Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 126 of 378
Found at i:35321089 original size:27 final size:27
Alignment explanation
Indices: 35321009--35321090 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
35320999 AAACTTGTAC
* * *
35321009 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
35321037 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
35321064 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
35321091 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:35328024 original size:13 final size:14
Alignment explanation
Indices: 35328006--35328060 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
35327996 CTAGTCTCTC
35328006 TTAATTTTTAATT-
1 TTAATTTTTAATTA
*
35328019 TTAA-TTTTATTTA
1 TTAATTTTTAATTA
35328032 TTAATTTTTCAATTAA
1 TTAATTTTT-AATT-A
*
35328048 TTGAATTATTAAT
1 TT-AATTTTTAAT
35328061 AATTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 7 0.21
13 8 0.24
14 4 0.12
15 3 0.09
16 6 0.18
17 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTAATTTTTAATTA
Found at i:35330681 original size:39 final size:39
Alignment explanation
Indices: 35330638--35330716 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
35330628 ATTTGAACAA
35330638 TATGTATACTTAAGTTAGCATAATTATCAGATTTCTTAT
1 TATGTATACTTAAGTTAGCATAATTATCAGATTTCTTAT
35330677 TATGTATACTTAAGTTAGCATAATTATCAGATTTCTTAT
1 TATGTATACTTAAGTTAGCATAATTATCAGATTTCTTAT
35330716 T
1 T
35330717 TTTGAGCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (39 bp):
TATGTATACTTAAGTTAGCATAATTATCAGATTTCTTAT
Found at i:35337372 original size:55 final size:53
Alignment explanation
Indices: 35337293--35337494 Score: 160
Period size: 55 Copynumber: 3.7 Consensus size: 53
35337283 TTAAGGATAC
*
35337293 CATGTAAGACCATG-CTAAGGCATGGCAATTGGTGAGGTTTCTAAGGCAAGAAAAT
1 CATGTAAGACCATGTC-AAGACATGGC-ATTGGTGA-GTTTCTAAGGCAAGAAAAT
* * * **
35337348 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC-A-AAGGT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTT--TCTAAGGCAAGAAAAT
* * * * * * *
35337401 CCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGTAAGGATAC
1 --CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTTC-TAAGGCAAGAAAAT
* * *
35337456 CATGTAAGACCATGTTAAGACATGGCAATGGTAAGTTTC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTTC
35337495 AAAAGGATAC
Statistics
Matches: 115, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
52 1 0.01
53 40 0.35
54 12 0.10
55 61 0.53
56 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTTCTAAGGCAAGAAAAT
Found at i:35337491 original size:108 final size:110
Alignment explanation
Indices: 35337292--35337492 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
35337282 TTTAAGGATA
* * *
35337292 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTGAGGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTGAGGTTTCTAAGGCAAGAAAACCATGTAAGA
*
35337357 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
35337402 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGTAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTGAGGTTTC-TAAGGCAAGAAAACCATGTAAG
* *
35337464 ACCATGTTAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
35337493 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTGAGGTTTCTAAGGCAAGAAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:35337753 original size:20 final size:20
Alignment explanation
Indices: 35337725--35337762 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35337715 GTATTAATAA
*
35337725 ATTTGATTAAGTAAGTAAGT
1 ATTTAATTAAGTAAGTAAGT
*
35337745 ATTTAATTAAGTGAGTAA
1 ATTTAATTAAGTAAGTAA
35337763 CTGAAGAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTAATTAAGTAAGTAAGT
Found at i:35340708 original size:46 final size:46
Alignment explanation
Indices: 35340658--35340833 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35340648 TGGTTGAGCA
35340658 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35340704 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35340749 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35340797 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35340834 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35340814 original size:93 final size:93
Alignment explanation
Indices: 35340655--35340826 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35340645 GGATGGTTGA
* *
35340655 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35340720 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35340748 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35340813 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35340827 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35348288 original size:46 final size:46
Alignment explanation
Indices: 35348238--35348413 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35348228 TGGTTGAGCA
35348238 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35348284 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35348329 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35348377 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35348414 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35348394 original size:93 final size:93
Alignment explanation
Indices: 35348235--35348406 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35348225 GGATGGTTGA
* *
35348235 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35348300 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35348328 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35348393 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35348407 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35349817 original size:29 final size:29
Alignment explanation
Indices: 35349757--35349874 Score: 193
Period size: 29 Copynumber: 4.1 Consensus size: 29
35349747 CATACATGCT
*
35349757 TATGGCCCACTAGGCCC-AATCTCATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
35349785 TATGGCCCACTAGGCCCAAATCACATTCG
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
35349814 TATGGCCCATTAGGCCCAAATCACATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
35349843 TATGGCCCATTAGGCCCAAATCACATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
35349872 TAT
1 TAT
35349875 TCATACTTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
28 17 0.20
29 68 0.80
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAAATCACATTCA
Found at i:35350111 original size:16 final size:16
Alignment explanation
Indices: 35350085--35350138 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
35350075 ATAGCCAAAC
*
35350085 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
35350101 TTTTGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
35350117 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
35350133 TTTCGG
1 TTTCGG
35350139 GATTTGTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.07, C:0.22, G:0.24, T:0.46
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:35350122 original size:8 final size:8
Alignment explanation
Indices: 35350093--35350143 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
35350083 ACTTTCAGCT
35350093 TTTCGGCA
1 TTTCGGCA
* *
35350101 TTTTGGCT
1 TTTCGGCA
35350109 TTTCGGCA
1 TTTCGGCA
*
35350117 TTTCGGCT
1 TTTCGGCA
35350125 TTTCGGCA
1 TTTCGGCA
*
35350133 TTTCGGGA
1 TTTCGGCA
35350141 TTT
1 TTT
35350144 GTCGATCTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.08, C:0.20, G:0.25, T:0.47
Consensus pattern (8 bp):
TTTCGGCA
Found at i:35355917 original size:40 final size:40
Alignment explanation
Indices: 35355853--35355985 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
35355843 GGCCTACGGA
* * * *
35355853 CTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* *
35355893 CTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* * * *
35355933 CTTAGCCCGGATATAGCTACTAGCACAATTGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
*
35355973 CTTAACCCGGATA
1 CTTAGCCCGGATA
35355986 AATTTCAGCA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
Found at i:35356020 original size:38 final size:40
Alignment explanation
Indices: 35355875--35356024 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
35355865 ATCACGATTT
* * * *
35355875 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
35355915 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
35355955 GCACAATTGCCTTCGGGTCTTAACCCGGATA-AATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
35355993 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35356025 CATTCAATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.29
39 5 0.05
40 60 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:35362065 original size:29 final size:29
Alignment explanation
Indices: 35361975--35362134 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
35361965 ACTCGATTTC
* * **
35361975 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
35362004 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
35362032 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
35362062 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35362091 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35362120 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
35362135 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:35369294 original size:40 final size:39
Alignment explanation
