Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002912.1 Hibiscus syriacus cultivar Beakdansim tig00006019_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: 96118
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:558 original size:21 final size:21
Alignment explanation
Indices: 532--575 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
522 ATTTTATTCG
* *
532 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
553 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
574 CT
1 CT
576 AGCCCGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:3304 original size:23 final size:23
Alignment explanation
Indices: 3278--3331 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
3268 ATGTGGATTG
3278 TGTAACATCATCATTGATGTATA
1 TGTAACATCATCATTGATGTATA
3301 TGTAACATCATCATTGATGTATA
1 TGTAACATCATCATTGATGTATA
*
3324 TATAACAT
1 TGTAACAT
3332 TTATCACGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (23 bp):
TGTAACATCATCATTGATGTATA
Found at i:10593 original size:3 final size:3
Alignment explanation
Indices: 10585--10619 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10575 TAACTTAAAC
10585 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10620 AGTATTCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10948 original size:29 final size:30
Alignment explanation
Indices: 10914--10971 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
10904 AGTTTATTTT
* * *
10914 AATATA-AAAATCAAAATTTTATGTATAGA
1 AATATATAAAATAAAAATTATATATATAGA
10943 AATATATTAAAATAAAAATTATATATATA
1 AATATA-TAAAATAAAAATTATATATATA
10972 TATCGTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
31 18 0.75
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (30 bp):
AATATATAAAATAAAAATTATATATATAGA
Found at i:16950 original size:10 final size:10
Alignment explanation
Indices: 16935--16959 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16925 TAACAGCTAA
16935 AGAAAATAAG
1 AGAAAATAAG
16945 AGAAAATAAG
1 AGAAAATAAG
16955 AGAAA
1 AGAAA
16960 CCCATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAATAAG
Found at i:17402 original size:74 final size:72
Alignment explanation
Indices: 17295--17433 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 72
17285 AGATCTCGAA
* *
17295 CTTATTTTTGGACCCTTATTTTTTGGGACTTCTTAATGGCAATAACTGATAAATATACTTGATTT
1 CTTATTTTTGGACCCTTATTTTTTGGGACTTCTTAATGACAACAACTGATAAATATACTTGATTT
17360 CGTGGCT
66 CGTGGCT
* *
17367 CTTATTTTTTGGGA-CCTCTATTTTTTAGGG-TTTCTTAATGACAACAACTGATAGATATACTTG
1 CTTA-TTTTT-GGACCCT-TATTTTTT-GGGACTTCTTAATGACAACAACTGATAAATATACTTG
17430 ATTT
62 ATTT
17434 AGGAGCCCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
72 4 0.07
73 8 0.14
74 44 0.75
75 3 0.05
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.45
Consensus pattern (72 bp):
CTTATTTTTGGACCCTTATTTTTTGGGACTTCTTAATGACAACAACTGATAAATATACTTGATTT
CGTGGCT
Found at i:17449 original size:74 final size:73
Alignment explanation
Indices: 17295--17449 Score: 185
Period size: 74 Copynumber: 2.1 Consensus size: 73
17285 AGATCTCGAA
* *
17295 CTTA-TTTTTGGACCCTTATTTTTTGGGACTTCTTAATGGCAATAACTGATAAATATACTTGATT
1 CTTATTTTTTGGACCCTTATTTTTTGGGACTTCTTAATGACAACAACTGATAAATATACTTGATT
* *
17359 TCGTGGCT
66 TAGTGGCC
* *
17367 CTTATTTTTTGGGA-CCTCTATTTTTTAGGG-TTTCTTAATGACAACAACTGATAGATATACTTG
1 CTTATTTTTT-GGACCCT-TATTTTTT-GGGACTTCTTAATGACAACAACTGATAAATATACTTG
17430 ATTTAG-GAGCC
63 ATTTAGTG-GCC
17441 C-TATTTTTT
1 CTTATTTTTT
17450 AGAGTACTGC
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
72 4 0.06
73 17 0.24
74 48 0.67
75 3 0.04
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (73 bp):
CTTATTTTTTGGACCCTTATTTTTTGGGACTTCTTAATGACAACAACTGATAAATATACTTGATT
TAGTGGCC
Found at i:21147 original size:182 final size:182
Alignment explanation
Indices: 20830--21208 Score: 543
Period size: 182 Copynumber: 2.1 Consensus size: 182
20820 TTTTTACTAT
* * *
20830 CGATTTTGTCATTTCGAGATTGATTTTGCCATATTTTTACCTGTTATATTATTATGGATCGATAC
1 CGATTTTGTCATTTTGAGACTGATTTTGCCATATTTTTACCTGTTATATTATTATGAATCGATAC
* * *
20895 ATTTTTATAAAATATCGACACTTTATTGACGCTATACTATATTTTCTTTTAAATTTTAAAAGTAT
66 ATTTTTATAAAATATCAACACTTTATTGACGCTATACTATATTCTCTTTTAAATTCTAAAAGTAT
* * * *
20960 CGATACTTATAATAAAGTATCGACACTTTTAACATATCTAG-TAACTCTTTAC
131 CGATACTTATAATAAAATATCGACACTATCAACATATC-AGATAACGCTTTAC
* *
21012 CGATTTTGTCATTTTGAGACTGATTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATAC
1 CGATTTTGTCATTTTGAGACTGATTTTGCCATATTTTTACCTGTTATATTATTATGAATCGATAC
*
21077 ATTTTTATAAAATATCAACACTTTATT-AGCGCTATAACT-TCTTCTCTTTTAAATTCTAATAA-
66 ATTTTTATAAAATATCAACACTTTATTGA-CGCTAT-ACTATATTCTCTTTTAAATTCTAA-AAG
* *
21139 TGTCGATACTTATAATAAAATATCGACACTATCAACATATCAGATAGCGCTTTAC
128 TATCGATACTTATAATAAAATATCGACACTATCAACATATCAGATAACGCTTTAC
21194 CTG-TTTTGTCATTTT
1 C-GATTTTGTCATTTT
21209 TTTACATGTT
Statistics
Matches: 177, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
181 3 0.02
182 168 0.95
183 6 0.03
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (182 bp):
CGATTTTGTCATTTTGAGACTGATTTTGCCATATTTTTACCTGTTATATTATTATGAATCGATAC
ATTTTTATAAAATATCAACACTTTATTGACGCTATACTATATTCTCTTTTAAATTCTAAAAGTAT
CGATACTTATAATAAAATATCGACACTATCAACATATCAGATAACGCTTTAC
Found at i:21596 original size:111 final size:112
Alignment explanation
Indices: 21197--21707 Score: 742
Period size: 114 Copynumber: 4.6 Consensus size: 112
21187 GCTTTACCTG
*
21197 TTTTGTCATTTTTTTACATGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTT
* * *
21262 TCAATATATCTGATAACGCTTTACTTGTTTTGTCATTTATAGACCGA
66 TCAATATATCCGATAACGTTTTACCTGTTTTGTCATTTATAGACCGA
* * * * *
21309 TTTTATCATTTTTTTTTACCTGTTATATTATTATAGATAGATACATTTTTATAAAATATCAACAC
1 TTTTGTCA--TTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACAC
* * * *
21374 TTTCAATATATCCGGTAACGTTTTACATGTTTTGTCACTTATAGATCG-
64 TTTCAATATATCCGATAACGTTTTACCTGTTTTGTCATTTATAGACCGA
* *
21422 -GTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTT
* *
21486 TCAATATATCCGATAA-ATCTTTACCTGTTTTGTCATTTATAGACCAA
66 TCAATATATCCGATAACGT-TTTACCTGTTTTGTCATTTATAGACCGA
* *
21533 TTTTGTCATTTTTTTACCTGTTAT-TTGTTATGGATCGATACATTTTTATAAAATATCGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTT
* * *
21597 TCAATATATCTGGTAACGTTTTACCTGTTTTGTCATTTATAAACCGA
66 TCAATATATCCGATAACGTTTTACCTGTTTTGTCATTTATAGACCGA
* *
21644 TTTTGTTATTTTTTTTACCTGTTATATTATTATGGATCAATACATTTTTATAAAGTATCGACAC
1 TTTTGTCA-TTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACAC
