Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 113 of 335
Found at i:34744374 original size:209 final size:210
Alignment explanation
Indices: 34743869--34744636 Score: 1023
Period size: 209 Copynumber: 3.7 Consensus size: 210
34743859 CTTCATCAGG
* *
34743869 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAAATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
* *
34743934 ATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
* * * * * * *
34743999 GAACAAATCAAAGTTTGGCATTTCCACTTTGATAT-AAG-GCAGACACATAGCAGATCTTACCAT
131 GAACAAATCGAAGTCTGGCATATCCAC-TTCA-ATGGAGAGCAGACACATAGCAGATCTCACCTT
*
34744062 CAGATGTTTACGCTGAA
194 CAGATGTTTACACTGAA
* * *
34744079 GCAGATCTAAGATGACAATTCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAAATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
34744144 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
* *
34744209 GAACAAATTGAAGTCTGGCATATCCACTTCAATGGAGAACAGACACATAGCAG-TCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATATCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACCTTCA
34744273 GATGTTTACACTGAA
196 GATGTTTACACTGAA
*
34744288 GCAGATCCAAGATGACAAATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAAACATAGCTG
1 GCAGATCCAAGATGACAAATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
* * *
34744353 CTTTGGCTTTCACGTGTTTACGATGAAGAAAATCTAAGATGATTTGTCATCTCTTTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
* * * *
34744418 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGCAGATCTGACCTTCA
131 GAACAAATCGAAGTCTGGCATATCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACCTTCA
* * * *
34744483 GACGATTAGACTAAA
196 GATGTTTACACTGAA
* ** *** * * ** * * *
34744498 GCAAGATCTAAGATG--ATTTGGCATC-CT-TGTGCTT--ACAAGGAACAAATCGAAGACATAGT
1 GC-AGATCCAAGATGACAAATCTTATCTCTCTGT-ATTCGGCGGGGAGCAGATCGAAGACATAGC
* * * *
34744557 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTATCA
64 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCA
34744622 GAGAACAAATCGAAG
129 GAGAACAAATCGAAG
34744637 AAGCAGATTT
Statistics
Matches: 500, Mismatches: 53, Indels: 14
0.88 0.09 0.02
Matches are distributed among these distances:
206 91 0.18
207 3 0.01
208 6 0.01
209 204 0.41
210 185 0.37
211 11 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (210 bp):
GCAGATCCAAGATGACAAATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATATCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACACTGAA
Found at i:34745801 original size:3 final size:3
Alignment explanation
Indices: 34745783--34746007 Score: 64
Period size: 3 Copynumber: 73.7 Consensus size: 3
34745773 ATTATAAAAC
34745783 TAT T-T TAT TAT ATAT TAT T-T ATAT TAT TAT TATT TAT TA- TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * *
34745828 TTT TCAC AAGT TAT TAT TAT T-T TA- CAT CAT TATT TAT ATAT TAT TAT
1 TAT T-AT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT
*
34745875 TA- TAT TA- TAT GT-T TAT TAT ATAT T-T ATAT TAT TTT TA- TAT ATAT
1 TAT TAT TAT TAT -TAT TAT TAT -TAT TAT -TAT TAT TAT TAT TAT -TAT
** * *
34745919 GCT T-T TA- TAT TAT ATAT TAT AAT TAT T-T TAT ATAT TAT TAAGT CAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT T-A-T TAT
* * * *
34745965 TTT TA- TAT TAT TAT ACAT TTT TAT CTAT ATAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT -TAT TAT TAT -TAT -TAT TAT TAT TAT TA
34746008 AAGGTTTTAA
Statistics
Matches: 165, Mismatches: 26, Indels: 62
0.65 0.10 0.25
Matches are distributed among these distances:
2 24 0.15
3 102 0.62
4 38 0.23
5 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:34745811 original size:19 final size:19
Alignment explanation
Indices: 34745787--34745957 Score: 76
Period size: 19 Copynumber: 8.8 Consensus size: 19
34745777 TAAAACTATT
34745787 TTATTATATATTATTTATA
1 TTATTATATATTATTTATA
34745806 TTATTAT-TATT-TATTATA
1 TTATTATATATTAT-TTATA
* *
34745824 TTATTTTTCACAAGTTA-TTATTA
1 TTA-TTAT-A-TA-TTATTTA-TA
*
34745847 TT-TTACATCATTATTTATA
1 TTATTATAT-ATTATTTATA
34745866 -TATTAT-TATTATATTATA
1 TTATTATATATTAT-TTATA
34745884 TGT-TTAT-TATATATTTATA
1 T-TATTATATAT-TATTTATA
* *
34745903 TTATTTTTATATATATGCTTTTA
1 TTA-TTATATAT-TAT--TTATA
*
34745926 -TATTATATATTA-TAATTA
1 TTATTATATATTATTTA-TA
34745944 TT-TTATATATTATT
1 TTATTATATATTATT
34745958 AAGTCATTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 46
0.67 0.06 0.26
Matches are distributed among these distances:
17 7 0.06
18 32 0.27
19 33 0.28
20 14 0.12
21 16 0.14
22 6 0.05
23 10 0.08
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATTATATATTATTTATA
Found at i:34745903 original size:35 final size:34
Alignment explanation
Indices: 34745858--34745978 Score: 113
Period size: 35 Copynumber: 3.5 Consensus size: 34
34745848 TTTACATCAT
*
34745858 TATTTATATATTATTATTATATTATATGTTTATTA
1 TATTT-TATATTATTATTATATTATATGATTATTA
* *
34745893 TATATTTATATTATTTTTATA-TATATGCTT-TTA
1 TAT-TTTATATTATTATTATATTATATGATTATTA
* * *
34745926 TATTATATATTATAATTATTTTATAT-ATTATTAA
1 TATTTTATATTATTATTATATTATATGATTATT-A
34745960 GTCATTTTTATATTATTAT
1 -T-A-TTTTATATTATTAT
34745979 ACATTTTTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
32 15 0.21
33 13 0.19
34 9 0.13
35 18 0.26
36 3 0.04
37 12 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (34 bp):
TATTTTATATTATTATTATATTATATGATTATTA
Found at i:34745973 original size:19 final size:19
Alignment explanation
Indices: 34745928--34745977 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
34745918 TGCTTTTATA
*
34745928 TTATATATTA-TAATTATT
1 TTATATATTATTAATCATT
34745946 TTATATATTATTAAGTCATT
1 TTATATATTATTAA-TCATT
34745966 TT-TATATTATTA
1 TTATATATTATTA
34745978 TACATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATATTATTAATCATT
Found at i:34745999 original size:21 final size:20
Alignment explanation
Indices: 34745868--34745999 Score: 86
Period size: 18 Copynumber: 6.7 Consensus size: 20
34745858 TATTTATATA
*
34745868 TTATTATTATATTAT--ATGT
1 TTATTA-TATATTATACATTT
*
34745887 TTATTATATATT-TATATTAT
1 TTATTATATATTATACATT-T
*
34745907 TT-TTATATA-TATGC-TTT
1 TTATTATATATTATACATTT
*
34745924 TATATTATATATTATA-ATTA
1 T-TATTATATATTATACATTT
34745944 TT-TTATATATTATTAAGTCATTT
1 TTATTATATATTA-T-A--CATTT
34745967 TTA-TAT-TATTATACATTT
1 TTATTATATATTATACATTT
34745985 TTATCTATATATTAT
1 TTAT-TATATATTAT
34746000 TATCATTAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
17 3 0.03
18 28 0.31
19 25 0.28
20 14 0.16
21 7 0.08
22 5 0.06
23 8 0.09
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATTATATATTATACATTT
Found at i:34746065 original size:24 final size:25
Alignment explanation
Indices: 34746023--34746072 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
34746013 TTTAAACTTG
*
34746023 TATTATATATTTATCTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
*
34746048 TATTA-ATAATTATTTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
34746072 T
1 T
34746073 TCTATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATATAATTATCTTTATTTATA
Found at i:34748807 original size:24 final size:24
Alignment explanation
Indices: 34748773--34748820 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
34748763 GTATATTTAC
*
34748773 TTCATT-TTTTTATACATTAATAAT
1 TTCATTCTTTTTAT-CAATAATAAT
34748797 TTCATTCTTTTTATCAATAATAAT
1 TTCATTCTTTTTATCAATAATAAT
34748821 ACCCAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
TTCATTCTTTTTATCAATAATAAT
Found at i:34754457 original size:40 final size:40
Alignment explanation
Indices: 34754412--34754551 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
34754402 AAGCACAATT
* * *
34754412 GCCTTCGGGTCTTAACCCGGGTGTAGCAACACGCACAAAG
1 GCCTTCGGGTCTTAGCCCGGATGTAACAACACGCACAAAG
* * * *
34754452 GCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATGTAACAACACGCACAAAG
* *
34754492 GCCTTCGGGTCTTAGCCCGGATGTAATC-ACTA-GCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATGTAA-CAAC-ACGCACAAAG
* *
34754532 GTCTTCGGGACTTAGCCCGG
1 GCCTTCGGGTCTTAGCCCGG
34754552 GTATCATTCA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 84 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATGTAACAACACGCACAAAG
Found at i:34756563 original size:21 final size:21
Alignment explanation
Indices: 34756539--34756578 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34756529 CAAAGGCATT
34756539 CAAAAAGA-AAAAACAAAAGTA
1 CAAAAAGAGAAAAA-AAAAGTA
*
34756560 CAAAAATAGAAAAAAAAAG
1 CAAAAAGAGAAAAAAAAAG
34756579 GAAAAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (21 bp):
CAAAAAGAGAAAAAAAAAGTA
Found at i:34758329 original size:64 final size:64
Alignment explanation
Indices: 34758256--34758386 Score: 228
Period size: 64 Copynumber: 2.0 Consensus size: 64
34758246 ATATATCATT
*
34758256 CATCACATCTAGTTA-GATGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAG
1 CATCACATCTAGTTAGGA-GCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAG
*
34758320 CATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGGCATAAG
1 CATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAG
34758384 CAT
1 CAT
34758387 GATACATGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 62 0.97
65 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (64 bp):
CATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAG
Found at i:34758907 original size:176 final size:175
Alignment explanation
Indices: 34758594--34759208 Score: 860
Period size: 176 Copynumber: 3.5 Consensus size: 175
34758584 GCAGTGGAGT
* * * *
34758594 AGACTGAAGACTGAAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGACCAAAGATGGCGAATCT
1 AGACTGAAGATTG-AAGATCTTATCTCCCTAAGCAGTAGCAGAACAGATCGAAGATGGCGAATCT
*
