Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 178 of 253
Found at i:58039817 original size:26 final size:26
Alignment explanation
Indices: 58039786--58039883 Score: 160
Period size: 26 Copynumber: 3.8 Consensus size: 26
58039776 TGAAATGCCC
*
58039786 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
58039812 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
58039838 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
58039864 ATCATGGAACATTTACCTAA
1 ATCATGGAACATTTACCTAA
58039884 CATATTATCA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:58043270 original size:12 final size:12
Alignment explanation
Indices: 58043245--58043340 Score: 55
Period size: 12 Copynumber: 8.4 Consensus size: 12
58043235 ATCTAAAAGA
58043245 TAAATATTAAAT
1 TAAATATTAAAT
58043257 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
58043269 TAAGATAATCAAT
1 TAA-ATATTAAAT
*
58043282 TTAATATTAAAT
1 TAAATATTAAAT
58043294 T-AATA--AAA-
1 TAAATATTAAAT
* *
58043302 T-ACTATCAAA-
1 TAAATATTAAAT
*
58043312 TAAGTATTAAAT
1 TAAATATTAAAT
58043324 TAAAT-TTAATAT
1 TAAATATTAA-AT
58043336 TAAAT
1 TAAAT
58043341 TTATCAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
8 4 0.06
9 3 0.04
10 4 0.06
11 19 0.28
12 29 0.43
13 6 0.09
14 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:58043297 original size:20 final size:19
Alignment explanation
Indices: 58043247--58043299 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
58043237 CTAAAAGATA
58043247 AATATTAAATT-A-AATTT
1 AATATTAAATTAATAATTT
58043264 AATATTAAGA-TAATCAATTT
1 AATATTAA-ATTAAT-AATTT
58043284 AATATTAAATTAATAA
1 AATATTAAATTAATAA
58043300 AATACTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 3 0.10
20 17 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:58046419 original size:55 final size:55
Alignment explanation
Indices: 58046293--58046426 Score: 191
Period size: 55 Copynumber: 2.4 Consensus size: 55
58046283 TCGATTTCAT
* *
58046293 TTTTCATTTTCATTTTAGAGAAAACCACATTCATTTTCAAATGATTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCACATTCACTTTCAAATGATTATTTCTCCA
*
58046348 TTTTCATTTTCATTTTGGAGAAAACCATA-TCACTTTCAAATGATTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCACATTCACTTTCAAATGATT-ATTTCTCCA
* *
58046403 TTCTT-ATTTTTATTTTGGAAAAAA
1 TT-TTCATTTTCATTTTGGAGAAAA
58046427 AACTATAATC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
54 15 0.21
55 55 0.76
56 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (55 bp):
TTTTCATTTTCATTTTGGAGAAAACCACATTCACTTTCAAATGATTATTTCTCCA
Found at i:58047575 original size:35 final size:35
Alignment explanation
Indices: 58047534--58047603 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
58047524 ATGGTGTCAA
*
58047534 AGCATGAAATATTTGTTAAGTGAGTTTGTGTCTGT
1 AGCATGAAATATTTGTTAAATGAGTTTGTGTCTGT
58047569 AGCATGAAATATTTGTTAAATGAGTTTGTGTCTGT
1 AGCATGAAATATTTGTTAAATGAGTTTGTGTCTGT
58047604 CTCCGCGGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (35 bp):
AGCATGAAATATTTGTTAAATGAGTTTGTGTCTGT
Found at i:58051519 original size:19 final size:20
Alignment explanation
Indices: 58051495--58051534 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
58051485 AAACTTGTTG
58051495 AATTTTTATATTTAG-GTCA
1 AATTTTTATATTTAGAGTCA
58051514 AATTTTTATATTTAGAGTCA
1 AATTTTTATATTTAGAGTCA
58051534 A
1 A
58051535 GTTAATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
AATTTTTATATTTAGAGTCA
Found at i:58053818 original size:21 final size:20
Alignment explanation
Indices: 58053781--58053821 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
58053771 TTGAAGAAAA
58053781 ATAAAAAATAAAAATATTTT
1 ATAAAAAATAAAAATATTTT
* *
58053801 ATAAAATAATATATATATTTT
1 ATAAAA-AATAAAAATATTTT
58053822 TTGATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAAAATAAAAATATTTT
Found at i:58057034 original size:20 final size:18
Alignment explanation
Indices: 58057011--58057050 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
58057001 GTTTTGGTAA
58057011 AATTCTTATCGAAAATAATT
1 AATTCTTAT--AAAATAATT
*
58057031 AATTTTTATAAAATAATT
1 AATTCTTATAAAATAATT
58057049 AA
1 AA
58057051 AATTGTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTCTTATAAAATAATT
Found at i:58057054 original size:20 final size:21
Alignment explanation
Indices: 58057008--58057054 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
58056998 ACAGTTTTGG
58057008 TAAAATTCTTATCGAAAATAAT
1 TAAAATTCTTATC-AAAATAAT
*
58057030 T--AATTTTTAT-AAAATAAT
1 TAAAATTCTTATCAAAATAAT
58057048 TAAAATT
1 TAAAATT
58057055 GTACTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 9 0.41
20 12 0.55
22 1 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATTCTTATCAAAATAAT
Found at i:58058548 original size:25 final size:25
Alignment explanation
Indices: 58058518--58058566 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
58058508 AATAATTCTA
58058518 AGTTAAGAAATGTAACTAATCTAAG
1 AGTTAAGAAATGTAACTAATCTAAG
58058543 AGTTAAGAAATGTAACTAATCTAA
1 AGTTAAGAAATGTAACTAATCTAA
58058567 CACAATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (25 bp):
AGTTAAGAAATGTAACTAATCTAAG
Found at i:58065779 original size:29 final size:29
Alignment explanation
Indices: 58065737--58065808 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
58065727 ACACGGCCTG
58065737 GCACACGGGAGTGTATGACCATTTTTACC
1 GCACACGGGAGTGTATGACCATTTTTACC
58065766 GCACACGGGAGTGTATGACCATTTTTACC
1 GCACACGGGAGTGTATGACCATTTTTACC
*
58065795 GCACACGGGCGTGT
1 GCACACGGGAGTGT
58065809 CTGTTGGCCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (29 bp):
GCACACGGGAGTGTATGACCATTTTTACC
