Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 23 of 126
Found at i:7564571 original size:21 final size:22
Alignment explanation
Indices: 7564545--7564585 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
7564535 AATAGCTACA
7564545 TACTCCCCATCAT-TATACTTC
1 TACTCCCCATCATATATACTTC
7564566 TACTCCCCATCATATATACT
1 TACTCCCCATCATATATACT
7564586 CCCTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (22 bp):
TACTCCCCATCATATATACTTC
Found at i:7574148 original size:24 final size:24
Alignment explanation
Indices: 7574103--7574148 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
7574093 AAATTTTATG
** *
7574103 TATTGAAATTTTTTTTACTATAAA
1 TATTGAAATTTTTTAAAATATAAA
*
7574127 TATTGACATTTTTTAAAATATA
1 TATTGAAATTTTTTAAAATATA
7574149 CCAAAGCCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTGAAATTTTTTAAAATATAAA
Found at i:7574228 original size:18 final size:18
Alignment explanation
Indices: 7574191--7574228 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7574181 TCTTGTTGAC
*
7574191 TTTAGTTTTTCTTTAGAT
1 TTTAGTTTTTCTTTACAT
7574209 TTTAGTTTTTGCTTT-CAT
1 TTTAGTTTTT-CTTTACAT
7574227 TT
1 TT
7574229 CTTAGTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.13, C:0.08, G:0.11, T:0.68
Consensus pattern (18 bp):
TTTAGTTTTTCTTTACAT
Found at i:7580384 original size:92 final size:90
Alignment explanation
Indices: 7580224--7580404 Score: 202
Period size: 92 Copynumber: 2.0 Consensus size: 90
7580214 TTAGTACCTG
** * * * *
7580224 TACTTTTATAAAATATCAATGTGCACCTATGCTTTGAGAATATCTAATGTTGCACCTAAACTATC
1 TACTTTTATAAAATATCAATGCACACCTATACTTTGAAAATATCCAATGTTGCACCTAAACTACC
* * *
7580289 AATATGTGTTTTATTATGGTACTTT
66 AATATATGGTTTATTATGATACTTT
* * * *
7580314 TACTTTTATAAAATATTTAATGCACTACGTATACTTTGAAAATATCCAAT-TTGGTACCTGAACT
1 TACTTTTATAAAATA-TCAATGCAC-ACCTATACTTTGAAAATATCCAATGTT-GCACCTAAACT
*
7580378 ACCAATATATGGTTTATTTTGATACTT
63 ACCAATATATGGTTTATTATGATACTT
7580405 AATGTTAACA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
90 15 0.20
91 8 0.11
92 51 0.69
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (90 bp):
TACTTTTATAAAATATCAATGCACACCTATACTTTGAAAATATCCAATGTTGCACCTAAACTACC
AATATATGGTTTATTATGATACTTT
Found at i:7581601 original size:45 final size:46
Alignment explanation
Indices: 7581512--7581606 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 46
7581502 AGGTTTTAGA
* **
7581512 TTTAGATTTTTAAGCTTAATTTTAAATAATATTTTATATTTTAATT
1 TTTAGATTTTTAAGCTTAATTTTAAATAAGATTTTATAGCTTAATT
*
7581558 TTTAGATTTTT-AGC-TAGATTTTAAATCGAGATTTTA-AGCTTAATT
1 TTTAGATTTTTAAGCTTA-ATTTTAAAT-AAGATTTTATAGCTTAATT
7581603 TTTA
1 TTTA
7581607 ACAAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
44 2 0.05
45 23 0.53
46 18 0.42
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (46 bp):
TTTAGATTTTTAAGCTTAATTTTAAATAAGATTTTATAGCTTAATT
Found at i:7581657 original size:38 final size:38
Alignment explanation
Indices: 7581615--7581689 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
7581605 TAACAAATTT
7581615 TTAGATATT-GGATGATAAGTTTAATTTCCAAGTTTTAG
1 TTAGATATTAGG-TGATAAGTTTAATTTCCAAGTTTTAG
* ** **
7581653 TTAGATTTTAGGTTTTAAGTTTAATTTTTAAGTTTTA
1 TTAGATATTAGGTGATAAGTTTAATTTCCAAGTTTTA
7581690 CGTTTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 29 0.94
39 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (38 bp):
TTAGATATTAGGTGATAAGTTTAATTTCCAAGTTTTAG
Found at i:7581687 original size:20 final size:20
Alignment explanation
Indices: 7581630--7581701 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
7581620 TATTGGATGA
**
7581630 TAAGTTTAATTTCCAAGTTT
1 TAAGTTTAATTTTTAAGTTT
*
7581650 T-AG-TTAGA-TTTTAGGTTT
1 TAAGTTTA-ATTTTTAAGTTT
7581668 TAAGTTTAATTTTTAAGTTT
1 TAAGTTTAATTTTTAAGTTT
*
7581688 TACGTTTAATTTTT
1 TAAGTTTAATTTTT
7581702 TAAAGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 11 0.26
19 6 0.14
20 26 0.60
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.57
Consensus pattern (20 bp):
TAAGTTTAATTTTTAAGTTT
Found at i:7583854 original size:13 final size:13
Alignment explanation
Indices: 7583836--7583860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7583826 ATTTCATGAG
7583836 GTGAAAAGAAAAC
1 GTGAAAAGAAAAC
7583849 GTGAAAAGAAAA
1 GTGAAAAGAAAA
7583861 AGGAGGCAAG
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:0.64, C:0.04, G:0.24, T:0.08
Consensus pattern (13 bp):
GTGAAAAGAAAAC
Found at i:7591879 original size:23 final size:22
Alignment explanation
Indices: 7591847--7591890 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
7591837 AAAAACTTAA
7591847 AAAATTAATTTTTTTTCATATT
1 AAAATTAATTTTTTTTCATATT
*
7591869 AAAATTGAATTTTTTTTTATAT
1 AAAATT-AATTTTTTTTCATAT
7591891 CTCTTTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
AAAATTAATTTTTTTTCATATT
Found at i:7594989 original size:17 final size:17
Alignment explanation
Indices: 7594969--7595001 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7594959 TGTCAACAAC
7594969 AATTTA-TATATATTTTA
1 AATTTAGTAT-TATTTTA
7594986 AATTTAGTATTATTTT
1 AATTTAGTATTATTTT
7595002 TGAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTAGTATTATTTTA
Found at i:7595464 original size:22 final size:23
Alignment explanation
Indices: 7595421--7595464 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
7595411 ATTTAGTAAT
* *
7595421 ATATTATATAAAATATGGTTATC
1 ATATTATAAAAAATATAGTTATC
*
7595444 ATATTA-AAAAAATATATTTAT
1 ATATTATAAAAAATATAGTTAT
7595465 TGAAAAGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATTATAAAAAATATAGTTATC
Found at i:7595812 original size:11 final size:11
Alignment explanation
Indices: 7595767--7595812 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
7595757 TTTGTCATAG
* *
7595767 TTTTGTTATCA
1 TTTTATTATTA
7595778 TTTTATTATTA
1 TTTTATTATTA
*
7595789 TATTATTATTA
1 TTTTATTATTA
*
7595800 TTTTATTGTTA
1 TTTTATTATTA
7595811 TT
1 TT
7595813 GTTTGGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:7599310 original size:44 final size:45
Alignment explanation
Indices: 7599244--7599339 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 45
7599234 TCGTATATTC
* *
7599244 TTTGA-TTCAGTATTTAAACATGTAATAACTGGTG-AAGCCAATG
1 TTTGAGTTCAGTATTTAAACATGTAAGAACTGGTGAAAGCCAATA
* * *
7599287 TTTGAGTTCTGTATTTAAGCATGTAAGAACTGGTGAAAGGCAATA
1 TTTGAGTTCAGTATTTAAACATGTAAGAACTGGTGAAAGCCAATA
7599332 TTTGAGTT
1 TTTGAGTT
7599340 GAGAGAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 5 0.11
44 26 0.57
45 15 0.33
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (45 bp):
TTTGAGTTCAGTATTTAAACATGTAAGAACTGGTGAAAGCCAATA
Found at i:7601984 original size:14 final size:14
Alignment explanation
Indices: 7601911--7601992 Score: 53
Period size: 14 Copynumber: 5.6 Consensus size: 14
7601901 TAAATACCTC
7601911 TAAAATAATAACAA
1 TAAAATAATAACAA
7601925 -AATTAATAATAA-AA
1 TAA--AATAATAACAA
*
7601939 TAAAAGTTAT-ACAA
1 TAAAA-TAATAACAA
*
7601953 TATTCAAACAATAACAA
1 TA---AAATAATAACAA
*
7601970 TAAAATAATAGCAA
1 TAAAATAATAACAA
*
7601984 TATAATAAT
1 TAAAATAAT
7601993 CAAAAGACAC
Statistics
Matches: 53, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
13 5 0.09
14 27 0.51
15 10 0.19
16 2 0.04
17 9 0.17
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (14 bp):
TAAAATAATAACAA
Found at i:7624587 original size:16 final size:16
Alignment explanation
Indices: 7624566--7624616 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
7624556 AAGAAAGAGC
7624566 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
7624582 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
7624598 AAACACGCTAGTAAAT
1 AAATACGCTAGTAAAT
7624614 AAA
1 AAA
7624617 ATACTAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:7626276 original size:15 final size:15
Alignment explanation
Indices: 7626237--7626266 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7626227 ATAACTAAAG
7626237 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
7626252 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
7626267 GAGAGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:7628408 original size:26 final size:25
Alignment explanation
Indices: 7628305--7628409 Score: 70
Period size: 26 Copynumber: 3.9 Consensus size: 25
7628295 ATATTTTAAA
*
7628305 TAAAAACATAAAAATTTAAAAATCATATTT
1 TAAAAA-ATAAAAA-TTATAAA--AT-TTT
* *
7628335 TAAAAAATAAAAACTCTTTAAAA-TTC
1 TAAAAAATAAAAA-T-TATAAAATTTT
*
7628361 AAAAAAAT-AAAATTATAAAAATTTT
1 TAAAAAATAAAAATTAT-AAAATTTT
*
7628386 TAAAAATATAAAAATTCTAAAATT
1 TAAAAA-ATAAAAATTATAAAATT
7628410 CAATGTTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
23 2 0.03
24 5 0.08
25 11 0.18
26 17 0.28
27 7 0.11
28 1 0.02
29 8 0.13
30 10 0.16
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAAAAATAAAAATTATAAAATTTT
Found at i:7635751 original size:27 final size:27
Alignment explanation
Indices: 7635713--7635768 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
7635703 GAGCCAAGTC
7635713 TAAGTGACTAGAGTTGTGGTTGTTTTA
1 TAAGTGACTAGAGTTGTGGTTGTTTTA
7635740 TAAGTGACTAGAGTTGTGGTTGTTTTA
1 TAAGTGACTAGAGTTGTGGTTGTTTTA
7635767 TA
1 TA
7635769 TAACCATAGA
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:0.23, C:0.04, G:0.29, T:0.45
Consensus pattern (27 bp):
TAAGTGACTAGAGTTGTGGTTGTTTTA
Found at i:7636877 original size:17 final size:18
Alignment explanation
Indices: 7636848--7636891 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
7636838 GGCCCAAACC
*
7636848 ATTTTGAA-ATTAAATTT
1 ATTTTGAATTTTAAATTT
7636865 ATTTT-AATTTTAAATTT
1 ATTTTGAATTTTAAATTT
7636882 ATTTTGAATT
1 ATTTTGAATT
7636892 CGATTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTGAATTTTAAATTT
Found at i:7636914 original size:17 final size:15
Alignment explanation
Indices: 7636894--7636940 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
7636884 TTTGAATTCG
7636894 ATTTAAATTTAAATTT
1 ATTTAAATTTAAA-TT
7636910 AATTTAAATTTAACATT
1 -ATTTAAATTTAA-ATT
7636927 ATTATAAATTTAAA
1 ATT-TAAATTTAAA
7636941 AAATAAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.14
17 23 0.82
18 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTAAATTTAAATT
Found at i:7636940 original size:6 final size:6
Alignment explanation
Indices: 7636894--7636922 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7636884 TTTGAATTCG
7636894 ATTTAA ATTTAA ATTT-A ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
7636923 CATTATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:7638860 original size:161 final size:161
Alignment explanation
Indices: 7638608--7638948 Score: 549
Period size: 161 Copynumber: 2.1 Consensus size: 161
7638598 AATTAGTTTT
* * *
7638608 CAATTTAGTCCTTTGATTGTTTGACTGTACCAGAGGCTGCCACGTGTCACTTTTGGCTTATTTAT
1 CAATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGATGCCACGTGTCACTTTTGGCTTATTTAT
*
7638673 GCATTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTA
66 GCATTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTACTTAATTA
7638738 CAAAATTGGCCCAAGAAATTTTCAAGATTTA