34758659 TATCTCCATATATCGGCAATGGAGCAGATTTTAGCCACTGACCTTATCTCTCTGAGGTAGCAAGA
65 TATCTCCATGTATCGGCAATGGAGCAGATTTTAG-CACTGACCTTATCTCTCTGAGGTAGCAAGA
*
34758724 GAGCAGGTTGAAGAATGAGTCTTATTTTCCTAAGGTAGCAAGGAAGC
129 GAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGC
* *
34758771 AGACTGAATATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAACAGATCGAGGATGGCGAATCTT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAACAGATCGAAGATGGCGAATCTT
* * *
34758836 ATCTCCATGTATCGGCAATGGAGTAGATTTTAGTCACTGACCTTATTTCTCTGAGGTAGCAAGAC
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTAG-CACTGACCTTATCTCTCTGAGGTAGCAAGAG
*
34758901 AGCAGGTTGAAGAATGAGTCTTATCTTCTTAAGGTAGCAAGGAAGC
130 AGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGC
* * *
34758947 AGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGGATGGCGAATCTT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAACAGATCGAAGATGGCGAATCTT
* * * *
34759012 ATCTCTATGTATCGGTAATAGAGCAGATTTTAGCTATTGACCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTAGC-ACTGACCTTATCTCTCTGAGGTAGCAAGAG
** * * *
34759077 AGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGC
130 AGCAGGTTGAAGAATG-AGTCTTATCTTCCTAAGGTAGCAAGGAAGC
* * * * * * *
34759124 AGACTAAAGATTGAAGATCTTATTTCCCTGAA-CAG-A--AAAAGTAGATCGAAAAAGGCAAATC
1 AGACTGAAGATTGAAGATCTTATCTCCCT-AAGCAGTAGCAGAA-CAGATCGAAGATGGCGAATC
34759185 TTATCTCCATGTATCGGCAATGGA
64 TTATCTCCATGTATCGGCAATGGA
34759209 ACAGGTTTAA
Statistics
Matches: 392, Mismatches: 42, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
174 2 0.01
175 37 0.09
176 284 0.72
177 67 0.17
178 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (175 bp):
AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAACAGATCGAAGATGGCGAATCTT
ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCACTGACCTTATCTCTCTGAGGTAGCAAGAGA
GCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGC
Found at i:34761092 original size:18 final size:18
Alignment explanation
Indices: 34761045--34761093 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
34761035 TTTGTTTTTT
*
34761045 TATTGTTTATATTATTTG
1 TATTGTTTATATTAATTG
* *
34761063 TAATGTTAATATTAATTG
1 TATTGTTTATATTAATTG
*
34761081 TATTATTTATATT
1 TATTGTTTATATT
34761094 GTTGGTTACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
TATTGTTTATATTAATTG
Found at i:34766188 original size:12 final size:12
Alignment explanation
Indices: 34766169--34766198 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34766159 ATCACACAGT
34766169 CATGTGACAGGC
1 CATGTGACAGGC
*
34766181 CGTGTGACAGGC
1 CATGTGACAGGC
34766193 CATGTG
1 CATGTG
34766199 CACTACACGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (12 bp):
CATGTGACAGGC
Found at i:34771795 original size:17 final size:18
Alignment explanation
Indices: 34771759--34771796 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
34771749 TTATACTAGG
34771759 AAACCAAAATAAAATTCC
1 AAACCAAAATAAAATTCC
* *
34771777 AAACTAAAA-AAAGTTCC
1 AAACCAAAATAAAATTCC
34771794 AAA
1 AAA
34771797 AAGTCTGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.63, C:0.18, G:0.03, T:0.16
Consensus pattern (18 bp):
AAACCAAAATAAAATTCC
Found at i:34773202 original size:14 final size:14
Alignment explanation
Indices: 34773185--34773218 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
34773175 GAGGAAAGGA
34773185 AAAACAGGAAGGGG
1 AAAACAGGAAGGGG
34773199 AAAACAGGAAGGGG
1 AAAACAGGAAGGGG
34773213 AAAACA
1 AAAACA
34773219 TCAGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.35, T:0.00
Consensus pattern (14 bp):
AAAACAGGAAGGGG
Found at i:34777477 original size:10 final size:10
Alignment explanation
Indices: 34777462--34777487 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34777452 ATTTTTCAGA
34777462 AATTATTTTC
1 AATTATTTTC
34777472 AATTATTTTC
1 AATTATTTTC
34777482 AATTAT
1 AATTAT
34777488 GGACCGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTATTTTC
Found at i:34795989 original size:37 final size:37
Alignment explanation
Indices: 34795948--34796050 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 37
34795938 TTACTACCCT
* * * * *
34795948 ATTGAGTACATGTTATGCATGTCATTGCCAGTGTTGA
1 ATTGAATACATGTTAAGCATGTCACTGCCAATGTTAA
*
34795985 ATTGAATACATGTTAAGCATGTCCACTGCTAATGTTAA
1 ATTGAATACATGTTAAGCATGT-CACTGCCAATGTTAA
*
34796023 ACTGAATACATGTTAAGCATGTCTACTG
1 ATTGAATACATGTTAAGCATGTC-ACTG
34796051 TTTTGCATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
37 21 0.37
38 36 0.63
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (37 bp):
ATTGAATACATGTTAAGCATGTCACTGCCAATGTTAA
Found at i:34796833 original size:17 final size:16
Alignment explanation
Indices: 34796800--34796844 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
34796790 AAAAGCAAAA
*
34796800 TTATATAAAAAGTATAT
1 TTATA-AAAAATTATAT
34796817 TTATAAAAAATTGATAT
1 TTATAAAAAATT-ATAT
*
34796834 ATATAAAAAAT
1 TTATAAAAAAT
34796845 AAAGTTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
TTATAAAAAATTATAT
Found at i:34807776 original size:40 final size:39
Alignment explanation
Indices: 34807732--34807860 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
34807722 GACTCGCTCA
*
34807732 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
34807771 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
34807811 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
34807849 GAATGCCTTCGG
1 -AATGCCTTCGG
34807861 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:34807860 original size:78 final size:80
Alignment explanation
Indices: 34807767--34807913 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
34807757 ATAGCGACTT
* * *
34807767 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
34807829 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
34807845 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
34807910 CGGA
66 CGGA
34807914 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:34807897 original size:40 final size:37
Alignment explanation
Indices: 34807748--34807913 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
34807738 TTCGGGACGA
* ** *
34807748 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
34807788 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
34807826 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
34807866 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
34807906 AGCCCGGA
1 AGCCCGGA
34807914 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:34814136 original size:78 final size:80
Alignment explanation
Indices: 34814007--34814190 Score: 207
Period size: 78 Copynumber: 2.3 Consensus size: 80
34813997 ACGACTCGCT
** * * * *
34814007 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTTGCACGAATGCCTTCGGGA-CTTAACT-
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTC-GGATCCT-ACTC
* *
34814069 CGGGTTTAGTAACTT-GCA
62 CGGATATAGTAACTTAGCA
*
34814087 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTACTCCGGA
*
34814151 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
34814166 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
34814191 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 5 0.06
78 41 0.46
79 29 0.33
80 14 0.16
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTACTCCGGA
TATAGTAACTTAGCA
Found at i:34814190 original size:40 final size:39
Alignment explanation
Indices: 34814007--34814190 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
34813997 ACGACTCGCT
** * *
34814007 CAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * * *
34814047 CGAATGCCTTCGGGACTTAACTCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
34814087 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
34814125 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
34814166 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
34814191 CATCATTCGA
Statistics
Matches: 114, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
38 23 0.20
39 20 0.18
40 62 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:34818404 original size:133 final size:134
Alignment explanation
Indices: 34818211--34818516 Score: 386
Period size: 133 Copynumber: 2.3 Consensus size: 134
34818201 AAACCACAAA
* * * **
34818211 TCCTATA-CCCTAAAGTTACAGTGGGTCAGATTGAATCTGCGATAGTGAATCTTATCTCTCTAAA
1 TCCTATACCCCTAAAGTTACAGTGGGTTAGAATGAA----CGATGGAAAATCTTATCTCTCTAAA
* *
34818275 GTTTCAGTGGAGCAAGATGAAGCTACA-AATCCTATATCCCTAAAG-TGCAGTAGATCAGATTGA
62 GTTGCAGTGGAGCAAGATGAAGCTA-AGAATCCTATATCCCTAAAGTTGCAGTAGATCAAATTGA
*
34818338 AACTACAAT
126 AACTAAAAT
* * * *
34818347 TTCTATACCCCTGAAGTTGCAGTGGGTT-GAAATGAACGATGGAAAATCTTATCTCTCTGAAGTT
1 TCCTATACCCCTAAAGTTACAGTGGGTTAG-AATGAACGATGGAAAATCTTATCTCTCTAAAGTT
* *
34818411 GCAGTGGAGCAAGATGAAGCTAAGAATCCTATATCCCTGAAGTTGCAGTAGATCAAATTGAAGCT
65 GCAGTGGAGCAAGATGAAGCTAAGAATCCTATATCCCTAAAGTTGCAGTAGATCAAATTGAAACT
34818476 AAAAT
130 AAAAT
* *
34818481 TCCTATACCCGTAAAGTTACGGTGGGTTAGAATGAA
1 TCCTATACCCCTAAAGTTACAGTGGGTTAGAATGAA
34818517 GCTATAACTA
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
132 1 0.01
133 62 0.42
134 53 0.36
135 1 0.01
136 7 0.05
137 22 0.15
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (134 bp):
TCCTATACCCCTAAAGTTACAGTGGGTTAGAATGAACGATGGAAAATCTTATCTCTCTAAAGTTG
CAGTGGAGCAAGATGAAGCTAAGAATCCTATATCCCTAAAGTTGCAGTAGATCAAATTGAAACTA
AAAT
Found at i:34818473 original size:44 final size:42
Alignment explanation
Indices: 34818273--34818487 Score: 153
Period size: 44 Copynumber: 4.9 Consensus size: 42
34818263 TATCTCTCTA
* * * *
34818273 AAGTTTCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTA
1 AAGTTGCAGTAGATCAA-ATGAAGCTA-AAATCCTATATCCCTG
* * * * *