Found at i:58077480 original size:46 final size:46
Alignment explanation
Indices: 58077419--58077783 Score: 234
Period size: 48 Copynumber: 7.7 Consensus size: 46
58077409 CGATATGAGA
*
58077419 GTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCCTCGATATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGT
* *
58077465 GTCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGGTATATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTC-G-ATATGT
* * * * *
58077513 GAGCCAGTGTAAGACCATTTCTGAGACATGGCATCGGCCTCAATATGT
1 --GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGT
* * * * * * * * *
58077561 GTCAGTGTAATACCATATTTGGAACAAGGCATCGGCATTGTTATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGT
* ** * *
58077607 GAGCCAGTGTAAGACCACATCTGGGACATGGCATCAGCCTCAATATGCGA
1 --GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATAT--GT
* * * * *** * *
58077657 GCCAGTGTAAGACCATGTTTGGAACATGGAATCATTGT-TAAATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGT
* * * *
58077702 GTCAGTTTAAGACCATGTCT-GGACAAGGCATCGGCAC-CGATGTATGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGA--TAT--GT
* * *
58077751 GCCAGTGTAAGACTATGTCCGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
58077784 GGCATTTTAT
Statistics
Matches: 242, Mismatches: 60, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
44 9 0.04
45 19 0.08
46 69 0.29
47 7 0.03
48 75 0.31
49 18 0.07
50 45 0.19
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (46 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGT
Found at i:58077559 original size:96 final size:95
Alignment explanation
Indices: 58077411--58077685 Score: 345
Period size: 96 Copynumber: 2.9 Consensus size: 95
58077401 GACCATTGCG
* * * * * *
58077411 ATATGAGAGTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCCTCGATATGTGTCAATGTAAG
1 ATATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCCTCAATATGTGTCAGTGTAAG
* *
58077476 ACCATGTCTGGGACATGGCATCGGCACCGGT
66 ACCATGTTTGGAACATGGCATCGGCA-CGGT
* * * *
58077507 ATATGTGAGCCAGTGTAAGACCATTTCTGAGACATGGCATCGGCCTCAATATGTGTCAGTGTAAT
1 ATATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCCTCAATATGTGTCAGTGTAAG
* * **
58077572 ACCATATTTGGAACAAGGCATCGGCATTGT
66 ACCATGTTTGGAACATGGCATCGGCACGGT
* * *
58077602 -TATGTGAGCCAGTGTAAGACCACATCTGGGACATGGCATCAGCCTCAATATGCGAGCCAGTGTA
1 ATATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCCTCAATAT--GTGTCAGTGTA
58077666 AGACCATGTTTGGAACATGG
64 AGACCATGTTTGGAACATGG
58077686 AATCATTGTT
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
94 47 0.31
95 2 0.01
96 104 0.68
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (95 bp):
ATATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCCTCAATATGTGTCAGTGTAAG
ACCATGTTTGGAACATGGCATCGGCACGGT
Found at i:58077669 original size:142 final size:143
Alignment explanation
Indices: 58077470--58077783 Score: 352
Period size: 142 Copynumber: 2.2 Consensus size: 143
58077460 TATGTGTCAA
* * *
58077470 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGGTATATGTGAGCCAGTGTAAGACCAT-TTC
1 TGTAAGACCATGTCTGGGACATGGCATCAGCACC-GAATATGCGAGCCAGTGTAAGACCATGTT-
* * * *
58077534 T-GAGACATGGCATCGGCCTCAATATGTGTCAGTGTAATACCATATTTGGAACAAGGCATCGGCA
64 TGGA-ACATGGAATCAGCCTCAA-ATGTGTCAGTGTAAGACCATATCTGG-ACAAGGCATCGGCA
** *
58077598 TTG-T-TATGTGAGCCAG
126 CCGATGTATGAGAGCCAG
**
58077614 TGTAAGACCACATCTGGGACATGGCATCAGC-CTC-AATATGCGAGCCAGTGTAAGACCATGTTT
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGAATATGCGAGCCAGTGTAAGACCATGTTT
*** * * *
58077677 GGAACATGGAATCATTGTTAAATGTGTCAGTTTAAGACCATGTCTGGACAAGGCATCGGCACCGA
65 GGAACATGGAATCAGCCTCAAATGTGTCAGTGTAAGACCATATCTGGACAAGGCATCGGCACCGA
58077742 TGTATGAGAGCCAG
130 TGTATGAGAGCCAG
* *
58077756 TGTAAGACTATGTCCGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
58077784 GGCATTTTAT
Statistics
Matches: 143, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
140 15 0.10
141 23 0.16
142 71 0.50
143 5 0.03
144 29 0.20
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (143 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCACCGAATATGCGAGCCAGTGTAAGACCATGTTTG
GAACATGGAATCAGCCTCAAATGTGTCAGTGTAAGACCATATCTGGACAAGGCATCGGCACCGAT
GTATGAGAGCCAG
Found at i:58080392 original size:49 final size:48
Alignment explanation
Indices: 58080334--58080507 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 48
58080324 TATATGTCGA
*
58080334 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAGCCAG
* * * ** * * *
58080383 TGTAAGACCTATCTTGTACACAGCATCGACCTCGACATATGAAAGTC-G
1 TGTAAGACCTGTCTGGGACATGGCATCGACC-CGATAGATGAAAGCCAG
** **
58080431 ATGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCCAG
1 -TGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAGCCAG
58080479 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACC-TGTCTGGGACATGGCATCG
58080508 GCATCTTATC
Statistics
Matches: 99, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
47 14 0.14
48 22 0.22
49 63 0.64
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (48 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATGAAAGCCAG
Found at i:58084857 original size:43 final size:43
Alignment explanation
Indices: 58084800--58084915 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
58084790 CAATGTCATA
* * * *
58084800 TCCCAAACATGGTCTTACATGTTACCACATATCAATGCCACTG
1 TCCCAGACATGGTCTTACATGTAACCACATAACAATGCCAATG
* *** * * *
58084843 TCCCAGACAGGGTCTTACACAAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAACCACATAACAATGCCAATG
*
58084886 TCCCAGACATGGTCTTACATGTAATCACAT
1 TCCCAGACATGGTCTTACATGTAACCACAT
58084916 CTTAATAACC