131 CAAAATTGGCCCAAGAAATTTTCAAGATTTA
* * *
7638769 TAA-TTAGTCCTTTGACTGTTTGACTGCACCAGGGGATGCCGCGTGTCACTTTTTGGCTTATTTA
1 CAATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGATGCCACGTGTCAC-TTTTGGCTTATTTA
*
7638833 TGCATTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATTAACTTTTACTTAATT
65 TGCATTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTACTTAATT
* * *
7638898 ACGAAATTGGCCTAAGAATTTTTCAAGATTTA
130 ACAAAATTGGCCCAAGAAATTTTCAAGATTTA
* *
7638930 CAATTTAATCCATTGACTG
1 CAATTTAGTCCTTTGACTG
7638949 CTGGATGCCT
Statistics
Matches: 164, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
160 41 0.25
161 110 0.67
162 13 0.08
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (161 bp):
CAATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGATGCCACGTGTCACTTTTGGCTTATTTAT
GCATTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTACTTAATTA
CAAAATTGGCCCAAGAAATTTTCAAGATTTA
Found at i:7639124 original size:58 final size:59
Alignment explanation
Indices: 7639051--7639512 Score: 548
Period size: 58 Copynumber: 7.9 Consensus size: 59
7639041 AAATTTCAAG
* *
7639051 AAATTACCATTTTACCCCCGAAC-TTCCAAAATTTCATTTTTAATCTCGATTTCACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAA
* ** * * *
7639109 AAATCACCATTTTACCCTTGAACTTTCCAACATTCCA-TTTTAACCCCGATTTTACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAA
* **
7639167 AAATTACCAATTTACCCCTAAACTTTCCAAAATTCCATTTTTAACC-CGATTTCACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAA
**
7639225 AAATTACCATTTTACCCTTGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCACCAAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC-AA
* * * *
7639284 AAATTACCATTTTACCCTCGAACTTT-CAAAATTCCATTTTTAATCTCGATTT-TCCGA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAA
* *
7639341 AAATTACCA-TTTACCCCCGAACTTTCTAAAATACCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAA
* * * * * *
7639399 AAATTCCCGTTTTACCCCCGAACTCTCAAAAATTCCATTTTTAAACCCCGATTTTACC-A
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTT-AACCTCGATTTCACCAA
* * * * *
7639458 AAATTACCATTTTGCCCCCG-AGTGTCCAAAAGTCCCA-TTTTCACTCTCGATTTCA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAA-TTCCATTTTTAAC-CTCGATTTCA
7639513 TCGTTTCTTC
Statistics
Matches: 349, Mismatches: 44, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
56 15 0.04
57 43 0.12
58 167 0.48
59 111 0.32
60 13 0.04
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.35
Consensus pattern (59 bp):
AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAA
Found at i:7639184 original size:29 final size:29
Alignment explanation
Indices: 7639097--7639475 Score: 154
Period size: 29 Copynumber: 13.0 Consensus size: 29
7639087 TTTTTAATCT
* *
7639097 CGATTTCACCAAAAATCACCATTTTACCC
1 CGATTTTACCAAAAATTACCATTTTACCC
* * *
7639126 TTGAACTTT-CC-AACATT-CCATTTTAACCC
1 -CG-ATTTTACCAAAAATTACCATTTT-ACCC
*
7639155 CGATTTTACCAAAAATTACCAATTTACCC
1 CGATTTTACCAAAAATTACCATTTTACCC
* * *
7639184 CTAAACTTT-CC-AAAATT-CCATTTTTAACC
1 C--GATTTTACCAAAAATTACCA-TTTTACCC
*
7639213 CGATTTCACCAAAAATTACCATTTTACCC
1 CGATTTTACCAAAAATTACCATTTTACCC
* * *
7639242 TTGAACTTT-CC-AAAATT-CCATTTTAACCT
1 -CG-ATTTTACCAAAAATTACCATTTT-ACCC
*
7639271 CGATTTCACCAAAAAATTACCATTTTACCC
1 CGATTTTACC-AAAAATTACCATTTTACCC
* * *
7639301 TCGAACTTT--C-AAAATT-CCATTTTTAATCT
1 -CG-ATTTTACCAAAAATTACCA-TTTT-ACCC
*
7639330 CGATTTT-CCGAAAATTACCA-TTTACCCC
1 CGATTTTACCAAAAATTACCATTTTA-CCC
* * *
7639358 CGAACTTT--CTAAAA-TACCATTTTTAACCT
1 CG-ATTTTACCAAAAATTACCA-TTTT-ACCC
* * *
7639387 CGATTTCACCAAAAATTCCCGTTTTACCCC
1 CGATTTTACCAAAAATTACCATTTTA-CCC
**
7639417 CGA-ACT-CTCAAAAATT-CCATTTTTAAACCC
1 CGATTTTAC-CAAAAATTACCA-TTTT--ACCC
*
7639447 CGATTTTACC-AAAATTACCATTTTGCCC
1 CGATTTTACCAAAAATTACCATTTTACCC
7639475 C
1 C
7639476 CGAGTGTCCA
Statistics
Matches: 260, Mismatches: 48, Indels: 84
0.66 0.12 0.21
Matches are distributed among these distances:
27 23 0.09
28 59 0.23
29 85 0.33
30 61 0.23
31 28 0.11
32 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.34
Consensus pattern (29 bp):
CGATTTTACCAAAAATTACCATTTTACCC
Found at i:7646523 original size:13 final size:13
Alignment explanation
Indices: 7646489--7646531 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
7646479 AGCCAGATGT
*
7646489 GAAAGAAAAG-AA
1 GAAAGAAGAGAAA
7646501 GAAAGAAAGAGAAA
1 GAAAG-AAGAGAAA
*
7646515 GAAAGAAGAGACA
1 GAAAGAAGAGAAA
7646528 GAAA
1 GAAA
7646532 AAGCACGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 5 0.19
13 15 0.56
14 7 0.26
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (13 bp):
GAAAGAAGAGAAA
Found at i:7646523 original size:17 final size:16
Alignment explanation
Indices: 7646489--7646532 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
7646479 AGCCAGATGT
7646489 GAAAGAAAAGAAGAAA
1 GAAAGAAAAGAAGAAA
7646505 GAAAGAGAAAGAAAGAAGA
1 GAAAGA-AAAG-AAGAA-A
*
7646524 GACAGAAAA
1 GAAAGAAAA
7646533 AGCACGACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 4 0.17
18 8 0.33
19 6 0.25
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAGAAA
Found at i:7651480 original size:76 final size:75
Alignment explanation
Indices: 7651346--7652147 Score: 1017
Period size: 76 Copynumber: 10.9 Consensus size: 75
7651336 CAGACCGCAC
* **
7651346 CAAGATCATTCTCTATCCTATTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCTTTC-CTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
7651410 TGAAGTAAGAG
65 TGAAGTAAGAG
* * *
7651421 CAAGATCTTTTCCTATTCGCTTGAAATTGAAGTAAAGTTGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATC-TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
7651486 TGAAGTAAGAG
65 TGAAGTAAGAG
* *
7651497 C-A-A-C-GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATT
1 CAAGATCTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATT
7651556 GAAGTAAGAG
66 GAAGTAAGAG
* ** *
7651566 C-A-A-C-GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATATTAAGTCTTTATCTCTAAAATT
1 CAAGATCTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATT
7651625 GAAGTAAGAG
66 GAAGTAAGAG
* * * * * * *
7651635 C-A-A-C-GT-C-ATCTGCTTGAAATTGAAATAAAGTTGGATATCAAGCCTTCATCTCTGAAATT
1 CAAGATCTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATT
7651694 GAAGTAAGAG
66 GAAGTAAGAG
* *
7651704 CAAGATCATTTCCTATCCGCATGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATC-TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
7651769 TGAAGTAAGAA
65 TGAAGTAAGAG
*
7651780 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATC-TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
7651845 TGAAGTAAGAG
65 TGAAGTAAGAG
* * *
7651856 C-A-A-C-AT-C-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATT
1 CAAGATCTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATT
*
7651914 GAAGTAAGAA
66 GAAGTAAGAG
*
7651924 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATC-TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
7651989 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * *
7652000 CGAGATCTTTTCCTATGCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATC-TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
7652065 TGAAGTAAGAG
65 TGAAGTAAGAG
* * *
7652076 CAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTCTGA
1 CAAGATC--TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGA
7652141 AATTGAA
62 AATTGAA
7652148 AGATGAAGCA
Statistics
Matches: 659, Mismatches: 48, Indels: 36
0.89 0.06 0.05
Matches are distributed among these distances:
68 38 0.06
69 211 0.32
70 4 0.01
71 4 0.01
72 1 0.00
73 3 0.00
74 4 0.01
75 54 0.08
76 281 0.43
77 45 0.07
79 14 0.02
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (75 bp):
CAAGATCTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATT
GAAGTAAGAG
Found at i:7651515 original size:31 final size:31
Alignment explanation
Indices: 7651480--7651592 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 31
7651470 TCTTTATCTC
7651480 TGAAATTGAAGTAAGAGCAACGTCATCCGCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCGCT
* * * ***
7651511 TGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCT
1 TGAAATTGAAGTA-AG-AGCA-A-C--GTCATCCGCT
7651548 CTGAAATTGAAGTAAGAGCAACGTCATCCGCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCGCT
7651580 TGAAATTGAAGTA
1 TGAAATTGAAGTA
7651593 GAGTTGGATA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
31 26 0.41
32 8 0.13
33 2 0.03
34 2 0.03
35 2 0.03
36 2 0.03
37 8 0.13
38 13 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCGCT
Found at i:7651979 original size:220 final size:222
Alignment explanation
Indices: 7651366--7652147 Score: 1064
Period size: 220 Copynumber: 3.5 Consensus size: 222
7651356 CTCTATCCTA
*
7651366 TTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTT
1 TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATC-T
* *
7651430 TTCCTATTCGCTTGAAATTGAAGTAAAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
65 ATCC---T-GCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAG
*
7651495 AGC-A-A-C--GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
126 AGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
*
7651553 ATTGAAGTAAGAGCA-A-C--GT-C-ATCCGC
191 ATTGAAGTAAGAGCAGATCTTTTCCTATCCGC
** * *
7651579 TTGAAATTGAAGTAGAGTTGGATATTAAGTCTTTATCTCTAAAATTGAAGTAAGAGCAACGTC-A
1 TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATCTA
* * * *
7651643 T-CTGCTTGAAATTGAAATAAAGTTGGATATCAAGCCTTCATCTCTGAAATTGAAGTAAGAGCAA
66 TCCTGCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
7651707 GATCATTTCCTATCCGCATGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGA
131 GATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGA
*
7651772 AGTAAGAACAAGATCTTTTCCTATCCGC
196 AGTAAGAGC-AGATCTTTTCCTATCCGC
*
7651800 TTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATC-A
1 TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATCTA
* * *
7651864 TCCT-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAACAA
66 TCCTGCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* *
7651927 GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGA
131 GATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGA
* *
7651992 AGTAAGAGCGAGATCTTTTCCTATGCTC
196 AGTAAGAGC-AGATCTTTTCCTATCCGC
*
7652020 TTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATCAT
1 TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-A-CA-
7652085 TTTCCTATCCT-CTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTCTGAAATTGAA
62 --T-CTATCCTGCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTA--TCTCTGAAATTGAA
7652148 AGATGAAGCA
Statistics
Matches: 504, Mismatches: 38, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
207 54 0.11
208 2 0.00
209 1 0.00
210 1 0.00
211 1 0.00
212 2 0.00
213 18 0.04
214 101 0.20
215 1 0.00
216 1 0.00
217 1 0.00
219 1 0.00
220 178 0.35
221 83 0.16
222 3 0.01
223 2 0.00
226 1 0.00
227 1 0.00
228 22 0.04
229 16 0.03
231 14 0.03
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (222 bp):
TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACATCTA
TCCTGCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
GATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGA
AGTAAGAGCAGATCTTTTCCTATCCGC
Found at i:7652485 original size:17 final size:18
Alignment explanation
Indices: 7652456--7652499 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
7652446 GGCCCAAACC
*
7652456 ATTTTGAA-ATTAAATTT
1 ATTTTGAATTTTAAATTT
7652473 ATTTT-AATTTTAAATTT
1 ATTTTGAATTTTAAATTT
7652490 ATTTTGAATT
1 ATTTTGAATT
7652500 CAATTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTGAATTTTAAATTT
Found at i:7652521 original size:11 final size:12
Alignment explanation
Indices: 7652465--7652530 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 12
7652455 CATTTTGAAA
*
7652465 TTAAATTT-ATT
1 TTAAATTTAAAT
*
7652476 TTAATTTTAAAT
1 TTAAATTTAAAT
* *
7652488 TT-ATTTTGAA-
1 TTAAATTTAAAT
*
7652498 TTCAATTTAAAT
1 TTAAATTTAAAT
7652510 TTAAATTT-AAT
1 TTAAATTTAAAT
7652521 TTAAATTTAA
1 TTAAATTTAA
7652531 CATTATTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 2 0.04
11 31 0.69
12 12 0.27
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:7652521 original size:17 final size:17
Alignment explanation
Indices: 7652496--7652548 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
7652486 ATTTATTTTG
*
7652496 AATTCAATTTAAATTTA
1 AATTTAATTTAAATTTA
7652513 AATTTAATTTAAATTTA
1 AATTTAATTTAAATTTA
7652530 ACA-TT-ATTATAAATTTA
1 A-ATTTAATT-TAAATTTA
7652547 AA
1 AA
7652549 AAATAAAAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 4 0.12
17 28 0.85
18 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTAATTTAAATTTA
Found at i:7652548 original size:6 final size:6
Alignment explanation
Indices: 7652465--7652530 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
7652455 CATTTTGAAA
* * * * *
7652465 TTAAAT TT-ATT TTAATT TTAAAT TT-ATT TTGAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
7652510 TTAAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
7652531 CATTATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 17 0.34
6 33 0.66
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:7654392 original size:162 final size:162
Alignment explanation
Indices: 7654221--7654559 Score: 534
Period size: 162 Copynumber: 2.1 Consensus size: 162
7654211 AGTTTTCAAT
* * *
7654221 TTAGTCCTTTGATTGTTTGACTGTACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGATGCCACGTGTCACTTTTTGGCTTATTTATGCA
*
7654286 TTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAA
66 TTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTACTTAATTACAA
*
7654351 AATTGGCCCAAGAAATTTTCAAGATTTATAAA
131 AATTGGCACAAGAAATTTTCAAGATTTATAAA
* *
7654383 TTAGTCCTTTGACTGTTTGACTGCACCAGGGGATGCCGCGTGTCACTTTTTGGCTTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGATGCCACGTGTCACTTTTTGGCTTATTTATGCA
* * *
7654448 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCTAAATTAACTTTTACTTAATTACGA
66 TTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTACTTAATTACAA
* * * *
7654513 AATTGGCATAAGAATTTTTCAAGATTTACAAT
131 AATTGGCACAAGAAATTTTCAAGATTTATAAA
* *
7654545 TTAATCCCTTGACTG
1 TTAGTCCTTTGACTG
7654560 CTGGATGCCT
Statistics
Matches: 161, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
162 161 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGATGCCACGTGTCACTTTTTGGCTTATTTATGCA
TTTAGTCCATGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTACTTAATTACAA
AATTGGCACAAGAAATTTTCAAGATTTATAAA
Found at i:7654724 original size:58 final size:59
Alignment explanation
Indices: 7654662--7655031 Score: 473
Period size: 59 Copynumber: 6.3 Consensus size: 59
7654652 AAATTTTAAG
**
7654662 AAATTACCATTTTACCCCCGAAC-TTCCAAAATTTTATTTTTAACCCCGATTTCACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
*** * *
7654720 AAATTACCATTTTACCCTTAAACTTTTCAAAATTCCAATTTTAACCCCGATTTCACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
**
7654779 AAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCAAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC-AA
* * *
7654838 AAATTACCATTTTACCCCCGAAC-TTCCAAAATTCCATTTTTAATCTCGATTTCACCGA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
* * * * *
7654896 AAATTACCATTTT-TCCTCGAACTTTCTAAAATACCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
* * * * *
7654954 AAATT-CTCATTTGACCCCCGAACTCTCAAAAATTCCATTTTTAACCTCGATTTTACC-A
1 AAATTAC-CATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
*
7655012 AAATTACCATTTTGCCCCCG
1 AAATTACCATTTTACCCCCG
7655032 GGTGTCCAAA
Statistics
Matches: 276, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
57 8 0.03
58 124 0.45
59 144 0.52
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
Found at i:7654827 original size:117 final size:115
Alignment explanation
Indices: 7654662--7655029 Score: 472
Period size: 117 Copynumber: 3.2 Consensus size: 115
7654652 AAATTTTAAG
**
7654662 AAATTACCATTTTACCCCCGAAC-TTCCAAAATTTTATTTTTAACCCCGATTTCACCAAAAATTA
1 AAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTA
*** * *
7654726 CCATTTTACCCTTAAACTTTTCAAAATTCCAATTTTAACCCCGATTTCACCAA
65 CCATTTTACCCCCGAAC-TTTCAAAATTCCATTTTTAACCTCGATTTCACC-A
*
7654779 AAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCAAAAAATT
1 AAATTACCATTTTACCCC-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAAAATT
* *
7654843 ACCATTTTACCCCCGAACTTCCAAAATTCCATTTTTAATCTCGATTTCACCGA
64 ACCATTTTACCCCCGAACTTTCAAAATTCCATTTTTAACCTCGATTTCACC-A
* * * * *
7654896 AAATTACCATTTTTCCTCGAACTTTCTAAAATACCATTTTTAACCTCGATTTCACCAAAAATT-C
1 AAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTAC
* * *
7654960 TCATTTGACCCCCGAACTCTCAAAAATTCCATTTTTAACCTCGATTTTACCA
66 -CATTTTACCCCCGAACTTTC-AAAATTCCATTTTTAACCTCGATTTCACCA
*
7655012 AAATTACCATTTTGCCCC
1 AAATTACCATTTTACCCC
7655030 CGGGTGTCCA
Statistics
Matches: 221, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
115 1 0.00
116 60 0.27
117 127 0.57
118 33 0.15
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (115 bp):
AAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTAC
CATTTTACCCCCGAACTTTCAAAATTCCATTTTTAACCTCGATTTCACCA
Found at i:7663785 original size:6 final size:6
Alignment explanation
Indices: 7663774--7663798 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7663764 TCCCATGGTC
7663774 CATGTG CATGTG CATGTG CATGTG C
1 CATGTG CATGTG CATGTG CATGTG C
7663799 TGTCTGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (6 bp):
CATGTG
Found at i:7665455 original size:58 final size:58
Alignment explanation
Indices: 7665388--7665504 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
7665378 AATAAAAGTA
7665388 AAAAAGAAGTTTCTTATCTGATTTGTTTCTCTAGTATTGTGAATCTTTACATGATATC
1 AAAAAGAAGTTTCTTATCTGATTTGTTTCTCTAGTATTGTGAATCTTTACATGATATC
7665446 AAAAAGAAGTTTCTTATCTGATTTGTTTCTCTAGTATTGTGAATCTTTACATGATATC
1 AAAAAGAAGTTTCTTATCTGATTTGTTTCTCTAGTATTGTGAATCTTTACATGATATC
7665504 A
1 A
7665505 CAAGCTAGGC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (58 bp):
AAAAAGAAGTTTCTTATCTGATTTGTTTCTCTAGTATTGTGAATCTTTACATGATATC
Found at i:7684910 original size:35 final size:35
Alignment explanation
Indices: 7684870--7684939 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
7684860 ATAATATTTG
7684870 AGATTGATATTTTTAATATTTTTAAAAATTAAAAT
1 AGATTGATATTTTTAATATTTTTAAAAATTAAAAT
7684905 AGATTGATATTTTTAATATTTTTAAAAATTAAAAT
1 AGATTGATATTTTTAATATTTTTAAAAATTAAAAT
7684940 TAAAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (35 bp):
AGATTGATATTTTTAATATTTTTAAAAATTAAAAT
Found at i:7685326 original size:16 final size:16
Alignment explanation
Indices: 7685271--7685327 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
7685261 TAACTCTTTA
* *
7685271 AAAATTATAAGAAAAAG
1 AAAATTATAA-AAATAT
*
7685288 ATAAATTATTAAAATGAT
1 A-AAATTATAAAAAT-AT
*
7685306 GAAATTATAAAAATAT
1 AAAATTATAAAAATAT
7685322 AAAATT
1 AAAATT
7685328 TAATTTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 7 0.22
17 16 0.50
18 9 0.28
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:7691467 original size:6 final size:6
Alignment explanation
Indices: 7691458--7691483 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7691448 ATGATGATGA
7691458 TAGTGG TAGTGG TAGTGG TAGTGG TA
1 TAGTGG TAGTGG TAGTGG TAGTGG TA
7691484 TTGCTTGAGG
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:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (6 bp):
TAGTGG
Found at i:7692227 original size:23 final size:23
Alignment explanation
Indices: 7692201--7692246 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7692191 AGTGTCACAA
*
7692201 TAACAAATTTAACAAATGAATTT
1 TAACAAAGTTAACAAATGAATTT
* *
7692224 TAACAAGGTTAACAATTGAATTT
1 TAACAAAGTTAACAAATGAATTT
7692247 AAATTTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
TAACAAAGTTAACAAATGAATTT
Found at i:7694914 original size:2 final size:2
Alignment explanation
Indices: 7694907--7694945 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7694897 TTAAAAAGAA
7694907 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7694946 AATTATTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7695391 original size:6 final size:6
Alignment explanation
Indices: 7695380--7695410 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7695370 TCTCTCACTT
*
7695380 TATTAC TATTAC TATTAC TATTTC TATTAC T
1 TATTAC TATTAC TATTAC TATTAC TATTAC T
7695411 TACATTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (6 bp):
TATTAC
Found at i:7697298 original size:7 final size:7
Alignment explanation
Indices: 7697286--7697338 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
7697276 AAGATAAGTT
7697286 TAACGGG
1 TAACGGG
7697293 TAACGGG
1 TAACGGG
7697300 TAACGGG
1 TAACGGG
7697307 TAACGGG
1 TAACGGG
7697314 TAACGGG
1 TAACGGG
7697321 TAACGGG
1 TAACGGG
7697328 TAACGGG
1 TAACGGG
7697335 TAAC
1 TAAC
7697339 TATTACTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.30, C:0.15, G:0.40, T:0.15
Consensus pattern (7 bp):
TAACGGG
Found at i:7699367 original size:15 final size:15
Alignment explanation
Indices: 7699347--7699397 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
7699337 GATCTCTCAA
7699347 TAAAAAATTAAAAAT
1 TAAAAAATTAAAAAT
*
7699362 TAAAAAATTTCAAAA-
1 TAAAAAA-TTAAAAAT
*
7699377 TAAAAAATCAAAAAT
1 TAAAAAATTAAAAAT
*
7699392 CAAAAA
1 TAAAAA
7699398 TCAAAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
15 19 0.63
16 6 0.20
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAAAAATTAAAAAT
Found at i:7699390 original size:14 final size:14
Alignment explanation
Indices: 7699345--7699403 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
7699335 TTGATCTCTC
*
7699345 AATAAAAAATTAAA
1 AATAAAAAATCAAA
7699359 AATTAAAAAATTTC-AA
1 AA-TAAAAAA--TCAAA
7699375 AATAAAAAATCAAA
1 AATAAAAAATCAAA
*
7699389 AATCAAAAATCAAA
1 AATAAAAAATCAAA
7699403 A
1 A
7699404 TAATTTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 2 0.05
14 18 0.46
15 14 0.36
16 4 0.10
17 1 0.03
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