34818317 AAG-TGCAGTAGATCAGATTGAAACTACAATTTCTATACCCCTG
1 AAGTTGCAGTAGATCA-AATGAAGCTA-AAATCCTATATCCCTG
* * * * * * *
34818360 AAGTTGCAGTGGGTTGAAATGAACGATGGAAAATCTTATCTCTCTG
1 AAGTTGCAGT-AGATCAAATGAA-GCT--AAAATCCTATATCCCTG
* *
34818406 AAGTTGCAGTGGAGCAAGATGAAGCTAAGAATCCTATATCCCTG
1 AAGTTGCAGTAGATCAA-ATGAAGCTAA-AATCCTATATCCCTG
34818450 AAGTTGCAGTAGATCAAATTGAAGCTAAAATTCCTATA
1 AAGTTGCAGTAGATCAAA-TGAAGCTAAAA-TCCTATA
34818488 CCCGTAAAGT
Statistics
Matches: 131, Mismatches: 30, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
43 37 0.28
44 58 0.44
45 10 0.08
46 25 0.19
47 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (42 bp):
AAGTTGCAGTAGATCAAATGAAGCTAAAATCCTATATCCCTG
Found at i:34818716 original size:94 final size:93
Alignment explanation
Indices: 34818522--34818801 Score: 229
Period size: 94 Copynumber: 3.0 Consensus size: 93
34818512 ATGAAGCTAT
* * * *
34818522 AACTACAAATCTTATGCCCCTAAAGTTACAGTGGGTCGGATTGAATCTACCATAGCAAATCTTAT
1 AACTACAAATCTTATACCCCTAAAGTTACAGTGGATCGGATTGAAGCTACAATAGCAAATCTTAT
* * *
34818587 CTCCTTGAAGTTGCAGTGGAGCAAGATA
66 CTCCTTAAAGTTACAATGGAGCAAGATA
* * * * * * *
34818615 AAGCTACAGATCTTATACCCTTGAGGTTGCAGTGGATCGGATTGAGGCTATAATAGCAAATCTTA
1 AA-CTACAAATCTTATACCCCTAAAGTTACAGTGGATCGGATTGAAGCTACAATAGCAAATCTTA
*
34818680 TCTCCTTAAAGTTACAATGGATC-AGATTGA
65 TCTCCTTAAAGTTACAATGGAGCAAGA-T-A
* * * ** * * * * * * * * *
34818710 AACTACAATTCCTATATCATTAAAGTTGCAATGGGTTGGAATGAAACTACAACAACAAATCTTCT
1 AACTACAAATCTTATACCCCTAAAGTTACAGTGGATCGGATTGAAGCTACAATAGCAAATCTTAT
* * * *
34818775 CTCTTTAAAATTGCAATGGAGTAAGAT
66 CTCCTTAAAGTTACAATGGAGCAAGAT
34818802 GAAGCTATGA
Statistics
Matches: 146, Mismatches: 37, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
93 5 0.03
94 135 0.92
95 6 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (93 bp):
AACTACAAATCTTATACCCCTAAAGTTACAGTGGATCGGATTGAAGCTACAATAGCAAATCTTAT
CTCCTTAAAGTTACAATGGAGCAAGATA
Found at i:34819785 original size:26 final size:26
Alignment explanation
Indices: 34819747--34819827 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
34819737 TGATACAAAT
* *
34819747 TGATAATGTGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34819773 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34819799 TGATAATGGTTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
34819824 TGAT
1 TGAT
34819828 GAGAATTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 6 0.12
26 46 0.88
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34825246 original size:48 final size:48
Alignment explanation
Indices: 34825181--34825691 Score: 513
Period size: 48 Copynumber: 10.9 Consensus size: 48
34825171 ATATATATAT
*
34825181 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
* *
34825229 ATATATTACACACTAGCCATTCGGCTTTACCACATATACATATCACAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
34825277 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT--CAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
* * * * ** * * * **
34825323 AT-TA--GC-CATTCGGCTTTACCTCATATA-CATATCACACATGTATTTCAC
1 ATATATTTCACATTAGCCATT-CGGC-TTTACCACAT-ATACA--TATCACAC
* * * * ** * *
34825371 AT-TA--GC-CATTCGGCTTTACCAC-TTA-TACATAT-C---TCACAT
1 ATATATTTCACATTAGCCATT-CGGCTTTACCACATATACATATCACAC
* *
34825410 AT--ATTACACACTAGCCATTCGGCTTTACCACATATACATATCACAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
*
34825456 ATATATTTCACATTAGCCATTCGGCTTTACCACATGTACATATCACAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
*
34825504 ATAGATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
* *
34825552 ATATATTTCACACTAGCCATTCGGCTTTACCTCATATACATATCACAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
* * *
34825600 ATGTATTTCACATTAGCCATTCGGCTTTACCACTTATACATATCTCAC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
* * * *
34825648 ATATATTACACACTAGCCATTTGGCTTTACCACATGTAC-TATCA
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCA
34825692 TGTACAAACT
Statistics
Matches: 394, Mismatches: 51, Indels: 37
0.82 0.11 0.08
Matches are distributed among these distances:
38 1 0.00
39 5 0.01
40 3 0.01
41 10 0.03
42 14 0.04
43 8 0.02
44 8 0.02
45 3 0.01
46 20 0.05
47 4 0.01
48 318 0.81
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC
Found at i:34825282 original size:96 final size:96
Alignment explanation
Indices: 34825181--34825690 Score: 742
Period size: 96 Copynumber: 5.5 Consensus size: 96
34825171 ATATATATAT
34825181 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATTACACACTAGC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATTACACACTAGC
34825246 CATTCGGCTTTACCACATATACATATCACAC
66 CATTCGGCTTTACCACATATACATATCACAC
34825277 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA--TCAC----A-T------TAGC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATTACACACTAGC
*
34825329 CATTCGGCTTTACCTCATATACATATCACAC
66 CATTCGGCTTTACCACATATACATATCACAC
* *
34825360 ATGTATTTCACATTAGCCATTCGGCTTTACCACTTATACATATCTCACATATATTACACACTAGC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATTACACACTAGC
34825425 CATTCGGCTTTACCACATATACATATCACAC
66 CATTCGGCTTTACCACATATACATATCACAC
* * * * *
34825456 ATATATTTCACATTAGCCATTCGGCTTTACCACATGTACATATCACACATAGATTTCACATTAGC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATTACACACTAGC
34825521 CATTCGGCTTTACCACATATACATATCACAC
66 CATTCGGCTTTACCACATATACATATCACAC
* * * * * *
34825552 ATATATTTCACACTAGCCATTCGGCTTTACCTCATATACATATCACACATGTATTTCACATTAGC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATTACACACTAGC
* *
34825617 CATTCGGCTTTACCACTTATACATATCTCAC
66 CATTCGGCTTTACCACATATACATATCACAC
* * * *
34825648 ATATATTACACACTAGCCATTTGGCTTTACCACATGTAC-TATC
1 ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
34825691 ATGTACAAAC
Statistics
Matches: 379, Mismatches: 22, Indels: 27
0.89 0.05 0.06
Matches are distributed among these distances:
83 74 0.20
85 4 0.01
89 2 0.01
90 2 0.01
94 4 0.01
95 4 0.01
96 289 0.76
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (96 bp):
ATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATATTACACACTAGC
CATTCGGCTTTACCACATATACATATCACAC
Found at i:34825326 original size:35 final size:35
Alignment explanation
Indices: 34825284--34825358 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
34825274 CACATATATT
34825284 TCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCACATTAGCCATTCGGCTTTACCACATATACATA
*
34825319 TCACATTAGCCATTCGGCTTTACCTCATATACATA
1 TCACATTAGCCATTCGGCTTTACCACATATACATA
34825354 TCACA
1 TCACA
34825359 CATGTATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (35 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:34825352 original size:28 final size:33
Alignment explanation
Indices: 34825274--34825358 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 33
34825264 ATACATATCA
* *
34825274 CACATATATTTCACATTAGCCATTCGGCTTTAC
1 CACATACATATCACATTAGCCATTCGGCTTTAC
34825307 CACATATACATATCACATTAGCCATTCGGCTTTACC
1 CAC--ATACATATCACATTAGCCATTCGGCTTTA-C
*
34825343 TCATATACATATCACA
1 -CACATACATATCACA
34825359 CATGTATTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.07
35 39 0.87
36 1 0.02
37 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (33 bp):
CACATACATATCACATTAGCCATTCGGCTTTAC
Found at i:34825478 original size:144 final size:144
Alignment explanation
Indices: 34825319--34825691 Score: 597
Period size: 144 Copynumber: 2.6 Consensus size: 144
34825309 CATATACATA
*
34825319 TCACATTAGCCATTCGGCTTTACCTCATATACATATCACACATGTATTTCACATTAGCCATTCGG
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGG
* *
34825384 CTTTACCACTTATACATATCTCACATATATTACACACTAGCCATTCGGCTTTACCACATATACAT
66 CTTTACCACATATACATATCACACATATATTACACACTAGCCATTCGGCTTTACCACATATACAT
34825449 ATCACACATATATT
131 ATCACACATATATT
*
34825463 TCACATTAGCCATTCGGCTTTACCACATGTACATATCACACATAG-ATTTCACATTAGCCATTCG
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT-GTATTTCACATTAGCCATTCG
* *
34825527 GCTTTACCACATATACATATCACACATATATTTCACACTAGCCATTCGGCTTTACCTCATATACA
65 GCTTTACCACATATACATATCACACATATATTACACACTAGCCATTCGGCTTTACCACATATACA
*
34825592 TATCACACATGTATT
130 TATCACACATATATT
* * * * * *
34825607 TCACATTAGCCATTCGGCTTTACCACTTATACATATCTCACATATATTACACACTAGCCATTTGG
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGG
*
34825672 CTTTACCACATGTAC-TATCA
66 CTTTACCACATATACATATCA
34825692 TGTACAAACT
Statistics
Matches: 212, Mismatches: 15, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
143 5 0.02
144 206 0.97
145 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.34
Consensus pattern (144 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGG
CTTTACCACATATACATATCACACATATATTACACACTAGCCATTCGGCTTTACCACATATACAT
ATCACACATATATT
Found at i:34832244 original size:26 final size:26
Alignment explanation
Indices: 34832205--34832312 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
34832195 TGATACAAAT
34832205 TGATAATGTG-TTAGGTAAATGTTCCA
1 TGATAATG-GATTAGGTAAATGTTCCA
* *
34832231 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
34832257 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
34832283 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGATTAGGTAAATGTTCCA
34832309 TGAT
1 TGAT
34832313 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 1 0.01
26 73 0.99
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:34832261 original size:52 final size:52
Alignment explanation
Indices: 34832205--34832312 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
34832195 TGATACAAAT
*
34832205 TGATAATGTGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
* * * *
34832257 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
34832309 TGAT