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAACCACATAACAATGCCAATG
Found at i:58086925 original size:138 final size:138
Alignment explanation
Indices: 58086672--58087001 Score: 455
Period size: 138 Copynumber: 2.4 Consensus size: 138
58086662 AACATTTATA
* * * * * *
58086672 TCATATTAAGGCTCATAGGATAAAAATCACAGTCTTTAACACAATTAGTGAGAGCAAAGCTCCCA
1 TCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCTCCCA
*
58086737 ACTATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCT
66 ACTATCATATTAAGGCTCGCAGGATAAAAATAGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCT
* *
58086802 CCTAGCTG
131 CCCAACTG
58086810 TCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCTCCCA
1 TCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCTCCCA
* * * * *
58086875 ATTGTCATATTAAGGCTCGCAGGATAAAATTAGTAGCCTCTAACATAGTTAGCGAGAGTAAAGCT
66 ACTATCATATTAAGGCTCGCAGGATAAAAATAGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCT
*
58086940 CCCAATTG
131 CCCAACTG
* * * * **
58086948 TCACACTAAGGCTCGTAGGATAAAGA-CTGTAGCCTCCAACATAGTTAGCGAGAG
1 TCATATTAAGGCTCGTAGGATAAAAATC-GCAGCCTTTAACATAGTTAGCGAGAG
58087002 TTGAAAACTC
Statistics
Matches: 170, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
137 1 0.01
138 169 0.99
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (138 bp):
TCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCTCCCA
ACTATCATATTAAGGCTCGCAGGATAAAAATAGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCT
CCCAACTG
Found at i:58087002 original size:69 final size:69
Alignment explanation
Indices: 58086672--58087001 Score: 410
Period size: 69 Copynumber: 4.8 Consensus size: 69
58086662 AACATTTATA
** ** * * * * *
58086672 TCATATTAAGGCTCATAGGATAAAAATCACAGTCTTTAACACAATTAGTGAGAGCAAAGCTCCCA
1 TCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
*
58086737 ACTA
66 ACTG
* *
58086741 TCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCCTA
1 TCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
*
58086806 GCTG
66 ACTG
* * *
58086810 TCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCTCCCA
1 TCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
*
58086875 ATTG
66 ACTG
* * *
58086879 TCATATTAAGGCTCGCAGGATAAAATTAGTAGCCTCTAACATAGTTAGCGAGAGTAAAGCTCCCA
1 TCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
*
58086944 ATTG
66 ACTG
* * * * *
58086948 TCACACTAAGGCTCGTAGGATAAAGA-CTGTAGCCTCCAACATAGTTAGCGAGAG
1 TCATATTAAGGCTCGCAGGATAAAAATC-GTAGCCTCTAACATAGTTAGCGAGAG
58087002 TTGAAAACTC
Statistics
Matches: 229, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
69 229 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (69 bp):
TCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
ACTG
Found at i:58101333 original size:18 final size:19
Alignment explanation
Indices: 58101303--58101338 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
58101293 TTTACCTTTT
58101303 TTTTATATTTATTTTTATG
1 TTTTATATTTATTTTTATG
58101322 TTTTAT-TTTATTTTTAT
1 TTTTATATTTATTTTTAT
58101339 TAACCACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTATATTTATTTTTATG
Found at i:58105450 original size:162 final size:162
Alignment explanation
Indices: 58105177--58105500 Score: 549
Period size: 162 Copynumber: 2.0 Consensus size: 162
58105167 AGGCTTTTAG
* * *
58105177 AATCCTGAAAATCAACAAGACCAATCTAGCATCACTCATCTGTCAACTCAACATGACAACTACAT
1 AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCAACTCAACATGACAACTACAT
58105242 TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
66 TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
* *
58105307 GCTTTGAAGCAATAAATCAAAAGTTAGTCACT
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
* *
58105339 AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCGACTCAACATGACACCTACAT
1 AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCAACTCAACATGACAACTACAT
* * * *
58105404 TCGTAATAAAGGATGAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGTTGA
66 TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
58105469 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
58105501 CAAAAAATTT
Statistics
Matches: 151, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 151 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.23
Consensus pattern (162 bp):
AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCAACTCAACATGACAACTACAT
TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
Found at i:58109099 original size:21 final size:22
Alignment explanation
Indices: 58109059--58109099 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58109049 AAATATTGTA
* *
58109059 AAAATATTTTTCTTTGATAACC
1 AAAATATGTTTCTATGATAACC
58109081 AAAATATGTTT-TATGATAA
1 AAAATATGTTTCTATGATAA
58109100 GATAATATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
AAAATATGTTTCTATGATAACC
Found at i:58109739 original size:20 final size:20
Alignment explanation
Indices: 58109704--58109746 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
58109694 TTTTTTCTAA
*
58109704 TAAAATATTAAGAATATTACT
1 TAAAATATTAAAAATATTA-T
58109725 TAAAAT-TTAAAAATATTAT
1 TAAAATATTAAAAATATTAT
58109744 TAA
1 TAA
58109747 TGTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAATATTAAAAATATTAT
Found at i:58109770 original size:18 final size:19
Alignment explanation
Indices: 58109738--58109774 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
58109728 AATTTAAAAA
*
58109738 TATTATTAATGTTAAAATT
1 TATTATTAATATTAAAATT
58109757 TATTATTAA-ATTAAAATT
1 TATTATTAATATTAAAATT
58109775 GTAATATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATTATTAATATTAAAATT
Found at i:58116850 original size:5 final size:5
Alignment explanation
Indices: 58116840--58116871 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
58116830 ATTTGTGAAA
58116840 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
58116872 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:58117627 original size:51 final size:51
Alignment explanation
Indices: 58117551--58117667 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
58117541 CGGATCACAT
*
58117551 TTATCACTTGTCACTTGTCACTGATCAGATACGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * * * *
58117602 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGATGTTGCGAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
58117653 TTATCACTTGTCACT
1 TTATCACTTGTCACT
58117668 GATTAGAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:58122213 original size:46 final size:45
Alignment explanation
Indices: 58122163--58122334 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
58122153 TGGTTGAGCA
58122163 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
58122209 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
58122255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
58122301 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58122335 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:58122317 original size:92 final size:92
Alignment explanation
Indices: 58122160--58122329 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
58122150 GGATGGTTGA
* *
58122160 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58122225 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
58122252 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58122317 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58122330 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:58129771 original size:46 final size:46
Alignment explanation
Indices: 58129721--58129893 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
58129711 TGGTTGAGCA
58129721 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
58129767 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58129812 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
58129860 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58129894 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58129877 original size:93 final size:93
Alignment explanation
Indices: 58129718--58129888 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
58129708 GGATGGTTGA
* *
58129718 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58129783 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
58129811 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58129876 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58129889 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:58146941 original size:27 final size:27
Alignment explanation
Indices: 58146911--58146974 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
58146901 ATTGATTTAA
58146911 TCAATTAATTAAATTAAATTAATTATC
1 TCAATTAATTAAATTAAATTAATTATC
*
58146938 TCAATTAATTTAATTAAATTAATTATC
1 TCAATTAATTAAATTAAATTAATTATC
*
58146965 TAAATTAATT
1 TCAATTAATT
58146975 TCTCAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (27 bp):
TCAATTAATTAAATTAAATTAATTATC
Found at i:58146945 original size:13 final size:13
Alignment explanation
Indices: 58146925--58146984 Score: 70
Period size: 13 Copynumber: 4.6 Consensus size: 13
58146915 TTAATTAAAT
58146925 TAAATTAATTATC
1 TAAATTAATTATC
*
58146938 TCAATTAATTTAAT-
1 TAAATTAA-TT-ATC
58146952 TAAATTAATTATC
1 TAAATTAATTATC
58146965 TAAATTAATT-TC
1 TAAATTAATTATC
*
58146977 TCAATTAA
1 TAAATTAA
58146985 ATAATTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 11 0.27
13 19 0.46
14 9 0.22
15 2 0.05
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATTAATTATC
Found at i:58150842 original size:6 final size:6
Alignment explanation
Indices: 58150831--58150855 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
58150821 AATAAAATAA
58150831 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
58150856 GCTTGGATTT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:58153040 original size:54 final size:54
Alignment explanation
Indices: 58152964--58153071 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
58152954 ACCCTTTGAC
*
58152964 AAATCTCCGATAATATCTCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
1 AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
58153018 AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
1 AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
58153072 CTTCGGTGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
Found at i:58156421 original size:19 final size:19
Alignment explanation
Indices: 58156394--58156431 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
58156384 TTATTTTTAT
* *
58156394 TTTTTATTAGAATCGAAAA
1 TTTTAATTAGAATAGAAAA
58156413 TTTTAATTAGAATAGAAAA
1 TTTTAATTAGAATAGAAAA
58156432 GTAGAATAAA
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:0.03, G:0.11, T:0.39
Consensus pattern (19 bp):
TTTTAATTAGAATAGAAAA
Found at i:58159094 original size:48 final size:48
Alignment explanation
Indices: 58159036--58159469 Score: 733
Period size: 48 Copynumber: 9.0 Consensus size: 48
58159026 ATATACACAC
* *
58159036 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58159084 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58159132 ATCTCATACATATTTCACACTAGCCATTCGGCTATACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58159180 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58159228 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58159276 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58159324 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58159372 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