Indices: 35369232--35369413 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 39
35369222 GACTCACTCA
** *
35369232 AATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCACG
* * *
35369272 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCC-GGTTTAGTAACTCGCACG
* *
35369312 AATGCCTTCGGG-CTTAGCCCGGATTTATTATCTCGCACG
1 AATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACG
* * * * *
35369351 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCACG
*
35369391 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
35369414 ACATCATTCG
Statistics
Matches: 115, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.03
39 28 0.24
40 71 0.62
41 12 0.10
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCACG
Found at i:35369331 original size:79 final size:81
Alignment explanation
Indices: 35369230--35369414 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
35369220 ACGACTCACT
** *
35369230 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGA-CTCGCACGAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TA-TGATCTCGCACGAATGCCTTC-GGATCCTAACC
* *
35369292 CGGGTTTAGTAACTT-GCA
63 CGGATATAGTAACTTAGCA
* **
35369310 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTATCTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTATGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
*
35369374 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
35369390 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35369415 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTATGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:35387267 original size:37 final size:37
Alignment explanation
Indices: 35387217--35387302 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
35387207 TTATTACGAA
35387217 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
35387254 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
35387291 GTCTCACCCGGA
1 GTCTTACCCGGA
35387303 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:35387434 original size:48 final size:48
Alignment explanation
Indices: 35387351--35387570 Score: 323
Period size: 48 Copynumber: 4.6 Consensus size: 48
35387341 ACAACATTCT
* * * * *
35387351 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * * * *
35387399 CATTCGTCATTCAGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
35387447 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
35387495 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
35387543 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
35387571 TACACTTTCA
Statistics
Matches: 155, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 155 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:35387614 original size:47 final size:47
Alignment explanation
Indices: 35387548--35387670 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
35387538 TTTCACATTA
* * *
35387548 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
35387595 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
35387642 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
35387671 ACGAGCTGTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:35387630 original size:96 final size:96
Alignment explanation
Indices: 35387351--35387670 Score: 232
Period size: 96 Copynumber: 3.4 Consensus size: 96
35387341 ACAACATTCT
* * * *
35387351 CATTAGCCATTCGGCTTTACCACATATTCATA-TCTCATAC--GCATTTCACATTC-GTCATTCA
1 CATTAGCCATTCGGCTTTACCACATA-T-ATACACTCACACATGTA-TTCACA-TCAGCCATT-A
* * * *
35387412 -GCTTTACGACATATACACA-TCTCATATATATTTCA
61 GGCCTTACCACATATATACACTCTCACAT-TATTTCA
* * * * *
35387447 CATTAGCCATTCGGCTTTACCACATATACATA-TCACACATGTATTTCACATTAGCCATTCGGCT
1 CATTAGCCATTCGGCTTTACCACATATATACACTCACACATGTA-TTCACATCAGCCATTAGGCC
* * *
35387511 TTACCACATATACATA-TCACACATGTATTTCA
65 TTACCACATATATACACTCTCACAT-TATTTCA
** *
35387543 CATTAGCCATTCGGCTTTACCACATATATACACTTTCACAT-TCA-TCACATCGGCCATTAGGCC
1 CATTAGCCATTCGGCTTTACCACATATATACACTCACACATGT-ATTCACATCAGCCATTAGGCC
* *
35387606 TTATCACATATATACACTTTCACATTCA--TCA
65 TTACCACATATATACACTCTCACATT-ATTTCA
** * * *
35387637 CATCGGCCATTAGGCCTTATCACATATATACACT
1 CATTAGCCATTCGGCTTTACCACATATATACACT
35387671 ACGAGCTGTT
Statistics
Matches: 185, Mismatches: 30, Indels: 20
0.79 0.13 0.09
Matches are distributed among these distances:
94 39 0.21
95 31 0.17
96 108 0.58
97 7 0.04
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
CATTAGCCATTCGGCTTTACCACATATATACACTCACACATGTATTCACATCAGCCATTAGGCCT
TACCACATATATACACTCTCACATTATTTCA
Found at i:35387630 original size:144 final size:143
Alignment explanation
Indices: 35387351--35387617 Score: 331
Period size: 144 Copynumber: 1.9 Consensus size: 143
35387341 ACAACATTCT
* * * * *
35387351 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGTCATTCAGCTT
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCAGCTT
* * * * * *
35387416 TACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
66 TACCACATATACACATCTCACATATA-TTCACATCAGCCATTAGGCCTTACCACATATACACATC
35387481 ACACATGTATTTCA
130 ACACATGTATTTCA
* * *
35387495 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTT
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCAGCTT
* * * *
35387560 TACCACATATATACACTTTCACAT-TCA-TCACATCGGCCATTAGGCCTTATCACATATA
66 TACCACATATACACA-TCTCACATAT-ATTCACATCAGCCATTAGGCCTTACCACATATA
35387618 TACACTTTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
143 26 0.25
144 71 0.68
145 7 0.07
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCAGCTT
TACCACATATACACATCTCACATATATTCACATCAGCCATTAGGCCTTACCACATATACACATCA
CACATGTATTTCA
Found at i:35392646 original size:28 final size:28
Alignment explanation
Indices: 35392585--35392682 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
35392575 TCACAAATTG
** * *
35392585 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
35392614 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
35392642 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
35392670 GCACTAAGTGTGC
1 GCACTAAGTGTGC
35392683 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:35399872 original size:28 final size:28
Alignment explanation
Indices: 35399811--35399908 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
35399801 TCACAAATTG
** * *
35399811 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
35399840 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
35399868 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
35399896 GCACTAAGTGTGC
1 GCACTAAGTGTGC
35399909 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:35404889 original size:18 final size:18
Alignment explanation
Indices: 35404848--35404892 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
35404838 TACTGTTTAA
35404848 ATTGTTACTGCACTGATT
1 ATTGTTACTGCACTGATT
* *
35404866 ACTGTTACTGTACT-ATTT
1 ATTGTTACTGCACTGA-TT
35404884 ATTGTTACT
1 ATTGTTACT
35404893 ACAATAGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (18 bp):
ATTGTTACTGCACTGATT
Found at i:35408369 original size:40 final size:40
Alignment explanation
Indices: 35408275--35408484 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
35408265 ACCCAAGTAT
* ** *
35408275 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
35408313 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
35408353 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
35408393 CATCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * **
35408433 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATTT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
35408473 CTTCGGGACTTA
1 CTTCGGGACTTA
35408485 ACCCCGTTAG
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
38 10 0.07
39 17 0.11
40 122 0.82
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:35422950 original size:39 final size:40
Alignment explanation
Indices: 35422878--35423126 Score: 238
Period size: 40 Copynumber: 6.3 Consensus size: 40
35422868 ACCCAAGTAT
* * ** *
35422878 CTTCGAGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
35422916 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
35422956 CTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
35422996 CTTCGGGACTTAGCTCAGA-ATTAGTAACTCGCATAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* *
35423036 CTTCGAGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * * *
35423076 CTTTGAGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
35423116 CTTCGGGACTT
1 CTTCGGGACTT
35423127 GACCCCGTTA
Statistics
Matches: 178, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
38 9 0.05
39 17 0.10
40 152 0.85
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:35422973 original size:40 final size:40
Alignment explanation
Indices: 35422903--35423126 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
35422893 GGATATAACC
* * * * *
35422903 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
35422942 ACTAGCACAAATGCCTTCGGGACCTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
35422982 ACTCGCACAAATGCCTTCGGGACTTAGCTCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
35423022 ACTCGCATAAATGCCTTCGAGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
35423062 ACTCGCACAAATGCCTTTGAGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
35423102 ACTAGCACAAATGTCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTT
35423127 GACCCCGTTA
Statistics