1 TGAT
34832313 GGGAATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
Found at i:34833830 original size:26 final size:26
Alignment explanation
Indices: 34833800--34833852 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
34833790 TTTATAGTTT
*
34833800 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
34833826 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
34833852 T
1 T
34833853 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:34836878 original size:12 final size:12
Alignment explanation
Indices: 34836858--34836921 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
34836848 ATCTAGGGTT
* *
34836858 ATTTCGATTTCA
1 ATTTTGATTTCG
*
34836870 ATTTTGATTTTG
1 ATTTTGATTTCG
* *
34836882 ATTCTGATTTTG
1 ATTTTGATTTCG
*
34836894 ATTTTGATTTCT
1 ATTTTGATTTCG
*
34836906 ATTTTGATTTGG
1 ATTTTGATTTCG
34836918 ATTT
1 ATTT
34836922 CAATTTTGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.19, C:0.06, G:0.14, T:0.61
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:34836879 original size:6 final size:6
Alignment explanation
Indices: 34836870--34837017 Score: 82
Period size: 6 Copynumber: 23.7 Consensus size: 6
34836860 TTCGATTTCA
* *
34836870 ATTTTG ATTTTG ATTCTG ATTTTG ATTTTG ATTTCT- ATTTTG ATTTGG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT-TG ATTTTG ATTTTG
** ** * * **
34836918 ATTTCA ATTTTG AAACACTCACTG ATTCTG ATCTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * * * * *
34836966 ATTTCG ATCTTG ATTTAG ATTTGG ATTTCG ATTTTG ATTTGG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
34837014 ATTT
1 ATTT
34837018 AGGGTTATTT
Statistics
Matches: 109, Mismatches: 25, Indels: 16
0.73 0.17 0.11
Matches are distributed among these distances:
5 1 0.01
6 101 0.93
7 2 0.02
8 1 0.01
10 1 0.01
11 1 0.01
12 2 0.02
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.55
Consensus pattern (6 bp):
ATTTTG
Found at i:34836884 original size:18 final size:18
Alignment explanation
Indices: 34836858--34836930 Score: 94
Period size: 18 Copynumber: 4.1 Consensus size: 18
34836848 ATCTAGGGTT
*
34836858 ATTTCGATTTCAATTTTG
1 ATTTTGATTTCAATTTTG
*
34836876 ATTTTGA-TTCTGATTTTG
1 ATTTTGATTTC-AATTTTG
*
34836894 ATTTTGATTTCTATTTTG
1 ATTTTGATTTCAATTTTG
*
34836912 ATTTGGATTTCAATTTTG
1 ATTTTGATTTCAATTTTG
34836930 A
1 A
34836931 AACACTCACT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
17 3 0.06
18 42 0.88
19 3 0.06
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (18 bp):
ATTTTGATTTCAATTTTG
Found at i:34837529 original size:37 final size:37
Alignment explanation
Indices: 34837479--34837551 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
34837469 AAGAAGACAT
34837479 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAAA
1 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAAA
34837516 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAA
1 GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAA
34837552 TTTAGATGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.33, T:0.33
Consensus pattern (37 bp):
GTATGGTAGTGATGTGTCTAATAGGATAGGAGTTAAA
Found at i:34839297 original size:40 final size:40
Alignment explanation
Indices: 34839199--34839300 Score: 177
Period size: 40 Copynumber: 2.5 Consensus size: 40
34839189 TTAGTGAATG
*
34839199 TTTTTTAATATGCATGCACTGACTGTTGGTGTGTTGACTA
1 TTTTTTAATATGCATGCAGTGACTGTTGGTGTGTTGACTA
* *
34839239 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGACTGTTGGTGTGTTGACTA
34839279 TTTTTTAATATGCATGCAGTGA
1 TTTTTTAATATGCATGCAGTGA
34839301 GTATTTTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.46
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGACTGTTGGTGTGTTGACTA
Found at i:34839318 original size:29 final size:27
Alignment explanation
Indices: 34839279--34839338 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
34839269 GTGTTGCCTA
*
34839279 TTTTTTAATATGCATGCAGTGAGTATTT
1 TTTTTTAATATGCATGCAGTGACT-TTT
*
34839307 TTTTTATAATATGCATGTAGTGACTTTT
1 TTTTT-TAATATGCATGCAGTGACTTTT
34839335 TTTT
1 TTTT
34839339 AGCGATGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (27 bp):
TTTTTTAATATGCATGCAGTGACTTTT
Found at i:34840729 original size:16 final size:16
Alignment explanation
Indices: 34840708--34840738 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34840698 ATGAGCTGGT
34840708 TAGCCATGTATAACAG
1 TAGCCATGTATAACAG
34840724 TAGCCATGTATAACA
1 TAGCCATGTATAACA
34840739 TATATTAAGC
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:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (16 bp):
TAGCCATGTATAACAG
Found at i:34840790 original size:36 final size:38
Alignment explanation
Indices: 34840716--34840799 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 38
34840706 GTTAGCCATG
* * *
34840716 TATAACAGTAGCCATGTATAACATATATTAAGCAACAA
1 TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
*
34840754 TATACCAGCAGCCATGTATACCA-ACA-TAAGCAACAA
1 TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
34840790 TATACCAGCA
1 TATACCAGCA
34840800 ACAATATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 20 0.48
37 2 0.05
38 20 0.48
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (38 bp):
TATACCAGCAGCCATGTATAACATACATTAAGCAACAA
Found at i:34840817 original size:36 final size:36
Alignment explanation
Indices: 34840744--34840820 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
34840734 TAACATATAT
* * * *
34840744 TAAGCAACAATATACCAGCAGCCATGTATACCAACA
1 TAAGCAACAATATACCAGCAACAATATATACAAACA
34840780 TAAGCAACAATATACCAGCAACAATAT-TACAATACA
1 TAAGCAACAATATACCAGCAACAATATATACAA-ACA
34840816 TAAGC
1 TAAGC
34840821 TGGTGTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 4 0.11
36 32 0.89
ACGTcount: A:0.48, C:0.25, G:0.09, T:0.18
Consensus pattern (36 bp):
TAAGCAACAATATACCAGCAACAATATATACAAACA
Found at i:34841177 original size:3 final size:3
Alignment explanation
Indices: 34841162--34841212 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
34841152 CCATTTTTCC
* * * *
34841162 TCT TCT CCT TCT TCT TCT TCT TCT AC- TCC TCT TCT TCT TCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
34841209 TCT T
1 TCT T
34841213 TTTTTCTAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:34841196 original size:20 final size:21
Alignment explanation
Indices: 34841166--34841205 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
34841156 TTTTCCTCTT
34841166 CTCCTTCTTCTTCTTCTTCTA
1 CTCCTTCTTCTTCTTCTTCTA
34841187 CTCC-TCTTCTTCTTCTTCT
1 CTCCTTCTTCTTCTTCTTCT
34841206 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (21 bp):
CTCCTTCTTCTTCTTCTTCTA
Found at i:34852759 original size:217 final size:216
Alignment explanation
Indices: 34852383--34852796 Score: 494
Period size: 217 Copynumber: 1.9 Consensus size: 216
34852373 GAGAAAGATT
* * * * *
34852383 ATTGAAGAGATTCCATCTAAAGACTCATTTGATTTAACTGATGAATCAGAAACTAAATCAAACTC
1 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTAAATCAAACTC
* *
34852448 CAATTTATAGAGGACATACCTCTGAAGGAAATCATCGATAACAAAGCTCGATCCAAGAAGCCAAA
66 CAATTTATAGAGGACATACCTCTAAAGGAAATCATCGATAACAAACCTCGATCCAAGAAGCCAAA
* * * * * * *
34852513 TGTTCCTATGACTGCACAGCAACGTAACAATAGGATAAAGCAAGTAGGTGTACCTTCTTTGCTTG
131 TGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGCAAGTGTACCTTCTTTGCTTG
34852578 CTGAAGCTGCTGCCAAGGTAC
196 CTGAAGCTGCTGCCAAGGTAC
** *
34852599 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAGTTGATGAACCAGAAAC-AGAATCAGAC-
1 ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTA-AATCAAACT
* * * * * **
34852662 CCTAGCTTTGTAGAAGG-CATACCTCTAAAGGAAATCATTGGTGGA-AAACCTCGATCCAAGCGG
65 CC-A-ATTTATAG-AGGACATACCTCTAAAGGAAATCATCGAT-AACAAACCTCGATCCAAGAAG
* * * *
34852725 CCAAATGTGCATATGACTGCACAACAATGTAACAAGAAGATGAAGTAAGCAAGTGTACTTTCTTT
126 CCAAATGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGCAAGTGTACCTTCTTT
*
34852790 TCTTGCT
191 GCTTGCT
34852797 AAAGATAAGG
Statistics
Matches: 164, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
215 3 0.02
216 54 0.33
217 103 0.63
218 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (216 bp):
ATTGAAGAGATTCCACCTAAAGACTCATCTAATTCAACTGATGAACCAGAAACTAAATCAAACTC
CAATTTATAGAGGACATACCTCTAAAGGAAATCATCGATAACAAACCTCGATCCAAGAAGCCAAA
TGTGCATATGACTGCACAACAACGTAACAAGAAGATAAAGCAAGCAAGTGTACCTTCTTTGCTTG
CTGAAGCTGCTGCCAAGGTAC
Found at i:34868947 original size:33 final size:31
Alignment explanation
Indices: 34868862--34868947 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
34868852 AAATATTTTT
*
34868862 TTCTATTTAAAATAAATATAAGTTTAATATATA
1 TTCTATTT--AATATATATAAGTTTAATATATA
*
34868895 TTCTATTTAATATAAATATAAGTTTAATA-ATTT
1 TTCTATTTAATAT--ATATAAGTTTAATATA-TA
34868928 TTAACTATTTAATATATATA
1 TT--CTATTTAATATATATA
34868948 TAATTTTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
31 4 0.09
32 1 0.02
33 30 0.65
35 11 0.24
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (31 bp):
TTCTATTTAATATATATAAGTTTAATATATA
Found at i:34869788 original size:21 final size:21
Alignment explanation
Indices: 34869745--34869788 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
34869735 TATACTATAT
* ** *
34869745 TTTATATTTTTTTACTTAGAG
1 TTTAAATTTTTTTACAAAAAG
34869766 TTTAAATTTTTTTACAAAAAG
1 TTTAAATTTTTTTACAAAAAG
34869787 TT
1 TT
34869789 AACATTTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTTTACAAAAAG
Found at i:34869881 original size:14 final size:15
Alignment explanation
Indices: 34869864--34869892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34869854 GAGTATGGTA
34869864 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
34869878 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
