGAATTATAATGTAATAGATAATTTTGTAATATAA
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
130953 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
*
131006 ACTTTTTAATATTGTGTCGG
1 ACTTTCTAATATTGTGTCGG
131026 TAATTTTAAG
Statistics
Matches: 1072, Mismatches: 38, Indels: 15
0.95 0.03 0.01
Matches are distributed among these distances:
182 180 0.17
183 819 0.76
184 68 0.06
185 2 0.00
186 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (183 bp):
ACTTTCTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
Found at i:130476 original size:548 final size:549
Alignment explanation
Indices: 129725--131025 Score: 2299
Period size: 548 Copynumber: 2.4 Consensus size: 549
129715 AAGTTTTCAT
* * *
129725 ACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT-T-
1 ACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTC
* *
129788 AAGAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
65 AA-AAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
129851 TATAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTT
126 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTT
129916 AATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTG
191 AATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTG
129981 TCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT
256 TCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT
*
130046 AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCG
321 AAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCG
*
130111 GTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGACATTTAC
386 GAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTAAAAAAGTGTCGACATTTAC
* *
130175 ACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
450 ACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGG
130240 TTTTATGAGCAAATAGGTCTACAACCTATATAGAC
515 TTTTATGAGCAAATAGGTCTACAACCTATATAGAC
* *
130275 ACTTTTTAATATTGTGTCGGAACTTTATGTCCATATTGGAAGAAAAATATGTCGATACATTGTCA
1 ACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
*
130340 AAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAA
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
*
130405 CCGGTATAAATATACC-GTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATAT
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
130469 TGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGAC
196 TGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGAC
130534 ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
261 ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
130599 TACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGAACT
326 TACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGAACT
*
130664 TTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACATCG
391 TTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTGTCGACATTTACACATCG
*
130729 GAACCCAGAATTATAATGTAATATATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTAT
456 GAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTAT
*** *
130794 GAGTGTATAGGTCTACAACCTATATCGAC
521 GAGCAAATAGGTCTACAACCTATATAGAC
* *
130823 ACTTTCTAATATTGTGTCGGAACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
1 ACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
*
130888 AAAAGTGTCGACATTTACACATCGGAACCGAGAATTATAATGTAATAGATAATTTTGTAATATAA
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
130953 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
131018 TGTGTCGG
196 TGTGTCGG
131026 TAATTTTAAG
Statistics
Matches: 718, Mismatches: 27, Indels: 13
0.95 0.04 0.02
Matches are distributed among these distances:
547 4 0.01
548 526 0.73
549 121 0.17
550 62 0.09
551 2 0.00
552 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (549 bp):
ACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCA
AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
TGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGAC
ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
TACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGTCGGAACT
TTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTAAAAAAGTGTCGACATTTACACATCG
GAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTAT
GAGCAAATAGGTCTACAACCTATATAGAC
Found at i:133880 original size:23 final size:23
Alignment explanation
Indices: 133849--133923 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
133839 ATAGGTAAAA
*
133849 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
133872 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
133895 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
133918 ATATAA
1 ATATAA
133924 AGTATCTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:134168 original size:23 final size:23
Alignment explanation
Indices: 134142--134209 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
134132 GTAAAAATAG
134142 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
134165 ATGTAATAGGTAGCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
134188 ATGTAATAGGTAGTGCTTATAT
1 ATGTAATAGGTAGCGCTTATAT
134210 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:134582 original size:22 final size:21
Alignment explanation
Indices: 134550--134593 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
134540 ATTACATAAC
* *
134550 TTTAAAAAAGTATCGATACTT
1 TTTAAAAAAGTATAGACACTT
134571 TTTATAAAAAGTATAGACACTT
1 TTTA-AAAAAGTATAGACACTT
134593 T
1 T
134594 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (21 bp):
TTTAAAAAAGTATAGACACTT
Found at i:134657 original size:23 final size:23
Alignment explanation
Indices: 134611--134682 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
134601 ATAGGTAAAA
* *
134611 ATATGATGTAATA-GTAGCGCTT
1 ATATAATGTAATAGGTAGCACTT
*
134633 ATATAATGTAATAGGTAGCATTT
1 ATATAATGTAATAGGTAGCACTT
**
134656 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCACTT
134679 ATAT
1 ATAT
134683 TGTAAGTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 12 0.28
23 31 0.72
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:134912 original size:22 final size:22
Alignment explanation
Indices: 134886--134953 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
134876 TATATTTGGT
134886 TAATATTGTTAAATTTAAATTC
1 TAATATTGTTAAATTTAAATTC
* ** *
134908 TAATATTATTTTA-TAAAATGGT-
1 TAATATTGTTAAATTTAAAT--TC
134930 TAATA-TGTTAAATTTAAATTC
1 TAATATTGTTAAATTTAAATTC
134951 TAA
1 TAA
134954 AATATTATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 9
0.67 0.16 0.18
Matches are distributed among these distances:
20 1 0.03
21 12 0.35
22 20 0.59
23 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (22 bp):
TAATATTGTTAAATTTAAATTC
Found at i:134917 original size:44 final size:43
Alignment explanation
Indices: 134869--134970 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 43
134859 TATTACATAT
**
134869 TTATTATTAT-ATTTGGTTAATATTGTTAAATTTAAATTCTAATA
1 TTATTATTATAAAATGGTTAATA-TGTTAAATTTAAATTCTAA-A
134913 TTATT-TTATAAAATGGTTAATATGTTAAATTTAAATTCTAAA
1 TTATTATTATAAAATGGTTAATATGTTAAATTTAAATTCTAAA
*
134955 ATATTATTTATAAAAT
1 TTATTA-TTATAAAAT
134971 ATCAAAACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 5 0.10
43 23 0.44
44 24 0.46
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (43 bp):
TTATTATTATAAAATGGTTAATATGTTAAATTTAAATTCTAAA
Found at i:134940 original size:43 final size:44
Alignment explanation
Indices: 134882--134970 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 44
134872 TTATTATATT
134882 TGGTTAATATTGTTAAATTTAAATTCT-AATATTATTTTATAAAA
1 TGGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAA
134926 TGGTTAATA-TGTTAAATTTAAATTCTAAAATATTATTTATAAAA
1 TGGTTAATATTGTTAAATTTAAATTCT-AAATATTATTTATAAAA
134970 T
1 T
134971 ATCAAAACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
43 17 0.40
44 19 0.44
45 7 0.16
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (44 bp):
TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTATAAAA
Found at i:135195 original size:22 final size:23
Alignment explanation
Indices: 135137--135207 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
135127 ATAGGTAAAA
*
135137 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
135160 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