AATAAAAAATCAAA
Found at i:7699404 original size:6 final size:7
Alignment explanation
Indices: 7699373--7699403 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7699363 AAAAAATTTC
*
7699373 AAAATAA
1 AAAATCA
7699380 AAAATCA
1 AAAATCA
7699387 AAAATCA
1 AAAATCA
7699394 AAAATCA
1 AAAATCA
7699401 AAA
1 AAA
7699404 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATCA
Found at i:7699427 original size:18 final size:19
Alignment explanation
Indices: 7699393--7699433 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7699383 ATCAAAAATC
*
7699393 AAAAATCAAAATAATTTTT
1 AAAAATCAAAATAATTTAT
*
7699412 AAAAATCCAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
7699430 AAAA
1 AAAA
7699434 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:7700992 original size:34 final size:34
Alignment explanation
Indices: 7700908--7701005 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 34
7700898 ACAACTCACT
** *
7700908 TTGTAAGTTTTCAGGCTCAAGAAATCAGTATGTA
1 TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
7700942 TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
1 TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
* * *
7700976 TTTTAA-TATTTTAAACTGAAG-AATTAGTAT
1 TTGTAAGT-TTTCAAACTCAAGAAATTAGTAT
7701006 TAAAAAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 10 0.18
34 47 0.82
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (34 bp):
TTGTAAGTTTTCAAACTCAAGAAATTAGTATGTA
Found at i:7702270 original size:34 final size:34
Alignment explanation
Indices: 7702230--7702517 Score: 213
Period size: 29 Copynumber: 9.2 Consensus size: 34
7702220 AGTCACACGA
* *
7702230 CCGTTCCGTTCCATTCCAAATAAACATTTCCATTCAGTT
1 CCGTTCCGTTCCATTCCAAGTAAACAATT-C---CA-TT
*
7702269 CCGTTCCGTTCCATTCCAAGTAAACAATTCCGTT
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
*
7702303 CCGTTCCGTTCCGTTCCAAGTAAACAATT--A--
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
* *
7702333 -CGTTCTGTTCCGTTCCAAGTAAACAATTCCATT
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
7702366 CCGTTCCG-----TTCCAAGTAAAC-A----ATT
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
*
7702390 CCGTTCCGTTCCGTTCCAAGTAAAC-A----ATT
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
*
7702419 CCGTTCCGTTCCGTTCCAAGTAAACAATT-C--T
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
*
7702450 --GTTCCGTTCCGTTCCAAGTAAAC-A-T---TT
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
* * *
7702477 CCGTTCCGTTCCGTTCCAAGTAAACATTTCCGTT
1 CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
7702511 CCGTTCC
1 CCGTTCC
7702518 AAGTAAACAT
Statistics
Matches: 219, Mismatches: 8, Indels: 49
0.79 0.03 0.18
Matches are distributed among these distances:
24 11 0.05
27 2 0.01
28 2 0.01
29 126 0.58
30 1 0.00
31 3 0.01
34 45 0.21
35 1 0.00
38 1 0.00
39 27 0.12
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.33
Consensus pattern (34 bp):
CCGTTCCGTTCCATTCCAAGTAAACAATTCCATT
Found at i:7702284 original size:39 final size:39
Alignment explanation
Indices: 7702230--7702320 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
7702220 AGTCACACGA
*
7702230 CCGTTCCGTTCCATTCCAAATAAACATTTCCATTCAGTT
1 CCGTTCCGTTCCATTCCAAATAAACAATTCCATTCAGTT
* * *
7702269 CCGTTCCGTTCCATTCCAAGTAAACAATTCCGTTCCGTT
1 CCGTTCCGTTCCATTCCAAATAAACAATTCCATTCAGTT
7702308 CCGTTCCGTTCCA
1 CCGTTCCGTTCCA
7702321 AGTAAACAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (39 bp):
CCGTTCCGTTCCATTCCAAATAAACAATTCCATTCAGTT
Found at i:7702509 original size:19 final size:21
Alignment explanation
Indices: 7702485--7702613 Score: 91
Period size: 24 Copynumber: 5.4 Consensus size: 21
7702475 TTCCGTTCCG
7702485 TTCCGTTCCAAGTAAACATTTCC
1 TTCCGTTCCAAGTAAACA-TT-C
7702508 GTTCCGTTCCAAGTAAACATTTC
1 -TTCCGTTCCAAGTAAACA-TTC
7702531 TGTTCCGTTCCAAGTAAACATTTCC
1 --TTCCGTTCCAAGTAAACA-TT-C
7702556 GTTCCGTTCCGTTCCAAGTAAACATTTC
1 -TTCCG-T----TCCAAGTAAACA-TTC
7702584 TGTTCCGTTCCAAGTAAACA-T-
1 --TTCCGTTCCAAGTAAACATTC
7702605 TTCCGTTCC
1 TTCCGTTCC
7702614 GTTCCGTTAC
Statistics
Matches: 97, Mismatches: 0, Indels: 21
0.82 0.00 0.18
Matches are distributed among these distances:
19 9 0.09
22 1 0.01
23 1 0.01
24 61 0.63
25 2 0.02
28 2 0.02
29 21 0.22
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (21 bp):
TTCCGTTCCAAGTAAACATTC
Found at i:7702975 original size:19 final size:20
Alignment explanation
Indices: 7702905--7703043 Score: 80
Period size: 24 Copynumber: 6.0 Consensus size: 20
7702895 GTCTGTTCCG
*
7702905 TTCCGTTCCAAGTAAATCGGTCC
1 TTCCGTTCCAAGTAAA-CAG--C
7702928 GTTCCGTTCCAAGTAAACAGATCC
1 -TTCCGTTCCAAGTAAACAG---C
7702952 ATTCCGTTCCAAGTAAACAGTTCC
1 -TTCCGTTCCAAGTAAACAG---C
7702976 ATTCCGTTCCAAGTAAACAGTTCC
1 -TTCCGTTCCAAGTAAACAG---C
*
7703000 GTTCCATTCCAAGTAAACAGTTTC
1 -TTCCGTTCCAAGTAAACAG---C
7703024 GTTCCGTTCCAAGTAAACAG
1 -TTCCGTTCCAAGTAAACAG
7703044 TTTAGAACAT
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
23 2 0.02
24 105 0.98
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (20 bp):
TTCCGTTCCAAGTAAACAGC
Found at i:7703004 original size:29 final size:29
Alignment explanation
Indices: 7702267--7703033 Score: 949
Period size: 29 Copynumber: 27.5 Consensus size: 29
7702257 TTCCATTCAG
*
7702267 TTCCGTTCCGTTCCATTCCAAGTAAACAATT
1 TTCCGTTCCGTTCCGTTCCAAGTAAAC-A-T
*
7702298 CCGTTCCGTTCCGTTCCGTTCCAAGTAAACAA
1 ---TTCCGTTCCGTTCCGTTCCAAGTAAACAT
* * *
7702330 TTACGTTCTGTTCCGTTCCAAGTAAACAA
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
* *
7702359 TTCCATTCCGTTCCGTTCCAAGTAAACAA
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702388 TTCCGTTCCGTTCCGTTCCAAGTAAACAA
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702417 TTCCGTTCCGTTCCGTTCCAAGTAAACAA
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702446 TTCTGTTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
7702475 TTCCGTTCCGTTCCGTTCCAAGTAAACA-
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
7702503 -T---TTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
7702528 TT-C--T--GTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
7702552 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
7702581 TT-C--T--GTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702605 TTCCGTTCCGTTCCGTTACAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
* *
7702634 TTCCGTTCCGTTCCGTTACAAGTAAAAAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702663 TTCCATTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702692 TTTCGTTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702721 TTTCGTTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
**
7702750 TTCCGTTCCGTTCCGTTCCAAGTAAACCG
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702779 TTCTGTTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
**
7702808 TTCCGTTCCGTTCCGTTCCAAGTAAACCG
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702837 TTCTGTTCCGTTCCGTTCCAAGTAAACAT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
**
7702866 TTCCGTTCCGTTCCGTTCCAAGTAAACCG
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
* *
7702895 GTCTGTTCCGTTCCGTTCCAAGT-AA-A-
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702921 -T-CGGTCCGTTCCGTTCCAAGTAAACA-
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
* *
7702947 ----GATCCATTCCGTTCCAAGTAAACA-
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702971 ----GTTCCATTCCGTTCCAAGTAAACA-
1 TTCCGTTCCGTTCCGTTCCAAGTAAACAT
*
7702995 ----GTTCCGTTCCATTCCAAGTAAACAGT
1 TTCCGTTCCGTTCCGTTCCAAGTAAACA-T
7703021 TT-CGTTCCGTTCC
1 TTCCGTTCCGTTCC
7703034 AAGTAAACAG
Statistics
Matches: 670, Mismatches: 43, Indels: 45
0.88 0.06 0.06
Matches are distributed among these distances:
24 152 0.23
25 5 0.01
26 4 0.01
27 3 0.00
28 3 0.00
29 476 0.71
33 1 0.00
34 26 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (29 bp):
TTCCGTTCCGTTCCGTTCCAAGTAAACAT
Found at i:7703104 original size:35 final size:36
Alignment explanation
Indices: 7703058--7703138 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
7703048 GAACATCAAA
7703058 ATGATATATTACTGACAG-AAAAAAAAACACATACT
1 ATGATATATTACTGACAGAAAAAAAAAACACATACT
*
7703093 ATGATATATTACTGACAGAAAAAAAAAACACATGCT
1 ATGATATATTACTGACAGAAAAAAAAAACACATACT
7703129 ATGATATATT
1 ATGATATATT
7703139 TCTCATTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 18 0.41
36 26 0.59
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (36 bp):
ATGATATATTACTGACAGAAAAAAAAAACACATACT
Found at i:7703492 original size:224 final size:222
Alignment explanation
Indices: 7703093--7703499 Score: 674
Period size: 224 Copynumber: 1.8 Consensus size: 222
7703083 AACACATACT
*
7703093 ATGATATATTACTGACAGAAAAAAAAAACACATGCTATGATATATTTCTCATTTCTCAGAATTCG
1 ATGATATATTACTGACAGAAAAAAAAAACACATACTATGATATATTTCTCATTTCTCAGAATTCG
* *
7703158 TGATATCCAGAAAATTTGATTAAACCTATAAACAAAATAAATGAGGAAAAAAAAAAGGCGGATAC
66 TGATATCCAGAAAATTTGATTAAACCTATAAACAAAATAAAAGAGGAAAAAAAAAAGACGGATAC
*
7703223 CTTCATGACAATACAATCCTCCAAATCATCATATTTACACTCATGTATTCCCTCTACCTTTCCGT
131 CTTCATGACAATACAATCCTCCAAATCACCATATTTA-ACTCATGTATTCCCTCTACCTTTCCGT
7703288 TCCAGAAAAAAAACCTTAGAACATCAAA
195 TCCAGAAAAAAAACCTTAGAACATCAAA
* * * *
7703316 ATGATATATTATTGACAG-AAAAAAAAACACATACTATGATTTTTTTTTTTCATTTCTCAGAATT
1 ATGATATATTACTGACAGAAAAAAAAAACACATACTATGA--TATATTTCTCATTTCTCAGAATT
7703380 CGTGATATCCAGAAAATTTGATTAAACCTATAAACAAAATAAAAGAGGGAAAAAAAAAAAGACGG
64 CGTGATATCCAGAAAATTTGATTAAACCTATAAACAAAATAAAAGA-GG-AAAAAAAAAAGACGG
*
7703445 ATACCTTCATGACAATACAATCCTCCAAATCACCATATTT-GCTCATGTATTCCCT
127 ATACCTTCATGACAATACAATCCTCCAAATCACCATATTTAACTCATGTATTCCCT
7703500 TAAACCTTCA
Statistics
Matches: 171, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
222 20 0.12
223 17 0.10
224 79 0.46
225 2 0.01
226 53 0.31
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (222 bp):
ATGATATATTACTGACAGAAAAAAAAAACACATACTATGATATATTTCTCATTTCTCAGAATTCG
TGATATCCAGAAAATTTGATTAAACCTATAAACAAAATAAAAGAGGAAAAAAAAAAGACGGATAC
CTTCATGACAATACAATCCTCCAAATCACCATATTTAACTCATGTATTCCCTCTACCTTTCCGTT
CCAGAAAAAAAACCTTAGAACATCAAA
Found at i:7715891 original size:30 final size:31
Alignment explanation
Indices: 7715846--7715908 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
7715836 ATTATGTTAA
*
7715846 TAATTTACAAAAATTAGATC-AAATCAAAATT
1 TAATTTACAAAAATTACA-CAAAATCAAAATT
*
7715877 TAATTTA-TAAAATTACACAAAATCAAAATT
1 TAATTTACAAAAATTACACAAAATCAAAATT
7715907 TA
1 TA
7715909 TGTATACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 21 0.72
31 7 0.24
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (31 bp):
TAATTTACAAAAATTACACAAAATCAAAATT
Found at i:7715919 original size:29 final size:30
Alignment explanation
Indices: 7715866--7715924 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
7715856 AAATTAGATC
*
7715866 AAATCAAAATTTAATTTATAAAATTACACA
1 AAATCAAAATTTAATGTATAAAATTACACA
* *
7715896 AAATCAAAATTT-ATGTATACAATTGCACA
1 AAATCAAAATTTAATGTATAAAATTACACA