34869893 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:34870316 original size:12 final size:12
Alignment explanation
Indices: 34870299--34870323 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34870289 CATTCATAAT
34870299 ATAAAATTAAAA
1 ATAAAATTAAAA
34870311 ATAAAATTAAAA
1 ATAAAATTAAAA
34870323 A
1 A
34870324 ATTAAAAGTA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAATTAAAA
Found at i:34876182 original size:26 final size:26
Alignment explanation
Indices: 34876152--34876207 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
34876142 TGAAATTCCC
34876152 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34876178 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34876204 ATCA
1 ATCA
34876208 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34883212 original size:26 final size:26
Alignment explanation
Indices: 34883182--34883237 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
34883172 TGAAATTCCC
34883182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34883208 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34883234 ATCA
1 ATCA
34883238 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34884185 original size:42 final size:42
Alignment explanation
Indices: 34884132--34884213 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
34884122 TATTTAACTC
34884132 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
1 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
* * * *
34884174 TTTGATGTCATTTATACTTCTATAGAACTTCTCATTTCTT
1 TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTT
34884214 ATCTTTGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.06, T:0.51
Consensus pattern (42 bp):
TTTGATGTCATTTATAATTCTATACAACTCCCCATTTCTTTT
Found at i:34891904 original size:57 final size:57
Alignment explanation
Indices: 34891796--34891904 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
34891786 TATTACAGAA
* * * *
34891796 AGGATTTAGCCTGGACTGGTAGTCCTGATATAAGCCCTCTTAAGCATATGTTATAGAT
1 AGGATTTACCCCGGACGGGTAATCCTGATATAAG-CCTCTTAAGCATATGTTATAGAT
34891854 AGGATTTACCCCGGACGGGTAATCCTGAT-TAAG-CTCTTATGAGCATATGTT
1 AGGATTTACCCCGGACGGGTAATCCTGATATAAGCCTCTTA--AGCATATGTT
34891905 GGAAACAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
55 6 0.13
57 14 0.31
58 25 0.56
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (57 bp):
AGGATTTACCCCGGACGGGTAATCCTGATATAAGCCTCTTAAGCATATGTTATAGAT
Found at i:34891915 original size:57 final size:57
Alignment explanation
Indices: 34891796--34891918 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 57
34891786 TATTACAGAA
* * * * * * *
34891796 AGGATTTAGCCTGGACTGGTAGTCCTGATATAAGCCCTCTTAAGCATATGTTATAGAT
1 AGGATTTACCCCGGACGGGTAATCCTGATATAAG-CCTCTTAAGCATATGTTAGAAAC
*
34891854 AGGATTTACCCCGGACGGGTAATCCTGAT-TAAG-CTCTTATGAGCATATGTTGGAAAC
1 AGGATTTACCCCGGACGGGTAATCCTGATATAAGCCTCTTA--AGCATATGTTAGAAAC
34891911 AGGATTTA
1 AGGATTTA
34891919 GCTTGGACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 6 0.11
57 24 0.44
58 25 0.45
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (57 bp):
AGGATTTACCCCGGACGGGTAATCCTGATATAAGCCTCTTAAGCATATGTTAGAAAC
Found at i:34894986 original size:44 final size:44
Alignment explanation
Indices: 34894934--34895413 Score: 239
Period size: 44 Copynumber: 10.7 Consensus size: 44
34894924 ATTGAAGGCT
* *
34894934 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATAGTAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAGCAAGTC
*
34894978 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAGC-AAGTC
* * * * *
34895023 TTATTTCCCTGAAGATACAGTGGAACAGATTGAGCTATAAATA-AATAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT--G----AAATAGCA-AG-TC
* * ** * **
34895074 TTATCTCTCTGAAGTTGCAGTAGATTAGA-T--CATAGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAGCAAGTC
* * *
34895115 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAGCAAGTC
* * * *
34895159 TTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAAC-AGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAGCAAG-TC
* * * *
34895204 TTATCTCCCTGAAGTCGCAATGGAGCAGA-T-CAA-AGCCATAATCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAG-CA-AGT-C
*** * ** * ** * **
34895248 TTATCTTTATAAAGTTGCAGTAAAGAAGGATAAAAATACACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAATA-GCAAGTC
* * *
34895294 TTATCTCCTTGAAGTTGCAGTGGGGCA-AGTTGAAGTTATG--AGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAA-ATA-GCAAGTC
* * *
34895338 TTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGATAGCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAGC-AAGTC
* * * *
34895383 TTATCTCTCTGAAGTTGTAGTAGAGCGGATT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT
34895414 AAAGCTATAA
Statistics
Matches: 322, Mismatches: 82, Indels: 63
0.69 0.18 0.13
Matches are distributed among these distances:
41 27 0.08
42 7 0.02
43 4 0.01
44 125 0.39
45 94 0.29
46 25 0.08
47 5 0.02
48 4 0.01
49 1 0.00
50 4 0.01
51 26 0.08
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAGCAAGTC
Found at i:34895442 original size:179 final size:178
Alignment explanation
Indices: 34895109--34895448 Score: 445
Period size: 179 Copynumber: 1.9 Consensus size: 178
34895099 TAGATCATAG
* *
34895109 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCTTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTGAAGTAG-AAGTCTTATCTCCCTGAAGT
* *
34895174 TGCAGTGGAGCAAACTGAAGATAACAGATCTTATCTCCCTGAAGTCGCAATGGAGCAGATCAAAG
65 TGCAGTGGAACAAACTGAAGATAACAGATCTTATCTCCCTGAAGTCGCAATAGAGCAGATCAAAG
*
34895239 CCATAATCCTTATCTTTATAAAGTTGCAGTAAAGAAGGATAAAAATACA
130 CCATAATCCTTATCTCTATAAAGTTGCAGTAAAGAAGGATAAAAATACA
* * *
34895288 CAAACCTTATCTCCTTGAAGTTGCAGTGGGGCAAGTTGAAGTTATG-AGTCTTATCTCCCTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTGAAG-TA-GAAGTCTTATCTCCCTGAAG
* * * * * * *
34895352 TTGCAGTGGAACAAACTGAAGATAGC-GAATCTTATCTCTCTGAAGTTGTAGTAGAGCGGATTAA
64 TTGCAGTGGAACAAACTGAAGATAACAG-ATCTTATCTCCCTGAAGTCGCAATAGAGCAGATCAA
* *
34895416 AGCTATAAATCC-TATAC-CTCTAAAGTTGCAGTA
128 AGCCAT-AATCCTTAT-CTCTATAAAGTTGCAGTA
34895449 GGTCAGATCA
Statistics
Matches: 139, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
178 1 0.01
179 129 0.93
180 8 0.06
181 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (178 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTGAAGTAGAAGTCTTATCTCCCTGAAGTT
GCAGTGGAACAAACTGAAGATAACAGATCTTATCTCCCTGAAGTCGCAATAGAGCAGATCAAAGC
CATAATCCTTATCTCTATAAAGTTGCAGTAAAGAAGGATAAAAATACA
Found at i:34897645 original size:21 final size:20
Alignment explanation
Indices: 34897604--34897647 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
34897594 CATCATTTGT
34897604 TTTAAATTTATTCATTATTA
1 TTTAAATTTATTCATTATTA
* * *
34897624 TTTAGATTCTATTTATTTTTA
1 TTTAAATT-TATTCATTATTA
34897645 TTT
1 TTT
34897648 TGCCTTATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTAAATTTATTCATTATTA
Found at i:34898817 original size:36 final size:35
Alignment explanation
Indices: 34898741--34898817 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
34898731 TAAAGTAAAT
* *
34898741 AAAGAATTAAACAAATAAAGAAACAAAAGAAATAG
1 AAAGAATTAAACAAATAAAGAAACAAAACAAAGAG
* *
34898776 AAAGAA-TAAACAGAATAAGGAGAACGAAACAAAGAG
1 AAAGAATTAAACA-AATAAAGA-AACAAAACAAAGAG
34898812 AAAGAA
1 AAAGAA
34898818 AGTGGAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 6 0.17
35 13 0.36
36 17 0.47
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.08
Consensus pattern (35 bp):
AAAGAATTAAACAAATAAAGAAACAAAACAAAGAG
Found at i:34902605 original size:5 final size:5
Alignment explanation
Indices: 34902595--34902622 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
34902585 CTGTGTGTTC
34902595 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
34902623 TCACAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:34908746 original size:39 final size:39
Alignment explanation
Indices: 34908692--34908783 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
34908682 CAAGACACTG
* *
34908692 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGCTA
*
34908731 GAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGCTA
34908770 GAAATGTATCCGGG
1 GAAATGTATCCGGG
34908784 ACTTTCCGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGCTA
Found at i:34910929 original size:31 final size:32
Alignment explanation
Indices: 34910885--34910944 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
34910875 GTAATTGTCG
34910885 TTGCAGGGGATTTAGCCTGGACTGGTAATGTA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATGTA
34910917 TTGCA-GGGATTTAGCCTGGACTGGTAAT
1 TTGCAGGGGATTTAGCCTGGACTGGTAAT
34910945 CCCGACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.22, C:0.13, G:0.33, T:0.32
Consensus pattern (32 bp):
TTGCAGGGGATTTAGCCTGGACTGGTAATGTA
Found at i:34919608 original size:39 final size:39
Alignment explanation
Indices: 34919554--34919652 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
34919544 ATTACATTCC
34919554 GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
1 GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
* * *
34919593 GGGCTAAAGTCCCGCAGGCTTCGTGTTGGAAATGTATCC
1 GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
**
34919632 GGGCTAAAGTTTCGCAGGCTT
1 GGGCTAAAGTCCCGCAGGCTT
34919653 TGTGCTGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
GGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCA
Found at i:34926616 original size:21 final size:22
Alignment explanation
Indices: 34926570--34926617 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
34926560 TTGGCCCAGG
34926570 CAAATAAACAAAAAATAAAACC
1 CAAATAAACAAAAAATAAAACC