Matches: 160, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 7 0.04
40 151 0.94
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:35427054 original size:48 final size:48
Alignment explanation
Indices: 35426936--35427251 Score: 334
Period size: 48 Copynumber: 6.6 Consensus size: 48
35426926 TGAGATTCCA
* * * *
35426936 TGTAAGTCCATGTCTGGGACATGGCATCGGCATCTAAGA-AGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA-ATGATATA-TGTGCCAG
* * * *
35426985 TGTAAGTCTATGTCTGGGACATGGCATCGACAATGATATATGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAG
* * *
35427033 TATAAGACCATGTTTGGGACATGGCATCGGCGATGATATATGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAG
** * *
35427081 TGTAAGACCATGTCTGGGACATGGCATCGGTGATAATATATATGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAG
* * * **
35427129 TGTAAGAGCATGTTTGGGACATGACATCGGCAATGATATATGTGCCTT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAG
* * * * *
35427177 TGTAAGACCATGTCTGGGACCTAGCATTGGCGAT-A-ATATGTGGATTCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGT-G--CCAG
35427225 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
35427252 TGGTACTTTA
Statistics
Matches: 225, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
46 6 0.03
47 2 0.01
48 185 0.82
49 32 0.14
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAG
Found at i:35427209 original size:144 final size:143
Alignment explanation
Indices: 35426933--35427251 Score: 396
Period size: 144 Copynumber: 2.2 Consensus size: 143
35426923 AAATGAGATT
* * * *
35426933 CCATGTAAGTCCATGTCTGGGACATGGCATCGGCATCTAAGAAGTGTGCCAGTGTAAGTCTATGT
1 CCATGTAAGACCATGTCTGGGACATGGCATCGG-ATATAAGAAGTATGCCAGTGTAAGGCTATGT
* * *
35426998 CTGGGACATGGCATCGACAATGATATATGTGCCTGTATAAGACCATGTTTGGGACATGGCATCGG
65 CTGGGACATGACATCGACAATGATATATGTGCCTGTATAAGACCATGTCTGGGACATAGCATCGG
35427063 CGATGATATATGT-G-
130 CGAT-A-ATATGTGGA
*
35427077 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TGATAATATA-TATGCCAGTGTAAGAGC-A
1 CCA-TGTAAGACCATGTCTGGGACATGGCATCGGAT-ATAAGA-AGTATGCCAGTGTAAG-GCTA
* * * * *
35427139 TGTTTGGGACATGACATCGGCAATGATATATGTGCCTTTGTAAGACCATGTCTGGGACCTAGCAT
62 TGTCTGGGACATGACATCGACAATGATATATGTGCCTGTATAAGACCATGTCTGGGACATAGCAT
*
35427204 TGGCGATAATATGTGGA
127 CGGCGATAATATGTGGA
*
35427221 TTCATGTAAGACCATGTCTGGGACATGGCAT
1 -CCATGTAAGACCATGTCTGGGACATGGCAT
35427252 TGGTACTTTA
Statistics
Matches: 153, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
142 6 0.04
143 3 0.02
144 111 0.73
145 33 0.22
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (143 bp):
CCATGTAAGACCATGTCTGGGACATGGCATCGGATATAAGAAGTATGCCAGTGTAAGGCTATGTC
TGGGACATGACATCGACAATGATATATGTGCCTGTATAAGACCATGTCTGGGACATAGCATCGGC
GATAATATGTGGA
Found at i:35429746 original size:37 final size:37
Alignment explanation
Indices: 35429687--35429832 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
35429677 AGCTCAGACG
* * *
35429687 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
35429724 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
35429761 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
35429798 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35429833 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:35430036 original size:50 final size:48
Alignment explanation
Indices: 35429978--35430162 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
35429968 GCACATCGCC
*
35429978 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
35430028 TATATATTTCACATT-GACCATTCAGCTTTATCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
35430076 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
35430124 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
35430163 TGCATGTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
48 81 0.66
49 2 0.02
50 40 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:35430104 original size:48 final size:48
Alignment explanation
Indices: 35429978--35430302 Score: 253
Period size: 47 Copynumber: 6.8 Consensus size: 48
35429968 GCACATCGCC
* * *
35429978 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTATCACATATGCATATCTC--A
* *
35430028 TATATATTTCACATT-GACCATTCAGCTTTATCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTATCACATATGCATATCTCA
* * *
35430076 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTATCACATATGCATATCTCA
* *
35430124 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCA
1 TACATATTTCACATTAGCCATTCGGCTTTATCAC--ATATGCATATCTCA
** * * *
35430173 T--AT-TCACCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-
1 TACATAT-TTCACATTAGCCATTCGGCTTTAT--CACATATGCATATCTCA
* * * *
35430219 -ACAT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC-
1 TACATAT-TTCACATTAGCCATTCGGCTTTATCAC--ATATGCATATCTCA
* * *
35430266 -ACAT-TCATCACATTGGCCATTCGGCCTTATCACATAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTATCACATAT
35430303 ATGCATGTTC
Statistics
Matches: 242, Mismatches: 20, Indels: 31
0.83 0.07 0.11
Matches are distributed among these distances:
45 7 0.03
46 1 0.00
47 101 0.42
48 76 0.31
49 9 0.04
50 48 0.20
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTATCACATATGCATATCTCA
Found at i:35430167 original size:98 final size:97
Alignment explanation
Indices: 35429978--35430161 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
35429968 GCACATCGCC
*
35429978 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
*
35430043 GACCATTCAGCTTTATCACATATGCATATCTCA
65 GACCATTCAGCTTTACCACATATGCATATCTCA
* *
35430076 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
*
35430139 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCAGCTTTACCACATAT
35430162 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
98 45 0.56
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:35430211 original size:47 final size:47
Alignment explanation
Indices: 35430132--35430372 Score: 392
Period size: 47 Copynumber: 5.1 Consensus size: 47
35430122 CATACATATT
* * * *
35430132 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
35430179 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35430226 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35430273 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
35430320 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35430367 TCACAT
1 TCACAT
35430373 AAAATCCTAA
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 181 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:35430252 original size:22 final size:22
Alignment explanation
Indices: 35430225--35430343 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
35430215 GCTCACATTC
35430225 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
35430247 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
35430271 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
35430294 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
35430318 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
35430341 ATC
1 ATC
35430344 TCATATATGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 23 0.32
23 14 0.20
24 14 0.20
25 20 0.28
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:35430373 original size:25 final size:25
Alignment explanation
Indices: 35430247--35430373 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 25
35430237 ATTCGGCCTT
**
35430247 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
35430272 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
**
35430294 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
35430319 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
35430341 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
35430366 ATCACATA
1 ATCACATA
35430374 AAATCCTAAG
Statistics
Matches: 72, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 19 0.26
23 12 0.17
24 12 0.17
25 29 0.40
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:35432044 original size:29 final size:29
Alignment explanation
Indices: 35432011--35432141 Score: 226
Period size: 29 Copynumber: 4.5 Consensus size: 29
35432001 GTGACGAGAT
35432011 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
35432040 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
35432069 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
35432098 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
35432127 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
35432142 GAGCTCGAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:35432170 original size:58 final size:58
Alignment explanation
Indices: 35432011--35432141 Score: 262
Period size: 58 Copynumber: 2.3 Consensus size: 58
35432001 GTGACGAGAT
35432011 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
35432069 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
35432127 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
35432142 GAGCTCGAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATA
Found at i:35432188 original size:87 final size:87
Alignment explanation
Indices: 35432011--35432199 Score: 211
Period size: 87 Copynumber: 2.2 Consensus size: 87
35432001 GTGACGAGAT
* * *
35432011 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
35432076 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * * *
35432098 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
35432162 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
35432185 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