21708 AAACCGACAA
Statistics
Matches: 355, Mismatches: 36, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
109 1 0.00
110 90 0.25
111 86 0.24
112 51 0.14
113 35 0.10
114 92 0.26
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.48
Consensus pattern (112 bp):
TTTTGTCATTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTT
TCAATATATCCGATAACGTTTTACCTGTTTTGTCATTTATAGACCGA
Found at i:34073 original size:18 final size:18
Alignment explanation
Indices: 34050--34094 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
34040 AACATTCCCA
34050 GTAATCTTATTCCCGA-TG
1 GTAATCTTATT-CCGATTG
* *
34068 GTAATCCTATTCCTATTG
1 GTAATCTTATTCCGATTG
34086 GTAATCTTA
1 GTAATCTTA
34095 CATTCCGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (18 bp):
GTAATCTTATTCCGATTG
Found at i:36405 original size:3 final size:3
Alignment explanation
Indices: 36386--36421 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
36376 CAAAATAGTG
*
36386 TAA TAA TAC TAA TTAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
36422 TAAACCCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:36765 original size:117 final size:110
Alignment explanation
Indices: 36542--36829 Score: 313
Period size: 117 Copynumber: 2.6 Consensus size: 110
36532 CGTCGTTGGA
* *
36542 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTGGATGAG--TTCTCATTATAAACTC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-TGGATGAGTTTTCTCATTATGAACTC
* * *
36605 TTCACTGAAAATGTTGAGTCACCTATTTATGTGGTGGACTTGAAATCAACG
65 TCCACTGAAAATGTTGAGTCACCTACTTATGTGGTGAACTTG--A--AA-G
*
36656 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCCATTGGATGAGTTCTTCTCATTATGAACT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCCTTTGGATGAGTT-TTCTCATTATGAACT
* * * * * *
36721 CTCCACTGGAAATGTTTA-TCCATCTCCTTCTGTGGTGAATTTGAAAG
64 CTCCACTGAAAATGTTGAGT-CACCTACTTATGTGGTGAACTTGAAAG
36768 --GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCTTTAGGATGAGTTATTCTCATTATGAACT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTT-GGATGAGTT-TTCTCATTATGAACT
36828 CT
64 CT
36830 TTTGGAAATA
Statistics
Matches: 154, Mismatches: 14, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
106 4 0.03
107 27 0.18
108 3 0.02
109 1 0.01
110 24 0.16
112 1 0.01
113 2 0.01
114 40 0.26
115 5 0.03
116 1 0.01
117 46 0.30
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (110 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTTGGATGAGTTTTCTCATTATGAACTCT
CCACTGAAAATGTTGAGTCACCTACTTATGTGGTGAACTTGAAAG
Found at i:37005 original size:136 final size:135
Alignment explanation
Indices: 36768--37109 Score: 471
Period size: 136 Copynumber: 2.6 Consensus size: 135
36758 AATTTGAAAG
* * *
36768 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCT-T-TAGGATGAGTTATTCTCATTATGAA-C
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAATC
** * * *
36827 TCTTTTGGAAATATCAATCCCTCAAGCGATGCGTCACTGATTCAAAATATCGTGAATCAAGTGAT
66 TCAATTGGAAATATCAATCCCTCAAGCAAGGCGTCACTGATTCAAAATACCGTGAATCAAGTGAT
36892 AGGTC
131 AGGTC
*
36897 GAACAAGCTCTTCTCATTATGGACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAATT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAA-T
* * * * *
36962 CTCAATTGGAAATGTCAATCCCTCAAGTAAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGA
65 CTCAATTGGAAATATCAATCCCTCAAGCAAGGCGTCACTGATTCAAAATACCGTGAATCAAGTGA
37027 TAGGTC
130 TAGGTC
*
37033 GAATAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAA-T
* *
37098 CTCCACTGGAAA
65 CTCAATTGGAAA
37110 CACTGATGTG
Statistics
Matches: 187, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
129 22 0.12
130 1 0.01
131 4 0.02
132 3 0.02
133 1 0.01
134 23 0.12
136 133 0.71
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAATC
TCAATTGGAAATATCAATCCCTCAAGCAAGGCGTCACTGATTCAAAATACCGTGAATCAAGTGAT
AGGTC
Found at i:37229 original size:227 final size:227
Alignment explanation
Indices: 36895--37555 Score: 1011
Period size: 227 Copynumber: 2.9 Consensus size: 227
36885 AAGTGATAGG
* * * *
36895 TCGAACAAGCTCTTCTCATTATGGACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAA
1 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTC-GTTGGATGAGTTCTTCTCATTATGAA
* * * ** * ** * *
36960 TTC-TCAATTGGAAATGTCAATCCCTCAAGTAAGGTGTCACTGATTCGAAATACCGTGAATCGAG
65 CTCTTC-ACTGAAAATGTTGATTCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAG
*
37024 TGATAGGTCGAATAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCA
129 TGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCA
37089 TTATGAACTCTCCACTGGAAACACTGATGTGAGA
194 TTATGAACTCTCCACTGGAAACACTGATGTGAGA
*
37123 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTTAGATGAGTTCTTCTCATTATGAAC
1 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
* * * * * *
37188 TCTTCACTGAAAATGTTGCTTCCTCAAGGGAGACATCACTGATTCGAAATGTCGTGAATCTAGTG
66 TCTTCACTGAAAATGTTGATTCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTG
*
37253 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATAAGTTCTTCTCATT
131 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
37318 ATGAACTCTCCACTGGAAACACTGATGTGAGA
196 ATGAACTCTCCACTGGAAACACTGATGTGAGA
37350 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
1 TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
*
37415 TCTTCACTGAAAATGTTGATTCCTTAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTG
66 TCTTCACTGAAAATGTTGATTCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTG
* * * * * **
37480 ATATGTCGAACAAGCTCTTTTCATTATGAACTTCTTATCTCT-TATTTGATGAGTTCTTCTCATT
131 ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
37544 ATGAACTCTCCA
196 ATGAACTCTCCA
37556 TTGGGAATGT
Statistics
Matches: 394, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
226 30 0.08
227 327 0.83
228 37 0.09
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (227 bp):
TCGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
TCTTCACTGAAAATGTTGATTCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTG
ATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATT
ATGAACTCTCCACTGGAAACACTGATGTGAGA
Found at i:37943 original size:15 final size:15
Alignment explanation
Indices: 37923--37962 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
37913 AAATGAAAAA
*
37923 TGTCTCAAGCGATAC
1 TGTCTCAAGCGAGAC
*
37938 TGTCTCAAGGGAGAC
1 TGTCTCAAGCGAGAC
37953 TGTCTCAAGC
1 TGTCTCAAGC
37963 AAAGAGAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (15 bp):