* * *
34926592 CAAATAACCAAATAA-AAAGCC
1 CAAATAAACAAAAAATAAAACC
34926613 CAAAT
1 CAAAT
34926618 TTTAAGTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.67, C:0.21, G:0.02, T:0.10
Consensus pattern (22 bp):
CAAATAAACAAAAAATAAAACC
Found at i:34928254 original size:26 final size:24
Alignment explanation
Indices: 34928174--34928265 Score: 69
Period size: 26 Copynumber: 3.6 Consensus size: 24
34928164 CATTTTTTTA
* *
34928174 TTATTTTAAACTTTCTATATATTAT
1 TTATTTTAAA-TTTTTATACATTAT
*
34928199 TTATTTTGAAATGTTTT-TACATACTCT
1 TTATTTT-AAAT-TTTTATACAT--TAT
34928226 TTATTTTAAATTATTTTATACATTAT
1 TTATTTTAAA-T-TTTTATACATTAT
**
34928252 TTATTCCAAATTTT
1 TTATTTTAAATTTT
34928266 CACATATAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
24 3 0.06
25 13 0.24
26 19 0.35
27 14 0.26
28 5 0.09
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATTTTAAATTTTTATACATTAT
Found at i:34928426 original size:49 final size:47
Alignment explanation
Indices: 34928349--34928458 Score: 134
Period size: 49 Copynumber: 2.3 Consensus size: 47
34928339 GCTACTTTAG
* *
34928349 TATTATTTATTTTAAGTTTGTATACATTATTTATTTGAAACTTTTTT
1 TATTATTTACTTTAAGTTTGTATACATTATTTATTTGAAACTTTGTT
* *
34928396 TATTATTTACTTTAAGTCGCTT-TATTCATTATTTATTTTAAACTTTGTT
1 TATTATTTACTTTAAGT---TTGTATACATTATTTATTTGAAACTTTGTT
*
34928445 T-CTATTTACTTTAA
1 TATTATTTACTTTAA
34928459 TTTCTTTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
47 16 0.29
48 12 0.22
49 25 0.45
50 2 0.04
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.60
Consensus pattern (47 bp):
TATTATTTACTTTAAGTTTGTATACATTATTTATTTGAAACTTTGTT
Found at i:34934693 original size:12 final size:12
Alignment explanation
Indices: 34934676--34934700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34934666 CAGAGGCTAT
34934676 TAACAATATTTA
1 TAACAATATTTA
34934688 TAACAATATTTA
1 TAACAATATTTA
34934700 T
1 T
34934701 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:34942132 original size:30 final size:30
Alignment explanation
Indices: 34942092--34942156 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
34942082 GCAGAAAAAA
*
34942092 CTCTTAAATTTCTCCCTAAAATTT-TCAAAG
1 CTCTCAAATTTCT-CCTAAAATTTCTCAAAG
* *
34942122 CTCTCAAATTTCTCTTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCTAAAATTTCTCAAAG
34942152 CTCTC
1 CTCTC
34942157 TTTAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (30 bp):
CTCTCAAATTTCTCCTAAAATTTCTCAAAG
Found at i:34944203 original size:21 final size:21
Alignment explanation
Indices: 34944178--34944219 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34944168 AACACCCACA
*
34944178 ACCAGAGCAACAATAACCCCC
1 ACCAGAGCAACAACAACCCCC
*
34944199 ACCAGAGCAACCACAACCCCC
1 ACCAGAGCAACAACAACCCCC
34944220 GCCAAAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.48, G:0.10, T:0.02
Consensus pattern (21 bp):
ACCAGAGCAACAACAACCCCC
Found at i:34944381 original size:24 final size:23
Alignment explanation
Indices: 34944354--34944410 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
34944344 TATTTAATAA
34944354 AATAAAAGTTATTTTTA-ATATTTT
1 AATAAAA-TTATTTTTATAT-TTTT
34944378 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
34944403 AATAAAAT
1 AATAAAAT
34944411 AGAAGTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 17 0.57
26 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AATAAAATTATTTTTATATTTTT
Found at i:34944812 original size:10 final size:10
Alignment explanation
Indices: 34944797--34944840 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
34944787 AATTTTAGCT
34944797 TTTATCTTTA
1 TTTATCTTTA
*
34944807 TTTATCCTTA
1 TTTATCTTTA
34944817 TTTATCTTTA
1 TTTATCTTTA
*
34944827 ATTATCTTTA
1 TTTATCTTTA
34944837 TTTA
1 TTTA
34944841 ATTGTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:34947280 original size:13 final size:13
Alignment explanation
Indices: 34947262--34947291 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
34947252 GGTAAGAGGG
34947262 TGGCTACGAATAT
1 TGGCTACGAATAT
34947275 TGGCTACGAATAT
1 TGGCTACGAATAT
34947288 TGGC
1 TGGC
34947292 AATTAAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (13 bp):
TGGCTACGAATAT
Found at i:34948636 original size:25 final size:25
Alignment explanation
Indices: 34948602--34948649 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
34948592 CGGTGTCACG
34948602 GACCTCACCATCATTGTAAATAATA
1 GACCTCACCATCATTGTAAATAATA
34948627 GACCTCACCATCATTGTAAATAA
1 GACCTCACCATCATTGTAAATAA
34948650 CAACACTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (25 bp):
GACCTCACCATCATTGTAAATAATA
Found at i:34952003 original size:17 final size:17
Alignment explanation
Indices: 34951972--34952005 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34951962 TGTCTATTTG
**
34951972 GAAAAAAAATGTTAAAA
1 GAAAAAAAACCTTAAAA
34951989 GAAAAAAAACCTTAAAA
1 GAAAAAAAACCTTAAAA
34952006 CGTATAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (17 bp):
GAAAAAAAACCTTAAAA
Found at i:34952196 original size:12 final size:12
Alignment explanation
Indices: 34952179--34952208 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34952169 TAAATTAATG
34952179 TATTAAGAGGTA
1 TATTAAGAGGTA
34952191 TATTAAGAGGTA
1 TATTAAGAGGTA
*
34952203 TTTTAA
1 TATTAA
34952209 ATTAATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (12 bp):
TATTAAGAGGTA
Found at i:34952284 original size:48 final size:47
Alignment explanation
Indices: 34952217--34952309 Score: 159
Period size: 48 Copynumber: 2.0 Consensus size: 47
34952207 AAATTAATGT
* *
34952217 TTTAAGTAAAAACATTATTACACAGCAGTAATTAAAATAGTAATTGA
1 TTTAAGTAAAAAAATTATTACACAACAGTAATTAAAATAGTAATTGA
34952264 TTTAAGTAAAAAAAATTATTACACAACAGTAATTAAAATAGTAATT
1 TTTAAGT-AAAAAAATTATTACACAACAGTAATTAAAATAGTAATT
34952310 TAGATTAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 7 0.16
48 36 0.84
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.32
Consensus pattern (47 bp):
TTTAAGTAAAAAAATTATTACACAACAGTAATTAAAATAGTAATTGA
Found at i:34958046 original size:27 final size:27
Alignment explanation
Indices: 34958008--34958060 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
34957998 CTCACCGAAT
34958008 GGTAATTATTAAATTCATTAAGTTTTC
1 GGTAATTATTAAATTCATTAAGTTTTC
34958035 GGTAATTATTAAATTCATTAAGTTTT
1 GGTAATTATTAAATTCATTAAGTTTT
34958061 GTTATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (27 bp):
GGTAATTATTAAATTCATTAAGTTTTC
Found at i:34967288 original size:16 final size:16
Alignment explanation
Indices: 34967267--34967297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34967257 AAATAAAGTA
34967267 TAATAAAACAAATAGG
1 TAATAAAACAAATAGG
*
34967283 TAATAAAAGAAATAG
1 TAATAAAACAAATAG
34967298 AAAGCCATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (16 bp):
TAATAAAACAAATAGG
Found at i:34968766 original size:19 final size:19
Alignment explanation
Indices: 34968742--34968780 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34968732 CTTCTGCCCA
*
34968742 GCCTCCATGCTCCAC-AACG
1 GCCTCCACGC-CCACGAACG
34968761 GCCTCCACGCCCACGAACG
1 GCCTCCACGCCCACGAACG
34968780 G
1 G
34968781 TTTCTCCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.21, C:0.49, G:0.21, T:0.10
Consensus pattern (19 bp):
GCCTCCACGCCCACGAACG
Found at i:34992590 original size:19 final size:21
Alignment explanation
Indices: 34992552--34992591 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
34992542 TTAATTTATT
*
34992552 TAATATTTTTATAGATTTTAA
1 TAATATTTTTACAGATTTTAA
34992573 TAATA-TTTTACA-ATTTTAA
1 TAATATTTTTACAGATTTTAA
34992592 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TAATATTTTTACAGATTTTAA
Found at i:34996875 original size:45 final size:45
Alignment explanation
Indices: 34996819--34996923 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
34996809 CGATATCTGC
* *
34996819 TATCTTTGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
* * *
34996864 TATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
* *
34996909 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
34996924 TCGATGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
Found at i:34997066 original size:78 final size:78
Alignment explanation
Indices: 34996944--34997230 Score: 407
Period size: 78 Copynumber: 3.7 Consensus size: 78
34996934 CACATGAACA
* *
34996944 TCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAAAACAGAGATGCCAAATCATCTTGGATCT
1 TCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
34997009 GCTTCAATGAAGG
66 GCTTCAATGAAGG
* * * *
34997022 TCCA-ATCTGTTATGTCTTCGATCTGCTCACCGTCTAATATAGAGATGCCAAATCATCTTAGATC
1 T-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
*
34997086 TGCTTCAACGAAGG
65 TGCTTCAATGAAGG
* * * * *
34997100 TCAGATCTGCTGTGTCTTTGATCTACTCCCCGTCTAACACAGAGATG-CGAATCATCTTGGATCT
1 TCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
34997164 GCTTCAATGAAGG
66 GCTTCAATGAAGG
* * **
34997177 TCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 TCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
34997231 TGTTTCTTCG
Statistics
Matches: 180, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
77 68 0.38
78 110 0.61
79 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (78 bp):
TCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
GCTTCAATGAAGG
Found at i:34997227 original size:155 final size:156
Alignment explanation
Indices: 34996944--34997230 Score: 461
Period size: 155 Copynumber: 1.8 Consensus size: 156
34996934 CACATGAACA
*
34996944 TCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAAAACAGAGATGCCAAATCATCTTGGATCT
1 TCAGATCTGCTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGCCAAATCATCTTGGATCT
* *