58159420 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
58159468 AT
1 AT
58159470 ATTTGTCTTG
Statistics
Matches: 365, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 365 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:58163159 original size:5 final size:5
Alignment explanation
Indices: 58163149--58163194 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
58163139 GATTCCAACC
58163149 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
58163195 GAAATTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:58168914 original size:24 final size:24
Alignment explanation
Indices: 58168882--58168952 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
58168872 CTATCAGGAG
58168882 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
58168906 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
58168930 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
58168953 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:58168964 original size:48 final size:48
Alignment explanation
Indices: 58168882--58168975 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
58168872 CTATCAGGAG
** * *
58168882 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGATGATCAAGGGAT
58168930 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGATGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGATGATCAAGG
58168976 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGATGATCAAGGGAT
Found at i:58170430 original size:26 final size:27
Alignment explanation
Indices: 58170370--58170480 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
58170360 AGGAAGCCTC
* *
58170370 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
58170397 CTGATGGCTCTACCAC-ATTTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
58170423 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGT-T
* *
58170451 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
58170477 CTGG
1 CTGG
58170481 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 27 0.39
27 28 0.40
28 15 0.21
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:58170477 original size:54 final size:53
Alignment explanation
Indices: 58170370--58170480 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
58170360 AGGAAGCCTC
* *
58170370 CTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTACCACATTTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTACCACATTATCTGTT
* * * * **
58170423 CTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGATGACTCTACCACATTATCTGTT
58170477 CTGG
1 CTGG
58170481 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 22 0.45
54 27 0.55
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTACCACATTATCTGTT
Found at i:58175634 original size:6 final size:6
Alignment explanation
Indices: 58175623--58175684 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
58175613 CAAGAAGAAT
* * * *
58175623 AAAATA AAAATA AAAGTA AAAATA AAAGACA AAAATA AAGATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA
58175672 AACAA-A AAAATA A
1 AA-AATA AAAATA A
58175685 TTGGCCTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 2 0.04
6 38 0.83
7 6 0.13
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:58175635 original size:23 final size:23
Alignment explanation
Indices: 58175620--58175684 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
58175610 TAACAAGAAG
58175620 AATAAAATAAAAATAAAAGTAAA
1 AATAAAATAAAAATAAAAGTAAA
*
58175643 AATAAAAGACAAAA-ATAAAGATAAA
1 AATAAAATA-AAAATA-AAAG-TAAA
* *
58175668 CATAAACAAAAAAATAA
1 AATAAA-ATAAAAATAA
58175685 TTGGCCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 9 0.26
24 8 0.24
25 14 0.41
26 3 0.09
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (23 bp):
AATAAAATAAAAATAAAAGTAAA
Found at i:58187429 original size:24 final size:24
Alignment explanation
Indices: 58187393--58187438 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
58187383 GTTTTATGGA
58187393 ACACTAAACTAGACTACGATCATG
1 ACACTAAACTAGACTACGATCATG
* *
58187417 ACACTAAATTAGACTATGATCA
1 ACACTAAACTAGACTACGATCA
58187439 CGACTAAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (24 bp):
ACACTAAACTAGACTACGATCATG
Found at i:58188990 original size:43 final size:43
Alignment explanation
Indices: 58188873--58189014 Score: 139
Period size: 41 Copynumber: 3.4 Consensus size: 43
58188863 CCAACGTCTT
* * *
58188873 AGACGTGGTCTTACATGCAA-CACATATCGATGCCACTGTCCC
1 AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
* * * * *
58188915 AG-CAGGGTTTTACACGGATCTA-ATA-CGATGCCAATGTCCC
1 AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
* *
58188955 AGACATGGTCTTACACGTAACCACATATCGATGCCAACGTCCC
1 AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
** *
58188998 AGATGTGGTCTTCCACG
1 AGACATGGTCTTACACG
58189015 AGAACAAATA
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
40 16 0.20
41 29 0.37
42 6 0.08
43 28 0.35
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
Found at i:58189295 original size:42 final size:42
Alignment explanation
Indices: 58189246--58189329 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
58189236 TTACCTCGGA
58189246 CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
1 CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
58189288 CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
1 CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
