Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 96 of 175
Found at i:30606093 original size:45 final size:44
Alignment explanation
Indices: 30605985--30606104 Score: 129
Period size: 45 Copynumber: 2.7 Consensus size: 44
30605975 TCGCATCTAG
* *
30605985 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGACTAAGTAAGCAAA
* * * *
30606029 TCTTATC-CTCTTAAAGTTACAGT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTACAGTGGA-ACAGACT-AAGTA-AGCAAA
30606074 TCTTATCTCCCTGAAGTTACAGTGGAACAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGA
30606105 TTAAAGCCGA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.05
44 25 0.41
45 30 0.49
46 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTGGAACAGACTAAGTAAGCAAA
Found at i:30607619 original size:16 final size:15
Alignment explanation
Indices: 30607598--30607686 Score: 74
Period size: 16 Copynumber: 5.7 Consensus size: 15
30607588 TAATATAAAT
30607598 TTTTTTTATATAATTA
1 TTTTTTTATATAA-TA
*
30607614 TTTTTTTATCT-ATA
1 TTTTTTTATATAATA
* * *
30607628 TATGTGTATATATATA
1 TTTTTTTATATA-ATA
*
30607644 TTTTTTTAT-GAATA
1 TTTTTTTATATAATA
30607658 TTTTTCTATATATGAATA
1 TTTTT-T-TATAT-AATA
30607676 TTTTTTTATAT
1 TTTTTTTATAT
30607687 TTATACGTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 17 0.30
15 3 0.05
16 27 0.47
17 1 0.02
18 9 0.16
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (15 bp):
TTTTTTTATATAATA
Found at i:30607641 original size:32 final size:31
Alignment explanation
Indices: 30607604--30607684 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
30607594 AAATTTTTTT
* *
30607604 TATATAATTATTTTTTTATCTATATATGTGTA
1 TATATAA-TATTTTTTTATCAATATATGTCTA
* * *
30607636 TATAT-ATATTTTTTTATGAATATTTTTCTA
1 TATATAATATTTTTTTATCAATATATGTCTA
30607666 TATATGAATATTTTTTTAT
1 TATAT-AATATTTTTTTAT
30607685 ATTTATACGT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 24 0.57
31 1 0.02
32 17 0.40
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (31 bp):
TATATAATATTTTTTTATCAATATATGTCTA
Found at i:30607671 original size:18 final size:18
Alignment explanation
Indices: 30607650--30607686 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30607640 TATATTTTTT
30607650 TATGAATATTTTTCTATA
1 TATGAATATTTTTCTATA
*
30607668 TATGAATATTTTTTTATA
1 TATGAATATTTTTCTATA
30607686 T
1 T
30607687 TTATACGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
TATGAATATTTTTCTATA
Found at i:30607698 original size:30 final size:29
Alignment explanation
Indices: 30607604--30607700 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
30607594 AAATTTTTTT
* * * *
30607604 TATATAATTATTTTTTTATCTATATATGTG
1 TATATAA-TATTTTTTTATATTTATACGTA
* *
30607634 TATATATATATTTTTTTATGAATATTTTTC-TA
1 TATATA-ATATTTTTTTAT--AT-TTATACGTA
30607666 TATATGAATATTTTTTTATATTTATACGTA
1 TATAT-AATATTTTTTTATATTTATACGTA
30607696 TATAT
1 TATAT
30607701 TTATGTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
29 4 0.08
30 26 0.49
31 1 0.02
32 19 0.36
33 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (29 bp):
TATATAATATTTTTTTATATTTATACGTA
Found at i:30607924 original size:21 final size:20
Alignment explanation
Indices: 30607884--30607926 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
30607874 TTAGGTACCT
*
30607884 TTTATTCTTTATTTTTTTTA
1 TTTATTCTTTATTTTGTTTA
30607904 TTTAGTTCTTTCA-TTTGTTTA
1 TTTA-TTCTTT-ATTTTGTTTA
30607925 TT
1 TT
30607927 AATTTGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 15 0.75
22 1 0.05
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTATTCTTTATTTTGTTTA
Found at i:30608063 original size:15 final size:15
Alignment explanation
Indices: 30608043--30608077 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
30608033 TTTCTATGCC
30608043 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
30608058 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
30608073 ATTGT
1 ATTGT
30608078 AGCATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:30623015 original size:82 final size:82
Alignment explanation
Indices: 30622877--30623080 Score: 354
Period size: 82 Copynumber: 2.5 Consensus size: 82
30622867 GATATACGTC
*
30622877 TTTCAACAAATCATTTCAAAAAACAAAAAAAAATATGTTATACTAACAAAATGATCCTATAGAAG
1 TTTCAACAAATCATTTCAAAAAAC-AAACAAAATATGTTATACTAACAAAATGATCCTATAGAAG
30622942 TAAGATGTTAACCAACCA
65 TAAGATGTTAACCAACCA
* * *
30622960 TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGTAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGAAGT
*
30623025 AAGATGTTAACCAATCA
66 AAGATGTTAACCAACCA
30623042 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
30623081 ACCATCTCAA
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 92 0.80
83 23 0.20
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGAAGT
AAGATGTTAACCAACCA
Found at i:30623419 original size:159 final size:155
Alignment explanation
Indices: 30623153--30623584 Score: 508
Period size: 159 Copynumber: 2.7 Consensus size: 155
30623143 CAATATGCCA
* * *
30623153 TCTTTTTTTGGCTTCTAGTTCTCATACTCGTACCAGACTGAGA-ATAAAAATCAAAACCCCAAAT
1 TCTTTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACA-AAAAATCAGAA-CCCAAAT
* * ** * *
30623217 TAGATTTAAATAATTTGGAATTAACATTAAAAAAGTGTTTACGATATATTTGTGATCTAGTTGTG
64 TAGATTTAAATATTTTGGAATTGACATT-AAAAAGTGTTTACGATATACCTGTGATCCAGTTGTA
* *
30623282 TTAGGCTGAATG-CATGGTGTTCCGTTGT
128 TTAAGCTGAATGTCA-GGTGTTACGTTGT
* * * *
30623310 TCTTTTTTTGGCTTCTAGTTCTTGTACTCATACCAAACTAAGACCAAAAACATTAGAACCCTAAA
1 TCTTTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGA-CAAAAA-ATCAGAACCC-AAA
* ** *
30623375 TTAGATTAAAATATTTTTTAATTGACATTAAAATAGTGTATACGATATACCTGTGATCCAGTTGT
63 TTAGATTTAAATATTTTGGAATTGACATTAAAA-AGTGTTTACGATATACCTGTGATCCAGTTGT
* *
30623440 ATTAAGCTGAATGTGAGGTGTTATGTTGT
127 ATTAAGCTGAATGTCAGGTGTTACGTTGT
* * * *
30623469 TATTTTTTGGGCTTTTAGTTCTCGTACTTGTACCAGACTAAGAGCAACAAAATCAGAACCCAAAT
1 TCTTTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGA-CAA-AAAATCAGAACCCAAAT
* *
30623534 TAGATTTTAATATTTTGGAATTGACAATTAAAAAGTGTTTACAATATACCT
64 TAGATTTAAATATTTTGGAATTGAC-ATTAAAAAGTGTTTACGATATACCT
30623585 ATGTTCCCAT
Statistics
Matches: 231, Mismatches: 36, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
157 38 0.16
158 52 0.23
159 137 0.59
160 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (155 bp):
TCTTTTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACAAAAAATCAGAACCCAAATTA
GATTTAAATATTTTGGAATTGACATTAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTATTA
AGCTGAATGTCAGGTGTTACGTTGT
Found at i:30623734 original size:21 final size:22
Alignment explanation
Indices: 30623693--30623734 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
30623683 CTAGGCTTCA
*
30623693 CTTTTTTCAGTTCATTTTTTGC
1 CTTTTTTCAGTTCATTCTTTGC
30623715 CTTTTTTCTA-TTC-TTCTTTG
1 CTTTTTTC-AGTTCATTCTTTG
30623735 GCCTACCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 11 0.61
23 1 0.06
ACGTcount: A:0.07, C:0.19, G:0.07, T:0.67
Consensus pattern (22 bp):
CTTTTTTCAGTTCATTCTTTGC
Found at i:30625849 original size:6 final size:6
Alignment explanation
Indices: 30625838--30625863 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30625828 ACCACTCTCT
30625838 CCCTCA CCCTCA CCCTCA CCCTCA CC
1 CCCTCA CCCTCA CCCTCA CCCTCA CC
30625864 ACATTTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCTCA
Found at i:30628163 original size:10 final size:9
Alignment explanation
Indices: 30628133--30628169 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
30628123 CTAGTTAGTG
30628133 TTTAACTTGT
1 TTTAA-TTGT
*
30628143 TTTAATTTT
1 TTTAATTGT
30628152 TTTAATTGT
1 TTTAATTGT
30628161 TTTAATTGT
1 TTTAATTGT
30628170 GGGTAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:30628218 original size:18 final size:18
Alignment explanation
Indices: 30628191--30628236 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
30628181 AAAAATTTTC
30628191 TAAA-TATTTTTTAAATT
1 TAAATTATTTTTTAAATT
* *
30628208 TTAATTATTTTTTAAGTT
1 TAAATTATTTTTTAAATT
30628226 TAAATTCATTT
1 TAAATT-ATTT
30628237 GCTGACGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
TAAATTATTTTTTAAATT
Found at i:30634572 original size:5 final size:5
Alignment explanation
Indices: 30634562--30634591 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
30634552 TGTTTCAAGC
30634562 TTTAT TTTAT TTTAT TTTAT TTTACT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTA
30634592 ATTCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:30634747 original size:20 final size:19
Alignment explanation
Indices: 30634722--30634760 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
30634712 CTCCTTTAAT
30634722 TATATAAATAAATTAATAAA
1 TATATAAATAAA-TAATAAA
*
30634742 TATATAAATATATAATAAA
1 TATATAAATAAATAATAAA
30634761 AAAATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TATATAAATAAATAATAAA
Found at i:30650681 original size:106 final size:105
Alignment explanation
Indices: 30650565--30650761 Score: 236
Period size: 106 Copynumber: 1.9 Consensus size: 105
30650555 TATAATATTT
* * * * *
30650565 ATATGTCAAATAT-TTATTTTCTCCACCTACACTT-TGGGTGTGGCGATTTCTAATATTATAAAA
1 ATATGTCAAATATATTATTTT-T-CACATACA-TTGTGAGTATGGCAAATTCTAATATTATAAAA
*
30650628 TCAAATAATTATTTCAAATACCATTATTATTTTTATATGTAAA
63 TCAAATAATTATTTAAAATACCATTATTATTTTTATATGTAAA
* * * *
30650671 ATATTTCAAATATCATTGTTTTTCATATACATTGTGAGTATGGTAAATTCTAATATTATAAAATC