135183 ATATAA-GTAATAGGTAGTGC-T
1 ATATAATGTAATAGGTAGCGCTT
135204 ATAT
1 ATAT
135208 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.11
22 12 0.27
23 27 0.61
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:135564 original size:473 final size:476
Alignment explanation
Indices: 134926--136073 Score: 1929
Period size: 473 Copynumber: 2.4 Consensus size: 476
134916 TTTTATAAAA
134926 TGGTTAATATGTTAAATTTAAATTCTAAAATATTA-TTTATAAAATATCAAAACAATCAAATAAT
1 TGGTTAATATGTTAAATTTAAATTCT-AAATATTATTTTATAAAATATCAAAACAATCAAATAA-
134990 TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AA-ACTATTAAAAA
64 TTTTTTGTGCAAATGAAA-TATTAAATTAATA-TGTAGGTGGAAAACATGAAACACTATTAAAAA
135053 AATTGAAACATAAATTACATAACTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACT
127 AATTGAAACAT-AATTACATAACTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACT
135118 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTT
191 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTATAT-ATGTAATAGGTAGCGTTT
* *
135183 ATATAAGTAATAGGTAGTGC-TATATTGTAAAGTATCTATCCTTTTTAT-AAAGTGTTCATACTT
254 ATA-AAGTAATAGGTAGTGCTTATATTATAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
*
135246 TTTTCACTGTGGAAAACATTAATTTAAGG-TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
318 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGT
135310 AATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATA-TATTATTAAATTAAAAACAA
383 -ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
135373 TAAACATAT-ATTAATATTTA-TATTATCTT
447 TAAACATATAATT-ATATTTATTATTATCTT
*
135402 TGGTTAATATTGTTAAATTCAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
1 TGGTTAATA-TGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
135467 TTTTTGTGCAAATG-AA-ATTAAATTAATATGTAGGT-GAAAACATGAAACACTATTAAAAAAAA
65 TTTTTGTGCAAATGAAATATTAAATTAATATGTAGGTGGAAAACATGAAACACTATT-AAAAAAA
135529 TTGAAACATAATTACATAACTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTC
129 TTGAAACATAATTACATAACTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTC
*
135594 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTATATATGTAATAGGTAGCGTTTATAAT
194 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTATATATGTAATAGGTAGCGTTTATAAA
135659 GTAATAGGTAGTGCTTATATTATAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
259 GTAATAGGTAGTGCTTATATTATAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
135724 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTATTATA
324 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTATTATA
*
135789 GGCGTCTAATGATTTATTTTTTACTTTACGATATATATTATTATTAAATTAAAAACAATAAACAT
389 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACAT
135854 ATAGATTATATTTATTATTATCTT
454 ATA-ATTATATTTATTATTATCTT
135878 TGGTT-ATATGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-T
1 TGGTTAATATGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
135941 TTTTGTGCAAATGAAATTATTAAATTAAT-TGTAGGTGGAAAACA--AAACACTATT-AAAAAAT
66 TTTTGTGCAAATGAAA-TATTAAATTAATATGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
* * *
136002 TGAAACATAAATACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAAACACTTT
130 TGAAACATAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGACACTTT
136067 CACATAT
193 CA-ATAT
136074 TATAATGTAA
Statistics
Matches: 642, Mismatches: 10, Indels: 41
0.93 0.01 0.06
Matches are distributed among these distances:
470 15 0.02
471 57 0.09
472 108 0.17
473 199 0.31
474 129 0.20
475 23 0.04
476 67 0.10
477 44 0.07
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (476 bp):
TGGTTAATATGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
TTTTGTGCAAATGAAATATTAAATTAATATGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
GAAACATAATTACATAACTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGTTATATATGTAATAGGTAGCGTTTATAAAGT
AATAGGTAGTGCTTATATTATAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATAT
AATTATATTTATTATTATCTT
Found at i:135641 original size:21 final size:22
Alignment explanation
Indices: 135610--135678 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 22
135600 ATAGGTAAAA