58189330 TTCCCCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (42 bp):
CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
Found at i:58191899 original size:47 final size:46
Alignment explanation
Indices: 58191670--58191931 Score: 162
Period size: 46 Copynumber: 5.6 Consensus size: 46
58191660 TTCGTGTGTG
* * * *
58191670 AGCTAGTGTATGACATGTCTGGGACATGCATCGGC-C-ACA-GTATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGACTCGAGACG-AT-A
* * * *
58191715 GAGCCAGTGTAAGACCATGTCTAGGGCATGGCATCGACATTGAGACGA-G
1 -AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGAC-TCGAGACGATA
* * * * *
58191764 GGTTAGTGTAAGACATGTCTGGGACATGCATAGGCCTCGAGACG-TA
1 AGCTAGTGTAAGACATGTCTAGGACATGCAT-CGACTCGAGACGATA
* * *
58191810 AACTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGAT-
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGACT-CGAGACGATA
* * * * *
58191856 AGTTAGTGTAAGACCATGTCT-GGCACATGGCATTGACTTGAGA-TATG
1 AGCTAGTGTAAGA-CATGTCTAGG-ACAT-GCATCGACTCGAGACGATA
*
58191903 AGCTAGTGTAAGATCGTGTCTAGGACATG
1 AGCTAGTGTAAGA-CATGTCTAGGACATG
58191932 ACATAGGCAC
Statistics
Matches: 168, Mismatches: 33, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
45 3 0.02
46 71 0.42
47 64 0.38
48 26 0.15
51 3 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGACTCGAGACGATA
Found at i:58191923 original size:140 final size:141
Alignment explanation
Indices: 58191672--58191939 Score: 348
Period size: 140 Copynumber: 1.9 Consensus size: 141
58191662 CGTGTGTGAG
* *
58191672 CTAGTGTATGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACCATGTCT
* * * *
58191737 AGGGCATGGCATCGACATTGAGACGAGGGTTAGTGTAAGACATGTCTGGGACATG-CATAGGCCT
66 AGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGACATAGGCCT
58191801 CGAGACGTAAA
131 CGAGACGTAAA
* * **
58191812 CTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAG-ATGATAGTTAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-AGTATGAGAGCCAGTGTAAGACCATGTC
* * *
58191876 T-GGCACATGGCATTGAC-TTGAGA-TATGAGCTAGTGTAAGATCGTGTCTAGGACATGACATAG
65 TAGG-ACATGGCATCGACATTGAGACGA-GAGCTAGTGTAAGA-CATGTCTAGGACATGACATAG
58191938 GC
127 GC
58191940 ACCTTACCCT
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 1 0.01
139 20 0.18
140 80 0.73
141 9 0.08
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (141 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGACATAGGCCT
CGAGACGTAAA
Found at i:58202070 original size:27 final size:27
Alignment explanation
Indices: 58202016--58202107 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
58202006 AGCATGGCTG
* *
58202016 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
58202042 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
58202069 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
58202096 CCCGATCAGATA
1 CCAGAACAGATA
58202108 ATTATGGCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 12 0.20
27 49 0.80
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:58202115 original size:27 final size:27
Alignment explanation
Indices: 58202016--58202125 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
58202006 AGCATGGCTG
* * *
58202016 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATATGGCAGAGCCA
*
58202042 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATATGGCAGAGCCA
*
58202069 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATATGGCAGAGCCA
* * * *
58202096 CCCGATCAGATA-ATTATGGCATATCCA
1 CCAGAACAGATATA-TATGGCAGAGCCA
58202123 CCA
1 CCA
58202126 AGACGCTTCC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 13 0.18
27 61 0.82
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATATGGCAGAGCCA
Found at i:58202116 original size:54 final size:53
Alignment explanation
Indices: 58202016--58202125 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 53
58202006 AGCATGGCTG
* *
58202016 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATATATATGGCAGAGCCA
* * * * *
58202069 CCAGAACAGATATATGTGGCAGAGCCACCCGATCAGATA-ATTATGGCATATCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATATA-TATGGCAGAGCCA
58202123 CCA
1 CCA
58202126 AGACGCTTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 13 0.27
54 35 0.73
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATATATATGGCAGAGCCA
Found at i:58202274 original size:26 final size:27
Alignment explanation
Indices: 58202230--58202305 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
58202220 CAAAAGTAAC
* *
58202230 CCTAGGGGTATAAT-GGTAATTT-TACA
1 CCTAGGGGTAT-ATCAGTAATTTCCACA
*
58202256 CCTAGGGGTATATCAGTAATTTCCATA
1 CCTAGGGGTATATCAGTAATTTCCACA
*
58202283 CATAGGGGTAT-TCAAGTAATTTC
1 CCTAGGGGTATATC-AGTAATTTC
58202306 ACTATTCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 20 0.47
27 21 0.49
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATATCAGTAATTTCCACA
Found at i:58203325 original size:16 final size:16
Alignment explanation
Indices: 58203301--58203332 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58203291 TAAAAGAGAC
58203301 AGAAAAGATGAGCAGA
1 AGAAAAGATGAGCAGA
*
58203317 AGAAGAGATGAGCAGA
1 AGAAAAGATGAGCAGA
58203333 GAATTTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.34, T:0.06
Consensus pattern (16 bp):
AGAAAAGATGAGCAGA
Found at i:58204172 original size:38 final size:38
Alignment explanation
Indices: 58204121--58204304 Score: 251
Period size: 38 Copynumber: 4.8 Consensus size: 38
58204111 GATGTGTATT
58204121 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
58204159 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
*
58204197 CGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* * * * *