35432200 GAAATCGAGT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 3 0.04
87 80 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:35435039 original size:18 final size:19
Alignment explanation
Indices: 35435018--35435053 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35435008 AATAAAGAAA
*
35435018 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
35435036 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
35435054 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:35436436 original size:29 final size:29
Alignment explanation
Indices: 35436394--35436525 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
35436384 AAAATTGTAC
35436394 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
35436423 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
35436452 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
35436482 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
35436511 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35436526 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:35436490 original size:59 final size:58
Alignment explanation
Indices: 35436394--35436525 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
35436384 AAAATTGTAC
35436394 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
35436452 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
35436511 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35436526 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:35436514 original size:88 final size:89
Alignment explanation
Indices: 35436364--35436525 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
35436354 GACAAGATTG
* * *
35436364 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
35436429 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
35436453 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
35436517 AAGTGTGCG
66 AAGTGTGCG
35436526 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:35441909 original size:40 final size:39
Alignment explanation
Indices: 35441744--35441927 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35441734 AAATTGAATG
* * *
35441744 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35441784 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35441824 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35441864 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35441903 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35441928 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35441952 original size:80 final size:81
Alignment explanation
Indices: 35441784--35441972 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35441774 GCTGGAAATT
* * * *
35441784 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35441849 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35441865 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35441928 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35441944 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35441973 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35447120 original size:71 final size:71
Alignment explanation
Indices: 35447034--35447197 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35447024 CGATTTGTCT
35447034 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35447099 CTTTCA
66 CTTTCA
35447105 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35447170 CTTTCA
66 CTTTCA
35447176 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35447198 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35447235 original size:71 final size:70
Alignment explanation
Indices: 35447034--35447231 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35447024 CGATTTGTCT
* * * *
35447034 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35447099 CTTTCA
65 CTTTCA
* * * *
35447105 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35447170 CTTTCA
65 CTTTCA
* *
35447176 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35447232 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35454661 original size:71 final size:71
Alignment explanation
Indices: 35454575--35454738 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35454565 CGATTTGTCT
35454575 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35454640 CTTTCA
66 CTTTCA
35454646 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35454711 CTTTCA
66 CTTTCA
35454717 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35454739 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35454776 original size:71 final size:70
Alignment explanation
Indices: 35454575--35454772 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35454565 CGATTTGTCT
* * * *
35454575 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35454640 CTTTCA
65 CTTTCA
* * * *
35454646 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35454711 CTTTCA
65 CTTTCA
* *
35454717 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35454773 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35457263 original size:31 final size:31
Alignment explanation
Indices: 35457225--35457288 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
35457215 CCTTTTCATA
35457225 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
35457256 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
35457287 TT
1 TT
35457289 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:35457530 original size:24 final size:24
Alignment explanation
Indices: 35457479--35457597 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
35457469 ACTTTATCAT
*
35457479 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
35457504 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
35457528 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
35457551 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
35457575 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35457598 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35457558 original size:47 final size:48
Alignment explanation
Indices: 35457479--35457597 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
35457469 ACTTTATCAT
*
35457479 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
35457528 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
35457575 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35457598 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:35457673 original size:20 final size:20
Alignment explanation
Indices: 35457648--35457707 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
35457638 TATGATTACC
35457648 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
35457668 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
35457688 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
35457708 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:35457678 original size:11 final size:11
Alignment explanation
Indices: 35457648--35457702 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35457638 TATGATTACC
35457648 TCATGTGCATA
1 TCATGTGCATA
*
35457659 TCA--TACATA
1 TCATGTGCATA
35457668 TCATGTGCATA
1 TCATGTGCATA
* *
35457679 TCA--TACATT
1 TCATGTGCATA
35457688 TCATGTGCATA
1 TCATGTGCATA
35457699 TCAT
1 TCAT
35457703 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35457782 original size:25 final size:25
Alignment explanation
Indices: 35457750--35457797 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35457740 ATACATAAAC
* * *
35457750 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
35457775 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
35457798 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:35463307 original size:40 final size:39
Alignment explanation
Indices: 35463221--35463404 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35463211 AAATTGAATG
* * * * *
35463221 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
35463261 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* * *
35463301 ATATCCGGGCCAAGACCCGAAGGC-ATTCATGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
35463341 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
35463380 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35463405 CTTGGTGCGG
Statistics
Matches: 114, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 106 0.93
41 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:35467343 original size:31 final size:31
Alignment explanation
Indices: 35467305--35467368 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
35467295 CCTTTTCATA
35467305 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
35467336 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
35467367 TT
1 TT
35467369 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:35467611 original size:24 final size:24
Alignment explanation
Indices: 35467560--35467678 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
35467550 GCTTTATCAT
*
35467560 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
35467585 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
35467609 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
35467632 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
35467656 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35467679 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35467639 original size:47 final size:48