7715925 TTAAATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTAATGTATAAAATTACACA
Found at i:7717591 original size:19 final size:20
Alignment explanation
Indices: 7717569--7717607 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
7717559 TAACCAAAAT
7717569 AAAATTAATTG-AATTAATC
1 AAAATTAATTGAAATTAATC
7717588 AAAATTAATTGAAATTAATC
1 AAAATTAATTGAAATTAATC
7717608 GAATTGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAATTAATTGAAATTAATC
Found at i:7723650 original size:20 final size:20
Alignment explanation
Indices: 7723625--7723664 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7723615 ACAGCATTGA
*
7723625 ATAGCTAATCTTTAGTGATT
1 ATAGCTAATCTTTAGAGATT
* *
7723645 ATAGCTGATTTTTAGAGATT
1 ATAGCTAATCTTTAGAGATT
7723665 CTAATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (20 bp):
ATAGCTAATCTTTAGAGATT
Found at i:7735990 original size:5 final size:5
Alignment explanation
Indices: 7735944--7735991 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
7735934 TATACTTTTT
* *
7735944 TCCCC TTCCC TCCCT TCCCC TTCCCC TTCCCC TCCCC TCCCC TCCCC T
1 TCCCC TCCCC TCCCC TCCCC -TCCCC -TCCCC TCCCC TCCCC TCCCC T
7735992 TTTCTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 27 0.71
6 11 0.29
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (5 bp):
TCCCC
Found at i:7736009 original size:13 final size:14
Alignment explanation
Indices: 7735991--7736025 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
7735981 TCCCCTCCCC
7735991 TTTTCTTTTCTT-T
1 TTTTCTTTTCTTAT
7736004 TTTTCTTTTCTTAT
1 TTTTCTTTTCTTAT
7736018 TTTTCTTT
1 TTTTCTTT
7736026 CTTCTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTCTTAT
Found at i:7736013 original size:18 final size:18
Alignment explanation
Indices: 7735990--7736028 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7735980 CTCCCCTCCC
*
7735990 CTTTTCTT-TTCTTTTTTT
1 CTTTTCTTATT-TTTCTTT
7736008 CTTTTCTTATTTTTCTTT
1 CTTTTCTTATTTTTCTTT
7736026 CTT
1 CTT
7736029 CTTGCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTCTTATTTTTCTTT
Found at i:7736782 original size:19 final size:19
Alignment explanation
Indices: 7736760--7736797 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7736750 TTAACAGACT
7736760 TCAACTGACAATAACTAAA
1 TCAACTGACAATAACTAAA
* *
7736779 TCAACTGCCAGTAACTAAA
1 TCAACTGACAATAACTAAA
7736798 CTTAATAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (19 bp):
TCAACTGACAATAACTAAA
Found at i:7741284 original size:19 final size:19
Alignment explanation
Indices: 7741260--7741297 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7741250 ATCAATAACT
7741260 TCAACTGACAATAACTAAA
1 TCAACTGACAATAACTAAA
* *
7741279 TCAACTGCCAGTAACTAAA
1 TCAACTGACAATAACTAAA
7741298 CTTAGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (19 bp):
TCAACTGACAATAACTAAA
Found at i:7745385 original size:4 final size:4
Alignment explanation
Indices: 7745376--7745409 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
7745366 AGCCAGACGT
7745376 GAAA GAAA GAAA GAAA GAAA GAAATA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA G-AA-A GAAA GAAA
7745410 AAGAGAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 22 0.79
5 4 0.14
6 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:7745416 original size:12 final size:12
Alignment explanation
Indices: 7745376--7745426 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
7745366 AGCCAGACGT
7745376 GAAAGAAAGAA-A
1 GAAAGAAA-AAGA
*
7745388 GAAAGAAAGAAATA
1 GAAAG-AA-AAAGA
7745402 GAAAGAAAAAGA
1 GAAAGAAAAAGA
*
7745414 GAAACAAAAAGA
1 GAAAGAAAAAGA
7745426 G
1 G
7745427 CACGACAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 21 0.62
13 6 0.18
14 7 0.21
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (12 bp):
GAAAGAAAAAGA
Found at i:7748347 original size:13 final size:15
Alignment explanation
Indices: 7748329--7748361 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
7748319 GAATGTTTTG
7748329 ATATTAAT-AT-TCA
1 ATATTAATAATATCA
7748342 ATATTAATAATATCA
1 ATATTAATAATATCA
7748357 ATATT
1 ATATT
7748362 TATTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 2 0.11
15 8 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTAATAATATCA
Found at i:7748368 original size:16 final size:16
Alignment explanation
Indices: 7748330--7748369 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
7748320 AATGTTTTGA
7748330 TATTAATATTCAATAT
1 TATTAATATTCAATAT
*
7748346 TAATAATA-TCAATATT
1 TATTAATATTCAATA-T
7748362 TATTAATA
1 TATTAATA
7748370 ATAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAATATTCAATAT
Found at i:7749522 original size:58 final size:58
Alignment explanation
Indices: 7749470--7749962 Score: 514
Period size: 59 Copynumber: 8.4 Consensus size: 58
7749460 CCCGAAACTT
7749470 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTT-A
* * * * *
7749528 CCAAAAATTACTATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAAAACTT-
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCC--GATTTA
* * *
7749587 CCAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTT-A
** * * **
7749645 CCAAAAATTATCTGTTTTACCCCCCGAACTCT-TAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAAATTA-CCATTTTA-CCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTT-A
* * *
7749705 CCAAAAATTACCATTTTACCCCTAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTT-A
* * * *
7749764 TCAAAAATTACCATTTTACCCCCAAACTTTTTAAAATTCCATTTTAAACTCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTT-A
* * * *
7749823 CCAAAAATTACTATTTTATCCCCCGAACTCT-TAAAATTCCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTA-CCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTT-A
* ** * * * *
7749881 CCAAAAATTACTATTTTACCCCTGAACTCTCAAAAATTTCATTTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCA-TTTTTAACCCCGATTT-A
* *
7749941 CC-AAAATTACTATTTTGCCCCC
1 CCAAAAATTACCATTTTACCCCC
7749963 TGGTATCCAA
Statistics
Matches: 374, Mismatches: 48, Indels: 25
0.84 0.11 0.06
Matches are distributed among these distances:
56 2 0.01
57 11 0.03
58 127 0.34
59 160 0.43
60 62 0.17
61 12 0.03
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.35
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTA
Found at i:7749562 original size:30 final size:29
Alignment explanation
Indices: 7749431--7749630 Score: 170
Period size: 29 Copynumber: 7.0 Consensus size: 29
7749421 GTTTATAGGT
** * *
7749431 CCCCAAACAGTCCAGAAATTA-CATCTTGA
1 CCCCAAACTTTCCAAAAATTACCAT-TTTA
*
7749460 CCCGAAAC-TTCCAAAAATTACCATTTTA
1 CCCCAAACTTTCCAAAAATTACCATTTTA
*
7749488 CCCCCAAACTTT-CTAAAATT-CCATTTTAA
1 -CCCCAAACTTTCCAAAAATTACCATTTT-A
* *
7749517 CCCC-GA-TTTCACCAAAAATTACTATTTTA
1 CCCCAAACTTT--CCAAAAATTACCATTTTA
7749546 CCCTCAAACTTTCC-AAAATT-CCATTTTTAA
1 CCC-CAAACTTTCCAAAAATTACCA-TTTT-A
7749576 CCCCAAAAC-TTCCAAAAATTACCATTTTA
1 CCCC-AAACTTTCCAAAAATTACCATTTTA
7749605 CCCCAAACTTTCC-AAAATT-CCATTTT
1 CCCCAAACTTTCCAAAAATTACCATTTT
7749631 TAACCTCGGT
Statistics
Matches: 143, Mismatches: 11, Indels: 36
0.75 0.06 0.19
Matches are distributed among these distances:
26 3 0.02
27 8 0.06
28 36 0.25
29 60 0.42
30 29 0.20
31 4 0.03
32 3 0.02
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.31
Consensus pattern (29 bp):
CCCCAAACTTTCCAAAAATTACCATTTTA
Found at i:7749712 original size:30 final size:31
Alignment explanation
Indices: 7749678--7749780 Score: 99
Period size: 30 Copynumber: 3.5 Consensus size: 31
7749668 CCGAACTCTT
*
7749678 AAAATT-CCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTTAACCCTAATTTCATCA
* ** * *
7749708 AAAATTACCA-TTTTACCCCTAA-ACCTTCT
1 AAAATTACCATTTTTAACCCTAATTTCATCA
*
7749737 AAAATT-CCATTTTTAA-CCTCGATTTCATCA
1 AAAATTACCATTTTTAACCCT-AATTTCATCA
7749767 AAAATTACCATTTT
1 AAAATTACCATTTT
7749781 ACCCCCAAAC
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
28 6 0.11
29 14 0.25
30 26 0.46
31 10 0.18
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (31 bp):
AAAATTACCATTTTTAACCCTAATTTCATCA
Found at i:7749778 original size:177 final size:173
Alignment explanation
Indices: 7749470--7749961 Score: 625
Period size: 177 Copynumber: 2.8 Consensus size: 173
7749460 CCCGAAACTT
* * * *
7749470 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTAACCCCGATTTCACCAAAAA
1 CCAAAAATTACTATTTTACCCCCGAACTCT-TAAAATTCCATTTTAACCCTGATTTCACCAAAAA
* * * *
7749535 TTACTATTTTA-CCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTC-CAAAAATTAC
65 TTACTATTTTACCCCT-AAACCTTCAAAAATTCCATTTTTAA-CCC-AGATTTCACAAAAATTAC
* *
7749598 CATTTTACCCCAAACTTTCCAAAATTCCATTTTTAAC-CTCGGTTTCA
127 CATTTTACCCCAAACTTTCCAAAATTCCATTTTAAACTC-CGATTTCA
* *
7749645 CCAAAAATTATCTGTTTTACCCCCCGAACTCTTAAAATTCCATTTTTAACCCTAATTTCACCAAA
1 CCAAAAATTA-CTATTTTA-CCCCCGAACTCTTAAAATTCCA-TTTTAACCCTGATTTCACCAAA
* *
7749710 AATTACCATTTTACCCCTAAACCTTCTAAAATTCCATTTTTAACCTC-GATTTCATCAAAAATTA
63 AATTACTATTTTACCCCTAAACCTTCAAAAATTCCATTTTTAACC-CAGATTTCA-CAAAAATTA
**
7749774 CCATTTTACCCCCAAACTTTTTAAAATTCCATTTTAAACTCCGATTTCA
126 CCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTAAACTCCGATTTCA
7749823 CCAAAAATTACTATTTTATCCCCCGAACTCTTAAAATTCCATTTTAACCCTGATTTCACCAAAAA
1 CCAAAAATTACTATTTTA-CCCCCGAACTCTTAAAATTCCATTTTAACCCTGATTTCACCAAAAA
* * * * *
7749888 TTACTATTTTACCCCTGAA-CTCTCAAAAATTTCATTTTTTAACCCTGATTTCACCAAAATTACT
65 TTACTATTTTACCCCTAAACCT-TCAAAAATTCCA-TTTTTAACCCAGATTTCACAAAAATTACC
*
7749952 ATTTTGCCCC
128 ATTTTACCCC
7749962 CTGGTATCCA
Statistics
Matches: 280, Mismatches: 25, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
175 20 0.07
176 83 0.30
177 128 0.46
178 48 0.17
179 1 0.00
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (173 bp):
CCAAAAATTACTATTTTACCCCCGAACTCTTAAAATTCCATTTTAACCCTGATTTCACCAAAAAT
TACTATTTTACCCCTAAACCTTCAAAAATTCCATTTTTAACCCAGATTTCACAAAAATTACCATT
TTACCCCAAACTTTCCAAAATTCCATTTTAAACTCCGATTTCA
Found at i:7749904 original size:30 final size:30
Alignment explanation
Indices: 7749816--7749961 Score: 113
Period size: 30 Copynumber: 5.0 Consensus size: 30
7749806 TTTAAACTCC
*
7749816 GATTTCACCAAAAATTACTATTTTATCCCCC
1 GATTTCACCAAAAATTACTATTTTA-CCCCT
* * ** * *
7749847 GA--ACTCTTAAAATT-CCATTTTAACCCT
1 GATTTCACCAAAAATTACTATTTTACCCCT
7749874 GATTTCACCAAAAATTACTATTTTACCCCT
1 GATTTCACCAAAAATTACTATTTTACCCCT
** * * * *
7749904 GAACTC-TCAAAAATTTCATTTTTTAACCCT
1 GATTTCACCAAAAATTAC-TATTTTACCCCT
*
7749934 GATTTCACC-AAAATTACTATTTTGCCCC
1 GATTTCACCAAAAATTACTATTTTACCCC
7749962 CTGGTATCCA
Statistics
Matches: 84, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
27 5 0.06
28 7 0.08
29 33 0.39
30 36 0.43
31 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (30 bp):
GATTTCACCAAAAATTACTATTTTACCCCT
Found at i:7753298 original size:23 final size:23
Alignment explanation
Indices: 7753244--7753298 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
7753234 TTTTTTATAT
*
7753244 ATAAAA-AAAAAAAAAAAATATA
1 ATAAAATAAAAAAAAAAAATACA
* * * *
7753266 ATACATTAAAAACACAAAATACA
1 ATAAAATAAAAAAAAAAAATACA
7753289 ATAAAATAAA
1 ATAAAATAAA