TGTCTCAAGCGAGAC
Found at i:38035 original size:38 final size:38
Alignment explanation
Indices: 37975--38757 Score: 155
Period size: 40 Copynumber: 20.5 Consensus size: 38
37965 AGAGAAGTAG
* *
37975 GTTTTAAGA-AAAACCATCTCAAGGGAGACAAAACTTT
1 GTTTCAAGAGAAAACAATCTCAAGGGAGACAAAACTTT
* * *
38012 GTTTCAAGAGAAAA-AAGTCTCAAGCGAGAC-GAA-GTT
1 GTTTCAAGAGAAAACAA-TCTCAAGGGAGACAAAACTTT
* * * * *
38048 GATTTTAAGA-AAAACCATTTTAAGGGAGATAAAACTTT
1 G-TTTCAAGAGAAAACAATCTCAAGGGAGACAAAACTTT
***
38086 GTTTCAAGAG-AAATTGTCTC-------A-AAAAC-TT
1 GTTTCAAGAGAAAACAATCTCAAGGGAGACAAAACTTT
* **
38114 GTTTCAAAAG-AAACTGTCTCAAGGGAGACAAAAC-TT
1 GTTTCAAGAGAAAACAATCTCAAGGGAGACAAAACTTT
* ** **
38150 GTTTCAAG-GGAAACGTTCTC-------A-AAAGTTTGT
1 GTTTCAAGAGAAAACAATCTCAAGGGAGACAAAACTT-T
* *
38180 GTTTCAAGAG-AAACTATCTCAAGAGAGACAAAATCTTCT
1 GTTTCAAGAGAAAACAATCTCAAGGGAGACAAAA-CTT-T
* * * * *
38219 GTTTCGAG-GGAAACTATCTCAAGCGAGATAAAATCTTTT
1 GTTTCAAGAGAAAACAATCTCAAGGGAGACAAAA-C-TTT
** * *
38258 GTTTCAAG-GAAAACCAATCTTGAGCGAGATAAAATCTTCT
1 GTTTCAAGAGAAAA-CAATCTCAAGGGAGACAAAA-CTT-T
* * *
38298 GTTTCAAG-GAAAAACAATCTTGAA-TGAGATAAAATCTTCT
1 GTTTCAAGAG-AAAACAATC-TCAAGGGAGACAAAA-CTT-T
* * *
38338 GTTTCAAG-GAAAAACAATCTTGAA-TGAGATAAAATCTTTT
1 GTTTCAAGAG-AAAACAATC-TCAAGGGAGACAAAA-C-TTT
* * *
38378 GTTTCAAG-GAAAAACAATCTTGAA-TGAGATAAAATCTTAT
1 GTTTCAAGAG-AAAACAATC-TCAAGGGAGACAAAA-CTT-T
** * *
38418 GTTTCAAG-GAAAAACAATCTTGAGTGAGATAAAATCTTTT
1 GTTTCAAGAG-AAAACAATCTCAAGGGAGACAAAA-C-TTT
* * * *
38458 GTTTCAAG-GAAAAACAATCTTGAA-TGAAATAAAATCTTCT
1 GTTTCAAGAG-AAAACAATC-TCAAGGGAGACAAAA-CTT-T
** * *
38498 GTTTCAAG-GAAAAACAATCTTGAGTGAGATAAAATCTTAT
1 GTTTCAAGAG-AAAACAATCTCAAGGGAGACAAAA-CTT-T
** * *
38538 GTTTCAAG-GAAAAACAATCTTGAGTGAGATAAAATCTTCT
1 GTTTCAAGAG-AAAACAATCTCAAGGGAGACAAAA-CTT-T
** * *
38578 GTTTCAAG-GAAAAACAATCTTGAGTGAGATAAAATCTTT
1 GTTTCAAGAG-AAAACAATCTCAAGGGAGACAAAA-CTTT
** * *
38617 CGTTTCAAG-GAAAAACAATCTTGAGTGAGATAAAATCTTTT
1 -GTTTCAAGAG-AAAACAATCTCAAGGGAGACAAAA-C-TTT
** * *
38658 GTTTCAAG-GAAAAACAATCTTGAGTGAGATAAAATCTTCT
1 GTTTCAAGAG-AAAACAATCTCAAGGGAGACAAAA-CTT-T
* * *
38698 GTTTCAAG-GAAAAACAATCTTGAA-TGAGATAAAATCTTAT
1 GTTTCAAGAG-AAAACAATC-TCAAGGGAGACAAAA-CTT-T
38738 GTTTCAAG-GAAAAACAATCT
1 GTTTCAAGAG-AAAACAATCT
38758 TGAGTGAGAT
Statistics
Matches: 646, Mismatches: 55, Indels: 88
0.82 0.07 0.11
Matches are distributed among these distances:
28 23 0.04
29 7 0.01
30 18 0.03
31 1 0.00
35 2 0.00
36 38 0.06
37 34 0.05
38 23 0.04
39 59 0.09
40 424 0.66
41 17 0.03
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (38 bp):
GTTTCAAGAGAAAACAATCTCAAGGGAGACAAAACTTT
Found at i:38075 original size:74 final size:74
Alignment explanation
Indices: 37954--38098 Score: 220
Period size: 74 Copynumber: 2.0 Consensus size: 74
37944 AAGGGAGACT
*
37954 GTCTCAAGCAAAGAGAAGTAGGTTTTAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCAA
1 GTCTCAAGCAAAGAGAAGTAGATTTTAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCAA
38019 GAGAAAAAA
66 GAGAAAAAA
* * * * *
38028 GTCTCAAGC-GAGACGAAGTTGATTTTAAGAAAAACCATTTTAAGGGAGATAAAACTTTGTTTCA
1 GTCTCAAGCAAAGA-GAAGTAGATTTTAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCA
38092 AGAGAAA
65 AGAGAAA
38099 TTGTCTCAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 3 0.05
74 61 0.95
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (74 bp):
GTCTCAAGCAAAGAGAAGTAGATTTTAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCAA
GAGAAAAAA
Found at i:38118 original size:28 final size:29
Alignment explanation
Indices: 38078--38135 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
38068 TAAGGGAGAT
* *
38078 AAAACTTTGTTTCAAGAGAAATTGTCTCA
1 AAAACTTTGTTTCAAAAGAAACTGTCTCA
38107 AAAAC-TTGTTTCAAAAGAAACTGTCTCA
1 AAAACTTTGTTTCAAAAGAAACTGTCTCA
38135 A
1 A
38136 GGGAGACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (29 bp):
AAAACTTTGTTTCAAAAGAAACTGTCTCA
Found at i:38170 original size:64 final size:67
Alignment explanation
Indices: 38069--38240 Score: 199
Period size: 66 Copynumber: 2.6 Consensus size: 67
38059 AAACCATTTT
* * * * *
38069 AAGGGAGATAAAACTTTGTTTCAAGAGAAATTGTCTCAAAA-ACT-TGTTTCAAAAGAAACTGTC
1 AAGGGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAAAGACTGTGTTTCAAAAGAAACTATC
38132 TC
66 TC
** *
38134 AAGGGAGACAAAAC-TTGTTTCAAGGGAAACGT-TCTCAAAAGTTTGTGTTTCAAGAGAAACTAT
1 AAGGGAGACAAAACTTTGTTTCAAGGGAAAC-TATCTCAAAAGACTGTGTTTCAAAAGAAACTAT
38197 CTC
65 CTC
* *
38200 AAGAGAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAA
1 AAGGGAGACAAAA-CTT-TGTTTCAAGGGAAACTATCTCAA
38241 GCGAGATAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
64 22 0.24
65 15 0.16
66 31 0.34
67 1 0.01
68 2 0.02
69 20 0.22
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (67 bp):
AAGGGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAAAGACTGTGTTTCAAAAGAAACTATC
TC
Found at i:38293 original size:40 final size:40
Alignment explanation
Indices: 38204--38779 Score: 931
Period size: 40 Copynumber: 14.4 Consensus size: 40
38194 TATCTCAAGA
* * * * ** *
38204 GAGACAAAATCTTCTGTTTCGAGG-GAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * *
38243 GAGATAAAATCTTTTGTTTCAAGGAAAACCAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
38283 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
38323 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
38363 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
38403 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
38443 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
38483 GAAATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
38523 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
38563 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
38603 GAGATAAAATCTT-TCGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCT-GTTTCAAGGAAAAACAATCTTGAGT
*
38643 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
38683 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
38723 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
38763 GAGATAAAATCTTCTGT
1 GAGATAAAATCTTCTGT
38780 ATTAAATGAG
Statistics
Matches: 506, Mismatches: 28, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
39 22 0.04
40 483 0.95
41 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
Found at i:38316 original size:23 final size:23
Alignment explanation
Indices: 38290--38358 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