1 ATATGTCAAATAT-ATTATTTTTCACATACATTGTGAGTATGGCAAATTCTAATATTATAAAATC
* *
30650736 AATTAATTATTTAAAATATCATTATT
65 AAATAATTATTTAAAATACCATTATT
30650762 TTTAGTAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
105 2 0.03
106 67 0.88
107 1 0.01
108 6 0.08
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (105 bp):
ATATGTCAAATATATTATTTTTCACATACATTGTGAGTATGGCAAATTCTAATATTATAAAATCA
AATAATTATTTAAAATACCATTATTATTTTTATATGTAAA
Found at i:30651137 original size:98 final size:97
Alignment explanation
Indices: 30651032--30651218 Score: 277
Period size: 98 Copynumber: 1.9 Consensus size: 97
30651022 ATAAAATACA
* *
30651032 TTTAACATAATGATAAATATAAAA-AAATATTTTTATTATATAATTATATAATTATTAATTTATT
1 TTTAACATAATGATAAATATAAAATAAATA-TTTTATTATATAATTACAT-ATAATTAATTTATT
*
30651096 TATATAAATAAAGGAGTTATTAATTAGAAATATT
64 TATATAAATAAAAGAGTTATTAATTAGAAATATT
* * * *
30651130 TTTAACATAATGATATATTTAAAATAGATATTTTATTATATAATTACATATAATTATTTTATTTA
1 TTTAACATAATGATAAATATAAAATAAATATTTTATTATATAATTACATATAATTAATTTATTTA
*
30651195 TATAAATAAAAGATTTATTAATTA
66 TATAAATAAAAGAGTTATTAATTA
30651219 AAAAGATGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
97 36 0.45
98 40 0.50
99 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.47
Consensus pattern (97 bp):
TTTAACATAATGATAAATATAAAATAAATATTTTATTATATAATTACATATAATTAATTTATTTA
TATAAATAAAAGAGTTATTAATTAGAAATATT
Found at i:30651171 original size:25 final size:27
Alignment explanation
Indices: 30651142--30651199 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
30651132 TAACATAATG
*
30651142 ATATATTTA-AAATAGA-TATTTTA-TT
1 ATATAATTACAAATA-ATTATTTTATTT
*
30651167 ATATAATTACATATAATTATTTTATTT
1 ATATAATTACAAATAATTATTTTATTT
30651194 ATATAA
1 ATATAA
30651200 ATAAAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.32
26 11 0.39
27 8 0.29
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
ATATAATTACAAATAATTATTTTATTT
Found at i:30655950 original size:51 final size:49
Alignment explanation
Indices: 30655831--30656069 Score: 210
Period size: 51 Copynumber: 4.8 Consensus size: 49
30655821 TATCATTCGA
** * *
30655831 TACACGTAGTAGCCTTAACATAGTACTACACATGTGATCAAACTTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAA-TTTCCGG
** * * * *
30655881 TTTACGTAGTAGTCTGCACATAGTACTACACACGTAATCATTAATATCCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCA--AATTTCCGG
*
30655932 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATC-AA-ATTTCCGG
* *** * * ***
30655983 TGCGTATAGTAGCCTGCACATAGTACTACACATGCGA-CCTTTCATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAT--TTCCGG
* *
30656033 TACACGTAGTAGCCTACACATAGTACTACACATGTGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA
30656070 CCATCACTTT
Statistics
Matches: 151, Mismatches: 32, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
50 72 0.48
51 75 0.50
52 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAATTTCCGG
Found at i:30655969 original size:101 final size:100
Alignment explanation
Indices: 30655828--30656069 Score: 301
Period size: 101 Copynumber: 2.4 Consensus size: 100
30655818 TATTATCATT
*
30655828 CGATACACGTAGTAGCCTTA-ACATAGTACTACACATGTGATC-AAACTTTTCGGTTTACG-TAG
1 CGATACACGTAGTAGCC-TACACATAGTACTACACATGTGATCGAAACTTTCCGG--TACGATAG
* * *
30655890 TAGTCTGCACATAGTACTACACACGTAATCATTAATATC
63 TAGCCTGCACATAGTACTACACACGCAACCATTAAT-TC
* * * *
30655929 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTTTCCGGTGCGTATAGTA
1 CGATACACGTAGTAGCCTACACATAGTACTACACATGTGATCGAAACTTTCCGGTACG-ATAGTA
* * * *
30655994 GCCTGCACATAGTACTACACATGCGACCTTTCATTC
65 GCCTGCACATAGTACTACACACGCAACCATTAATTC
*
30656030 CGGTACACGTAGTAGCCTACACATAGTACTACACATGTGA
1 CGATACACGTAGTAGCCTACACATAGTACTACACATGTGA
30656070 CCATCACTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
100 4 0.03
101 77 0.63
102 41 0.34
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
CGATACACGTAGTAGCCTACACATAGTACTACACATGTGATCGAAACTTTCCGGTACGATAGTAG
CCTGCACATAGTACTACACACGCAACCATTAATTC
Found at i:30658582 original size:26 final size:26
Alignment explanation
Indices: 30658552--30658606 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
30658542 TTGCTTCTTG
*
30658552 GTTGTTAATCAG-TTATTTTGTGATTT
1 GTTGTTAA-CAGATTATTTCGTGATTT
*
30658578 GTTGTTAACCGATTATTTCGTGATTT
1 GTTGTTAACAGATTATTTCGTGATTT
30658604 GTT
1 GTT
30658607 CTTTGTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.18, C:0.07, G:0.20, T:0.55
Consensus pattern (26 bp):
GTTGTTAACAGATTATTTCGTGATTT
Found at i:30659583 original size:13 final size:13
Alignment explanation
Indices: 30659561--30659585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30659551 TATTTTCGTT
30659561 TTATATTTTTTTC
1 TTATATTTTTTTC
30659574 TTATATTTTTTT
1 TTATATTTTTTT
30659586 TATTTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATATTTTTTTC
Found at i:30660550 original size:93 final size:93
Alignment explanation
Indices: 30660453--30660630 Score: 202
Period size: 93 Copynumber: 1.9 Consensus size: 93
30660443 TACACATGCA
* * * * *
30660453 TATATATTTATAGTATACGTA-CATT-ATTTTTATAATTTATATATATACGCGTACTTATATATA
1 TATATATATATA-TATACATATCATTAATTTTCATAA-ATATATATATA--CATACTTATATATA
*
30660516 -TTT-TTATATTTTATAATTTATACACATATC
62 TTTTATTATATCTTATAATTTATACACATATC
* ** *
30660546 TATATATATCTATATACATATTTTTAATTTTCATAAATATATATATACATGCTTATATATATTTT
1 TATATATATATATATACATATCATTAATTTTCATAAATATATATATACATACTTATATATATTTT
30660611 ATTATATCTTATAATTTATA
66 ATTATATCTTATAATTTATA
30660631 TATATGTGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
91 12 0.17
92 10 0.14
93 40 0.56
94 9 0.13
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (93 bp):
TATATATATATATATACATATCATTAATTTTCATAAATATATATATACATACTTATATATATTTT
ATTATATCTTATAATTTATACACATATC
Found at i:30660554 original size:38 final size:37
Alignment explanation
Indices: 30660477--30660554 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
30660467 ATACGTACAT
* *
30660477 TATTTTTATAATTTATATATATACGCGTACTTATATA
1 TATTTTTATAATTTATATATATACACATACTTATATA
* *
30660514 TATTTTTATATTTTATAATTTATACACATA-TCTATATA
1 TATTTTTATAATTTAT-ATATATACACATACT-TATATA
30660552 TAT
1 TAT
30660555 CTATATACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 16 0.46
38 19 0.54
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (37 bp):
TATTTTTATAATTTATATATATACACATACTTATATA
Found at i:30661128 original size:72 final size:72
Alignment explanation
Indices: 30661011--30661153 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 72
30661001 TCTTTTCAAA
* * **
30661011 CTCAAGTTTTAAAGGATCTCGGGAATTAAGAAGAGATTGTGTCCTAACTTACTGGGTATGATCCA
1 CTCAAGTTTTAAAGGATCTCGGGAATTAAGAAAAGACTGTGTCCTAACTTACTGGACATGATCCA
30661076 TTTTTTT
66 TTTTTTT
* *
30661083 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGACTGTGTCCTAACTTACTGGACATGATCCC
1 CTCAAGTTTTAAAGGATCTCGGGAATTAAGAAAAGACTGTGTCCTAACTTACTGGACATGATCCA
30661148 TTTTTT
66 TTTTTT
30661154 AAATCCGAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (72 bp):
CTCAAGTTTTAAAGGATCTCGGGAATTAAGAAAAGACTGTGTCCTAACTTACTGGACATGATCCA
TTTTTTT
Found at i:30664809 original size:31 final size:32
Alignment explanation
Indices: 30664748--30664810 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
30664738 AATTGAATGG
30664748 AGAGAAAATAAAATAATTGAAAACACTGAAATT
1 AGAGAAAATAAAATAATT-AAAACACTGAAATT
* * *
30664781 AGAGAAAATAAGATAGTT-AAACATTGAAAT
1 AGAGAAAATAAAATAATTAAAACACTGAAAT
30664811 GAAAATTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 11 0.41
33 16 0.59
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (32 bp):
AGAGAAAATAAAATAATTAAAACACTGAAATT
Found at i:30666180 original size:17 final size:16
Alignment explanation
Indices: 30666158--30666191 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
30666148 TCCAATTACC
30666158 TATTAATTATCATATAT
1 TATTAATTAT-ATATAT
*
30666175 TATTAATTCTATATAT
1 TATTAATTATATATAT
30666191 T
1 T
30666192 TTCCTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTAATTATATATAT
Found at i:30666847 original size:19 final size:18
Alignment explanation
Indices: 30666823--30666879 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 18
30666813 AAATTTTGAT
*
30666823 AAAATTGTAAAAGTTTATA
1 AAAATTATAAAAGTTTA-A
*
30666842 AAAATTTATAAAATTTTAA
1 AAAA-TTATAAAAGTTTAA
30666861 AAAATTA-AAATA-TTTAA
1 AAAATTATAAA-AGTTTAA
30666878 AA
1 AA
30666880 TGTTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 10 0.29
18 4 0.12
19 9 0.26
20 11 0.32
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (18 bp):
AAAATTATAAAAGTTTAA
Found at i:30666889 original size:9 final size:9
Alignment explanation
Indices: 30666850--30666890 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
30666840 TAAAAATTTA
30666850 TAAAAT-TT
1 TAAAATATT
*
30666858 TAAAA-AAT
1 TAAAATATT
30666866 TAAAATATT
1 TAAAATATT
*
30666875 TAAAATGTT
1 TAAAATATT
30666884 TAAAATA
1 TAAAATA
30666891 ATAATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 11 0.41
9 16 0.59
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
TAAAATATT
Found at i:30674294 original size:14 final size:14
Alignment explanation
Indices: 30674275--30674328 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
30674265 CTCTTGTACC
30674275 TCTTTTTCTTTTTT
1 TCTTTTTCTTTTTT
*
30674289 TCTTTTTC--ATTT
1 TCTTTTTCTTTTTT
*
30674301 TC-CTTTCTTTTCTT
1 TCTTTTTCTTTT-TT