Alignment explanation
Indices: 35467560--35467678 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
35467550 GCTTTATCAT
*
35467560 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
35467609 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
35467656 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35467679 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:35467754 original size:20 final size:20
Alignment explanation
Indices: 35467729--35467788 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
35467719 TATAATTACC
35467729 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
35467749 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
35467769 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
35467789 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:35467759 original size:11 final size:11
Alignment explanation
Indices: 35467729--35467783 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35467719 TATAATTACC
35467729 TCATGTGCATA
1 TCATGTGCATA
*
35467740 TCA--TACATA
1 TCATGTGCATA
35467749 TCATGTGCATA
1 TCATGTGCATA
* *
35467760 TCA--TACATT
1 TCATGTGCATA
35467769 TCATGTGCATA
1 TCATGTGCATA
35467780 TCAT
1 TCAT
35467784 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35467863 original size:25 final size:25
Alignment explanation
Indices: 35467831--35467878 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35467821 ATACATAAAC
* * *
35467831 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
35467856 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
35467879 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:35469869 original size:21 final size:22
Alignment explanation
Indices: 35469831--35469878 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
35469821 GTAACTGAAA
**
35469831 GGTTTCTTTTTAAGTTAATTAG
1 GGTTTCTTTTTAAGTTAAGAAG
**
35469853 GGTTTC-TTTTATTTTAAGAAG
1 GGTTTCTTTTTAAGTTAAGAAG
35469874 GGTTT
1 GGTTT
35469879 TCAATGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (22 bp):
GGTTTCTTTTTAAGTTAAGAAG
Found at i:35472439 original size:27 final size:27
Alignment explanation
Indices: 35472408--35472463 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
35472398 TATTTATTTG
35472408 ATTCATGCTTATAATGTTTGTGCCTCT
1 ATTCATGCTTATAATGTTTGTGCCTCT
35472435 ATTCATGCTTATAATGTTTGTGCCTCT
1 ATTCATGCTTATAATGTTTGTGCCTCT
35472462 AT
1 AT
35472464 CGATCATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (27 bp):
ATTCATGCTTATAATGTTTGTGCCTCT
Found at i:35475370 original size:93 final size:93
Alignment explanation
Indices: 35475263--35475431 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
35475253 GCCCATAAGT
* * * * * *
35475263 GAACTCCGACTCAACTCAAGGAGCTCGGGCGTTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35475328 CGAGCTCGGATTCCTAGTTACATCTCTC
66 CGAGCTCGGATTCCTAGTTACATCTCTC
*
35475356 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
35475421 CGAGTTCGGAT
66 CGAGCTCGGAT
35475432 GCCCAAACAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATTCCTAGTTACATCTCTC
Found at i:35475423 original size:46 final size:46
Alignment explanation
Indices: 35475255--35475430 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
35475245 TGTAACCCGC
* * * * *
35475255 CCATAAGTGAACTCCGACTCAACTCAAGGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35475301 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATTC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
35475347 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35475394 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
35475431 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.62
47 30 0.28
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:35477856 original size:30 final size:30
Alignment explanation
Indices: 35477812--35477880 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
35477802 CAAAGATAAC
*
35477812 AAGAAAACC-GAATAAAGAAATCCA-AGATA
1 AAGAAACCCAGAATAAAGAAATCCAGA-ATA
*
35477841 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAGAATA
35477871 AAGAAACCCA
1 AAGAAACCCA
35477881 AGATACGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAGAATA
Found at i:35477860 original size:15 final size:15
Alignment explanation
Indices: 35477812--35477880 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
35477802 CAAAGATAAC
*
35477812 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
35477826 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
35477841 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
35477856 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
35477871 AAGAAACCCA
1 AAGAAACCCA
35477881 AGATACGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
14 9 0.20
15 36 0.78
16 1 0.02
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:35480221 original size:93 final size:93
Alignment explanation
Indices: 35480093--35480264 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
35480083 GCCCATAAGT
* * * *
35480093 GAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35480158 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35480186 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
35480251 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
35480265 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35480260 original size:46 final size:46
Alignment explanation
Indices: 35480085--35480260 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
35480075 TGTAACCCGC
* * *
35480085 CCATAAGTGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35480131 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
35480177 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35480224 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
35480261 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:35480279 original size:46 final size:46
Alignment explanation
Indices: 35480136--35480279 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
35480126 CGCATCCATA
* *
35480136 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
35480185 --CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
35480229 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
35480275 AGTGA
1 AGTGA
35480280 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 30 0.41
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:35491453 original size:49 final size:48
Alignment explanation
Indices: 35491334--35491649 Score: 201
Period size: 46 Copynumber: 6.7 Consensus size: 48
35491324 AGGGTATAAT
* * * *
35491334 GTCGATGCCATATCCCAGACATGGTCTTACGCTGGCTCATC-CATC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCGAA
*
35491381 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAA
* * * * * *
35491430 GCCGACGCCATGTCCCAGACATGGTCTTACATTAAC-ACCTC-TATACG-T
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTA--TCAAAT-CGAA
** * *
35491478 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CATCTTGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAA
* * ** *
35491524 GTCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTAT-CAAATCGAA
* * * * ***
35491570 GCCGATG-CATGTCCCAGACAT-ATCTTACACTGGCTCTCGTCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAA
* *
35491615 TGCCAATGCCATG-CTCCAGACATGGTCTTACACTG
1 -GTCGATGCCATGTC-CCAGACATGGTCTTACACTG
35491650 GCTCTCATAA
Statistics
Matches: 223, Mismatches: 30, Indels: 31
0.79 0.11 0.11
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 62 0.28
47 47 0.21
48 49 0.22
49 35 0.16
50 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAA
Found at i:35491507 original size:48 final size:47
Alignment explanation
Indices: 35491333--35491552 Score: 202
Period size: 48 Copynumber: 4.7 Consensus size: 47
35491323 CAGGGTATAA
* * * * * *
35491333 TGTCGATGCCATATCCCAGACATGGTCTTACGCTGGCTCATCCAT-CA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCTATACG
* * *
35491380 AGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTA-TCGAAATCG
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACTCTATA-CG
* * * * *
35491428 AGGCCGACGCCATGTCCCAGACATGGTCTTACATTAACACCTCTATACG
1 -TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACA-CTCTATACG
35491477 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-T--G
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCTATACG
35491522 TAGTCGATG-CATGTCCCAGACAT-GTCTTACA
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACA
35491553 TTGGCTTACA
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
44 8 0.06
45 16 0.11
46 10 0.07
47 35 0.24
48 38 0.26
49 34 0.23
50 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCTATACG
Found at i:35495656 original size:46 final size:47
Alignment explanation
Indices: 35495600--35495721 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 47
35495590 GACAGAATAG
* *
35495600 GACAGAAATGAGCCATGTAAGTCCATATTAG-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTAGAATATATGGCATTGGA
*
35495646 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTAG--A-ATATATGGCATTGGA
* **
35495696 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
35495722 GTCGAAGACA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 29 0.45
50 36 0.55
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (47 bp):
GACAGGAATGAGCCATGTAAGTCCATATTAGAATATATGGCATTGGA
Found at i:35498100 original size:28 final size:28