34997009 GCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCACCGTCTAATATAGAGATGCCAAA
66 GCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCACCGTCGAATATAGAGATGCCAAA
34997074 TCATCTTAGATCTGCTTCAACGAAGG
131 TCATCTTAGATCTGCTTCAACGAAGG
* * * * *
34997100 TCAGATCTGCTGTGTCTTTGATCTACTCCCCGTCTAACACAGAGATG-CGAATCATCTTGGATCT
1 TCAGATCTGCTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGCCAAATCATCTTGGATCT
* *
34997164 GCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAA
66 GCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCACCGTCGAATATAGAGATGCCAA
34997228 ATC
130 ATC
34997231 TGTTTCTTCG
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
154 2 0.02
155 76 0.63
156 42 0.35
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (156 bp):
TCAGATCTGCTATGTCTTCGATCTACTCCCCATCTAAAACAGAGATGCCAAATCATCTTGGATCT
GCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCACCGTCGAATATAGAGATGCCAAA
TCATCTTAGATCTGCTTCAACGAAGG
Found at i:34997441 original size:78 final size:78
Alignment explanation
Indices: 34997312--34997517 Score: 322
Period size: 78 Copynumber: 2.6 Consensus size: 78
34997302 TGAAAGCCAA
*
34997312 ATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
34997377 CAATGAAGGTCAG
66 CAATGAAGGTCAG
* * *
34997390 ATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
34997455 CAATGAAGGTCAG
66 CAATGAAGGTCAG
* * * * * *
34997468 GTCTGCTATGTCTTCAATCTGTTCTCCGTCAAATATAGAGATGCCAAATC
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
34997518 TGTTTCTTCG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 116 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTT
CAATGAAGGTCAG
Found at i:34997547 original size:287 final size:286
Alignment explanation
Indices: 34997025--34997724 Score: 1152
Period size: 286 Copynumber: 2.5 Consensus size: 286
34997015 ATGAAGGTCC
* * * *
34997025 AATCTGTTATGTCTTCGATCTGCTCACCGTCTAATATAGAGATGCCAAATCATCTTAGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
* * * * *
34997090 TCAACGAAGGTCAGATCTGCTGTGTCTTTGATCTACTCCCCGTCTAACACAGAGATG-CGAATCA
66 TCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
* * *
34997154 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGG
131 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATAG
34997219 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
196 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
34997284 TGCTTCAGCGTAAACACGTGAAAGCCA
261 -GCTTCAGCGTAAACACGTGAAAGCCA
* *
34997311 AATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATATTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
34997376 TCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
66 TCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
* *
34997441 TCTTGGATCTGCTTCAATGAAGGTCAGGTCTGCTATGTCTTCAATCTGTTCTCCGTCAAATATAG
131 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATAG
34997506 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
196 AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
*
34997571 GCTTCAGTGTAAACACGTGAAAGCCA
261 GCTTCAGCGTAAACACGTGAAAGCCA
*
34997597 AATCTGCTATGTCTTTGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
* * * * **
34997661 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATC
66 TCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
34997725 TGTTTCTTCG
Statistics
Matches: 385, Mismatches: 28, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
285 95 0.25
286 159 0.41
287 131 0.34
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (286 bp):
AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATAG
AGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATC
GCTTCAGCGTAAACACGTGAAAGCCA
Found at i:34997639 original size:207 final size:209
Alignment explanation
Indices: 34997398--34997819 Score: 679
Period size: 207 Copynumber: 2.0 Consensus size: 209
34997388 AGATCTGTTG
*
34997398 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
* *
34997463 GTCAGGTCTGCTATGTCTTCAATCTGTTCTCCGTCAAATATAGAGATGCCAAATCTGTTTCTTCG
66 GTCAGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATAGAGATGCCAAATCTGTTTCTTCG
* * * *
34997528 ATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGAT-CGCTTCAGTGTAAACACGTGAA
131 ATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCCGCTTCAGCGTAAACACCTGAA
34997592 AGCCAAATCTGCTA
196 AGCCAAATCTGCTA
34997606 TGTCTTTGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
* * * *
34997670 GTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCG
66 GTCAGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATAGAGATGCCAAATCTGTTTCTTCG
** *
34997735 ATTTATTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAA
131 ATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCCGCTTCAGCGTAAACACCTGAA
* *
34997800 GGTCAAATCTGCTA
196 AGCCAAATCTGCTA
34997814 TG-CTTT
1 TGTCTTT
34997820 AGCCTGTTAC
Statistics
Matches: 197, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
207 149 0.76
208 48 0.24
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (209 bp):
TGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
GTCAGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATAGAGATGCCAAATCTGTTTCTTCG
ATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCCGCTTCAGCGTAAACACCTGAA
AGCCAAATCTGCTA
Found at i:35009499 original size:2 final size:2
Alignment explanation
Indices: 35009492--35009520 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35009482 TAATAAAATA
35009492 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
35009521 AAAGTAATAA
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:35013277 original size:16 final size:16
Alignment explanation
Indices: 35013255--35013296 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
35013245 TTTTTATATT
35013255 ATTTTAATATTAAATA
1 ATTTTAATATTAAATA
* *
35013271 TTTTTAAAATTAAATA
1 ATTTTAATATTAAATA
*
35013287 ATATTAATAT
1 ATTTTAATAT
35013297 AATTGGTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAATATTAAATA
Found at i:35013327 original size:19 final size:20
Alignment explanation
Indices: 35013289--35013328 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
35013279 ATTAAATAAT
*
35013289 ATTAATATAATTGGTTTTAA
1 ATTAATATAAATGGTTTTAA
*
35013309 ATTAAT-TAAATGTTTTTAA
1 ATTAATATAAATGGTTTTAA
35013328 A
1 A
35013329 ACATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTAATATAAATGGTTTTAA
Found at i:35013400 original size:13 final size:14
Alignment explanation
Indices: 35013384--35013412 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35013374 AAAGAAAGTC
35013384 ATTAAAAA-TTAAT
1 ATTAAAAATTTAAT
35013397 ATTAAAAATTTAAT
1 ATTAAAAATTTAAT
35013411 AT
1 AT
35013413 ATACAACTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAAAATTTAAT
Found at i:35017424 original size:13 final size:14
Alignment explanation
Indices: 35017398--35017426 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35017388 AATATGTTCC
35017398 ATTATTTATTAAAT
1 ATTATTTATTAAAT
35017412 ATTATTT-TTAAAT
1 ATTATTTATTAAAT
35017425 AT
1 AT
35017427 ATACTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTATTAAAT
Found at i:35021668 original size:104 final size:104
Alignment explanation
Indices: 35021534--35021742 Score: 391
Period size: 104 Copynumber: 2.0 Consensus size: 104
35021524 ACCAGCTGCT
35021534 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
1 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
* *
35021599 ATCGTCCGGAGGCTGTCATTGTTTCATACACCGTTGATG
66 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
*
35021638 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCGCAATCTGCAATGC
1 GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
35021703 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
66 ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
35021742 G
1 G
35021743 CTGATTCCAA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (104 bp):
GGCTTCTGTTTCTAAGTTACAGTTGAGGCATAAGTTAAAAAACCGAGCACCACAATCTGCAATGC
ATCGTCCGGAGGCTGTCATTGTTCCAGACACCGTTGATG
Found at i:35023849 original size:2 final size:2
Alignment explanation
Indices: 35023842--35023872 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35023832 ACAAAAATTG
35023842 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 A
35023873 AACTCTTCAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35024303 original size:19 final size:22
Alignment explanation
Indices: 35024279--35024320 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
35024269 TACTAAGATA
35024279 AAAATCCT-ATG-A-GAAAAAT
1 AAAATCCTAATGAAGGAAAAAT
35024298 AAAATCCTAATGAAGGAAAAAT
1 AAAATCCTAATGAAGGAAAAAT
35024320 A
1 A
35024321 GTACACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 1 0.05
22 8 0.40
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (22 bp):
AAAATCCTAATGAAGGAAAAAT
Found at i:35027666 original size:25 final size:26
Alignment explanation
Indices: 35027629--35027681 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
35027619 TCAAACATGC
35027629 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
35027655 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
35027680 AT
1 AT
35027682 AACAGTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:35027689 original size:25 final size:25
Alignment explanation
Indices: 35027646--35027694 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
35027636 TCAATTTAAC
** *
35027646 CCTAGGGGTATTTCGGTAATTTTCA
1 CCTAGGGGTATAACAGTAATTTTCA
35027671 CCTAGGGGTATAACAGTAATTTTC
1 CCTAGGGGTATAACAGTAATTTTC
35027695 CATACATAGG
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:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (25 bp):