38280 AGCGAGATAA
38290 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
* *
38313 AATC-T-TG----AATGAGATAA-
1 AATCTTCTGTTTCAAGGA-AAAAC
38330 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
38353 AATCTT
1 AATCTT
38359 GAATGAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 16
0.63 0.07 0.30
Matches are distributed among these distances:
17 8 0.24
18 4 0.12
19 2 0.06
21 2 0.06
22 4 0.12
23 14 0.41
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (23 bp):
AATCTTCTGTTTCAAGGAAAAAC
Found at i:44038 original size:6 final size:6
Alignment explanation
Indices: 44029--44060 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
44019 CAAATATGTG
*
44029 AATGCA AATGTA AATGCA AATGCA AATGCA AA
1 AATGCA AATGCA AATGCA AATGCA AATGCA AA
44061 AGGTATCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (6 bp):
AATGCA
Found at i:44044 original size:12 final size:12
Alignment explanation
Indices: 44014--44060 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
44004 CAAACGTAAA
44014 AAATGCAAATATGT
1 AAATGC-AA-ATGT
*
44028 GAATGCAAATGT
1 AAATGCAAATGT
*
44040 AAATGCAAATGC
1 AAATGCAAATGT
44052 AAATGCAAA
1 AAATGCAAA
44061 AGGTATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
12 23 0.77
13 2 0.07
14 5 0.17
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:47647 original size:25 final size:25
Alignment explanation
Indices: 47617--47670 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
47607 CTTCAATTAT
47617 TGATGAAAATGTTCTTGTTTATTGC
1 TGATGAAAATGTTCTTGTTTATTGC
47642 TGATGAAAATGTTCTTGTTTATTGC
1 TGATGAAAATGTTCTTGTTTATTGC
47667 TGAT
1 TGAT
47671 AATCGGTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.48
Consensus pattern (25 bp):
TGATGAAAATGTTCTTGTTTATTGC
Found at i:48656 original size:20 final size:20
Alignment explanation
Indices: 48633--48709 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 20
48623 TATATTCCTT
48633 TTTTTATT-TATATTATATTA
1 TTTTTATTATATA-TATATTA
48653 TTTTTATTATATATATATCT-
1 TTTTTATTATATATATAT-TA
* *
48673 TATATCATTATATATATA-TA
1 T-TTTTATTATATATATATTA
* *
48693 TATATA-TATATATATAT
1 TTTTTATTATATATATAT
48710 GTATAGATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
18 10 0.22
19 2 0.04
20 15 0.33
21 19 0.41
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATTATATATATATTA
Found at i:48667 original size:2 final size:2
Alignment explanation
Indices: 48660--48714 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
48650 TTATTTTTAT
*
48660 TA TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
*
48701 TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA
48715 GATGTATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.91
3 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48765 original size:17 final size:17
Alignment explanation
Indices: 48745--48804 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
48735 TTTACTATGC
48745 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
* *
48762 ATATTATATTTTATACGTTTTT
1 ATA-TATATTTT-T---TCTTA
48784 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
48801 ATAT
1 ATAT
48805 TCTATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 1 0.03
20 1 0.03
21 8 0.24
22 6 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATATATTTTTTCTTA
Found at i:49009 original size:18 final size:16
Alignment explanation
Indices: 48976--49022 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
48966 TATGTACACA
*
48976 TTATTTTTTATTCCTTT
1 TTATTTTTT-TACCTTT
48993 TTAATTTCTTTTACCTTT
1 TT-ATTT-TTTTACCTTT
49011 TTATTTTTTTAC
1 TTATTTTTTTAC
49023 TCAATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.22
17 6 0.22
18 12 0.44
19 3 0.11
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTTTTTACCTTT
Found at i:49106 original size:9 final size:9
Alignment explanation
Indices: 49050--49106 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 9
49040 TTTATCTGTG
49050 TTTTTATT-
1 TTTTTATTA
**
49058 TTTTTAACA
1 TTTTTATTA
49067 -TTTTATTCA
1 TTTTTATT-A
49076 TTTTGT-TTA
1 TTTT-TATTA
49085 TTTTTATT-
1 TTTTTATTA
49093 TTTTTATTA
1 TTTTTATTA
49102 TTTTT
1 TTTTT
49107 TACGTGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
8 20 0.51
9 13 0.33
10 5 0.13
11 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTATTA
Found at i:50713 original size:17 final size:17
Alignment explanation
Indices: 50691--50728 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
50681 AACGGTCAAC
*
50691 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGATCG
50708 GGTCAACGGTCGGATCG
1 GGTCAACGGTCGGATCG
50725 GGTC
1 GGTC
50729 GGGTCAGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGATCG
Found at i:50713 original size:24 final size:25
Alignment explanation
Indices: 50684--50744 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
50674 CACGGTCAAC
50684 GGTCAACGGTCAACGG-TCGGGTCG
1 GGTCAACGGTCAACGGATCGGGTCG
50708 GGTCAACGGT---CGGATCGGGTCG
1 GGTCAACGGTCAACGGATCGGGTCG
50730 GGTCAGACCGGTCAA
1 GGTCA-A-CGGTCAA
50745 AAATGGTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 3 0.10
22 13 0.42
23 1 0.03
24 14 0.45
ACGTcount: A:0.18, C:0.25, G:0.41, T:0.16
Consensus pattern (25 bp):
GGTCAACGGTCAACGGATCGGGTCG
Found at i:50718 original size:7 final size:7
Alignment explanation
Indices: 50663--50701 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
50653 GGTCAAAGGA
50663 GGTCAAC
1 GGTCAAC
50670 GTGTC-AC
1 G-GTCAAC
50677 GGTCAAC
1 GGTCAAC
50684 GGTCAAC
1 GGTCAAC
50691 GGTCAAC
1 GGTCAAC
50698 GGTC
1 GGTC
50702 GGGTCGGGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 3 0.10
7 24 0.80
8 3 0.10
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (7 bp):
GGTCAAC
Found at i:57877 original size:13 final size:14
Alignment explanation
Indices: 57859--57887 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
57849 TCAAAGGAGA
57859 TCAACGGTC-ACGG
1 TCAACGGTCAACGG
57872 TCAACGGTCAACGG
1 TCAACGGTCAACGG
57886 TC
1 TC
57888 GGGTCGGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (14 bp):
TCAACGGTCAACGG
Found at i:57899 original size:17 final size:17
Alignment explanation
Indices: 57877--57924 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
57867 CACGGTCAAC
57877 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
57894 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
57911 GGTC-A-GGTCGGGTC
1 GGTCAACGGTCGGGTC