30674315 TCCTTTTTCTTTTT
1 T-CTTTTTCTTTTT
30674329 CCTTACCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
11 4 0.13
12 5 0.16
13 1 0.03
14 11 0.35
15 2 0.06
16 8 0.26
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:30674320 original size:27 final size:25
Alignment explanation
Indices: 30674279--30674332 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 25
30674269 TGTACCTCTT
30674279 TTTCTTTTTTTCTTTTTCATTTTCC
1 TTTCTTTTTTTCTTTTTCATTTTCC
*
30674304 TTTCTTTTCTTTCCTTTTTCTTTTTCC
1 TTTCTTTT-TTT-CTTTTTCATTTTCC
30674331 TT
1 TT
30674333 ACCCATTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.31
26 3 0.12
27 15 0.58
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTCTTTTTTTCTTTTTCATTTTCC
Found at i:30674431 original size:27 final size:27
Alignment explanation
Indices: 30674393--30674449 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
30674383 AAAATATCAT
*
30674393 TGTCGTTCGTTGTCATTCACCATTCAC
1 TGTCATTCGTTGTCATTCACCATTCAC
*
30674420 TGTCATTCGTTGTCGTTCACCATTCAC
1 TGTCATTCGTTGTCATTCACCATTCAC
30674447 TGT
1 TGT
30674450 GTTTAGCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.16, T:0.42
Consensus pattern (27 bp):
TGTCATTCGTTGTCATTCACCATTCAC
Found at i:30675369 original size:17 final size:18
Alignment explanation
Indices: 30675347--30675381 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30675337 AACAATTAAA
30675347 TAAATT-GGAAATAAAAT
1 TAAATTGGGAAATAAAAT
30675364 TAAATTGGGAAATAAAAT
1 TAAATTGGGAAATAAAAT
30675382 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (18 bp):
TAAATTGGGAAATAAAAT
Found at i:30684079 original size:43 final size:43
Alignment explanation
Indices: 30684031--30684141 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
30684021 TCCAATATTG
30684031 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCA
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCA
* * *
30684074 ATTTGATATTTCGTGTAAGACCATAGCTGGGCTATTGGCGTCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCA
** *
30684117 ATACGAGATTTCCATGTAAGACCAT
1 ATTTGAGATTT-CGTGTAAGACCAT
30684142 GTCTGGGACA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
43 48 0.80
44 12 0.20
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCA
Found at i:30686614 original size:16 final size:17
Alignment explanation
Indices: 30686582--30686615 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30686572 TATAGAATGG
*
30686582 ATTTTGCAATTAAACAA
1 ATTTTGCAATGAAACAA
30686599 ATTTTGCAA-GAAACAA
1 ATTTTGCAATGAAACAA
30686615 A
1 A
30686616 GAAATGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
ATTTTGCAATGAAACAA
Found at i:30687598 original size:4 final size:4
Alignment explanation
Indices: 30687589--30687613 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
30687579 AACTTGAGCC
30687589 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
30687614 GTACAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:30689523 original size:13 final size:13
Alignment explanation
Indices: 30689505--30689529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30689495 CTTCCCCTTT
30689505 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
30689518 TCTTTTTTTTTT
1 TCTTTTTTTTTT
30689530 GGGCTTGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:30690266 original size:17 final size:16
Alignment explanation
Indices: 30690229--30690267 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
30690219 AATAAACAAT
30690229 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
30690244 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
30690262 TAAATT
1 TAAATT
30690268 CGAATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:30691698 original size:11 final size:12
Alignment explanation
Indices: 30691655--30691701 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
30691645 TGTTTTGTTA
30691655 CAAAATAAAATAT
1 CAAAATAAAA-AT
30691668 CAACAATAAAAAT
1 CAA-AATAAAAAT
30691681 ACAAAATAAAAAT
1 -CAAAATAAAAAT
30691694 C-AAATAAA
1 CAAAATAAA
30691702 CATAAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.22
12 1 0.03
13 14 0.44
14 10 0.31
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAATAAAAAT
Found at i:30693299 original size:25 final size:26
Alignment explanation
Indices: 30693255--30693303 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
30693245 TCTCATCTCA
30693255 ATTTTACCCTTGATAAAATTTTGATG
1 ATTTTACCCTTGATAAAATTTTGATG
30693281 ATTTTACCC-TGATAAAATTTTGA
1 ATTTTACCCTTGATAAAATTTTGA
30693304 GAAAATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTGATAAAATTTTGATG
Found at i:30696937 original size:13 final size:13
Alignment explanation
Indices: 30696921--30696957 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
30696911 AAAAAAAACC
30696921 AAGAAAGATGAAG
1 AAGAAAGATGAAG
30696934 AAG--AG-TGAAG
1 AAGAAAGATGAAG
30696944 AAGAAAGATGAAG
1 AAGAAAGATGAAG
30696957 A
1 A
30696958 CAAAGATACG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 2 0.10
13 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
AAGAAAGATGAAG
Found at i:30696986 original size:39 final size:39
Alignment explanation
Indices: 30696940--30697027 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
30696930 GAAGAAGAGT
* *
30696940 GAAGAAGAAAGAT-GAAGACAAAGATA-CGTAAAAGAAAAA
1 GAAGAAGAAAAATGGAAGA-AAAGA-AGCGAAAAAGAAAAA
*
30696979 GAAGAAGAAAAATGGAAGAAAAGAAGGGAAAAAGAAAAA
1 GAAGAAGAAAAATGGAAGAAAAGAAGCGAAAAAGAAAAA
*
30697018 GAAAAAGAAA
1 GAAGAAGAAA
30697028 TACAATAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 37 0.86
40 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.05
Consensus pattern (39 bp):
GAAGAAGAAAAATGGAAGAAAAGAAGCGAAAAAGAAAAA
Found at i:30698679 original size:18 final size:18
Alignment explanation
Indices: 30698644--30698679 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30698634 CAACCAAAAG
*
30698644 AAACCCAAAACAAGGAAA
1 AAACCCAAAACAAAGAAA
*
30698662 AAACCCAAAGCAAAGAAA
1 AAACCCAAAACAAAGAAA
30698680 CAAAAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.22, G:0.11, T:0.00
Consensus pattern (18 bp):
AAACCCAAAACAAAGAAA
Found at i:30699679 original size:15 final size:16
Alignment explanation
Indices: 30699655--30699699 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
30699645 CTATTTGAGA
*
30699655 TCTTTATTTTTTTT-T
1 TCTTTCTTTTTTTTCT
30699670 TCTTTCTTTTTTTTCT
1 TCTTTCTTTTTTTTCT
*
30699686 TCTATCATTTTTTT
1 TCTTTC-TTTTTTT
30699700 GGCCATAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.50
16 6 0.23
17 7 0.27
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (16 bp):
TCTTTCTTTTTTTTCT
Found at i:30699682 original size:16 final size:16
Alignment explanation
Indices: 30699660--30699699 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
30699650 TGAGATCTTT
* *
30699660 ATTTTTTTTTTCTTTC
1 ATTTTTTTCTTCTATC
*
30699676 TTTTTTTTCTTCTATC
1 ATTTTTTTCTTCTATC
30699692 ATTTTTTT
1 ATTTTTTT
30699700 GGCCATAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (16 bp):
ATTTTTTTCTTCTATC
Found at i:30699874 original size:12 final size:11
Alignment explanation
Indices: 30699859--30699910 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
30699849 CCTTTAGAGT
30699859 TTTTATTTAAGA
1 TTTTA-TTAAGA
30699871 TTTTCA-TAAGA
1 TTTT-ATTAAGA
30699882 TTTTATCTAAGA
1 TTTTAT-TAAGA
30699894 TTTTCA-TAAGA
1 TTTT-ATTAAGA
30699905 TTTTAT
1 TTTTAT
30699911 CTTAGATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
10 2 0.06
11 18 0.51
12 13 0.37
13 2 0.06
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.54
Consensus pattern (11 bp):
TTTTATTAAGA
Found at i:30699882 original size:11 final size:11
Alignment explanation
Indices: 30699866--30699908 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
30699856 AGTTTTTATT
30699866 TAAGATTTTCA
1 TAAGATTTTCA
30699877 TAAGATTTT-A
1 TAAGATTTTCA
30699887 TCTAAGATTTTCA
1 --TAAGATTTTCA
30699900 TAAGATTTT
1 TAAGATTTT
30699909 ATCTTAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 18 0.62
12 9 0.31
13 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (11 bp):
TAAGATTTTCA
Found at i:30699885 original size:23 final size:23
Alignment explanation
Indices: 30699859--30699918 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
30699849 CCTTTAGAGT
30699859 TTTTATTTAAGATTTTCATAAGA
1 TTTTATTTAAGATTTTCATAAGA
*
30699882 TTTTATCTAAGATTTTCATAAGA
1 TTTTATTTAAGATTTTCATAAGA
30699905 TTTTATCTT-AGATT
1 TTTTAT-TTAAGATT
30699919 AATACATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (23 bp):
TTTTATTTAAGATTTTCATAAGA
Found at i:30702727 original size:49 final size:49
Alignment explanation
Indices: 30702670--30702809 Score: 206
Period size: 49 Copynumber: 3.0 Consensus size: 49
30702660 AGTTCAAAGG
30702670 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
1 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
*
30702719 ATCATACATTTACAAAACATCGCCAATCAACTACTAGATTCATTTACT-
1 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
*
30702767 A--AT-CA--T--AAAACATCGCCAATCAAATGCTAGATTCATTTACTA
1 ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
30702809 A
1 A
30702810 CCTAAAGAGA
Statistics
Matches: 87, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
41 33 0.38
42 1 0.01
43 1 0.01
45 2 0.02
46 2 0.02
48 1 0.01
49 47 0.54
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.30