Alignment explanation
Indices: 35498031--35498131 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35498021 GACAAGATTG
* * * *
35498031 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35498061 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35498089 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35498118 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35498132 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35498125 original size:29 final size:28
Alignment explanation
Indices: 35498060--35498131 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
35498050 AAAATTGTAC
*
35498060 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
35498088 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
35498117 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35498132 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:35501491 original size:16 final size:15
Alignment explanation
Indices: 35501470--35501519 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 15
35501460 TTGTAACGCC
35501470 CCAAAAATTCCGAAAT
1 CCAAAAA-TCCGAAAT
*
35501486 CCAAAAATCTCGAAAC
1 CCAAAAATC-CGAAAT
35501502 CCAAAAATCCTGAAAT
1 CCAAAAATCC-GAAAT
35501518 CC
1 CC
35501520 TGAACTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 3 0.10
16 27 0.90
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.16
Consensus pattern (15 bp):
CCAAAAATCCGAAAT
Found at i:35502896 original size:28 final size:28
Alignment explanation
Indices: 35502864--35502964 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
35502854 TGAATGTGAC
*
35502864 TGGGCCTAACGGGCCATATAAATTGATT
1 TGGGCCTAATGGGCCATATAAATTGATT
**
35502892 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATA-AATTGATT
* *
35502921 TAGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAAT-TGATT
*
35502949 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
35502965 GATACAGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 35 0.56
29 27 0.44
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAATTGATT
Found at i:35502959 original size:57 final size:57
Alignment explanation
Indices: 35502866--35502973 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
35502856 AATGTGACTG
*
35502866 GGCCTAACGGGCCATATAAATTGATTTGGGCCTAATGGGCCATATACAGGTGATTTA
1 GGCCTAACGGGCCATATAAATTGATTTGGGCCTAATGGGCCAGATACAGGTGATTTA
* * *
35502923 GGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAAT-TGATTTGGGCCTAATGGGCCAGATACAGGT
35502974 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
57 43 0.93
58 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (57 bp):
GGCCTAACGGGCCATATAAATTGATTTGGGCCTAATGGGCCAGATACAGGTGATTTA
Found at i:35506652 original size:24 final size:24
Alignment explanation
Indices: 35506618--35506668 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
35506608 ATGTATCGGC
35506618 AAAAGCCGAAATGCCAAAAAGCCA
1 AAAAGCCGAAATGCCAAAAAGCCA
* *
35506642 AAAAGCTGAAATGCCAAAAAGCTA
1 AAAAGCCGAAATGCCAAAAAGCCA
35506666 AAA
1 AAA
35506669 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.20, G:0.16, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAATGCCAAAAAGCCA
Found at i:35508675 original size:3 final size:3
Alignment explanation
Indices: 35508667--35508698 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35508657 TATACATAGT
35508667 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35508699 TAAGAACAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:35517415 original size:29 final size:29
Alignment explanation
Indices: 35517380--35517464 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
35517370 AATGTGAGTA
*
35517380 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
35517409 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
35517438 GGCCTAATGGGCCATATGAATATGATT
1 GGCCTAATGGGCCATATAAATGTGATT
35517465 AAGCTTAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:35517450 original size:58 final size:57
Alignment explanation
Indices: 35517380--35517488 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
35517370 AATGTGAGTA
* ** *
35517380 GGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAACGGGCCATATAAATATGA-TTAAGCCTAATGGGCCAGATACAGGTGATTTG
* * *
35517438 GGCCTAATGGGCCATATGAATATGATTAAGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTAAGCCTAATGGGCCAGATACAGGT
35517489 ATGTGAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.50
58 22 0.50
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (57 bp):
GGCCTAACGGGCCATATAAATATGATTAAGCCTAATGGGCCAGATACAGGTGATTTG
Found at i:35520472 original size:43 final size:42
Alignment explanation
Indices: 35520383--35520494 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
35520373 TGAGATTACG
* ** ****
35520383 TGTAAGAACATATTTGGGATATGGCATCAATATGAGATTTTG
1 TGTAAGACCATAGCTGGGATATGGCATCAATATGAGATCCCA
* *
35520425 TGTAAGACTATAGCTGGGCTAATGGCATCAATATGAGATCCCA
1 TGTAAGACCATAGCTGGGAT-ATGGCATCAATATGAGATCCCA
*
35520468 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATAGCTGGGATATGGCAT
35520495 TGGTATGATA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGATATGGCATCAATATGAGATCCCA
Found at i:35527446 original size:24 final size:25
Alignment explanation
Indices: 35527400--35527446 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
35527390 ATAAGTGAGT
* **
35527400 TAAAAACTAAAAATTAACTAATTAA
1 TAAAAACTAAAAAGTAAAAAATTAA
35527425 TAAAAA-TAAAAAGTAAAAAATT
1 TAAAAACTAAAAAGTAAAAAATT
35527447 CCAATGCACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (25 bp):
TAAAAACTAAAAAGTAAAAAATTAA
Found at i:35539788 original size:262 final size:262
Alignment explanation
Indices: 35539323--35540110 Score: 1531
Period size: 262 Copynumber: 3.0 Consensus size: 262
35539313 TCATTTAAAA
*
35539323 AGCCCAACTTTATTAAGCCTCTTTGATCTAAAACGTTATTAATTTCAAAATCTCATTTGTAGCGA
1 AGCCCAACTTTATTAAGCTTCTTTGATCTAAAACGTTATTAATTTCAAAATCTCATTTGTAGCGA
*
35539388 AAGCTTTTCAAAATAGTTGCGTACTAGCGACTACTTGTAAAACGTTATTTTCTTATGGTAGCTCT
66 AAGCTTTTCAAAATAGTTGCGTACTAGCGACTACTTGTAAAACGTTATTTTCTTGTGGTAGCTCT
35539453 TAAAATCGTTTATGTATTCGTGATATTTTTTAAAACATTTGTCTTTTTGAAAACCCGCGTGTTTT
131 TAAAATCGTTTATGTATTCGTGATATTTTTTAAAACATTTGTCTTTTTGAAAACCCGCGTGTTTT
35539518 TCCTACTACTGGCAGTATTAAAGCAAAAAAAATATATGTTCCCCCAAATTAAAAATAAAATAGAG
196 TCCTACTACTGGCAGTATTAAAGCAAAAAAAATATATGTTCCCCCAAATTAAAAATAAAATAGAG
35539583 AG
261 AG
35539585 AGCCCAACTTTATTAAGCTTCTTTGATCTAAAACGTTATTAATTTCAAAATCTCATTTGTAGCGA
1 AGCCCAACTTTATTAAGCTTCTTTGATCTAAAACGTTATTAATTTCAAAATCTCATTTGTAGCGA
35539650 AAGCTTTTCAAAATAGTTGCGTACTAGCGACTACTTGTAAAACGTTATTTTCTTGTGGTAGCTCT
66 AAGCTTTTCAAAATAGTTGCGTACTAGCGACTACTTGTAAAACGTTATTTTCTTGTGGTAGCTCT
35539715 TAAAATCGTTTATGTATTCGTGATATTTTTTAAAACATTTGTCTTTTTGAAAACCCGCGTGTTTT
131 TAAAATCGTTTATGTATTCGTGATATTTTTTAAAACATTTGTCTTTTTGAAAACCCGCGTGTTTT
35539780 TCCTACTACTGGCAGTATTAAAGCAAAAAAAATATATGTTCCCCCAAATTAAAAATAAAATAGAG
196 TCCTACTACTGGCAGTATTAAAGCAAAAAAAATATATGTTCCCCCAAATTAAAAATAAAATAGAG
35539845 AG
261 AG
35539847 AGCCCAACTTTATTAAGCTTCTTTGATCTAAAACGTTATTAATTTCAAAATCTCATTTGTAGCGA
1 AGCCCAACTTTATTAAGCTTCTTTGATCTAAAACGTTATTAATTTCAAAATCTCATTTGTAGCGA
*
35539912 AAGCTTTTCAAAATAGCTGCGTACTAGCGACTACTTGTAAAACGTTATTTTCTTGTGGTAGCTCT
66 AAGCTTTTCAAAATAGTTGCGTACTAGCGACTACTTGTAAAACGTTATTTTCTTGTGGTAGCTCT
*
35539977 TAAAATCGTTTATGTATTCGTGATATTTTTGAAAACATTTGTCTTTTTGAAAACCCGCGTGTTTT
131 TAAAATCGTTTATGTATTCGTGATATTTTTTAAAACATTTGTCTTTTTGAAAACCCGCGTGTTTT
*
35540042 TCCTACTACTGGCAATATTAAAGCAAAAAAAATATATGTTCCCCCAAATTAAAAATAAAATAGAG
196 TCCTACTACTGGCAGTATTAAAGCAAAAAAAATATATGTTCCCCCAAATTAAAAATAAAATAGAG
35540107 AG
261 AG
35540109 AG
1 AG
35540111 GCCTTATTAC
Statistics
Matches: 521, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
262 521 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (262 bp):
AGCCCAACTTTATTAAGCTTCTTTGATCTAAAACGTTATTAATTTCAAAATCTCATTTGTAGCGA
AAGCTTTTCAAAATAGTTGCGTACTAGCGACTACTTGTAAAACGTTATTTTCTTGTGGTAGCTCT
TAAAATCGTTTATGTATTCGTGATATTTTTTAAAACATTTGTCTTTTTGAAAACCCGCGTGTTTT
TCCTACTACTGGCAGTATTAAAGCAAAAAAAATATATGTTCCCCCAAATTAAAAATAAAATAGAG
AG
Found at i:35549115 original size:27 final size:27
Alignment explanation
Indices: 35549085--35549155 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
35549075 CGACTTGTAA
*
35549085 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCAATTTACAG
***
35549112 AATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAAGTACCCTCAATTTACAG
*
35549139 AATTACCAAAATACCCT
1 AATTACCAAAGTACCCT
35549156 TGGTTTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCAATTTACAG
Found at i:35549162 original size:27 final size:27
Alignment explanation
Indices: 35549139--35549227 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
35549129 CAATTTACAG
35549139 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
35549166 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
35549193 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
35549220 AATTACCA
1 AATTACCA
35549228 TTTTGCCCCT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:35549878 original size:28 final size:28
Alignment explanation
Indices: 35549846--35549914 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35549836 GCGTAGATCA
35549846 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35549874 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
35549902 CGATA-TACCCCTA