7753299 TGTTTTTTAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.16
Consensus pattern (23 bp):
ATAAAATAAAAAAAAAAAATACA
Found at i:7753440 original size:22 final size:22
Alignment explanation
Indices: 7753375--7753443 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
7753365 TAAATATATC
*
7753375 TAAAACAATAGCAATAATAATAA
1 TAAAACAATAGTAATAA-AATAA
* * * * *
7753398 TAAAACAAAAATTATACAATAT
1 TAAAACAATAGTAATAAAATAA
*
7753420 TCAAACAATAGTAATAAAATAA
1 TAAAACAATAGTAATAAAATAA
7753442 TA
1 TA
7753444 GTAATATAAT
Statistics
Matches: 33, Mismatches: 13, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.25
Consensus pattern (22 bp):
TAAAACAATAGTAATAAAATAA
Found at i:7753445 original size:14 final size:14
Alignment explanation
Indices: 7753426--7753455 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7753416 ATATTCAAAC
7753426 AATAGTAATAAAAT
1 AATAGTAATAAAAT
*
7753440 AATAGTAATATAAT
1 AATAGTAATAAAAT
7753454 AA
1 AA
7753456 CGAGATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
AATAGTAATAAAAT
Found at i:7754118 original size:15 final size:14
Alignment explanation
Indices: 7754100--7754143 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
7754090 TTTTATTTTT
7754100 ATTTTTAAGAATTTA
1 ATTTTTAA-AATTTA
*
7754115 ATTTTTAAATTTTA
1 ATTTTTAAAATTTA
7754129 ATTTTTAAAATTTA
1 ATTTTTAAAATTTA
7754143 A
1 A
7754144 CTCCAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
ATTTTTAAAATTTA
Found at i:7755372 original size:9 final size:9
Alignment explanation
Indices: 7755358--7755382 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7755348 CTAATCAAAT
7755358 AAATTTTCA
1 AAATTTTCA
7755367 AAATTTTCA
1 AAATTTTCA
7755376 AAATTTT
1 AAATTTT
7755383 TATGTAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
AAATTTTCA
Found at i:7755982 original size:14 final size:14
Alignment explanation
Indices: 7755942--7755982 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7755932 GAATTAAGGG
7755942 ATTAAATTCTAAAA
1 ATTAAATTCTAAAA
* * *
7755956 AATAAAATATAAAA
1 ATTAAATTCTAAAA
7755970 ATTAAATTCTAAA
1 ATTAAATTCTAAA
7755983 TTTATAAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
ATTAAATTCTAAAA
Found at i:7761917 original size:23 final size:22
Alignment explanation
Indices: 7761885--7761964 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 22
7761875 GCTGGGGAAA
7761885 CAGTAAGCACACACAGTGCAAT
1 CAGTAAGCACACACAGTGCAAT
*
7761907 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAAGCACACACAGTGCAAT
* * *
7761930 CAGTAAGCGCACATAGCGCAAAT
1 CAGTAAGCACACACAGTGC-AAT
*
7761953 CAGTAGGCACAC
1 CAGTAAGCACAC
7761965 GAGGTGCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
22 15 0.31
23 34 0.69
ACGTcount: A:0.38, C:0.29, G:0.21, T:0.12
Consensus pattern (22 bp):
CAGTAAGCACACACAGTGCAAT
Found at i:7761985 original size:23 final size:23
Alignment explanation
Indices: 7761949--7762005 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
7761939 CACATAGCGC
* *
7761949 AAATCAGTAGGCACACGAGGTGCG
1 AAAT-AGTAAGCACACGAAGTGCG
7761973 AAATAGTAAGCACACGAAGTGCG
1 AAATAGTAAGCACACGAAGTGCG
*
7761996 AAACAGTAAG
1 AAATAGTAAG
7762006 TGCGCTAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.42, C:0.18, G:0.28, T:0.12
Consensus pattern (23 bp):
AAATAGTAAGCACACGAAGTGCG
Found at i:7767071 original size:14 final size:15
Alignment explanation
Indices: 7767052--7767081 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7767042 AATCTATAAA
7767052 AATA-TTTTAAAAAT
1 AATATTTTTAAAAAT
7767066 AATATTTTTAAAAAT
1 AATATTTTTAAAAAT
7767081 A
1 A
7767082 TAAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATTTTTAAAAAT
Found at i:7767128 original size:25 final size:25
Alignment explanation
Indices: 7767083--7767137 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
7767073 TTAAAAATAT
7767083 AAAAATATTTAAATATGTATAAATCTA
1 AAAAATATTTAAATATGTAT-AA-CTA
7767110 AAAAAT-TCTTAAA-AT-TATAACTA
1 AAAAATAT-TTAAATATGTATAACTA
7767133 AAAAA
1 AAAAA
7767138 ACTTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 8 0.30
24 2 0.07
25 3 0.11
26 3 0.11
27 11 0.41
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAATATTTAAATATGTATAACTA
Found at i:7770021 original size:18 final size:17
Alignment explanation
Indices: 7769979--7770021 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
7769969 TTTTTAAGTT
*
7769979 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
7769996 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
7770014 TATAATTT
1 TATAATTT
7770022 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:7777654 original size:22 final size:22
Alignment explanation
Indices: 7777622--7777681 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
7777612 TAATTTCAAG
*
7777622 TAAAAAGTAAAATATTAC-TCT
1 TAAAAAATAAAATATTACTTCT
7777643 TAAAAAACTAAAATATTACTTCT
1 TAAAAAA-TAAAATATTACTTCT
*
7777666 TAAAAGATAAAATATT
1 TAAAAAATAAAATATT
7777682 TTATATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 6 0.17
22 20 0.57
23 9 0.26
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.33
Consensus pattern (22 bp):
TAAAAAATAAAATATTACTTCT
Found at i:7778931 original size:13 final size:14
Alignment explanation
Indices: 7778913--7778964 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 14
7778903 AAATTCCAAC
7778913 TATAATA-ATATAA
1 TATAATATATATAA
*
7778926 TATAATTTA-ATAA
1 TATAATATATATAA
*
7778939 TATAATATTATATAT
1 TATAATA-TATATAA
*
7778954 TATAGTATATA
1 TATAATATATA
7778965 ATGTTGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 16 0.50
14 7 0.22
15 9 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
TATAATATATATAA
Found at i:7784123 original size:18 final size:18
Alignment explanation
Indices: 7784100--7784148 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7784090 TTAAATTTAA
7784100 AAAAATAAACTTATAA-AT
1 AAAAATAAA-TTATAAGAT
*
7784118 AAAAATATATTATAAGAT
1 AAAAATAAATTATAAGAT
* *
7784136 AATATTAAATTAT
1 AAAAATAAATTAT
7784149 TTACAGCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATAAATTATAAGAT
Found at i:7793116 original size:21 final size:19
Alignment explanation
Indices: 7793076--7793122 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
7793066 TTCAATTCGA
*
7793076 AAATTTTGAAAAATATTTC
1 AAATTTTGAAAAATAGTTC
7793095 AAATTTTGAATTAAATAGTTC
1 AAATTTTGAA--AAATAGTTC
*
7793116 AAGTTTT
1 AAATTTT
7793123 TTGAGTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
21 14 0.58
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (19 bp):
AAATTTTGAAAAATAGTTC
Found at i:7795617 original size:2 final size:2
Alignment explanation
Indices: 7795610--7795638 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7795600 TAATATTATG
7795610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7795639 AACTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7796329 original size:105 final size:104
Alignment explanation
Indices: 7796191--7796395 Score: 250
Period size: 105 Copynumber: 2.0 Consensus size: 104
7796181 GAGTTAGGAT
* * ** ** * *
7796191 TGAAATTTAAAATTCAAAATGTATAGAGATTAAAATGATTAAATTGGAGAACAAAAATTAAGTTT
1 TGAAATTTAAAATTCAAAATGTATAAAAATTAAAAAAATTAAATTAAAGAACAAAAACTAAATTT
* *
7796256 AAAATTTATGAATTTAAATATTATTATTTGGATCAAAAG
66 AAAACTTATAAATTTAAATATTATTATTTGGATCAAAAG
*
7796295 TGAAATTTCAAAATTCGAAAAT-TATAAAAATTAAAAAAATTAAATTAAAGAACATAAACTAAAT
1 TGAAATTT-AAAATTC-AAAATGTATAAAAATTAAAAAAATTAAATTAAAGAACAAAAACTAAAT
* * * *
7796359 TTGAAACTTATAAATTTAATTGTTATTGTTTGGATCA
64 TTAAAACTTATAAATTTAAATATTATTATTTGGATCA
7796396 TAGAATTTAA
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 8 0.10
105 71 0.85
106 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (104 bp):
TGAAATTTAAAATTCAAAATGTATAAAAATTAAAAAAATTAAATTAAAGAACAAAAACTAAATTT
AAAACTTATAAATTTAAATATTATTATTTGGATCAAAAG
Found at i:7801850 original size:54 final size:54
Alignment explanation
Indices: 7801768--7801875 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
7801758 AAGGGGACTG
7801768 CTCCAATTGGACTTTGGAAACTGACCAGTGAGTTTAGGGTTTTCATCCAAACTC
1 CTCCAATTGGACTTTGGAAACTGACCAGTGAGTTTAGGGTTTTCATCCAAACTC
7801822 CTCCAATTGGACTTTGGAAACTGACCAGTGAGTTTAGGGTTTTCATCCAAACTC
1 CTCCAATTGGACTTTGGAAACTGACCAGTGAGTTTAGGGTTTTCATCCAAACTC
7801876 AGGTACTCGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (54 bp):
CTCCAATTGGACTTTGGAAACTGACCAGTGAGTTTAGGGTTTTCATCCAAACTC
Found at i:7804623 original size:15 final size:15
Alignment explanation
Indices: 7804603--7804635 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7804593 ATAAAATTTT
7804603 AAATTAATAATGGTA
1 AAATTAATAATGGTA
*
7804618 AAATTAGTAATGGTA
1 AAATTAATAATGGTA
7804633 AAA
1 AAA
7804636 ATATATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (15 bp):
AAATTAATAATGGTA
Found at i:7806135 original size:58 final size:56
Alignment explanation
Indices: 7805941--7806139 Score: 150
Period size: 59 Copynumber: 3.4 Consensus size: 56
7805931 TAATTTGGGT
*
7805941 TTTTAGGGGTAAAACGGTAATTTTTGTGAAATCGGGGCTAAAAATG-GAATTTGGAAAG
1 TTTT-GGGGTAAAACGGTAATTTTGGTGAAATCGGGG-TAAAAATGAG-ATTTGGAAAG
* ** * ** * *
7805999 -TTTGGGGAATAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATAAAATTTTGGAAAG
1 TTTTGGGG--TAAAACGGT-AATTTTGGTGAAATCGGGGT-AAAAATGAGA-TTTGGAAAG
** * * * *
7806059 TTCAGAGGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAATGAGATTTAGGGAAG
1 TTTTGGGGTAAAACGGTAA-TTTTGGTGAAATCGGGGTAAAAATGAGATTT-GGAAAG
*
7806117 TTTTGGGGTAAAATGGTAATTTT
1 TTTTGGGGTAAAACGGTAATTTT
7806140 TGAAAGTTTC
Statistics
Matches: 104, Mismatches: 28, Indels: 19
0.69 0.19 0.13
Matches are distributed among these distances:
56 4 0.04
57 10 0.10
58 37 0.36
59 40 0.38
60 9 0.09
61 4 0.04
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (56 bp):
TTTTGGGGTAAAACGGTAATTTTGGTGAAATCGGGGTAAAAATGAGATTTGGAAAG
Found at i:7806141 original size:58 final size:57
Alignment explanation
Indices: 7805941--7806141 Score: 156
Period size: 58 Copynumber: 3.4 Consensus size: 57
7805931 TAATTTGGGT
7805941 TTTTAGGGGTAAAACGGTAATTTTT-GTGAAATCGGGGCTAAAAATG-GAATTTGGAAAG
1 TTTT-GGGGTAAAACGGTAATTTTTGGTGAAATCGGGG-TAAAAATGAG-ATTTGGAAAG
* * ** * ** * *
7805999 -TTTGGGGAATAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATAAAATTTTGGAAAG
1 TTTTGGGG--TAAAACGGTAATTTTTGGTGAAATCGGGGT-AAAAATGAGA-TTTGGAAAG
** * * * * *
7806059 TTCAGAGGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAATGAGATTTAGGGAAG
1 TTTTGGGGTAAAACGGTAATTTTTGGTGAAATCGGGGTAAAAATGAGATTT-GGAAAG
*
7806117 TTTTGGGGTAAAATGGTAATTTTTG
1 TTTTGGGGTAAAACGGTAATTTTTG
7806142 AAAGTTTCGG
Statistics
Matches: 105, Mismatches: 30, Indels: 16
0.70 0.20 0.11
Matches are distributed among these distances:
56 4 0.04
57 6 0.06
58 46 0.44
59 36 0.34
60 9 0.09
61 4 0.04
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (57 bp):
TTTTGGGGTAAAACGGTAATTTTTGGTGAAATCGGGGTAAAAATGAGATTTGGAAAG
Found at i:7806214 original size:60 final size:58
Alignment explanation
Indices: 7806114--7806349 Score: 251
Period size: 60 Copynumber: 3.9 Consensus size: 58