Consensus pattern (49 bp):
ATCATACATTTACAAAACATCGCCAATCAACTGCTAGATTCATTTACTA
Found at i:30702789 original size:41 final size:41
Alignment explanation
Indices: 30702732--30702809 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
30702722 ATACATTTAC
*
30702732 AAAACATCGCCAATCAACTACTAGATTCATTTACTAATCAT
1 AAAACATCGCCAATCAAATACTAGATTCATTTACTAATCAT
*
30702773 AAAACATCGCCAATCAAATGCTAGATTCATTTACTAA
1 AAAACATCGCCAATCAAATACTAGATTCATTTACTAA
30702810 CCTAAAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.28
Consensus pattern (41 bp):
AAAACATCGCCAATCAAATACTAGATTCATTTACTAATCAT
Found at i:30712073 original size:18 final size:18
Alignment explanation
Indices: 30712039--30712073 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30712029 ATTTCAGAAA
* *
30712039 TATGGGCCTACATGCCCG
1 TATGGGCCCACACGCCCG
30712057 TATGGGCCCACACGCCC
1 TATGGGCCCACACGCCC
30712074 AACTTGGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (18 bp):
TATGGGCCCACACGCCCG
Found at i:30715932 original size:16 final size:17
Alignment explanation
Indices: 30715913--30715950 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
30715903 TTTAGGACTA
*
30715913 TTTAATTTTA-ATTATT
1 TTTAATTATATATTATT
30715929 TTTAATTATATATTATT
1 TTTAATTATATATTATT
30715946 TTTAA
1 TTTAA
30715951 AGATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAATTATATATTATT
Found at i:30715956 original size:17 final size:17
Alignment explanation
Indices: 30715923--30715961 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
30715913 TTTAATTTTA
**
30715923 ATTATTTTTAATTATAT
1 ATTATTTTTAAAGATAT
30715940 ATTATTTTTAAAGATAT
1 ATTATTTTTAAAGATAT
30715957 -TTATT
1 ATTATT
30715962 AGAAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTATTTTTAAAGATAT
Found at i:30726781 original size:18 final size:17
Alignment explanation
Indices: 30726758--30726813 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 17
30726748 ATTTTGCATT
30726758 AATTAATTTAAAAAATTC
1 AATTAA-TTAAAAAATTC
*
30726776 AATTAATT---AAATTT
1 AATTAATTAAAAAATTC
*
30726790 ATTTAATTAAAAAA-TC
1 AATTAATTAAAAAATTC
30726806 AATTAATT
1 AATTAATT
30726814 TACTTGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.39
16 8 0.26
17 5 0.16
18 6 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTAATTAAAAAATTC
Found at i:30727693 original size:151 final size:152
Alignment explanation
Indices: 30727373--30727678 Score: 596
Period size: 152 Copynumber: 2.0 Consensus size: 152
30727363 GATTTGGGTA
30727373 AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATGCATCAAAAATTGTTAAAT
1 AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATGCATCAAAAATTGTTAAAT
30727438 TGTGCTTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTTCAAAATTGAAATTTTAAACTTCA
66 TGTGCTTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTTCAAAATTGAAATTTTAAACTTCA
*
30727503 AAGCATCAACCTCAATTAAATG
131 AAACATCAACCTCAATTAAATG
30727525 AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATGCATCAAAAATTGTTAAAT
1 AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATGCATCAAAAATTGTTAAAT
30727590 TGTGCTTGTTTACCTCCTTGTCATAAGTTCTA-TTTTTTTTTCAAAATTGAAATTTTAAACTTCA
66 TGTGCTTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTTCAAAATTGAAATTTTAAACTTCA
30727654 AAACATCAACCTCAATTAAATG
131 AAACATCAACCTCAATTAAATG
30727676 AAA
1 AAA
30727679 GTGAATTATT
Statistics
Matches: 153, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
151 56 0.37
152 97 0.63
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (152 bp):
AAAAAATTAAGAATTAAAGTGAAAAAACGGTAGAAACTAAAATAATGCATCAAAAATTGTTAAAT
TGTGCTTGTTTACCTCCTTGTCATAAGTTCTATTTTTTTTTTCAAAATTGAAATTTTAAACTTCA
AAACATCAACCTCAATTAAATG
Found at i:30734415 original size:25 final size:25
Alignment explanation
Indices: 30734376--30734423 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30734366 TTATAGAGAG
*
30734376 AAAATTCTCTGAAGAAATTATTTCAA
1 AAAATTCTCTAAAGAAATT-TTTCAA
*
30734402 AAAATT-TCTAAAGATATTTTTC
1 AAAATTCTCTAAAGAAATTTTTC
30734424 TTATTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAATTCTCTAAAGAAATTTTTCAA
Found at i:30736256 original size:36 final size:35
Alignment explanation
Indices: 30736189--30736257 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
30736179 AATATAATCT
* * *
30736189 CTGTCATATGGTATGAAAACATATCTACATATTTA
1 CTGTCACATGGCATGAAAACATACCTACATATTTA
30736224 CTGTCACATGGCATGAATAACATACCCT-CATATT
1 CTGTCACATGGCATGAA-AACATA-CCTACATATT
30736258 CACTTTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 15 0.52
36 12 0.41
37 2 0.07
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (35 bp):
CTGTCACATGGCATGAAAACATACCTACATATTTA
Found at i:30739527 original size:480 final size:481
Alignment explanation
Indices: 30738625--30739575 Score: 1859
Period size: 480 Copynumber: 2.0 Consensus size: 481
30738615 TCTCATTGGA
*
30738625 CTACTGTCAAGCAAATCCTTTGCTATTTGATAGGCATTATTGATTATGGACTGGTATTCTCTTCC
1 CTACTGTCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
30738690 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTGATGATCGAAA
66 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTGATGATCGAAA
30738755 GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
131 GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
30738820 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
196 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
30738885 ATCTAGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
261 ATCTAGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
30738950 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
326 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
*
30739015 ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTATAAGCCGTATATGTTCCT
391 ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
*
30739080 TCCAAGCACCTAGTTATGAACTAGTG
456 TCCAAGCACCAAGTTATGAACTAGTG
30739106 CTACTGTCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
1 CTACTGTCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
30739171 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTGATGATCGAAA
66 AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTGATGATCGAAA
30739236 GTCCACATTTGGCCATTGTGTTTTT-TAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
131 GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
30739300 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
196 GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
*
30739365 ATCTGGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
261 ATCTAGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
30739430 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
326 TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
30739495 ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
391 ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
30739560 TCCAAGCACCAAGTTA
456 TCCAAGCACCAAGTTA
30739576 CAGATATTTT
Statistics
Matches: 466, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
480 312 0.67
481 154 0.33
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (481 bp):
CTACTGTCAAGCAAATCCTTTGCTATTTGATAGGAATTATTGATTATGGACTGGTATTCTCTTCC
AATACAGTGATGAACCTGACTACGTACTCTGATGTTGACTGGAGAAGTGATGCTGATGATCGAAA
GTCCACATTTGGCCATTGTGTTTTTCTAGGAACTAGTATTGTCTCATGAAACTCCAAGAAACAAA
GGTTTATTTCTCGCTCAGCTATTGAAACAGAGTACAGAAGCCTCGTTGATACAACATTTGATATC
ATCTAGTTACAGTCCCTGTTATCAGACTTTCACTTCAATTTGGCTAAACCACTCAAGATCTAGTG
TGACAACTCACGCACAGTTGTTATGGCTGCTAATCATGTTCTTTATTCAAAAATCAAGCATGTGG
ATTTAGATCTTGATTTTGTTCGTGAAAAGGTGTTCAACAATCAATTACAAGCCGTATATGTTCCT
TCCAAGCACCAAGTTATGAACTAGTG
Found at i:30751830 original size:5 final size:5
Alignment explanation
Indices: 30751820--30751855 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
30751810 AAATTTAATA
30751820 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
30751856 TACTTAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:30753176 original size:16 final size:16
Alignment explanation
Indices: 30753157--30753196 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
30753147 TAATATATGT
30753157 TTATATTTGTAATTTC
1 TTATATTTGTAATTTC
30753173 TTATATTTGTAATTTC
1 TTATATTTGTAATTTC
30753189 TTATATTT
1 TTATATTT
30753197 AAATATTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (16 bp):
TTATATTTGTAATTTC
Found at i:30774843 original size:12 final size:12
Alignment explanation
Indices: 30774826--30774850 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30774816 GATCATGCTC
30774826 AAATAAGTTGAT
1 AAATAAGTTGAT
30774838 AAATAAGTTGAT
1 AAATAAGTTGAT
30774850 A
1 A
30774851 TGAGATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AAATAAGTTGAT
Found at i:30779596 original size:32 final size:31
Alignment explanation
Indices: 30779560--30779639 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
30779550 CTAGCTGCTT
*
30779560 TGTTCACACTCAATGGACCATCCAACTCTTGA
1 TGTTCACACTCAA-GGACCATCCAACTCCTGA
* * *
30779592 TGTTCACA-TCCAAGGGACCGTCTAAGTCCTGA
1 TGTTCACACT-CAA-GGACCATCCAACTCCTGA
30779624 TGTTCACAC-CAAGGAC
1 TGTTCACACTCAAGGAC
30779640 TTTTCAGACG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 33 0.80
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (31 bp):
TGTTCACACTCAAGGACCATCCAACTCCTGA
Found at i:30780951 original size:51 final size:51
Alignment explanation
Indices: 30780874--30781146 Score: 424