1 CGAAATTACCCCTA
35549915 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:35552076 original size:40 final size:42
Alignment explanation
Indices: 35551986--35552091 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 42
35551976 CAATATTTTT
* *
35551986 AGTGTGCATGCTTAACATGCAAATCAGATTTATAATCAACAC
1 AGTGAGCATGCTTAACATGCAAATCAGAATTATAATCAACAC
* * * ***
35552028 AATCAGCATGCTTAACATGCGAATC-GAATT-TAATCAGTTC
1 AGTGAGCATGCTTAACATGCAAATCAGAATTATAATCAACAC
*
35552068 AGTGAGCATGCTTAAGATGCAAAT
1 AGTGAGCATGCTTAACATGCAAAT
35552092 GATATCTCAA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 27 0.52
41 4 0.08
42 21 0.40
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (42 bp):
AGTGAGCATGCTTAACATGCAAATCAGAATTATAATCAACAC
Found at i:35555730 original size:2 final size:2
Alignment explanation
Indices: 35555723--35555747 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35555713 ATTGTAAGCT
35555723 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35555748 GATGTATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35557487 original size:23 final size:24
Alignment explanation
Indices: 35557433--35557502 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 24
35557423 TTTATTGAAA
* * *
35557433 TATTGAGTGATTTGTCCACAATGC
1 TATTGAGTGGTTTGACCACAACGC
35557457 TATTGAGTGGCTTTG-CCACAACG-
1 TATTGAGTGG-TTTGACCACAACGC
35557480 TATTGAGTGGTTTGACCACAACG
1 TATTGAGTGGTTTGACCACAACG
35557503 AGCAACTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
22 4 0.10
23 18 0.43
24 16 0.38
25 4 0.10
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGTTTGACCACAACGC
Found at i:35560773 original size:39 final size:39
Alignment explanation
Indices: 35560729--35560808 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
35560719 TACCATAGTT
35560729 TCCATGTATTCCACATATATTTATTTTTCCTCCTCCTCC
1 TCCATGTATTCCACATATATTTATTTTTCCTCCTCCTCC
35560768 TCCATGTATTCCACATATATTTATTTTTCCTCCTCCTCC
1 TCCATGTATTCCACATATATTTATTTTTCCTCCTCCTCC
35560807 TC
1 TC
35560809 TCCATTCCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.17, C:0.34, G:0.03, T:0.46
Consensus pattern (39 bp):
TCCATGTATTCCACATATATTTATTTTTCCTCCTCCTCC
Found at i:35568944 original size:23 final size:23
Alignment explanation
Indices: 35568918--35568962 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
35568908 TATTTTAGAA
*
35568918 TTCAAAGGTAACTGGGAAAAATT
1 TTCAAAGGTAACTAGGAAAAATT
*
35568941 TTCAAATGTAACTAGGAAAAAT
1 TTCAAAGGTAACTAGGAAAAAT
35568963 GTTTACAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (23 bp):
TTCAAAGGTAACTAGGAAAAATT
Found at i:35580981 original size:48 final size:48
Alignment explanation
Indices: 35580901--35581118 Score: 194
Period size: 48 Copynumber: 4.5 Consensus size: 48
35580891 AAGGGATACA
* *
35580901 TTGATTTGGCTTCGGGGGACATGATATCGACACTTTGGGTGTGAGTTACT
1 TTGATTTGGCTTC--GGGCCATGATATCGACACTTCGGGTGTGAGTTACT
* *
35580951 TTGATTTGGCTTCGAGCCATGATATCGACACTTCGGGTGTGAGTTCCT
1 TTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGTGAGTTACT
* * * * *
35580999 TTGATTGGGCTTTGGGTCATGATATCGGCACTTCGGGTGCGAGCTTCAC-
1 TTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGTGAG-TT-ACT
* * * * *
35581048 -TGATTTGGCTAT-GAGCCATGATAT-TAGCACTTTGAGTGTGAGATA-T
1 TTGATTTGGCT-TCGGGCCATGATATCGA-CACTTCGGGTGTGAGTTACT
* *
35581094 ATTGAGTTGGCTTTGGGCCATGATA
1 -TTGATTTGGCTTCGGGCCATGATA
35581119 ATGGCACTTA
Statistics
Matches: 138, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 118 0.86
49 3 0.02
50 14 0.10
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (48 bp):
TTGATTTGGCTTCGGGCCATGATATCGACACTTCGGGTGTGAGTTACT
Found at i:35581087 original size:96 final size:95
Alignment explanation
Indices: 35580920--35581127 Score: 221
Period size: 96 Copynumber: 2.2 Consensus size: 95
35580910 CTTCGGGGGA
* * * *
35580920 CATGATATCGACACTTTGGGTGTGAGTTACTTTGATTTGGCTTCGAGCCATGATATCGACACTTC
1 CATGATATCGGCACTTCGGGTGCGAGTTAC-TTGATTTGGCTTCGAGCCATGATATAGACACTTC
* * * *
35580985 GGGTGTGAGTTCCT-TTGA-TTGGGCTTTGGGT
65 GAGTGTGAGAT-ATATTGAGTT-GGCTTTGGGC
35581016 CATGATATCGGCACTTCGGGTGCGAGCTTCAC-TGATTTGGCTAT-GAGCCATGATATTAG-CAC
1 CATGATATCGGCACTTCGGGTGCGAG-TT-ACTTGATTTGGCT-TCGAGCCATGATA-TAGACAC
*
35581078 TTTGAGTGTGAGATATATTGAGTTGGCTTTGGGC
62 TTCGAGTGTGAGATATATTGAGTTGGCTTTGGGC
35581112 CATGATAAT-GGCACTT
1 CATGAT-ATCGGCACTT
35581128 AGTGTGCGGG
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
95 1 0.01
96 84 0.88
97 9 0.09
98 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (95 bp):
CATGATATCGGCACTTCGGGTGCGAGTTACTTGATTTGGCTTCGAGCCATGATATAGACACTTCG
AGTGTGAGATATATTGAGTTGGCTTTGGGC
Found at i:35582862 original size:46 final size:46
Alignment explanation
Indices: 35582812--35582984 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
35582802 TGGTTGAGCA
35582812 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35582858 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
35582903 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
35582951 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35582985 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35582968 original size:93 final size:93
Alignment explanation
Indices: 35582809--35582979 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
35582799 GGATGGTTGA
* *
35582809 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35582874 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
35582902 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35582967 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35582980 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35583246 original size:19 final size:20
Alignment explanation
Indices: 35583209--35583246 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35583199 ATAAGGTGGT
35583209 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
35583229 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
35583247 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:35588535 original size:21 final size:22
Alignment explanation
Indices: 35588502--35588544 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
35588492 GAAAAAGAAA
35588502 ATATAAACTTAAA-TACTTGAATT
1 ATATAAAC-TAAACT-CTTGAATT
35588525 ATATAAA-TAAACTCTTGAAT
1 ATATAAACTAAACTCTTGAAT
35588545 AAAAACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
ATATAAACTAAACTCTTGAATT
Found at i:35588618 original size:79 final size:79
Alignment explanation
Indices: 35588533--35588690 Score: 262
Period size: 79 Copynumber: 2.0 Consensus size: 79
35588523 TTATATAAAT
* * * *
35588533 AAACTCTTGAATAAAAACTTATGTCAAGATGAAAATAAGAAAGTATTGAAAAGCTAAAAAGAAAA
1 AAACTCTTGAATAAAAACTTATGTCAAGAAGAAAACAAGAAAGTATTGAAAACCCAAAAAGAAAA
35588598 TAAATTAAATCTAC
66 TAAATTAAATCTAC
* *
35588612 AAACTCTTGAATAAAAACTTATGTCAAGAAGAAAACAAGAAATTATTGAAAACCCGAAAAGAAAA
1 AAACTCTTGAATAAAAACTTATGTCAAGAAGAAAACAAGAAAGTATTGAAAACCCAAAAAGAAAA
35588677 TAAATTAAATCTAC
66 TAAATTAAATCTAC
35588691 TCCTAAACTA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.23
Consensus pattern (79 bp):
AAACTCTTGAATAAAAACTTATGTCAAGAAGAAAACAAGAAAGTATTGAAAACCCAAAAAGAAAA
TAAATTAAATCTAC
Found at i:35589289 original size:16 final size:16
Alignment explanation
Indices: 35589268--35589303 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35589258 CAAACTACCC
35589268 AAAATAAAAAAAAACG
1 AAAATAAAAAAAAACG
**
35589284 AAAATAAACTAAAACG
1 AAAATAAAAAAAAACG
35589300 AAAA
1 AAAA
35589304 ACAAGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAAAACG
Found at i:35595234 original size:40 final size:40
Alignment explanation
Indices: 35595011--35595213 Score: 334
Period size: 40 Copynumber: 5.1 Consensus size: 40
35595001 CAATTGAGGA
* * *
35595011 TTATATCCGAGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
35595051 TTATTTCTGGGTTAAGTCCCGAAGCCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
35595091 TTATTCCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
35595131 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
35595171 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
35595211 TTA
1 TTA
35595214 CATCTGGGCT
Statistics
Matches: 151, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 151 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:35603657 original size:40 final size:39
Alignment explanation
Indices: 35603630--35603848 Score: 240
Period size: 40 Copynumber: 5.5 Consensus size: 39
35603620 TTACAGTGAT
* * *
35603630 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGG-TTTGGTAAC
* * * *
35603670 TCGCACGAATGCCTTCGGGACTTAAACTGGTTCTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGTT-TGGTAAC
*
35603710 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGG-TTTGGTAAC
* *
35603750 TCGTACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGG-TTTGGTAAC
* * * *
35603790 TCGCACAAATGCCTTCGGGAATTGACCTGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGG-TTTGGTAAC
* *
35603830 TTAGCACAAAAGCCTTCGG
1 -TCGCACAAATGCCTTCGG
35603849 AACTTAGCCC
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 136 0.87
41 18 0.12
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTAACCCGGTTTGGTAAC
Found at i:35603714 original size:80 final size:80
Alignment explanation
Indices: 35603630--35603854 Score: 290
Period size: 80 Copynumber: 2.8 Consensus size: 80
35603620 TTACAGTGAT
* *