7806104 AGATTTAGGG
* * * * *
7806114 AAGTTTTGGGGT-AAAATGGTAATTTTTGAAAGTTTCGGGGTTAAAGTATAA-TTTTGGAA
1 AAGTTTT-GGGTCAAAAT-GTAATTTTAGAAAGTTTTGGGGTTAAAATGTAATTTTTAG-A
* *
7806173 AAGTTTTGGAGCCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTGG-GTCAAAATGTAATTTTAG-AAAGTTTTGGGGTTAAAATGTAATTTTTAGA
* * *
7806233 AAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTTAGA
1 AAGTTTT-GGGTCAAAATGTAATTTTAG-AAAGTTTTGGGGTTAAAATGTAATTTTTAGA
* ** *
7806293 AAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTTAAGGTTGAAATGTAATTTTT
1 AAGTTTT-GGGTCAAAATGTAA-TTTTAGAAAGTTTTGGGGTTAAAATGTAATTTTT
7806350 GGACAATTTA
Statistics
Matches: 151, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
58 2 0.01
59 17 0.11
60 120 0.79
61 12 0.08
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (58 bp):
AAGTTTTGGGTCAAAATGTAATTTTAGAAAGTTTTGGGGTTAAAATGTAATTTTTAGA
Found at i:7806261 original size:90 final size:89
Alignment explanation
Indices: 7806114--7806361 Score: 322
Period size: 90 Copynumber: 2.8 Consensus size: 89
7806104 AGATTTAGGG
** *
7806114 AAGTTTTGGGGTAAAATGGTAATTTTT-GAAAGTTTCGGGGTTAAAGTATAATTTTGGAAAAGTT
1 AAGTTTTGGGGTAAAAT-GTAATTTTTAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTT
*
7806178 TTGGAGCCAAAATGTAA-TTTTAGAA
65 TAGGAGCCAAAATGTAATTTTTAG-A
*
7806203 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTT
1 AAGTTTTGGGGT-AAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTT
* **
7806268 TAGGGGTTAAAATGTAATTTTTAGA
65 TAGGAGCCAAAATGTAATTTTTAGA
* * * *
7806293 AAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTTAAGGTTGAAATGTAATTTTTGGACAA-T
1 AAGTTTTGGGG-TAAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATATAA-TTTTGGAAAAGT
7806357 TTAGG
64 TTAGG
7806362 GACTTACAAA
Statistics
Matches: 141, Mismatches: 13, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
89 21 0.15
90 104 0.74
91 16 0.11
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.39
Consensus pattern (89 bp):
AAGTTTTGGGGTAAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTT
AGGAGCCAAAATGTAATTTTTAGA
Found at i:7806349 original size:30 final size:30
Alignment explanation
Indices: 7806114--7806349 Score: 225
Period size: 30 Copynumber: 7.9 Consensus size: 30
7806104 AGATTTAGGG
*
7806114 AAGTTTT-GGGGTAAAATGGTAATTTTT-GA
1 AAGTTTTAGGGTTAAAAT-GTAATTTTTAGA
** * * *
7806143 AAGTTTCGGGGTTAAAGTATAA-TTTTGGAA
1 AAGTTTTAGGGTTAAAATGTAATTTTTAG-A
**
7806173 AAGTTTT-GGAGCCAAAATGTAA-TTTTAGAA
1 AAGTTTTAGG-GTTAAAATGTAATTTTTAG-A
* *
7806203 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTAGGGTTAAAATGTAATTTTTAGA
* * *
7806233 AAGTTTTAGGGTCAAAATATAA-TTTTGGAA
1 AAGTTTTAGGGTTAAAATGTAATTTTTAG-A
7806263 AAG-TTTAGGGGTTAAAATGTAATTTTTAGA
1 AAGTTTTA-GGGTTAAAATGTAATTTTTAGA
*
7806293 AAGTTTTGGGGTTAAAATGTAATTTTTAGA
1 AAGTTTTAGGGTTAAAATGTAATTTTTAGA
* *
7806323 AAGTTTTAAGGTTGAAATGTAATTTTT
1 AAGTTTTAGGGTTAAAATGTAATTTTT
7806350 GGACAATTTA
Statistics
Matches: 176, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
28 4 0.02
29 21 0.12
30 135 0.77
31 16 0.09
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (30 bp):
AAGTTTTAGGGTTAAAATGTAATTTTTAGA
Found at i:7808169 original size:6 final size:6
Alignment explanation
Indices: 7808160--7808266 Score: 86
Period size: 6 Copynumber: 19.0 Consensus size: 6
7808150 TTAATATTAT
* *
7808160 TTTAAA TTT-AA -TCAAA TTTAAA TTTAAA -GTAAA TTTAAA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
7808203 TTTAAA TTTAAA TTTAAGA --TAAA TTTAAA TCTAAA -TAAAA TTTAAA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
7808249 ATTAAT TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA
7808267 AATCAAAGTC
Statistics
Matches: 79, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
4 6 0.08
5 14 0.18
6 58 0.73
7 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:7808192 original size:27 final size:27
Alignment explanation
Indices: 7808162--7808214 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
7808152 AATATTATTT
7808162 TAAATTT-AATCAAATTTAAATTTAAAG
1 TAAATTTAAAT-AAATTTAAATTTAAAG
7808189 TAAATTTAAATAAATTTAAATTTAAA
1 TAAATTTAAATAAATTTAAATTTAAA
7808215 TTTAAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
TAAATTTAAATAAATTTAAATTTAAAG
Found at i:7808193 original size:17 final size:16
Alignment explanation
Indices: 7808160--7808253 Score: 95
Period size: 17 Copynumber: 5.7 Consensus size: 16
7808150 TTAATATTAT
7808160 TTTAAATTT-AATCAAA
1 TTTAAATTTAAAT-AAA
7808176 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
7808193 TTTAAA--TAAATTTAAA
1 TTTAAATTTAAA--TAAA
7808209 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
*
7808226 TTTAAATCTAAATAAAA
1 TTTAAATTTAAAT-AAA
*
7808243 TTTAAAATTAA
1 TTTAAATTTAA
7808254 TTTTAAACTT
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
15 4 0.06
16 21 0.31
17 37 0.55
18 4 0.06
19 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:7808194 original size:11 final size:11
Alignment explanation
Indices: 7808178--7808231 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
7808168 TAATCAAATT
7808178 TAAATTTAAAG
1 TAAATTTAAAG
7808189 TAAATTTAAA-
1 TAAATTTAAAG
*
7808199 TAAATTTAAATT
1 TAAATTTAAA-G
7808211 TAAATTT-AAG
1 TAAATTTAAAG
7808221 ATAAATTTAAA
1 -TAAATTTAAA
7808232 TCTAAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 10 0.26
11 19 0.50
12 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAG
Found at i:7808197 original size:33 final size:34
Alignment explanation
Indices: 7808160--7808253 Score: 113
Period size: 33 Copynumber: 2.8 Consensus size: 34
7808150 TTAATATTAT
* *
7808160 TTTAAATTTAATCAAATTTAAATTTAAAG-TAAA
1 TTTAAATTAAATAAAATTTAAATTTAAAGATAAA
*
7808193 TTTAAA-TAAATTTAAATTTAAATTT-AAGATAAA
1 TTTAAATTAAA-TAAAATTTAAATTTAAAGATAAA
*
7808226 TTTAAATCTAAATAAAATTTAAAATTAA
1 TTTAAAT-TAAATAAAATTTAAATTTAA
7808254 TTTTAAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
32 6 0.12
33 29 0.56
34 12 0.23
35 5 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (34 bp):
TTTAAATTAAATAAAATTTAAATTTAAAGATAAA
Found at i:7808225 original size:27 final size:27
Alignment explanation
Indices: 7808173--7808226 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7808163 AAATTTAATC
**
7808173 AAATTTAAATTTAAAGTAAATTTAAAT
1 AAATTTAAATTTAAAGTAAAGATAAAT
* *
7808200 AAATTTAAATTTAAATTTAAGATAAAT
1 AAATTTAAATTTAAAGTAAAGATAAAT
7808227 TTAAATCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (27 bp):
AAATTTAAATTTAAAGTAAAGATAAAT
Found at i:7808853 original size:76 final size:69
Alignment explanation
Indices: 7808803--7809502 Score: 884
Period size: 69 Copynumber: 9.9 Consensus size: 69
7808793 AAGATCTTGT
* * *
7808803 TCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGATGACG
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACG
*
7808868 TTAC
66 TTGC
* *
7808872 TCTTACTTCAATTTCAGAGATTAAGACGTGTTATCCATCTCTACTTCAATTTCAAGCGGATAGGA
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGAT--G-
*
7808937 AACGATGTTAC
63 -AC---GTTGC
* *
7808948 TCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACG
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACG
7809013 TTGC
66 TTGC
* * * * *
7809017 TCTTACTTTAATTTCAGAGATAAAGACGTGTTGTCCAACTCGACTTCAATTTCAAGCAGATAAGA
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGAT--G-
* *
7809082 AAAGATCTTGT
63 -ACG---TTGC
* * *
7809093 TCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGATGACG
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACG
*
7809158 TTAC
66 TTGC
* *
7809162 TCTTACTTCAATTTCAGAGATTAAGACGTGTTATCCATCTCTACTTCAATTTCAAGCGGATAGGA
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGC-----GG-
* *
7809227 AATGATGTTAC
60 -ATGACGTTGC
* * *
7809238 TCTTACTTCAATTTCAGAGATGAAGACTTGTTATCAAACTCTACTTCAATTTCAAGGGGATGACG
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACG
7809303 TTGC
66 TTGC
* * *
7809307 TCTTATTTCAATTTCAGAGATGAAGACATGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACG
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACG
7809371 TTGC
66 TTGC
* *
7809375 TCTTACTTCAATTTCAGAGACGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACG
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACG
7809439 TTGC
66 TTGC
* *
7809443 TCTTACTTTAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT
1 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGAT
7809503 TGGAAATGAT
Statistics
Matches: 563, Mismatches: 47, Indels: 43
0.86 0.07 0.07
Matches are distributed among these distances:
68 155 0.28
69 211 0.37
71 4 0.01
72 4 0.01
73 4 0.01
74 4 0.01
76 181 0.32
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (69 bp):
TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACG
TTGC
Found at i:7808918 original size:145 final size:144
Alignment explanation
Indices: 7808586--7809516 Score: 1297
Period size: 145 Copynumber: 6.5 Consensus size: 144
7808576 TCATCTTACT
* * * * *
7808586 CTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAT
1 CTTCAATTTCAGA--GATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGCGGATAGGAAAT
* * *
7808651 GATCTTGCTCCTACTTCAATTTCTGAGATAAAGACTTGTTATCC-ACCCTACTTCAATTTCAAGA
63 GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
7808715 GGATGACGTTGCTCTTA
128 GGATGACGTTGCTCTTA
* * *
7808732 CTTCAATTTCAGAGATAAAGACGTGTTGTCCAACTCGACTTCAATTTCAAGCGGATAGGAAAAGA
1 CTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATAGGAAATGA
* * *
7808797 TCTTGTTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGG
65 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
*
7808862 ATGACGTTACTCTTA
130 ATGACGTTGCTCTTA
* *
7808877 CTTCAATTTCAGAGATTAAGACGTGTTATCCATCTCTACTTCAATTTCAAGCGGATAGGAAACGA
1 CTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGCGGATAGGAAATGA
* * *
7808942 TGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
65 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
7809007 ATGACGTTGCTCTTA
130 ATGACGTTGCTCTTA
* * * * * *
7809022 CTTTAATTTCAGAGATAAAGACGTGTTGTCCAACTCGACTTCAATTTCAAGCAGATAAGAAAAGA
1 CTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATAGGAAATGA
* * *
7809087 TCTTGTTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGG
65 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
*
7809152 ATGACGTTACTCTTA
130 ATGACGTTGCTCTTA
*
7809167 CTTCAATTTCAGAGATTAAGACGTGTTATCCATCTCTACTTCAATTTCAAGCGGATAGGAAATGA
1 CTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGCGGATAGGAAATGA
* * * * *
7809232 TGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCAAACTCTACTTCAATTTCAAGGGG
65 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
7809297 ATGACGTTGCTCTTA
130 ATGACGTTGCTCTTA
* * *
7809312 TTTCAATTTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAA--GG---GG--ATGA-
1 CTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATAGGAAATGAT
** * *
7809369 CGTTGCTCTTACTTCAATTTCAGAGACGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGG
66 C-TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