58204235 AGGGTTAAATCTCGTAGGCCTAGTGCTGGTATTATATC
1 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
* * * * *
58204273 TGAGCTTAAAGTCCTGCAGGTTTTGTGCTGGT
1 CG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
58204305 GACTGGATTC
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
38 108 0.84
39 6 0.05
40 15 0.12
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
Found at i:58207740 original size:38 final size:38
Alignment explanation
Indices: 58207685--58207757 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
58207675 AGTTCATCTT
* *
58207685 TCATAGCCTCAATTAATGATCATTACATTCACTCTCCA
1 TCATAGACTCAACTAATGATCATTACATTCACTCTCCA
58207723 TCATAGACTCAACTAATGATCATTACATTCACTCT
1 TCATAGACTCAACTAATGATCATTACATTCACTCT
58207758 TCATGGCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.34
Consensus pattern (38 bp):
TCATAGACTCAACTAATGATCATTACATTCACTCTCCA
Found at i:58211555 original size:14 final size:14
Alignment explanation
Indices: 58211544--58211573 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58211534 GTAAAATGTT
58211544 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
58211557 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
58211571 TTT
1 TTT
58211574 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:58211599 original size:20 final size:20
Alignment explanation
Indices: 58211557--58211598 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
58211547 CGGAAAATGA
58211557 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
58211577 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
58211596 TTT
1 TTT
58211599 TTGGTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:58211704 original size:18 final size:19
Alignment explanation
Indices: 58211678--58211722 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
58211668 AAAAACTGTT
*
58211678 TTTACATATA-TTAATAAA
1 TTTATATATACTTAATAAA
58211696 TTTATATATATCTTAATAAA
1 TTTATATATA-CTTAATAAA
*
58211716 ATTATAT
1 TTTATAT
58211723 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
20 14 0.61
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATATATACTTAATAAA
Found at i:58211711 original size:20 final size:20
Alignment explanation
Indices: 58211683--58211722 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58211673 CTGTTTTTAC
*
58211683 ATATATTAATAAATTTATAT
1 ATATATTAATAAAATTATAT
*
58211703 ATATCTTAATAAAATTATAT
1 ATATATTAATAAAATTATAT
58211723 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATTAATAAAATTATAT
Found at i:58215418 original size:13 final size:12
Alignment explanation
Indices: 58215387--58215420 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
58215377 AACTCTTTTG
58215387 CTTTATATGTTT
1 CTTTATATGTTT
58215399 CTTTATATGTTT
1 CTTTATATGTTT
58215411 CTTTTATATG
1 C-TTTATATG
58215421 AAAATAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (12 bp):
CTTTATATGTTT
Found at i:58218827 original size:14 final size:14
Alignment explanation
Indices: 58218808--58218834 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58218798 AGAAAAGCCT
58218808 AAAAAGCTTTTACG
1 AAAAAGCTTTTACG
58218822 AAAAAGCTTTTAC
1 AAAAAGCTTTTAC
58218835 ACATTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (14 bp):
AAAAAGCTTTTACG
Found at i:58220836 original size:45 final size:45
Alignment explanation
Indices: 58220785--58220899 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
58220775 GTGTAACACT
* * *
58220785 ATAGTTGAAATATATTATGACATTAAATC-TTATACAAAT-AAGACC
1 ATAGTTGAAAGATACTATGACATTAAATCGGTA-AC-AATCAAGACC
* * *
58220830 ATAGTTGAAAGATACTATGGCATCACATCGGTAACAATCAAGACC
1 ATAGTTGAAAGATACTATGACATTAAATCGGTAACAATCAAGACC
58220875 ATAGTTGAAAGATACTATGACATTA
1 ATAGTTGAAAGATACTATGACATTA
58220900 CTTCAGGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 3 0.05
45 55 0.92
46 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (45 bp):
ATAGTTGAAAGATACTATGACATTAAATCGGTAACAATCAAGACC
Found at i:58220918 original size:45 final size:44
Alignment explanation
Indices: 58220785--58220943 Score: 140
Period size: 45 Copynumber: 3.5 Consensus size: 44
58220775 GTGTAACACT
* * * * ** *
58220785 ATAGTTGAAATATATTATGACATTAAATCTTATACAAATAAGACC
1 ATAGTTGAAAGATACTATGACATCACATCGGAAAC-AATAAGACC
* *
58220830 ATAGTTGAAAGATACTATGGCATCACATCGGTAACAATCAAGACC
1 ATAGTTGAAAGATACTATGACATCACATCGGAAACAAT-AAGACC
* *
58220875 ATAGTTGAAAGATACTATGACATTACTTCAGGAATAC-ATAAGACC
1 ATAGTTGAAAGATACTATGACATCACATC-GGAA-ACAATAAGACC
* * * *
58220920 ATGGTTGGAAGATACCATGGCATC
1 ATAGTTGAAAGATACTATGACATC
58220944 CTTTGAAACG
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
44 3 0.03
45 83 0.89
46 5 0.05
47 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (44 bp):
ATAGTTGAAAGATACTATGACATCACATCGGAAACAATAAGACC
Found at i:58223265 original size:21 final size:21
Alignment explanation
Indices: 58223241--58223288 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
58223231 CCAAGAATAC
*
58223241 AATTATCATTCATCACTCAAT
1 AATTATAATTCATCACTCAAT
* *
58223262 AATTATAATTCATTAGTCAAT
1 AATTATAATTCATCACTCAAT
58223283 AATTAT
1 AATTAT
58223289 TTTCCAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (21 bp):
AATTATAATTCATCACTCAAT
Found at i:58226278 original size:36 final size:36
Alignment explanation
Indices: 58226236--58226307 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
58226226 TATGAAAATT
*
58226236 ATGATAAAGATATATGTGAGTCTAGTTTCTGGAAAA
1 ATGATAAAGATATATGTCAGTCTAGTTTCTGGAAAA
* *
58226272 ATGATAAATATATATGTCATTCTAGTTTCTGGAAAA
1 ATGATAAAGATATATGTCAGTCTAGTTTCTGGAAAA