Period size: 51 Copynumber: 5.4 Consensus size: 51
30780864 CGGATCACAT
*
30780874 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
30780925 TTATCACTTGTCACTTGTCACCGATCAAATAAGTGTAGGT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
30780975 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
30781026 TTGTAACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
30781077 TTACCACTTGTCACTTATCACTGATCAGATAAGAGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
30781127 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
30781147 AAAGTACTCA
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
50 70 0.34
51 134 0.66
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:30780987 original size:101 final size:102
Alignment explanation
Indices: 30780874--30781146 Score: 424
Period size: 101 Copynumber: 2.7 Consensus size: 102
30780864 CGGATCACAT
*
30780874 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* * *
30780939 TTGTCACCGATCAAATAAGTGTAGGT-AAGCTACCAC
66 TTATCACCGATCAAATAAGTGCAGCTAAAGCTACCAC
* * *
30780975 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTGTAACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* *
30781040 TTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
66 TTATCACCGATCAAATAAGTGCAGCTAAAGCTACCAC
* *
30781077 TTACCACTTGTCACTTATCACTGATCAGATAAGAGTAGCTAAA-CTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
*
30781141 TGATCA
66 TTATCA
30781147 AAAGTACTCA
Statistics
Matches: 156, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
101 106 0.68
102 50 0.32
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (102 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
TTATCACCGATCAAATAAGTGCAGCTAAAGCTACCAC
Found at i:30781242 original size:17 final size:17
Alignment explanation
Indices: 30781220--30781252 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30781210 TATTCTCAAT
30781220 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
30781237 TCATCATACAATATAT
1 TCATCATACAATATAT
30781253 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:30783801 original size:14 final size:16
Alignment explanation
Indices: 30783782--30783819 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
30783772 AGTTGAAGTT
*
30783782 TAAAAAAAT-TTTGA-
1 TAAAAAAATATTCGAG
30783796 TAAAAAAATATTCGAG
1 TAAAAAAATATTCGAG
30783812 TAAAAAAA
1 TAAAAAAA
30783820 ACAAACAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 4 0.19
16 8 0.38
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (16 bp):
TAAAAAAATATTCGAG
Found at i:30789374 original size:47 final size:47
Alignment explanation
Indices: 30789296--30789751 Score: 759
Period size: 47 Copynumber: 9.6 Consensus size: 47
30789286 CCCTTCGGGA
* * * * * *
30789296 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30789343 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30789390 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30789437 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30789484 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30789533 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30789582 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30789629 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30789676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30789723 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
30789752 TATTCAAATA
Statistics
Matches: 389, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 274 0.70
49 115 0.30
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30789726 original size:239 final size:237
Alignment explanation
Indices: 30789296--30789751 Score: 804
Period size: 239 Copynumber: 1.9 Consensus size: 237
30789286 CCCTTCGGGA
* * * *
30789296 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
30789361 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
30789426 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
30789491 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30789533 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
30789598 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
30789663 TTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
30789728 CACATATATATACACTTTCACATT
194 CACATATATATACACTTTCACATT
30789752 TATTCAAATA
Statistics
Matches: 207, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
237 10 0.05
238 1 0.00
239 196 0.95
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (237 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30791994 original size:85 final size:85
Alignment explanation
Indices: 30791890--30792068 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
30791880 TATTTTATTG
*
30791890 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
30791955 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
30791975 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
30792040 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
30792060 CCCATGCTC
1 CCCATGCTC
30792069 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:30793604 original size:32 final size:31
Alignment explanation
Indices: 30793557--30793634 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 31
30793547 CCAGCTGATT
* *
30793557 TGTTCACACCTAAGGGACCGTCTAACTCTTGA
1 TGTTCACACC-AAGGGACCGTCGAACTCCTGA
*
30793589 TGTTCACATCCAAGGGACCGTCGAAGTCCTGA
1 TGTTCACA-CCAAGGGACCGTCGAACTCCTGA
30793621 TGTTCACACCAAGG
1 TGTTCACACCAAGG
30793635 ACTTTTTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 6 0.14
32 34 0.81
33 2 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (31 bp):
TGTTCACACCAAGGGACCGTCGAACTCCTGA
Found at i:30796119 original size:99 final size:99
Alignment explanation
Indices: 30795948--30796145 Score: 351
Period size: 99 Copynumber: 2.0 Consensus size: 99
30795938 TTGGAGAACC
*
30795948 ATCTAGAAAATGGATTTAGTGTAATTGTGTGTAATTACACAGTGATGCCATGTTTGGATAACCAC
1 ATCTAGAAAATGGATTTAGTGTAATTGTGTGTAATTACACAGAGATGCCATGTTTGGATAACCAC
**
30796013 TATAATTAAGGGTCCCACTGAATTAGGTGTTATT
66 TATAATTAAGGGTCCCACCAAATTAGGTGTTATT
* *
30796047 ATCTAGTAATTGGATTTAGTGTAATTGTGTGTAATTACACAGAGATGCCATGTTTGGATAACCAC
1 ATCTAGAAAATGGATTTAGTGTAATTGTGTGTAATTACACAGAGATGCCATGTTTGGATAACCAC
30796112 TATAATTAAGGGTCCCACCAAATTAGGTGTTATT
66 TATAATTAAGGGTCCCACCAAATTAGGTGTTATT
30796146 GGAGCACCCC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (99 bp):
ATCTAGAAAATGGATTTAGTGTAATTGTGTGTAATTACACAGAGATGCCATGTTTGGATAACCAC
TATAATTAAGGGTCCCACCAAATTAGGTGTTATT
Found at i:30806542 original size:24 final size:24
Alignment explanation
Indices: 30806508--30806569 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
30806498 TCACAAAATT
*
30806508 CACTATCACTATCATCATAATTTA
1 CACTATTACTATCATCATAATTTA
* * *
30806532 CATTATTACTATCATCATAGTTTG
1 CACTATTACTATCATCATAATTTA
30806556 CACTATTACTATCA
1 CACTATTACTATCA
30806570 ACTTCTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (24 bp):
CACTATTACTATCATCATAATTTA
Found at i:30825730 original size:17 final size:18
Alignment explanation
Indices: 30825710--30825745 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
30825700 CACACTCATT
30825710 TTCTCAATGTTTTT-TTC
1 TTCTCAATGTTTTTCTTC
*
30825727 TTCTCCATGTTTTTCTTC
1 TTCTCAATGTTTTTCTTC
30825745 T
1 T
30825746 ACTGCTGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.08, C:0.22, G:0.06, T:0.64
Consensus pattern (18 bp):
TTCTCAATGTTTTTCTTC
Found at i:30830316 original size:24 final size:25
Alignment explanation
Indices: 30830289--30830335 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
30830279 ACTGGTCATA
30830289 GAGAGAATTGAGGAG-GAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
* *
30830313 GAGAGATTTGGGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
30830336 GGGATTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:30831335 original size:27 final size:27
Alignment explanation
Indices: 30831005--30831334 Score: 363
Period size: 27 Copynumber: 12.2 Consensus size: 27
30830995 AGAGGTCCAT
* *
30831005 AAATGACCAAAATACCCCAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
30831032 AAATAACCAAAATACCCCTATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
30831059 AATTGACTGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
30831086 GAATGACCGAAATACTCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
30831113 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
30831140 AAATGACTGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
30831167 GAATGACCGAAATACCCCAATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
30831194 AATTGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
30831221 AAATGACCGAAATAACCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
30831248 AAATGATCAAAATACCCCTATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** * *
30831275 GAATGACTAAAATACCCTCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
30831302 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
30831329 AAATGA
1 AAATGA
30831335 TTGTTATACC
Statistics
Matches: 250, Mismatches: 53, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 250 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:30842990 original size:22 final size:22
Alignment explanation
Indices: 30842965--30843006 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30842955 TTCACTTAAA
*
30842965 TTATTATTATATTAAATTTTAG