57925 AGACCGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.29
16 1 0.03
17 21 0.68
ACGTcount: A:0.10, C:0.23, G:0.48, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:57904 original size:7 final size:7
Alignment explanation
Indices: 57859--57887 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
57849 TCAAAGGAGA
57859 TCAACGG
1 TCAACGG
57866 TC-ACGG
1 TCAACGG
57872 TCAACGG
1 TCAACGG
57879 TCAACGG
1 TCAACGG
57886 TC
1 TC
57888 GGGTCGGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (7 bp):
TCAACGG
Found at i:60105 original size:36 final size:36
Alignment explanation
Indices: 60072--60139 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
60062 TACAAATTGT
60072 AAAATATTTATAT-ATTTTCTTTA-AAAATTAAATTC
1 AAAATATTTATATAATTTT-TTTACAAAATTAAATTC
*
60107 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTACAAAATTAAA
60140 AATATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTACAAAATTAAATTC
Found at i:62265 original size:31 final size:31
Alignment explanation
Indices: 62227--62286 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
62217 CAACTGCGAC
*
62227 GCTATTGCATAGCTTATAATTTGTGTTTCTG
1 GCTATTGCATAGCTTATAATTTGTATTTCTG
62258 GCTATTGCATAGCTTATAATTTGTATTTC
1 GCTATTGCATAGCTTATAATTTGTATTTC
62287 ATGTGGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (31 bp):
GCTATTGCATAGCTTATAATTTGTATTTCTG
Found at i:65808 original size:17 final size:18
Alignment explanation
Indices: 65782--65821 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
65772 GTCCCTAATA
65782 ATAAATATAA-AA-AAAT
1 ATAAATATAAGAACAAAT
65798 ATAAATCATAAGAACAAAT
1 ATAAAT-ATAAGAACAAAT
65817 A-AAAT
1 ATAAAT
65822 TAAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 4 0.19
18 6 0.29
19 5 0.24
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAATATAAGAACAAAT
Found at i:67928 original size:2 final size:2
Alignment explanation
Indices: 67921--67949 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
67911 CACATATGAA
67921 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 A
67950 GAAACTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70965 original size:11 final size:11
Alignment explanation
Indices: 70926--70972 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
70916 CAATTTAACC
70926 TTTTATTTATTA
1 TTTTATTT-TTA
*
70938 TTTTA-TTTGA
1 TTTTATTTTTA
70948 TTATTATTTTTA
1 TT-TTATTTTTA
*
70960 TTTTATTTCTA
1 TTTTATTTTTA
70971 TT
1 TT
70973 ATACACGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.13
11 15 0.50
12 11 0.37
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:71054 original size:3 final size:3
Alignment explanation
Indices: 71027--71068 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
71017 TTTTACCTAA
71027 TAT TAT ATAT ATAT GTAT T-T TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT -TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T
71069 TATTTCTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
2 2 0.06
3 24 0.67
4 10 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:71301 original size:11 final size:11
Alignment explanation
Indices: 71287--71346 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
71277 GTTGTTTTTT
71287 TATTTTTTTAG
1 TATTTTTTTAG
*
71298 TA-TTTTATAGG
1 TATTTTTTTA-G
* * *
71309 TATATATTTAC
1 TATTTTTTTAG
*
71320 TATTTTTTT-T
1 TATTTTTTTAG
71330 TATTTTTTTAG
1 TATTTTTTTAG
71341 TATTTT
1 TATTTT
71347 ATAGGTATAT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
10 15 0.41
11 18 0.49
12 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (11 bp):
TATTTTTTTAG
Found at i:71318 original size:22 final size:22
Alignment explanation
Indices: 71293--71368 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
71283 TTTTTATTTT
*
71293 TTTAGTATTTTATAGGTATATA
1 TTTACTATTTTATAGGTATATA
*** * *
71315 TTTACTATTTT-TTTTTATTTT
1 TTTACTATTTTATAGGTATATA
*
71336 TTTAGTATTTTATAGGTATATA
1 TTTACTATTTTATAGGTATATA
71358 TTTACTATTTT
1 TTTACTATTTT
71369 TTCATTATTA
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
21 15 0.38
22 25 0.62
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.64
Consensus pattern (22 bp):
TTTACTATTTTATAGGTATATA
Found at i:71330 original size:43 final size:43
Alignment explanation
Indices: 71281--71370 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
71271 AGATTTGTTG
71281 TTTTTTTATTTTTTTAGTATTTTATAGGTATATATTTACTATT
1 TTTTTTTATTTTTTTAGTATTTTATAGGTATATATTTACTATT
71324 TTTTTTTATTTTTTTAGTATTTTATAGGTATATATTTACTATT
1 TTTTTTTATTTTTTTAGTATTTTATAGGTATATATTTACTATT
71367 TTTT
1 TTTT
71371 CATTATTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (43 bp):
TTTTTTTATTTTTTTAGTATTTTATAGGTATATATTTACTATT
Found at i:72628 original size:12 final size:12
Alignment explanation
Indices: 72611--72635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72601 ATATATATAG
72611 TTTTTGAAAACA
1 TTTTTGAAAACA
72623 TTTTTGAAAACA
1 TTTTTGAAAACA
72635 T
1 T
72636 ATATATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:72698 original size:74 final size:75
Alignment explanation
Indices: 72511--72714 Score: 238
Period size: 74 Copynumber: 2.7 Consensus size: 75
72501 TTTTTAATAG
* * * * *
72511 TTTTTAAAAC-TATATAATATATAGTTTTAAAAAAACATTTTAGAAAATATATGTAGTATATAAT
1 TTTTGAAAACTTATAT-ATATATAGTTTT-TAAAAACATTTTTGAAAACATATATAGTATATAAT
*
72575 CTTTTAAAATCA
64 CTTTGAAAATCA
* * *
72587 TTTTGAAAACTTATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATA-T-TGTAGT-T
1 TTTTGAAAACTTATATATATATAGTTTTTAAAAACATTTTTGAAAACATATATAGTATATAATCT
72649 TTGAAAAT-A
66 TTGAAAATCA
*
72658 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAACATTTTTGAAAACTTATATA
1 TTTTGAAAAC--TTATATA-TATATAGTTTTTAAAAACATTTTTGAAAACATATATA
72715 ATATTTTTGA
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
71 11 0.10
72 8 0.07
73 11 0.10
74 36 0.32
75 21 0.19
76 21 0.19
77 5 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (75 bp):
TTTTGAAAACTTATATATATATAGTTTTTAAAAACATTTTTGAAAACATATATAGTATATAATCT
TTGAAAATCA
Found at i:72730 original size:61 final size:62
Alignment explanation
Indices: 72654--72814 Score: 175
Period size: 61 Copynumber: 2.5 Consensus size: 62
72644 TAGTTTTGAA
72654 AATA-TTTTGAAAACATTTATATATTATATAG-TTTTT-AAAAACATTTTTGAAAACTTATAT
1 AATATTTTTGAAAACATTTATATATTATATAGTTTTTTAAAAAACA-TTTTGAAAACTTATAT
** *
72714 AATATTTTTGAAAACATTCGTATATTATATAGTTTTTTTTAAAAAAACATTTTGAAAATTTATAT
1 AATATTTTTGAAAACATTTATATATTATATAG--TTTTTT-AAAAAACATTTTGAAAACTTATAT