7809433 ATGACGTTGCTCTTA
130 ATGACGTTGCTCTTA
* * * *
7809448 CTTTAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATTGGAAATGAT
1 CTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATAGGAAATGAT
7809513 CTTG
66 CTTG
7809517 TTGGTCTGAT
Statistics
Matches: 705, Mismatches: 66, Indels: 31
0.88 0.08 0.04
Matches are distributed among these distances:
136 83 0.12
137 40 0.06
138 2 0.00
139 2 0.00
141 2 0.00
142 2 0.00
143 7 0.01
144 100 0.14
145 453 0.64
146 14 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (144 bp):
CTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATAGGAAATGAT
CTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGA
TGACGTTGCTCTTA
Found at i:7821328 original size:59 final size:55
Alignment explanation
Indices: 7821252--7821445 Score: 163
Period size: 59 Copynumber: 3.3 Consensus size: 55
7821242 TTTTTTTTTA
*
7821252 GGGGTAAAACGGTAATTTTTGTGAAATCGGGGCTAAAAATGGAATTTGGAAAGTTT
1 GGGGTAAAACGGTAATTTTGGTGAAATCGGGG-TAAAAATGGAATTTGGAAAGTTT
* ** * ** * *
7821308 GGGGAATAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTCA
1 GGGG--TAAAACGGT-AATTTTGGTGAAATCGGGGT-AAAAATGGAA-TTTGGAAAGTT-T
* * * * *
7821369 GAGGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAATGGGATTTAGGGAAGTTT
1 GGGGTAAAACGGTAA-TTTTGGTGAAATCGGGGTAAAAATGGAATTT-GGAAAGTTT
*
7821426 GGGGGTAAAATGGTAATTTT
1 -GGGGTAAAACGGTAATTTT
7821446 TGAAAGTTTC
Statistics
Matches: 104, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
56 4 0.04
57 7 0.07
58 37 0.36
59 42 0.40
60 11 0.11
61 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.30, T:0.28
Consensus pattern (55 bp):
GGGGTAAAACGGTAATTTTGGTGAAATCGGGGTAAAAATGGAATTTGGAAAGTTT
Found at i:7821330 original size:58 final size:55
Alignment explanation
Indices: 7821252--7821450 Score: 152
Period size: 58 Copynumber: 3.5 Consensus size: 55
7821242 TTTTTTTTTA
*
7821252 GGGGTAAAACGGTAATTTTTGTGAAATCGGGGCTAAAAATGGAATTTGGAAAGTTT
1 GGGGTAAAACGGTAAATTTTGTGAAATCGGGG-TAAAAATGGAATTTGGAAAGTTT
* * ** * *
7821308 GGGGAATAAAATGGTAAATTTTG-GCAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTCA
1 GGGG--TAAAACGGTAAATTTTGTG--AAATCGGGGT-AAAAATGGAA-TTTGGAAAGTT-T
* * * * * *
7821369 GAGGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAATGGGATTTAGGGAAGTTT
1 GGGGTAAAACGGTAAATTTT-GTGAAATCGGGGTAAAAATGGAATTT-GGAAAGTTT
*
7821426 GGGGGTAAAATGGT-AATTTT-TGAAA
1 -GGGGTAAAACGGTAAATTTTGTGAAA
7821451 GTTTCAGGGT
Statistics
Matches: 109, Mismatches: 23, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
55 5 0.05
56 4 0.04
57 9 0.08
58 40 0.37
59 35 0.32
60 12 0.11
61 4 0.04
ACGTcount: A:0.37, C:0.05, G:0.30, T:0.28
Consensus pattern (55 bp):
GGGGTAAAACGGTAAATTTTGTGAAATCGGGGTAAAAATGGAATTTGGAAAGTTT
Found at i:7821751 original size:119 final size:120
Alignment explanation
Indices: 7821478--7821774 Score: 420
Period size: 119 Copynumber: 2.5 Consensus size: 120
7821468 TAATTTTGGA
* * * * * *
7821478 AAAGTTTTAGAGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGCATTTTTTAAAAAGT
1 AAAGTTTTAGGGTCAAAATATAATTTTTGAAAAGTTTTGGGGTCAAAATGTAATTTTTAAAAAGT
* * * *
7821543 TTTAGGGTTAAAATATAATTTTGAAAAAGTTTTGGGGTCAAAATGTAGTTTTTAG
66 TTGAGGGTTAAAATATAATTTTGAAAAAATTTAGGGGTCAAAATGTAATTTTTAG
* *
7821598 AAAGTTTTAGGGTCAAAATATAATTTTTGAAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAAGT
1 AAAGTTTTAGGGTCAAAATATAATTTTTGAAAAGTTTTGGGGTCAAAATGTAATTTTTAAAAAGT
7821663 TTCGA-GGTTAAAATATAATTTT-AAAAAATTTAGGGGTCAAAATGTAATTTTTAG
66 TT-GAGGGTTAAAATATAATTTTGAAAAAATTTAGGGGTCAAAATGTAATTTTTAG
* * *
7821717 AAAGTTTTGGGGTCGAAATATAATTTTT-AGAAAGTTTTGGGGTCGAAATGTAATTTTT
1 AAAGTTTTAGGGTCAAAATATAATTTTTGA-AAAGTTTTGGGGTCAAAATGTAATTTTT
7821775 GGACAATTTA
Statistics
Matches: 159, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
118 1 0.01
119 81 0.51
120 76 0.48
121 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (120 bp):
AAAGTTTTAGGGTCAAAATATAATTTTTGAAAAGTTTTGGGGTCAAAATGTAATTTTTAAAAAGT
TTGAGGGTTAAAATATAATTTTGAAAAAATTTAGGGGTCAAAATGTAATTTTTAG
Found at i:7821774 original size:30 final size:30
Alignment explanation
Indices: 7821420--7821774 Score: 335
Period size: 30 Copynumber: 11.9 Consensus size: 30
7821410 GGATTTAGGG
*
7821420 AAGTTTGGGGGT-AAAATGGTAATTTTT-GA
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTAGA
** * * * *
7821449 AAGTTTCAGGGTTAAAGTATAA-TTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-A
* * * *
7821479 AAGTTTTAGAGTTAAAATGTAA-TTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-A
* * *
7821509 AAGTTTTGGGGTCAAAATGCATTTTTTAAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
* * * * *
7821539 AAGTTTTAGGGTTAAAATATAATTTTGAAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
*
7821569 AAGTTTTGGGGTCAAAATGTAGTTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
* *
7821599 AAGTTTTAGGGTCAAAATATAATTTTT-GAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-A
*
7821629 AAGTTTTAGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
* * * * *
7821659 AAGTTTCGAGGTTAAAATATAA-TTTTAAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
* *
7821688 AAATTTAGGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
* *
7821718 AAGTTTTGGGGTCGAAATATAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
*
7821748 AAGTTTTGGGGTCGAAATGTAATTTTT
1 AAGTTTTGGGGTCAAAATGTAATTTTT
7821775 GGACAATTTA
Statistics
Matches: 271, Mismatches: 48, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.01
29 38 0.14
30 224 0.83
31 5 0.02
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTAGA
Found at i:7823613 original size:6 final size:6
Alignment explanation
Indices: 7823589--7823692 Score: 69
Period size: 6 Copynumber: 18.0 Consensus size: 6
7823579 TAATATTATT
* *
7823589 TTTAAA -TTAAA -TT-AA TTTAAA TTTAAA -GTAAA TTTAAA TAAATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
* * * *
7823635 TTTAAA TTTAAGA --TAAA TTTAAA TCTAAA -TAAAA TTTAAA ATTAAT
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
7823681 TTTAAA CTTAAA
1 TTTAAA TTTAAA
7823693 AATCAAAGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
4 3 0.04
5 19 0.25
6 48 0.63
7 1 0.01
8 5 0.07
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:7823614 original size:11 final size:11
Alignment explanation
Indices: 7823589--7823682 Score: 59
Period size: 11 Copynumber: 8.7 Consensus size: 11
7823579 TAATATTATT
*
7823589 TTTAAATTAAA
1 TTTAATTTAAA
7823600 -TTAATTTAAA
1 TTTAATTTAAA
**
7823610 TTTAAAGTAAA
1 TTTAATTTAAA
*
7823621 TTTAA-ATAAA
1 TTTAATTTAAA
*
7823631 -TAAATTTAAA
1 TTTAATTTAAA
**
7823641 TTTAAGATAAA
1 TTTAATTTAAA
*
7823652 TTTAAATCTAAA
1 TTT-AATTTAAA
**
7823664 TAAAATTTAAA
1 TTTAATTTAAA
*
7823675 ATTAATTT
1 TTTAATTT
7823683 TAAACTTAAA
Statistics
Matches: 62, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
9 3 0.05
10 17 0.27
11 35 0.56
12 7 0.11
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:7823622 original size:17 final size:16
Alignment explanation
Indices: 7823589--7823679 Score: 107
Period size: 17 Copynumber: 5.7 Consensus size: 16
7823579 TAATATTATT
*
7823589 TTTAAA-TTAAATTAA
1 TTTAAATTTAAATAAA
7823604 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
7823621 TTTAAA--TAAATAAA
1 TTTAAATTTAAATAAA
7823635 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
*
7823652 TTTAAATCTAAATAAAA
1 TTTAAATTTAAAT-AAA
*
7823669 TTTAAAATTAA
1 TTTAAATTTAA
7823680 TTTTAAACTT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
14 10 0.15
15 10 0.15
16 10 0.15
17 36 0.55
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:7830221 original size:21 final size:21
Alignment explanation
Indices: 7830195--7830235 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7830185 AACTTTTTTA
*
7830195 AAGTTAAAAGTCAAAACCATG
1 AAGTTAAAAGGCAAAACCATG
7830216 AAGTTAAAAGGCAAAACCAT
1 AAGTTAAAAGGCAAAACCAT
7830236 TATATAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.17
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATG
Found at i:7832986 original size:113 final size:114
Alignment explanation
Indices: 7832779--7833011 Score: 425
Period size: 113 Copynumber: 2.1 Consensus size: 114
7832769 GACTTATTAA
*
7832779 TCAAATATATAATGATCTCCCATCTAAATATTCAACATAGAAACTTCTGGTAGCGGATCTCTTTA
1 TCAAATATATAATGATCTCCCATCTAAATATTCAACATAGAAACTTCTGGTAGCAGATCTCTTTA
7832844 TATACAATTTTATCCATTATTTTGA-TTTTTTTTTCTCTCATCTTTATG
66 TATACAATTTTATCCATTATTTTGATTTTTTTTTTCTCTCATCTTTATG
7832892 TCAAATATATAATGATCTCCCATCTAAATATTCAACATAGAAACTTCTGGTAGCAGATCTCTTTA
1 TCAAATATATAATGATCTCCCATCTAAATATTCAACATAGAAACTTCTGGTAGCAGATCTCTTTA
*
7832957 TATGCAATTTTAT-CATTATTTTGATTTTTTTTTTTCTCTCATCTTTATG
66 TATACAATTTTATCCATTATTTTGA-TTTTTTTTTTCTCTCATCTTTATG
7833006 TCAAAT
1 TCAAAT
7833012 TACTAGGCAG
Statistics
Matches: 116, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
112 11 0.09
113 76 0.66
114 29 0.25
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (114 bp):
TCAAATATATAATGATCTCCCATCTAAATATTCAACATAGAAACTTCTGGTAGCAGATCTCTTTA
TATACAATTTTATCCATTATTTTGATTTTTTTTTTCTCTCATCTTTATG
Found at i:7840638 original size:3 final size:3
Alignment explanation
Indices: 7840630--7840675 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
7840620 AAGTCAATGT
7840630 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7840676 ATTGTTAGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7841607 original size:16 final size:16
Alignment explanation
Indices: 7841586--7841616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7841576 TTGGATATAT
*
7841586 ATGAATTGATGATGAG
1 ATGAATTGATAATGAG
7841602 ATGAATTGATAATGA
1 ATGAATTGATAATGA
7841617 TGATACATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGAATTGATAATGAG
Found at i:7841812 original size:43 final size:43
Alignment explanation
Indices: 7841754--7841853 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
7841744 GATGTACTTC
* * * * ** *
7841754 GTGTTCCAATTTATTTTCTTTGGTTTGTGC-GATTTTGCACTGT
1 GTGTGCCAATATATTTGCTTTGGTTCGT-CTGATGATGCACTAT
7841797 GTGTGCCAATATATTTGCTTTGGTTCGTCTGATGATGCACTAT
1 GTGTGCCAATATATTTGCTTTGGTTCGTCTGATGATGCACTAT
*
7841840 GTGTGCTAATATAT
1 GTGTGCCAATATAT
7841854 GTTTAATCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.17, C:0.14, G:0.22, T:0.47
Consensus pattern (43 bp):
GTGTGCCAATATATTTGCTTTGGTTCGTCTGATGATGCACTAT
Found at i:7846989 original size:40 final size:40
Alignment explanation
Indices: 7846934--7847083 Score: 210
Period size: 40 Copynumber: 3.8 Consensus size: 40
7846924 GAACAATTAT
7846934 AATTGGCAGTGACACTATAAACACTGCAATGCTATTACTG
1 AATTGGCAGTGACACTATAAACACTGCAATGCTATTACTG
* *
7846974 AATTGGCAATAACACTATAAACACTGCAATGCTATTACTG
1 AATTGGCAGTGACACTATAAACACTGCAATGCTATTACTG
* * * **
7847014 AACTGGCAGTGACACTGTAAACACTACAATATTATTACTG
1 AATTGGCAGTGACACTATAAACACTGCAATGCTATTACTG
* * *
7847054 AATTGACAGTGACACTGTAAACATTGCAAT
1 AATTGGCAGTGACACTATAAACACTGCAAT
7847084 ATTGCTATTG
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (40 bp):
AATTGGCAGTGACACTATAAACACTGCAATGCTATTACTG
Done.