1 TTATTATTATAATAAATTTTAG
*
30842987 TTATTTTTATAATAAATTTT
1 TTATTATTATAATAAATTTT
30843007 CACAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTATTATTATAATAAATTTTAG
Found at i:30855549 original size:18 final size:18
Alignment explanation
Indices: 30855520--30855563 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30855510 CTATTTCTTT
30855520 TCTTTCTTCAATCTTTT-TC
1 TCTTT-TTCAAT-TTTTGTC
*
30855539 TCTTTTTCAATTTTTGTT
1 TCTTTTTCAATTTTTGTC
30855557 TCTTTTT
1 TCTTTTT
30855564 TTCTTCTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.70
Consensus pattern (18 bp):
TCTTTTTCAATTTTTGTC
Found at i:30855568 original size:26 final size:27
Alignment explanation
Indices: 30855531--30855586 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
30855521 CTTTCTTCAA
*
30855531 TCTTTTTCTCTT-TTTCAATTTTTGTT
1 TCTTTTTCTCTTCTCTCAATTTTTGTT
* *
30855557 TCTTTTTTTCTTCTCTCAATTTTTTTT
1 TCTTTTTCTCTTCTCTCAATTTTTGTT
30855584 TCT
1 TCT
30855587 CGCTTCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (27 bp):
TCTTTTTCTCTTCTCTCAATTTTTGTT
Found at i:30857542 original size:20 final size:20
Alignment explanation
Indices: 30857517--30857554 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30857507 TAACAGTTGC
30857517 TGGCCTTTAATTCAACTTGT
1 TGGCCTTTAATTCAACTTGT
30857537 TGGCCTTTAATTCAACTT
1 TGGCCTTTAATTCAACTT
30857555 CATAATAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (20 bp):
TGGCCTTTAATTCAACTTGT
Found at i:30857766 original size:9 final size:9
Alignment explanation
Indices: 30857752--30857785 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
30857742 TGATTTAAGC
30857752 AACTAAATT
1 AACTAAATT
30857761 AACTAAGATT
1 AACTAA-ATT
*
30857771 AACTTAATT
1 AACTAAATT
30857780 AACTAA
1 AACTAA
30857786 GATGAGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTAAATT
Found at i:30857779 original size:19 final size:19
Alignment explanation
Indices: 30857752--30857788 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30857742 TGATTTAAGC
30857752 AACTAAATTAACTAAGATT
1 AACTAAATTAACTAAGATT
*
30857771 AACTTAATTAACTAAGAT
1 AACTAAATTAACTAAGAT
30857789 GAGTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTAAATTAACTAAGATT
Found at i:30857809 original size:54 final size:54
Alignment explanation
Indices: 30857744--30857867 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
30857734 TAAACTAATG
* * * *
30857744 ATTTAAGCAACTAAATTAACTAAGATTAACTTAATTAACTAAGATGAGTAATTT
1 ATTTCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
*
30857798 ATTTCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
1 ATTTCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
*
30857852 ATTCCAGCAACTAAAT
1 ATTTCAGCAACTAAAT
30857868 ACTTATTCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (54 bp):
ATTTCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAAATGAGTAATTT
Found at i:30857833 original size:19 final size:19
Alignment explanation
Indices: 30857806--30857844 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
30857796 TTATTTCAGC
* *
30857806 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAAATG
30857825 AACTCAATTAACTAAAATG
1 AACTCAATTAACTAAAATG
30857844 A
1 A
30857845 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAAATG
Found at i:30857972 original size:20 final size:21
Alignment explanation
Indices: 30857943--30857982 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30857933 AGCTTGAAGA
* *
30857943 AGCTAGAATTGAGC-TCATTG
1 AGCTAAAATTAAGCTTCATTG
30857963 AGCTAAAATTAAGCTTCATT
1 AGCTAAAATTAAGCTTCATT
30857983 TTTCACTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTAAAATTAAGCTTCATTG
Found at i:30860694 original size:28 final size:28
Alignment explanation
Indices: 30860653--30860757 Score: 131
Period size: 28 Copynumber: 3.8 Consensus size: 28
30860643 GTCTCATTAA
* *
30860653 ACTTACCCCGTGTTT-CTTATCTGGACAG
1 ACTTACCCCATGTTTAC-TATCTAGACAG
* *
30860681 ACTTACCCCATGTTTACTATCTCGACGG
1 ACTTACCCCATGTTTACTATCTAGACAG
* *
30860709 ACTTACCCTATGTTTACTATCTAGACAA
1 ACTTACCCCATGTTTACTATCTAGACAG
*
30860737 ACTTACCTCATGTTTACTATC
1 ACTTACCCCATGTTTACTATC
30860758 CCAGTGGACT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 66 0.99
29 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (28 bp):
ACTTACCCCATGTTTACTATCTAGACAG
Found at i:30860768 original size:28 final size:29
Alignment explanation
Indices: 30860680--30860788 Score: 109
Period size: 28 Copynumber: 3.9 Consensus size: 29
30860670 TATCTGGACA
* *
30860680 GACTTACCCCATGTTTACTATCTC-GACG
1 GACTTACCTCATGTTTACTATCCCAGACG
* *
30860708 GACTTACC-CTATGTTTACTAT-CTAGACA
1 GACTTACCTC-ATGTTTACTATCCCAGACG
* *
30860736 AACTTACCTCATGTTTACTATCCCAG-TG
1 GACTTACCTCATGTTTACTATCCCAGACG
* *
30860764 GACTTACCTCGTGTTTACTGTCCCA
1 GACTTACCTCATGTTTACTATCCCA
30860789 ACAGACTATC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.01
28 62 0.93
29 4 0.06
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (29 bp):
GACTTACCTCATGTTTACTATCCCAGACG
Found at i:30860779 original size:56 final size:55
Alignment explanation
Indices: 30860653--30860782 Score: 147
Period size: 56 Copynumber: 2.3 Consensus size: 55
30860643 GTCTCATTAA
* * *
30860653 ACTTACCCCGTGTTT-CTTATCTGGACAGACTTACCCCATGTTTACTATCTCGACGG
1 ACTTA-CCCGTGTTTAC-TATCTAGACAAACTTACCCCATGTTTACTATCCCGACGG
* * *
30860709 ACTTACCCTATGTTTACTATCTAGACAAACTTACCTCATGTTTACTATCCC-AGTGG
1 ACTTACCC-GTGTTTACTATCTAGACAAACTTACCCCATGTTTACTATCCCGA-CGG
30860765 ACTTACCTCGTGTTTACT
1 ACTTACC-CGTGTTTACT
30860783 GTCCCAACAG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 4 0.06
56 57 0.90
57 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.36
Consensus pattern (55 bp):
ACTTACCCGTGTTTACTATCTAGACAAACTTACCCCATGTTTACTATCCCGACGG
Found at i:30869254 original size:25 final size:25
Alignment explanation
Indices: 30869221--30869275 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
30869211 TATTGAATGC
*
30869221 ATGA-TTGACTATCGAGCTAAGCTT
1 ATGACTTGACTATCAAGCTAAGCTT
*
30869245 ATGACTTGACTTTCAAGCTAAGCTT
1 ATGACTTGACTATCAAGCTAAGCTT
30869270 ATGACT
1 ATGACT
30869276 GTCGTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (25 bp):
ATGACTTGACTATCAAGCTAAGCTT
Found at i:30873133 original size:23 final size:23
Alignment explanation
Indices: 30873106--30873153 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
30873096 AAGGTGGATA
* *
30873106 ACCAAATCTTCCACACAGACATC
1 ACCAAATATGCCACACAGACATC
* *
30873129 ACCAAATATGCCACATAGGCATC
1 ACCAAATATGCCACACAGACATC
30873152 AC
1 AC
30873154 AGGATTCGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.35, G:0.08, T:0.17
Consensus pattern (23 bp):
ACCAAATATGCCACACAGACATC
Found at i:30882343 original size:17 final size:18
Alignment explanation
Indices: 30882315--30882364 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
30882305 CATCCGATAA
*
30882315 CATTTGCTATTTCAATAG
1 CATTTGCCATTTCAATAG
*
30882333 CA-TTGCCATTTCAATAT
1 CATTTGCCATTTCAATAG
*
30882350 CATTTGTCATTTCAA
1 CATTTGCCATTTCAA
30882365 AGTAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (18 bp):
CATTTGCCATTTCAATAG
Found at i:30889153 original size:17 final size:17
Alignment explanation
Indices: 30889119--30889154 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30889109 TGGTAATTCA
* *
30889119 AAAAATAATAGTATAAT
1 AAAAATAATAGAAAAAT
30889136 AAAAATAATAGAAAAAT
1 AAAAATAATAGAAAAAT
30889153 AA
1 AA
30889155 GAAAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAAATAATAGAAAAAT
Found at i:30890659 original size:16 final size:16
Alignment explanation
Indices: 30890638--30890671 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30890628 CTAGTTGACG
30890638 AAATTTTAAATTATTT
1 AAATTTTAAATTATTT
30890654 AAATTTTAAATTATTT
1 AAATTTTAAATTATTT
30890670 AA
1 AA
30890672 GTGAGCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTTAAATTATTT
Found at i:30892084 original size:4 final size:4
Alignment explanation
Indices: 30892075--30892108 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
30892065 AAGTTTTATT
30892075 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
30892109 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:30892116 original size:22 final size:22
Alignment explanation
Indices: 30892058--30892117 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
30892048 AAGTGGCCCA
*
30892058 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
30892082 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
30892103 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
30892118 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:30895940 original size:54 final size:54
Alignment explanation
Indices: 30895853--30895962 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 54
30895843 GAGAGGATCA
*
30895853 AGGTAACCAAAATTAAAGCTTGGATTTGTTTGGTTAATCACTTAG-TTGTGGTTG
1 AGGTAACCAAAATTAAAGCTTGGATTTGCTTGGTTAATCACTT-GCTTGTGGTTG
* *
30895907 AGGTAATCGAAATTAAAGCTTGGATTTGCTTGGTTAATCACTTGCTTGTGGTTG
1 AGGTAACCAAAATTAAAGCTTGGATTTGCTTGGTTAATCACTTGCTTGTGGTTG
30895961 AG
1 AG
30895963 TTAGTTGTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (54 bp):
AGGTAACCAAAATTAAAGCTTGGATTTGCTTGGTTAATCACTTGCTTGTGGTTG
Found at i:30911000 original size:3 final size:3
Alignment explanation
Indices: 30910992--30911051 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