*
135610 ATATGATGTAATAGGTAGCGTT
1 ATATAATGTAATAGGTAGCGTT
135632 ATAT-ATGTAATAGGTAGCGTT
1 ATATAATGTAATAGGTAGCGTT
*
135653 -TATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCG-TT
135675 ATAT
1 ATAT
135679 TATAAAGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
20 3 0.07
21 31 0.72
22 6 0.14
23 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:137223 original size:14 final size:15
Alignment explanation
Indices: 137197--137225 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
137187 TCTTGTTTTG
137197 TTATTTATTTTATTA
1 TTATTTATTTTATTA
137212 TTATTT-TTTTATTA
1 TTATTTATTTTATTA
137226 ACAAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTTTATTA
Found at i:138728 original size:30 final size:30
Alignment explanation
Indices: 138694--138778 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
138684 AGTATGCCCC
*
138694 TAATAAAAAATATTGAAGAAATTGGGCTCT
1 TAATAACAAATATTGAAGAAATTGGGCTCT
138724 TAATAACAAATATTGAAGAAATTGGGCTCT
1 TAATAACAAATATTGAAGAAATTGGGCTCT
* *
138754 TAATAACAAATATTAAAAAAATTGG
1 TAATAACAAATATTGAAGAAATTGG
138779 ACCTTTAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.29
Consensus pattern (30 bp):
TAATAACAAATATTGAAGAAATTGGGCTCT
Found at i:138787 original size:30 final size:30
Alignment explanation
Indices: 138694--138809 Score: 135
Period size: 30 Copynumber: 3.8 Consensus size: 30
138684 AGTATGCCCC
* * *
138694 TAATAAAAAATATTGAAGAAATTGGGCTCT
1 TAATAACAAATATTAAAAAAATTGGGCTCT
* *
138724 TAATAACAAATATTGAAGAAATTGGGCTCT
1 TAATAACAAATATTAAAAAAATTGGGCTCT
*
138754 TAATAACAAATATTAAAAAAATTGGAC-CTT
1 TAATAACAAATATTAAAAAAATTGGGCTC-T
* *
138784 TAATAATAAATGTTAAAAAATATTGG
1 TAATAACAAATATTAAAAAA-ATTGG
138810 TAAAAAATTA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
29 1 0.01
30 72 0.92
31 5 0.06
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (30 bp):
TAATAACAAATATTAAAAAAATTGGGCTCT
Found at i:151384 original size:2 final size:2
Alignment explanation
Indices: 151377--151422 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
151367 ATCGACTACC
151377 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
151419 AT AT
1 AT AT
151423 GTTTGTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:153232 original size:19 final size:19
Alignment explanation
Indices: 153208--153249 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
153198 AAGAAATTTG
153208 TTAAGTTGATGATGCAAAA
1 TTAAGTTGATGATGCAAAA
153227 TTAAGTTGATGATGCAAAA
1 TTAAGTTGATGATGCAAAA
153246 TTAA
1 TTAA
153250 CTTCGATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGATGATGCAAAA
Found at i:157142 original size:16 final size:15
Alignment explanation
Indices: 157121--157154 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
157111 AGAGATGTTT
*
157121 ATGGAGGTTTGATTAG
1 ATGGAGGTTCGATT-G
157137 ATGGAGGTTCGATTG
1 ATGGAGGTTCGATTG
157152 ATG
1 ATG
157155 ATAACGGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.03, G:0.38, T:0.35
Consensus pattern (15 bp):
ATGGAGGTTCGATTG
Found at i:163673 original size:72 final size:72
Alignment explanation
Indices: 163556--163703 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
163546 CGTAAGTGGC
163556 AATACCACGAAACTGTCAGTGGCATCAATGAGTATGATCATCCTATCAATCATCATTCCTCATAG
1 AATACCACGAAACTGTCAGTGGCATCAATGAGTATGATCATCCTATCAATCATCATTCCTCATAG
163621 CCATCAG
66 CCATCAG
* *
163628 AATACCACGAAACTGTCAGTGGCATCCATGAGTATGATCATCCTATCAATCATCATTCCTCGTAG
1 AATACCACGAAACTGTCAGTGGCATCAATGAGTATGATCATCCTATCAATCATCATTCCTCATAG
163693 CCATCAG
66 CCATCAG
163700 AATA
1 AATA
163704 ATCATCAGGC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (72 bp):
AATACCACGAAACTGTCAGTGGCATCAATGAGTATGATCATCCTATCAATCATCATTCCTCATAG
CCATCAG
Found at i:170473 original size:26 final size:26
Alignment explanation
Indices: 170444--170494 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
170434 AGAATGTAAC
170444 AGAAGAGCCATGTTTAGCCCATAAAT
1 AGAAGAGCCATGTTTAGCCCATAAAT
170470 AGAAGAGCCATGTTTAGCCCATAAA
1 AGAAGAGCCATGTTTAGCCCATAAA
170495 CAAGGAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
AGAAGAGCCATGTTTAGCCCATAAAT
Done.