* *
72779 ATTATATGTTTTTGAAAATATTTATGTATATATATA
1 A--ATA--TTTTTGAAAACATTTATATAT-TATATA
72815 TTATCTATTA
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
60 4 0.05
61 25 0.30
64 5 0.06
65 16 0.19
66 7 0.08
67 3 0.04
69 17 0.20
70 6 0.07
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (62 bp):
AATATTTTTGAAAACATTTATATATTATATAGTTTTTTAAAAAACATTTTGAAAACTTATAT
Found at i:72844 original size:5 final size:5
Alignment explanation
Indices: 72834--72867 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
72824 ATCTATTATT
72834 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT- ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
72868 TTTTTTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:74102 original size:4 final size:4
Alignment explanation
Indices: 74093--74119 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
74083 TTGAAATATT
74093 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
74120 TATATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:74173 original size:10 final size:10
Alignment explanation
Indices: 74146--74183 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
74136 TTTCTTTTTA
* *
74146 ATTTTCTTTT
1 ATTTACTTTG
74156 ATTT-CTTTG
1 ATTTACTTTG
74165 ATTTACTTTG
1 ATTTACTTTG
74175 ATTTACTTT
1 ATTTACTTT
74184 TTTAATCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (10 bp):
ATTTACTTTG
Found at i:74173 original size:19 final size:20
Alignment explanation
Indices: 74146--74183 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
74136 TTTCTTTTTA
* *
74146 ATTTTCTTTTATTT-CTTTG
1 ATTTACTTTGATTTACTTTG
74165 ATTTACTTTGATTTACTTT
1 ATTTACTTTGATTTACTTT
74184 TTTAATCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTACTTTGATTTACTTTG
Found at i:74242 original size:2 final size:2
Alignment explanation
Indices: 74235--74277 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
74225 TTTTTATTAC
74235 TA TA TA TA TA 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
74277 T
1 T
74278 TTTATGTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79568 original size:84 final size:83
Alignment explanation
Indices: 79420--79748 Score: 362
Period size: 84 Copynumber: 4.0 Consensus size: 83
79410 CCATTTTTTT
* *
79420 AAGACA-A-CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAG
1 AAGACATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAG
* *
79483 TTTGACTACACTCAGCTCC
65 TTCGACTACGCTCAGCTCC
* * * ** *
79502 AAGACATATCATTTGCAGTATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
1 AAGACATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAG
*
79567 TTTGACTACGCTCAGCTCC
65 TTCGACTACGCTCAGCTCC
** * * * * * * *
79586 AAGGTACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGT
1 AAGACATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGT
*
79648 TCGACTACGCTCAGCTTCG
66 TCGACTACGCTCAGC-TCC
* * * * *
79667 AGGGCATATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAAGACCTTTGAGT
1 AAGACATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGT
79732 TCGACTACGCTCAGCTC
66 TCGACTACGCTCAGCTC
79749 AACGGCACAT
Statistics
Matches: 211, Mismatches: 29, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
80 29 0.14
81 38 0.18
82 6 0.03
83 3 0.01
84 132 0.63
85 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
AAGACATATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGT
TCGACTACGCTCAGCTCC
Found at i:79906 original size:84 final size:83
Alignment explanation
Indices: 79788--80252 Score: 578
Period size: 84 Copynumber: 5.6 Consensus size: 83
79778 CAGTTTCGAG
79788 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
79853 CGACTACGCTCAGCTCTAA
66 CGACTACGCTCAGCTC-AA
* * * * * *
79872 GGCACATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAATACCTTTGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
79937 CGACTACGCTCAGCTCAA
66 CGACTACGCTCAGCTCAA
* * * **
79955 CGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGT
1 -GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGT
* * *
80016 TCGATTACACTCAGCTTCGAG
65 TCGACTACGCTCAGC-TC-AA
* * *
80037 GGCACATCATTTACAGTATAACTTAAGTTGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
**
80102 TTACTACGCTCAGCTCCAA
66 CGACTACGCTCAGCT-CAA
* * * * * * * *
80121 GGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGATTGTCTGCCAACAAAAGACCTTTGAGTC
1 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
80186 CGACTACGCTCAGCTCAA
66 CGACTACGCTCAGCTCAA
* * *
80204 CGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
1 -GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
80253 AGACCTCCGA
Statistics
Matches: 318, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
80 24 0.08
81 40 0.13
82 1 0.00
83 5 0.02
84 222 0.70
85 26 0.08
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
CGACTACGCTCAGCTCAA
Found at i:79937 original size:204 final size:200
Alignment explanation
Indices: 79591--79959 Score: 551
Period size: 204 Copynumber: 1.8 Consensus size: 200
79581 GCTCCAAGGT
*
79591 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
* * * * *
79656 GCTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAA
66 GCTCAGCTTCGAAGGCACATCATTTACAGCACAACTCAAGGCTAAAAGGGTTATCTGCCACAAAA
79721 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCCCCGAGTTCGATTACACTCAGTTTCG
131 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCCCCGAGTTCGATTACACTCAGTTTCG
79786 AGGGC
196 AGGGC
* *
79791 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGA
* * * * * *
79856 CTACGCTCAGC-TCTAAGGCACATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAA
62 CTACGCTCAGCTTCGAAGGCACATCATTTACAGCACAACTCAAGGCTAAAAGGGTTATCTGCC-A
*
79920 CAAAATACCTTTGAGTTCGACTACGCTCAGCTCAACGGCA
126 CAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCA
79960 TATCATTTGC
Statistics
Matches: 149, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
200 39 0.26
203 41 0.28
204 69 0.46
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (200 bp):
ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
GCTCAGCTTCGAAGGCACATCATTTACAGCACAACTCAAGGCTAAAAGGGTTATCTGCCACAAAA
GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCCCCGAGTTCGATTACACTCAGTTTCG
AGGGC
Found at i:80019 original size:284 final size:282
Alignment explanation
Indices: 79509--80031 Score: 735
Period size: 284 Copynumber: 1.8 Consensus size: 282
79499 TCCAAGACAT
* *
79509 ATCATTTGCAGTATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACT
1 ATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * *
79574 ACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
66 ACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGA
* * *
79639 CCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAAAAG
131 CCCTCGAGTTCGACTACGCTCAGCTTCAACGGCATATCATTTACAGCATAACTCAAGGCGAAAAG
* *** *
79704 GGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCCCCGAGTTC
196 GGCTATCTG--ACCAAAGACCCCCGAGTTCGACTACACTCAGCTCAACGGCACATCCCCGAGTTC
79769 GATTACACTCAGTTTCGAGGGCAC
259 GATTACACTCAGTTTCGAGGGCAC
*
79793 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * * *
79858 ACGCTCAGCTCTAAGGCACATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
66 ACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGCTATCTG-C--C-A
* * * * * * *
79923 AATACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCATATCATTTGCAGCATAGCTTAAGTCGA
127 AAGACCCTCGAGTTCGACTACGCTCAGCTTCAACGGCATATCATTTACAGCATAACTCAAGGCGA
* *
79987 GAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTCAGCT
192 AAAGGGCTATCTGACCAAAGACCCCCGAGTTCGACTACACTCAGCT
80032 TCGAGGGCAC
Statistics
Matches: 208, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
284 140 0.67
285 1 0.00
287 41 0.20
288 26 0.12
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (282 bp):
ATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGA
CCCTCGAGTTCGACTACGCTCAGCTTCAACGGCATATCATTTACAGCATAACTCAAGGCGAAAAG
GGCTATCTGACCAAAGACCCCCGAGTTCGACTACACTCAGCTCAACGGCACATCCCCGAGTTCGA
TTACACTCAGTTTCGAGGGCAC
Found at i:80197 original size:249 final size:249
Alignment explanation
Indices: 79759--80324 Score: 934
Period size: 249 Copynumber: 2.3 Consensus size: 249
79749 AACGGCACAT
* *
79759 CCCCGAGTTCGATTACACTCAGTTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
1 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGG
*
79824 GTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGC
66 GTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC
* * *
79889 ACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAATACCTTTGAGTTCGACTACGCTCAGCTCA
131 ACAACTTAAGTCTAGAAGGATTGTCTGCCAACAAAAGACCTTTGAGTCCGACTACGCTCAGCTCA
* *
79954 ACGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
196 ACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
* *
80008 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTTAAGTTGAGAAGG
1 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGG
** *
80073 GTTATCTGCCAACCAAAGACCTTCGAGTTTTACTACGCTCAGCTCCAAGGCATATCATTTGCAGC
66 GTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC
80138 ACAACTTAAGTCTAGAAGGATTGTCTGCCAACAAAAGACCTTTGAGTCCGACTACGCTCAGCTCA
131 ACAACTTAAGTCTAGAAGGATTGTCTGCCAACAAAAGACCTTTGAGTCCGACTACGCTCAGCTCA
80203 ACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
196 ACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
* * * * * * * * *
80257 CTCCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGG
1 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGG
80322 GTT
66 GTT
80325 GTTTGTCAAT
Statistics
Matches: 293, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
249 293 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (249 bp):
CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGG
GTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC
ACAACTTAAGTCTAGAAGGATTGTCTGCCAACAAAAGACCTTTGAGTCCGACTACGCTCAGCTCA
ACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
Found at i:80294 original size:165 final size:163
Alignment explanation
Indices: 79761--80324 Score: 562
Period size: 165 Copynumber: 3.4 Consensus size: 163
79751 CGGCACATCC
* * * *
79761 CCGAGTTCGATTACACTCAGTTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
1 CCGAGTTCGACTACACTCAGCTTC-AAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
*
79826 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCAC
65 TATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC-AAGGCACATCATTTGCAGCAT
* * *
79891 AACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAATACCT
128 AACTTAAGTCGAGAAGGGTTATCTGCC--C-AAAGACCT
** * * *
79930 TTGAGTTCGACTACGCTCAGC-TCAACGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
1 CCGAGTTCGACTACACTCAGCTTCAA-GGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
** * * * * *
79994 TATCTG-C--CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTAT
65 TATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCATTTGCAGCAT
*
80056 AACTTAAGTTGAGAAGGGTTATCTGCCAACCAAAGACCT
128 AACTTAAGTCGAGAAGGGTTATCTG-C--CCAAAGACCT
* ** * * * * *
80095 TCGAGTTTTACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGATT
1 CCGAGTTCGACTACACTCAGCTTCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
* * * *
80160 GTCTGCCAACAAAAGACCTTTGAGTCCGACTACGCTCAGCTCAACGACACATCATTTGCAGCATA
66 ATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATTTGCAGCATA
* *
80225 GCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCT
129 ACTTAAGTCGAGAAGGGTTATCTGCCCAAAGACCT
* * * * * * * * *
80259 CCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGGT
1 CCGAGTTCGACTACACTCAGCTTCAAGG-CATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
80324 T
65 T
80325 GTTTGTCAAT
Statistics
Matches: 322, Mismatches: 61, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
164 56 0.17
165 133 0.41
166 6 0.02
167 3 0.01
168 85 0.26
169 39 0.12
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (163 bp):
CCGAGTTCGACTACACTCAGCTTCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
ATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTGCAGCATAAC
TTAAGTCGAGAAGGGTTATCTGCCCAAAGACCT
Found at i:80320 original size:81 final size:81
Alignment explanation
Indices: 79761--80322 Score: 459
Period size: 84 Copynumber: 6.8 Consensus size: 81
79751 CGGCACATCC
* * * * * *
79761 CCGAGTTCGATTACACTCAGTTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
1 CCGAGTTCGACTACACTCAGCTTC-AAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
79826 TATCTGCCAACCAAAGACCT
65 TATCTG-C--CCAAAGACCT
* * * * * * *
79846 TCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCACAACTTAAGTCTAGAAGGGT
1 CCGAGTTCGACTACACTCAGCTTC-AAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
* *
79910 TGTCTGCCAACAAAATACCT
65 TATCTGCC--C-AAAGACCT
** *
79930 TTGAGTTCGACTACGCTCAGC-TCAACGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
1 CCGAGTTCGACTACACTCAGCTTCAA-GGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