30910982 CAGACCTTGA
30910992 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30911040 ATT ATT ATT ATT
1 ATT ATT ATT ATT
30911052 TTGAGTTCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30918742 original size:16 final size:16
Alignment explanation
Indices: 30918705--30918744 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
30918695 TTAATAAAAT
* *
30918705 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
30918721 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
30918737 TAAAATTA
1 TAAAATTA
30918745 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:30918814 original size:66 final size:59
Alignment explanation
Indices: 30918747--30918866 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
30918737 TAAAATTATC
* * *
30918747 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
30918805 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
30918864 AAA
1 AAA
30918867 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:30918979 original size:23 final size:24
Alignment explanation
Indices: 30918932--30918977 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
30918922 AAATAAACTT
30918932 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
30918956 AAAATAAAAAA-TATATATATTT
1 AAAATAAAAAACTAT-TATATTT
30918978 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:30919580 original size:11 final size:11
Alignment explanation
Indices: 30919564--30919589 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30919554 TGTACTTTCC
30919564 TAAAATAAATT
1 TAAAATAAATT
30919575 TAAAATAAATT
1 TAAAATAAATT
30919586 TAAA
1 TAAA
30919590 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAATAAATT
Found at i:30919734 original size:21 final size:21
Alignment explanation
Indices: 30919703--30919755 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
30919693 TAAAAGAGAA
30919703 AAAAATA-CAAACAATATCAG
1 AAAAATATCAAACAATATCAG
30919723 AAAAATATCAAACAATATCAG
1 AAAAATATCAAACAATATCAG
30919744 AAAAATATCAAA
1 AAAAATATCAAA
30919756 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.22
21 25 0.78
ACGTcount: A:0.66, C:0.13, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAAATATCAAACAATATCAG
Found at i:30919757 original size:10 final size:10
Alignment explanation
Indices: 30919702--30919758 Score: 71
Period size: 11 Copynumber: 5.6 Consensus size: 10
30919692 ATAAAAGAGA
30919702 AAAAAATA-C
1 AAAAAATATC
*
30919711 AAACAATATC
1 AAAAAATATC
30919721 AGAAAAATATC
1 A-AAAAATATC
*
30919732 AAACAATATC
1 AAAAAATATC
30919742 AGAAAAATATC
1 A-AAAAATATC
30919753 AAAAAA
1 AAAAAA
30919759 AAATTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.17
10 16 0.39
11 18 0.44
ACGTcount: A:0.68, C:0.12, G:0.04, T:0.16
Consensus pattern (10 bp):
AAAAAATATC
Found at i:30919874 original size:10 final size:10
Alignment explanation
Indices: 30919849--30919904 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
30919839 ACATAAAGTT
30919849 AAAAAA-AT-
1 AAAAAATATC
30919857 AAAAAATA-C
1 AAAAAATATC
30919866 AAAAGAATATC
1 AAAA-AATATC
30919877 AAAAAA-ATC
1 AAAAAATATC
*
30919886 AGAAAAATATT
1 A-AAAAATATC
30919897 AAAAAATA
1 AAAAAATA
30919905 AAAATCAGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
8 6 0.15
9 9 0.22
10 18 0.44
11 8 0.20
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (10 bp):
AAAAAATATC
Found at i:30920080 original size:24 final size:23
Alignment explanation
Indices: 30920053--30920099 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30920043 TACAAATATC
30920053 TTAACTCTCTT-TTACTATTTTTTT
1 TTAA-TCTCTTCTTAC-ATTTTTTT
*
30920077 TTAATTTCTTCTTACATTTTTTT
1 TTAATCTCTTCTTACATTTTTTT
30920100 CATATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (23 bp):
TTAATCTCTTCTTACATTTTTTT
Found at i:30920112 original size:23 final size:24
Alignment explanation
Indices: 30920060--30920109 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
30920050 ATCTTAACTC
*
30920060 TCTT-TTACTATTTTTTTTTAATT
1 TCTTCTTACTATTTTTTTATAATT
*
30920083 TCTTCTTAC-ATTTTTTTCATATTT
1 TCTTCTTACTATTTTTTT-ATAATT
30920107 TCT
1 TCT
30920110 CTTTCTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (24 bp):
TCTTCTTACTATTTTTTTATAATT
Found at i:30924749 original size:15 final size:15
Alignment explanation
Indices: 30924713--30924756 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
30924703 GAAGTTAATT
**
30924713 TATAATTTTTTGCAA
1 TATAATTTTTTTAAA
30924728 TATTAATTTTTTTAAA
1 TA-TAATTTTTTTAAA
30924744 TATAATTCTTTTT
1 TATAATT-TTTTT
30924757 TACATTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATAATTTTTTTAAA
Found at i:30926959 original size:30 final size:30
Alignment explanation
Indices: 30926923--30926980 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30926913 CACGAGCTGG
* *
30926923 CACATGGGGGTGTGTCCAACCCGTGTGGCT
1 CACATGGGCGTGTGTCCAACCCATGTGGCT
*
30926953 CACATGGGCGTGTGTCCAGCCCATGTGG
1 CACATGGGCGTGTGTCCAACCCATGTGG
30926981 AAATGCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.28, G:0.36, T:0.22
Consensus pattern (30 bp):
CACATGGGCGTGTGTCCAACCCATGTGGCT
Found at i:30927594 original size:3 final size:3
Alignment explanation
Indices: 30927586--30927641 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
30927576 ACTGGGCAGT
* *
30927586 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA AAA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
30927633 AGA A-A AGA A
1 AGA AGA AGA A
30927642 ATGAAGATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:30932108 original size:75 final size:75
Alignment explanation
Indices: 30931985--30932134 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
30931975 ACTGAGAGTA
30931985 AATTTTTGTGAATAGTAGGTACATGTAACATATTTGCTAGGTGAAAAAGTTTACGGGAAGTAAAA
1 AATTTTTGTGAATAGTAGGTACATGTAACATATTTGCTAGGTGAAAAAGTTTACGGGAAGTAAAA
*
30932050 ATGGCCATAT
66 ATGGCAATAT
30932060 AATTTTTGTGAATAGTAGGTACATGTAACATATTTGCTAGGTGAAAAAGTTTACGGGAAGTAAAA
1 AATTTTTGTGAATAGTAGGTACATGTAACATATTTGCTAGGTGAAAAAGTTTACGGGAAGTAAAA
30932125 ATGGCAATAT
66 ATGGCAATAT
30932135 GGCATAAACG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (75 bp):
AATTTTTGTGAATAGTAGGTACATGTAACATATTTGCTAGGTGAAAAAGTTTACGGGAAGTAAAA
ATGGCAATAT
Found at i:30935165 original size:28 final size:28
Alignment explanation
Indices: 30935123--30935178 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
30935113 GGAAAACTTC
*
30935123 ATGTTTTCTTTTATAATATATATTTCTT
1 ATGTTTTCTTCTATAATATATATTTCTT
*
30935151 ATGTTTTCTTCTATAATATATTTTTCTT
1 ATGTTTTCTTCTATAATATATATTTCTT
30935179 TGTCTGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (28 bp):
ATGTTTTCTTCTATAATATATATTTCTT
Found at i:30936501 original size:46 final size:46
Alignment explanation
Indices: 30936439--30936808 Score: 245
Period size: 46 Copynumber: 8.1 Consensus size: 46
30936429 TTATTGCTGT
* * * * *
30936439 AATTGAGGTGTATAAATATTATTAATAG-AGATGTTAAAGTGTTGCA
1 AATTGAAGTGTTTAAATGTTGTTAATTGAAG-TGTTAAAGTGTTGCA
*
30936485 AATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGTTGCA
1 AATTGAAGTGTTTAAATGTTGTTAATTGAAGTGTTAAAGTGTTGCA
* * *
30936531 AATTGATGTATTTAAATGTTGTGT-ATTGAAGTGTTGAAGTGTTGCA
1 AATTGAAGTGTTTAAATGTTGT-TAATTGAAGTGTTAAAGTGTTGCA
* * **
30936577 AATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGTTGTTAATTGAAGTG-TTAAAGTGTTGCA
* ** * * * *
30936624 AATTGAATTGTTTAGTTGCTAG-AAATTGAGAAGT-TT--A-TCGCTG-T
1 AATTGAAGTGTTTAAATG-TTGTTAATT--GAAGTGTTAAAGT-GTTGCA
* * * * *
30936668 AATTGAGGTGTATAAATGTTCTTAATTG-GGATGTTAAAGTGTTGTA
1 AATTGAAGTGTTTAAATGTTGTTAATTGAAG-TGTTAAAGTGTTGCA
* * * * * * **
30936714 AGTTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTATA
1 AATTGAAGTGTTTAAATGTTGTTAATTGAAGTGTTAAAGTGTTGCA
* * * * * * *
30936760 AATTGATGTGCTGAAATGATGTAAATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAATGTTGTTAATTGAAGTGTTAAAGTGTTGCA
30936806 AAT
1 AAT
30936809 AATATATAAT
Statistics
Matches: 258, Mismatches: 50, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 3 0.01
44 18 0.07
45 8 0.03
46 184 0.71
47 35 0.14
48 2 0.01
49 5 0.02
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.40
Consensus pattern (46 bp):
AATTGAAGTGTTTAAATGTTGTTAATTGAAGTGTTAAAGTGTTGCA
Found at i:30936748 original size:23 final size:23
Alignment explanation
Indices: 30936472--30936797 Score: 229
Period size: 23 Copynumber: 14.2 Consensus size: 23
30936462 AATAGAGATG
*
30936472 TTAAAGTGTTGCAAATTGAAGTGT
1 TTAAA-TGTTGTAAATTGAAGTGT
30936496 TTAAATGTTGTAAATTGAAGTG-
1 TTAAATGTTGTAAATTGAAGTGT
* * *
30936518 TTAAAGTGTTGCAAATTGATGTAT
1 TTAAA-TGTTGTAAATTGAAGTGT
**
30936542 TTAAATGTTGTGTATTGAAGTGT
1 TTAAATGTTGTAAATTGAAGTGT
* * *
30936565 TGAAGTGTTGCAAATTGAAGTGT
1 TTAAATGTTGTAAATTGAAGTGT
30936588 TTAAATGTTGTAAATTGAAGTGT
1 TTAAATGTTGTAAATTGAAGTGT
* * *
30936611 TTTAA-GTACTGCAAATTGAATTGT
1 TTAAATGT--TGTAAATTGAAGTGT
** * *
30936635 TTAGTTGCTAG-AAATTG-AGAAGT
1 TTAAATG-TTGTAAATTGAAG-TGT
* *
30936658 TT--ATCGCTGT-AATTGAGGTGT
1 TTAAAT-GTTGTAAATTGAAGTGT
* * * *
30936679 ATAAATGTTCTTAATTG-GGATG-
1 TTAAATGTTGTAAATTGAAG-TGT
* *
30936701 TTAAAGTGTTGTAAGTTGAGGTGT
1 TTAAA-TGTTGTAAATTGAAGTGT
30936725 TTAAATGTTGTAAATTGAAGTGT
1 TTAAATGTTGTAAATTGAAGTGT
* * * * *
30936748 TTAATTGCTATAAATTGATGTGC
1 TTAAATGTTGTAAATTGAAGTGT
* *
30936771 TGAAATGATGTAAATTGAAGTGT
1 TTAAATGTTGTAAATTGAAGTGT
30936794 TTAA
1 TTAA