CCTAGGGGTATAACAGTAATTTTCA
Found at i:35029187 original size:26 final size:26
Alignment explanation
Indices: 35029151--35029259 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
35029141 AATGATATTC
35029151 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
35029177 TTATCATGAAACATTTACC-AACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
35029202 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
35029228 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
35029254 TTATCA
1 TTATCA
35029260 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:35029231 original size:51 final size:52
Alignment explanation
Indices: 35029151--35029259 Score: 193
Period size: 51 Copynumber: 2.1 Consensus size: 52
35029141 AATGATATTC
35029151 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACC-AACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* *
35029202 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
35029254 TTATCA
1 TTATCA
35029260 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 43 0.78
52 12 0.22
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:35031752 original size:14 final size:15
Alignment explanation
Indices: 35031728--35031756 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35031718 TCTAATTACA
35031728 AGGATATTTAATAAC
1 AGGATATTTAATAAC
35031743 AGGA-ATTTAATAAC
1 AGGATATTTAATAAC
35031757 CAAATCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (15 bp):
AGGATATTTAATAAC
Found at i:35032253 original size:11 final size:11
Alignment explanation
Indices: 35032237--35032268 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
35032227 TAGGCATGAA
35032237 AAGTAGAGATG
1 AAGTAGAGATG
35032248 AAGTAGAGATG
1 AAGTAGAGATG
35032259 AAGTAGAGAT
1 AAGTAGAGAT
35032269 ATACTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (11 bp):
AAGTAGAGATG
Found at i:35035503 original size:11 final size:11
Alignment explanation
Indices: 35035462--35035504 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
35035452 ATATAACATC
35035462 TAAAT-AAATA
1 TAAATAAAATA
*
35035472 GTAAATAAAACA
1 -TAAATAAAATA
35035484 TATAATAAAATA
1 TA-AATAAAATA
35035496 TAAATAAAA
1 TAAATAAAA
35035505 CAGCTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.50
12 14 0.50
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAATAAAATA
Found at i:35036940 original size:27 final size:28
Alignment explanation
Indices: 35036872--35036940 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
35036862 ATTATATAAA
* * *
35036872 TTTTTAGTATTAT-AATTTTTATTTTTAT
1 TTTTTA-TATTATAAACTTTTAATTATAT
*
35036900 TTTTTACATT-TAAACTTTTAATTATAT
1 TTTTTATATTATAAACTTTTAATTATAT
35036927 TTTTT-TATTATAAA
1 TTTTTATATTATAAA
35036941 TAAAAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 4 0.12
27 24 0.71
28 6 0.18
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTTATATTATAAACTTTTAATTATAT
Found at i:35038695 original size:12 final size:12
Alignment explanation
Indices: 35038676--35038715 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
35038666 AAATTTTGTA
35038676 AAAT-TTACTAT
1 AAATATTACTAT
35038687 AAATATTACTAT
1 AAATATTACTAT
*
35038699 AAACATTAACTAT
1 AAATATT-ACTAT
35038712 AAAT
1 AAAT
35038716 TGATAGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.16
12 13 0.52
13 8 0.32
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATTACTAT
Found at i:35040509 original size:27 final size:27
Alignment explanation
Indices: 35040469--35040535 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
35040459 TTTTGTGCAT
35040469 AAAAGAGGGTAAAGTGGAGTGACTTGAAG
1 AAAAG-GGG-AAAGTGGAGTGACTTGAAG
35040498 AAAAGGGGAAAGTGGAGTGACTTGAAG
1 AAAAGGGGAAAGTGGAGTGACTTGAAG
35040525 AAAAGGGGAAA
1 AAAAGGGGAAA
35040536 AGGAAGTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 30 0.79
28 3 0.08
29 5 0.13
ACGTcount: A:0.45, C:0.03, G:0.39, T:0.13
Consensus pattern (27 bp):
AAAAGGGGAAAGTGGAGTGACTTGAAG
Found at i:35044131 original size:21 final size:21
Alignment explanation
Indices: 35044102--35044150 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
35044092 AAACCTTGAG
*
35044102 GTTTTGAGTTTGGAATTTAAA
1 GTTTAGAGTTTGGAATTTAAA
* *
35044123 GTTTAGAGTTTGGGATTTAAG
1 GTTTAGAGTTTGGAATTTAAA
35044144 GTTTAGA
1 GTTTAGA
35044151 TTCGAGGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.45
Consensus pattern (21 bp):
GTTTAGAGTTTGGAATTTAAA
Found at i:35046161 original size:20 final size:20
Alignment explanation
Indices: 35046123--35046170 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
35046113 TAAATTCTAA
* **
35046123 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
35046143 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
35046163 AAA-ATAAA
1 AAAGATAAA
35046171 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:35051125 original size:46 final size:44
Alignment explanation
Indices: 35051021--35051128 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
35051011 TGTCTTTGAC
** * * *
35051021 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
35051065 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
35051111 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
35051129 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:35054016 original size:10 final size:10
Alignment explanation
Indices: 35054001--35054032 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
35053991 TAAATACATT
35054001 TAATTAAAGA
1 TAATTAAAGA
35054011 TAATTAAAGA
1 TAATTAAAGA
35054021 TAATTAAA-A
1 TAATTAAAGA
35054030 TAA
1 TAA
35054033 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:35054058 original size:27 final size:26
Alignment explanation
Indices: 35054028--35054090 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
35054018 AGATAATTAA
35054028 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
35054055 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
35054082 AATATAAAT
1 AATA-AAAT
35054091 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:35054077 original size:15 final size:15
Alignment explanation
Indices: 35054057--35054086 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35054047 ATAATCCTAA
*
35054057 TAATTATCTTAATAT
1 TAATTATCCTAATAT
35054072 TAATTATCCTAATAT
1 TAATTATCCTAATAT
35054087 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:35057500 original size:42 final size:42
Alignment explanation
Indices: 35057408--35057511 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
35057398 CCGAAGGCTG
* * * *
35057408 AACAAAAGCTCGTGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTTA
** * * *
35057450 AATGGAAGCTCGTAAGAGCTGAACGGAAACCCGTAAGGGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTTA
**
35057492 AACAGAAGCTCAAAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
35057512 TAATTGAAAC
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:35057521 original size:42 final size:42
Alignment explanation
Indices: 35057422--35057526 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
35057412 AAAGCTCGTG
* ** **
35057422 AGAGCTAAATAGAAACCCATAAGGGTTGAATGGAAGCTCGTA
1 AGAGCTAAATAGAAACCCATAAGGGTTAAACAGAAGCTCAAA
* ** *
35057464 AGAGCTGAACGGAAACCCGTAAGGGTTAAACAGAAGCTCAAA
1 AGAGCTAAATAGAAACCCATAAGGGTTAAACAGAAGCTCAAA
* * *
35057506 AGAGCTTAATTGAAACTCATA
1 AGAGCTAAATAGAAACCCATA
35057527 TGAGTAAAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (42 bp):
AGAGCTAAATAGAAACCCATAAGGGTTAAACAGAAGCTCAAA
Found at i:35057659 original size:19 final size:19
Alignment explanation
Indices: 35057635--35057675 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
35057625 TCCTCCAATG
35057635 TGATCAATTCATCAATTTT
1 TGATCAATTCATCAATTTT
35057654 TGATCAATTCATCAATTTT
1 TGATCAATTCATCAATTTT
35057673 TGA
1 TGA
35057676 ATGTACTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (19 bp):
TGATCAATTCATCAATTTT
Found at i:35057771 original size:2 final size:2
Alignment explanation
Indices: 35057764--35057802 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
35057754 AATAGACATA
*
35057764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35057803 ATACCATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35057828 original size:2 final size:2
Alignment explanation
Indices: 35057821--35057851 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35057811 CATCAATTCA
35057821 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
35057852 TATTAAAATT
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:35062276 original size:22 final size:22
Alignment explanation
Indices: 35062240--35062281 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35062230 AGCAACTTGA
*
35062240 TTTTTCTTTAGTTTCTTTTTTC
1 TTTTTCTTTAGTTTCCTTTTTC
**
35062262 TTTTTCTTTTTTTTCCTTTT
1 TTTTTCTTTAGTTTCCTTTT
35062282 CTGTTTACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTAGTTTCCTTTTTC
Found at i:35069843 original size:2 final size:2
Alignment explanation
Indices: 35069836--35069863 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35069826 TATATTTTAC
35069836 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
35069864 AACCTTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35071036 original size:27 final size:26
Alignment explanation
Indices: 35070982--35071036 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
35070972 ATCGTATTTG
* *
35070982 TTTTTTTTTTTAAATAAATAATTTAA
1 TTTTTTTTATTAAATAAATAATTAAA
35071008 TTTTTATTTATTAAATCAAATAA-TAAA
1 TTTTT-TTTATTAAAT-AAATAATTAAA
35071035 TT
1 TT
35071037 AGTCTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 14 0.56
28 6 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTTTTATTAAATAAATAATTAAA
Done.