35603630 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAA
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
*
35603695 ACTGGTTCTGGTAAC
66 ACCGGTTCTGGTAAC
* * * * *
35603710 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGTACAAATGCCTTCGGGACTTAA
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* *
35603775 CCCGGTTTTGGTAAC
66 ACCGGTTCTGGTAAC
* * * * *
35603790 TCGCACAAATGCCTTCGGGAATT-GACCTGGATTTAGTCACTTAGCACAAAAGCCTTCGGAACTT
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTT
35603854 A
64 A
35603855 GCCCAGACAC
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 103 0.84
81 20 0.16
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
ACCGGTTCTGGTAAC
Found at i:35611721 original size:40 final size:39
Alignment explanation
Indices: 35611677--35611895 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 39
35611667 GCTCGATTGT
* * *
35611677 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
35611717 CTTCGGGA-ATTAGCCCAGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACA-TAGCCC-GGTTTAGTAACTCGCACAAATGC
* * *
35611757 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
35611797 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
35611837 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
35611878 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
35611896 ACACCATTCG
Statistics
Matches: 152, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.02
40 121 0.80
41 26 0.17
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:35611775 original size:80 final size:79
Alignment explanation
Indices: 35611663--35611893 Score: 246
Period size: 80 Copynumber: 2.9 Consensus size: 79
35611653 GGATATAGCG
* * * * * * * *
35611663 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTT
35611728 AGCCCAGATTTAGTA
65 AGCCCAGATTTAGTA
* *
35611743 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTT
* * * *
35611808 AACCCGGTTTTGGTA
65 AGCCCAGATTTAGTA
* * * * * *
35611823 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACT
35611888 TAGCCC
64 TAGCCC
35611894 GGACACCATT
Statistics
Matches: 125, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 97 0.78
81 28 0.22
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTA
GCCCAGATTTAGTA
Found at i:35611829 original size:120 final size:121
Alignment explanation
Indices: 35611677--35611895 Score: 298
Period size: 120 Copynumber: 1.8 Consensus size: 121
35611667 GCTCGATTGT
* * * *
35611677 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCAGATTTAG
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCAGATTTAG
* * *
35611741 TAAC-TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
65 TAACTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * *
35611797 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCAGATTTAGT
* *
35611862 CACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
66 AACTTAGCACAAAAGCCTTCGGGACTTAACCCGG
35611896 ACACCATTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
120 57 0.68
121 27 0.32
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (121 bp):
CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCAGATTTAGT
AACTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:35614440 original size:40 final size:40
Alignment explanation
Indices: 35614378--35614602 Score: 324
Period size: 40 Copynumber: 5.6 Consensus size: 40
35614368 CAATTGAGGA
* *
35614378 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
35614418 TTATTTTCGGGTTAAGTCCCGAAGGCATTCGTGTTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
35614458 TTATTCCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
35614498 TTATTTCTGGGTTAAGTCCCAAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
35614538 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
35614578 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
35614603 TAATTGGGTT
Statistics
Matches: 164, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 164 1.00
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:35623386 original size:47 final size:47
Alignment explanation
Indices: 35623324--35623443 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 47
35623314 ATCCATAAGT
* * * *
35623324 GAACTCGTACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCAC
*
35623371 GAACTCGGACTCAACTCAACAAGTTCGAATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCAC
35623418 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
35623444 AGACATTTGC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:35627628 original size:27 final size:25
Alignment explanation
Indices: 35627598--35627665 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 25
35627588 GCATTATTGA
35627598 GAAGCTCATAAAGAGCCAATTTAA-CGG
1 GAAGCTCA-AAAGAGCC--TTTAATCGG
*
35627625 GAAGCTCACGAAGAGCCTTTAATCGG
1 GAAGCTCA-AAAGAGCCTTTAATCGG
* *
35627651 GATGATCAAAAGAGC
1 GAAGCTCAAAAGAGC
35627666 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.31
26 9 0.26
27 15 0.43
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCAAAAGAGCCTTTAATCGG
Found at i:35631986 original size:48 final size:48
Alignment explanation
Indices: 35631901--35632071 Score: 220
Period size: 48 Copynumber: 3.6 Consensus size: 48
35631891 TAAAGTACCA
* *
35631901 ATGCCATGTCCCGGACATGGTCTTACA-T-GAATCCATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CATATATCATCGTCG
* * * *
35631949 ATTCTATGTCCCAGACATGGTCTTACACTGGCACATATGTCACCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGTCG
* *
35631997 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGTCG
* *
35632045 ATGCCATGTCCCAAACATGGACTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
35632072 TGGAATCTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
48 104 0.97
49 1 0.01
50 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGTCG
Found at i:35640338 original size:47 final size:47
Alignment explanation
Indices: 35640284--35640477 Score: 291
Period size: 47 Copynumber: 4.1 Consensus size: 47
35640274 TTAGGATTTT
** *
35640284 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35640331 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35640378 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
35640425 ATGTTG-TGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATG-TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35640472 ATGTGA
1 ATGTGA
35640478 AATATGTATG
Statistics
Matches: 134, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 2 0.01
47 130 0.97
48 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:35640384 original size:22 final size:22
Alignment explanation
Indices: 35640313--35640384 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
35640303 GCATATATGA
35640313 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
35640335 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
35640360 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
35640382 GAT
1 GAT
35640385 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:35640606 original size:98 final size:96
Alignment explanation
Indices: 35640448--35640631 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
35640438 GAACATGCAT
*
35640448 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
35640513 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
35640544 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAAATGTATATGTGGTAAAGC
*
35640608 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
35640632 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 52 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:35640647 original size:50 final size:48
Alignment explanation
Indices: 35640447--35640631 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
35640437 TGAACATGCA
*
35640447 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
35640495 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
35640543 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
35640593 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
35640632 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:35640885 original size:37 final size:37
Alignment explanation
Indices: 35640777--35640885 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
35640767 GGAAATATAT
*
35640777 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
35640814 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
35640851 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
35640886 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:35642477 original size:40 final size:40
Alignment explanation
Indices: 35642154--35642465 Score: 498
Period size: 40 Copynumber: 7.8 Consensus size: 40
35642144 GAGAATTGAG
* *
35642154 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
35642194 AGTGATGTATCCGGGCTAACTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
35642234 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
35642274 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
35642314 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
35642354 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
35642394 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
35642434 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
35642466 ATCATGCTGG
Statistics
Matches: 252, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 252 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Done.