30936798 GTGCTGCAAA
Statistics
Matches: 233, Mismatches: 52, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
21 10 0.04
22 19 0.08
23 169 0.73
24 33 0.14
25 1 0.00
26 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (23 bp):
TTAAATGTTGTAAATTGAAGTGT
Found at i:30936790 original size:229 final size:230
Alignment explanation
Indices: 30936381--30936808 Score: 606
Period size: 229 Copynumber: 1.9 Consensus size: 230
30936371 TAAAGCCTTA
* * * * * *
30936381 TTTAAGTACTGTAATTTGAAGTGTTTAGTTGTTGGAAATTGAGATATTTTATTGCTGTAATTGAG
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTAGAAATTGAGATAGTTTATCGCTGTAATTGAG
30936446 GTGTATAAATATTATTAATAGAGATGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAAT
66 GTGTATAAATATTATTAATAGAGATGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAAT
* * * * * ** *
30936511 TGAAGTGTTAAAGTGTTGCAAATTGATGTATTTAAATGTTGTGTATTGAAGTGTTGAAGTGTTGC
131 TGAAGTGTTAAAGTGCTACAAATTGATGTACTGAAATGATGTAAATTGAAGTGTTGAAGTGCTGC
30936576 AAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGT
196 AAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGT
*
30936611 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCTAGAAATTGAGA-AGTTTATCGCTGTAATTGAG
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTAGAAATTGAGATAGTTTATCGCTGTAATTGAG
* * * * * * *
30936675 GTGTATAAATGTTCTTAATTGGGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGTTGTAAAT
66 GTGTATAAATATTATTAATAGAGATGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAAT
* * * * *
30936740 TGAAGTGTTTAATTGCTATAAATTGATGTGCTGAAATGATGTAAATTGAAGTGTTTAAGTGCTGC
131 TGAAGTGTTAAAGTGCTACAAATTGATGTACTGAAATGATGTAAATTGAAGTGTTGAAGTGCTGC
30936805 AAAT
196 AAAT
30936809 AATATATAAT
Statistics
Matches: 171, Mismatches: 27, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
229 132 0.77
230 39 0.23
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.41
Consensus pattern (230 bp):
TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTAGAAATTGAGATAGTTTATCGCTGTAATTGAG
GTGTATAAATATTATTAATAGAGATGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAAT
TGAAGTGTTAAAGTGCTACAAATTGATGTACTGAAATGATGTAAATTGAAGTGTTGAAGTGCTGC
AAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGT
Found at i:30940874 original size:58 final size:57
Alignment explanation
Indices: 30940740--30940876 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 57
30940730 TTAATTCATA
**
30940740 TAATAATAATTATATTAAGAA-ATTTATTAAATTATATATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATA-TGGTTAAATTATATATTATTTTATTAAATTATATT
* * *
30940798 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATT
30940856 TAATAATAATCT-TATTAAAAT
1 TAATAATAAT-TATATTAAAAT
30940877 TTAATAACAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
57 17 0.24
58 52 0.74
59 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.52
Consensus pattern (57 bp):
TAATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATT
Found at i:30960776 original size:42 final size:42
Alignment explanation
Indices: 30960659--30960952 Score: 380
Period size: 42 Copynumber: 7.0 Consensus size: 42
30960649 CGCTTACAGA
*
30960659 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* *
30960701 AAATAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTATG
1 AAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * *
30960744 AAAAAATGCCGCTACAGATCATGTTATTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
*
30960786 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
*
30960828 AAAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * *
30960870 AAGAAAATGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTT-GG
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGG
* * *
30960912 TCAAAAATGCTGCTAACAG-T-AGTGTTCTTTAGCGGCGCTTA
1 -AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
30960953 TTTCACAAAC
Statistics
Matches: 223, Mismatches: 21, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.00
42 150 0.67
43 72 0.32
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:30960799 original size:127 final size:127
Alignment explanation
Indices: 30960659--30960950 Score: 396
Period size: 127 Copynumber: 2.3 Consensus size: 127
30960649 CGCTTACAGA
*
30960659 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGTTAAAGATCAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAA-AAACGCCGCTAAAGATCAT
* * * *
30960724 GTTCTTTAGCGGCGCTTATGAA-AAAATGCCGCT-ACAGATCATGTTATTTAGCGGCGCTTAGG-
65 GTTCTTTAGCGGCGCTTAGGAAGAAAATGCCGCTAAAAG-TAATGTTATATAGCGGCGCTT-GGT
** *
30960786 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCTTG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAAAACGCCGCTAAAGATCATG
*
30960851 TTCTTTAGCGGCGCTTAGGAAGAAAATGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
66 TTCTTTAGCGGCGCTTAGGAAGAAAATGCCGCTAAAAGTAATGTTATATAGCGGCGCTTGGT
* * *
30960913 CAAAAATGCTGCTAACAG-T-AGTGTTCTTTAGCGGCGCT
1 AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCT
30960951 TATTTCACAA
Statistics
Matches: 148, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
126 41 0.28
127 102 0.69
128 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (127 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAAAACGCCGCTAAAGATCATG
TTCTTTAGCGGCGCTTAGGAAGAAAATGCCGCTAAAAGTAATGTTATATAGCGGCGCTTGGT
Found at i:30960833 original size:85 final size:83
Alignment explanation
Indices: 30960659--30960952 Score: 378
Period size: 85 Copynumber: 3.5 Consensus size: 83
30960649 CGCTTACAGA
* *
30960659 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGTTAAAGATCAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCAT
*
30960724 GTTCTTTAGCGGCGCTTATG
65 GTTCTTTAGCGGCGCTT-GG
* * *
30960744 AAAAAATGCCGCTACAGATCATGTTATTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATG
30960809 TTCTTTAGCGGCGCTTGGG
66 TTCTTTAGCGGCGCTT-GG
* * *
30960828 AAAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTAGGAAGAAAATGCCGCTAAA-AGTAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCA
*
30960892 TGTTCTATAGCGGCGCTTGG
64 TGTTCTTTAGCGGCGCTTGG
* * *
30960912 TCAAAAATGCTGCTAACAG-T-AGTGTTCTTTAGCGGCGCTTA
1 -AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
30960953 TTTCACAAAC
Statistics
Matches: 186, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
84 79 0.42
85 105 0.56
86 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (83 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATG
TTCTTTAGCGGCGCTTGG
Found at i:30961404 original size:12 final size:12
Alignment explanation
Indices: 30961387--30961446 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
30961377 TTTTGAACCT
*
30961387 CTGCTTCTATCG
1 CTGCTTCTCTCG
30961399 CTGCTTCTCTCG
1 CTGCTTCTCTCG
30961411 CTGCTTCTCTCG
1 CTGCTTCTCTCG
**
30961423 CTGCGGC-CT--
1 CTGCTTCTCTCG
30961432 CTGCTTCTCTCG
1 CTGCTTCTCTCG
30961444 CTG
1 CTG
30961447 TAGCCTCTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 5 0.12
10 2 0.05
11 2 0.05
12 31 0.77
ACGTcount: A:0.02, C:0.40, G:0.20, T:0.38
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:30961437 original size:21 final size:21
Alignment explanation
Indices: 30961384--30961479 Score: 93
Period size: 21 Copynumber: 4.4 Consensus size: 21
30961374 TTCTTTTGAA
* **
30961384 CCTCTGCTTCTATCGCTGCTT
1 CCTCTGCTTCTCTCGCTGCAG
*
30961405 CTCTCGCTGCTTCTCTCGCTGCGG
1 C-CT--CTGCTTCTCTCGCTGCAG
*
30961429 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
30961450 CCTCTGCTTCCCTCGTTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
30961471 CCTCTGCTT
1 CCTCTGCTT
30961480 TAAGTTGTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
21 43 0.68
22 2 0.03
23 2 0.03
24 16 0.25
ACGTcount: A:0.02, C:0.42, G:0.19, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:30966948 original size:25 final size:25
Alignment explanation
Indices: 30966919--30967285 Score: 207
Period size: 25 Copynumber: 14.4 Consensus size: 25
30966909 GATTTAGGAA
** *
30966919 TAAGTTATACATTATGTAAGTTGTG
1 TAAGTTATGTATTATGTAAGTTATG
* **
30966944 TAAGTTATGTAAGTTGTGTAAGTTGCG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * * *
30966971 TAAGTTGTGTGTTATGAAACTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
30966996 TAAGTTATGTCTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
30967021 CAAATTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
30967046 TAAGTTGTGTATTATATAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
30967071 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
30967096 TAAGTTTTTGT-TTTTGTGTA-TTATG
1 TAAG-TTATGTATTATGT-AAGTTATG
* * * *
30967121 TAACTTATTTAATTTATGTAGGGTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* *
30967148 TATTA-TTATGTAACTTATTTAATTTATG
1 TA--AGTTATGT-A-TTATGTAAGTTATG
* *
30967176 TAGGGTATGTAAGTTATGTAAGTTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* ** *
30967203 T-A-TTATTTACACATGTAAGTTGTG
1 TAAGTTATGTA-TTATGTAAGTTATG
*
30967227 T-A-TTATGTAAGTTATGCAAGTTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
*
30967252 T-A-TTAAGTAGGTTATGTAAGTTATG
1 TAAGTTATGTA--TTATGTAAGTTATG
30967277 T-A-TTATGTA
1 TAAGTTATGTA
30967286 AATTAATATA
Statistics
Matches: 269, Mismatches: 60, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
24 24 0.09
25 166 0.62
26 7 0.03
27 52 0.19
28 19 0.07
29 1 0.00
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Done.