*
79994 TATCTG-CCAAAGACCC
65 TATCTGCCCAAAGACCT
* * * * * * * *
80010 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTTAAGTTGAGAAGGGT
1 CCGAGTTCGACTACACTCAGCTTC-AAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
80075 TATCTGCCAACCAAAGACCT
65 TATCTG-C--CCAAAGACCT
* ** * * * * * **
80095 TCGAGTTTTACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGATT
1 CCGAGTTCGACTACACTCAGCTTCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
*
80160 GTCTGCCAACAAAAGACCT
66 ATCTGCC--C-AAAGACCT
** * * * *
80179 TTGAGTCCGACTACGCTCAGC-TCAACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
1 CCGAGTTCGACTACACTCAGCTTCAA-GGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
80243 TATCTG-CCAAAGACCT
65 TATCTGCCCAAAGACCT
* * * * * * * *
80259 CCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
1 CCGAGTTCGACTACACTCAGCTTCAAGG-CATATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
80323 TTGTTTGTCA
Statistics
Matches: 388, Mismatches: 73, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
80 47 0.12
81 76 0.20
82 1 0.00
83 11 0.03
84 209 0.54
85 44 0.11
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (81 bp):
CCGAGTTCGACTACACTCAGCTTCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
ATCTGCCCAAAGACCT
Found at i:81071 original size:36 final size:36
Alignment explanation
Indices: 80903--81189 Score: 195
Period size: 35 Copynumber: 7.9 Consensus size: 36
80893 ATATATATAT
* *
80903 ACATATTTTGAAACTACATATATAATATATAGTTTTTAAT
1 ACAT-TTTTGAAA--ACATATAT-ATATATAGTTTTGAAA
* *
80943 A-GTTTTT-AAAAC-TATATAATATATAGTTTTTAAAAAAA
1 ACATTTTTGAAAACATATAT-ATATATAG-TTTT---GAAA
* * * *
80981 ACATTTTAGAAAATATATGTATAT-TA-TCTTTTAAA
1 ACATTTTTGAAAACATATATATATATAGT-TTTGAAA
*
81016 ATCA-TTTTGAAAACTTATATATATATAGTTTTGAAA
1 A-CATTTTTGAAAACATATATATATATAGTTTTGAAA
*
81052 ACATTTTTGAAAACATATATAT-TATAATTTTGAAA
1 ACATTTTTGAAAACATATATATATATAGTTTTGAAA
* * *
81087 ATA-TTTTGGAAACATTTATATATTATATAGTTTTTAAAA
1 ACATTTTTGAAAACA--TATATA-TATATAG-TTTTGAAA
*
81126 ACATTTTTGAAAAC-T-TATATA-ATATTTTTGAAA
1 ACATTTTTGAAAACATATATATATATAGTTTTGAAA
* *
81159 ACA-TGTTGAAAACAT-TCGTATATATAGTTTT
1 ACATTTTTGAAAACATAT-ATATATATAGTTTT
81190 TTTAAAAAAG
Statistics
Matches: 200, Mismatches: 26, Indels: 47
0.73 0.10 0.17
Matches are distributed among these distances:
32 9 0.05
33 12 0.06
34 31 0.16
35 51 0.25
36 38 0.19
37 7 0.04
38 14 0.07
39 16 0.08
40 18 0.09
41 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.45
Consensus pattern (36 bp):
ACATTTTTGAAAACATATATATATATAGTTTTGAAA
Found at i:81172 original size:72 final size:73
Alignment explanation
Indices: 80955--81183 Score: 238
Period size: 72 Copynumber: 3.1 Consensus size: 73
80945 TTTTTAAAAC
* * *
80955 TATATAATATATAGTTTTTAAAAAAAACATTTTAGAAAA-TATATGTATATTATCTTTT-AAAAT
1 TATATATTATATAGTTTTT---AAAAACATTTTTGAAAACTATA--TATAATAT-TTTTGAAAA-
81018 CATTTTGAAAAC--T
59 CATTTTGAAAACATT
* * * *
81031 TATATA-TATATAG-TTTTGAAAACATTTTTGAAAACATATATATTATAATTTTGAAAATATTTT
1 TATATATTATATAGTTTTTAAAAACATTTTTGAAAAC-TATATATAATATTTTTGAAAACATTTT
*
81094 GGAAACATT
65 GAAAACATT
*
81103 TATATATTATATAGTTTTTAAAAACATTTTTGAAAACT-TATATAATATTTTTGAAAACATGTTG
1 TATATATTATATAGTTTTTAAAAACATTTTTGAAAACTATATATAATATTTTTGAAAACATTTTG
81167 AAAACATT
66 AAAACATT
81175 CGTATATAT
1 --TATATAT
81184 AGTTTTTTTA
Statistics
Matches: 131, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
70 14 0.11
71 24 0.18
72 36 0.27
73 12 0.09
74 32 0.24
75 7 0.05
76 6 0.05
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (73 bp):
TATATATTATATAGTTTTTAAAAACATTTTTGAAAACTATATATAATATTTTTGAAAACATTTTG
AAAACATT
Found at i:81232 original size:24 final size:26
Alignment explanation
Indices: 81205--81252 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
81195 AAAAGAAACA
81205 TTTTG-AAA-ATTTATATATATATGT
1 TTTTGAAAATATTTATATATATATGT
*
81229 TTTTGAAAATATTTATGTATATAT
1 TTTTGAAAATATTTATATATATAT
81253 ATATTATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (26 bp):
TTTTGAAAATATTTATATATATATGT
Found at i:82477 original size:13 final size:13
Alignment explanation
Indices: 82459--82501 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
82449 TTTGAAATAT
82459 TTTTATTTATTTA
1 TTTTATTTATTTA
82472 TTTTATTTATTT-
1 TTTTATTTATTTA
82484 TATTTATTT-TATTA
1 T-TTTATTTAT-TTA
82498 TTTT
1 TTTT
82502 CTTTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.07
13 24 0.89
14 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:82478 original size:9 final size:9
Alignment explanation
Indices: 82460--82501 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
82450 TTGAAATATT
82460 TTTA-TTTA
1 TTTATTTTA
82468 TTTATTTTA
1 TTTATTTTA
82477 TTTATTTTA
1 TTTATTTTA
82486 TTTATTTTA
1 TTTATTTTA
82495 -TTATTTT
1 TTTATTTT
82502 CTTTTTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 11 0.33
9 22 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:82582 original size:2 final size:2
Alignment explanation
Indices: 82570--82667 Score: 189
Period size: 2 Copynumber: 49.5 Consensus size: 2
82560 TTATTCATTT
82570 TA TA T- TA TA 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
82611 TA TA TA TA TA 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
82653 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
82668 TCTATCTAAT
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 94 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83424 original size:56 final size:54
Alignment explanation
Indices: 83319--83424 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 54
83309 CCTTGTTACC
* *
83319 TAAATCAATCATTTATGACAATTATAAATCGTAGGATTATGGTAGCAATACACT
1 TAAATCAATCATTCATGACAATTATAAATCGTAGGATTATGATAGCAATACACT
* *
83373 TAAATCAATCATTCATGACAATTATATAAATTGTAGGCTTATGATAGCAATA
1 TAAATCAATCATTCATGACAA-T-TATAAATCGTAGGATTATGATAGCAATA
83425 GAAAATTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 20 0.43
55 1 0.02
56 25 0.54
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (54 bp):
TAAATCAATCATTCATGACAATTATAAATCGTAGGATTATGATAGCAATACACT
Found at i:83670 original size:2 final size:2
Alignment explanation
Indices: 83658--83708 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
83648 AGTGAGATTC
83658 AT AT GAT 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
83701 AT AT AT AT
1 AT AT AT AT
83709 CGGAAAAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Done.