58226308 TATTAACGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (36 bp):
ATGATAAAGATATATGTCAGTCTAGTTTCTGGAAAA
Found at i:58227647 original size:53 final size:53
Alignment explanation
Indices: 58227586--58227692 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
58227576 AATCAATAGA
58227586 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
1 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
58227639 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
1 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
58227692 G
1 G
58227693 TCTCGACTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (53 bp):
GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
Found at i:58233105 original size:24 final size:24
Alignment explanation
Indices: 58233077--58233124 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
58233067 TACTTCAAAG
58233077 TAAATTTAGATGGGAGGTGCATTT
1 TAAATTTAGATGGGAGGTGCATTT
58233101 TAAATTTAGATGGGAGGTGCATTT
1 TAAATTTAGATGGGAGGTGCATTT
58233125 ACTTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (24 bp):
TAAATTTAGATGGGAGGTGCATTT
Found at i:58237359 original size:21 final size:21
Alignment explanation
Indices: 58237333--58237380 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
58237323 ACAGTTCGGT
*
58237333 ACATGGGCGTGTGGAATG-GCC
1 ACATGGGCATGTGGAA-GAGCC
*
58237354 ACATGGGCATGTGGGAGAGCC
1 ACATGGGCATGTGGAAGAGCC
58237375 ACATGG
1 ACATGG
58237381 TTGTGTGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.23, C:0.19, G:0.42, T:0.17
Consensus pattern (21 bp):
ACATGGGCATGTGGAAGAGCC
Found at i:58242041 original size:17 final size:17
Alignment explanation
Indices: 58242010--58242066 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
58242000 CGTGTGCTTT
58242010 ACCCGTGTAGGCCCACAC
1 ACCCGTGT-GGCCCACAC
*
58242028 ACCCGTGTGGCCCACAT
1 ACCCGTGTGGCCCACAC
* *
58242045 GCCCTTGTGGCCCACAC
1 ACCCGTGTGGCCCACAC
58242062 GACCC
1 -ACCC
58242067 AAATCGGTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.14
Consensus pattern (17 bp):
ACCCGTGTGGCCCACAC
Found at i:58248251 original size:13 final size:13
Alignment explanation
Indices: 58248233--58248259 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58248223 ACTAGTCAAG
58248233 ATGAGGAAGGGTT
1 ATGAGGAAGGGTT
58248246 ATGAGGAAGGGTT
1 ATGAGGAAGGGTT
58248259 A
1 A
58248260 GTCACAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.22
Consensus pattern (13 bp):
ATGAGGAAGGGTT
Found at i:58248587 original size:15 final size:15
Alignment explanation
Indices: 58248567--58248596 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58248557 ACACAGTTTG
58248567 CTCAGCTATTCTACA
1 CTCAGCTATTCTACA
58248582 CTCAGCTATTCTACA
1 CTCAGCTATTCTACA
58248597 GAATAAACTA
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:0.27, C:0.33, G:0.07, T:0.33
Consensus pattern (15 bp):
CTCAGCTATTCTACA
Found at i:58250110 original size:40 final size:40
Alignment explanation
Indices: 58250066--58250288 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
58250056 CAAGCACAGT
* * *
58250066 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
58250106 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
58250146 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* * *
58250185 TGCCTTCGGGTCTTAGCCCGGATAAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* * * *
58250224 TGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAA
*
58250264 TGCCTTCGGGACTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
58250289 CATTCAAATG
Statistics
Matches: 173, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 66 0.38
40 106 0.61
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:58250191 original size:79 final size:78
Alignment explanation
Indices: 58250039--58250288 Score: 313
Period size: 79 Copynumber: 3.2 Consensus size: 78
58250029 TCTTCGGAAT
* * ** * * *
58250039 TTAG-CCGGATATAACCACAAGCACAGTTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA-TCGCAC
58250103 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
*
58250118 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATCGCACA
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATCGCACA
58250183 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* * * * * * *
58250197 TTAGCCCGGATAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATA
1 TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAATCGCACA
*
58250262 AATGCCTTCGGGAC
65 AATGCCTTCGGGTC
58250276 TTAGCCCGGATAT
1 TTAGCCCGGATAT
58250289 CATTCAAATG
Statistics
Matches: 150, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
78 31 0.21
79 77 0.51
80 42 0.28
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATCGCACAA
ATGCCTTCGGGTC
Found at i:58258287 original size:39 final size:40
Alignment explanation
Indices: 58258232--58258497 Score: 339
Period size: 40 Copynumber: 6.8 Consensus size: 40
58258222 ATAACCACAA
* * * *
58258232 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
58258272 GCACAAATG-CTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
58258311 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
58258351 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-ATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
58258389 GCA-AAATGCCTTC-GGACTTAGCCCGGATAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * * *
58258426 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
58258466 GCATAAATGCCTTCAGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58258498 CATTCAAATG
Statistics
Matches: 213, Mismatches: 8, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
36 15 0.07
37 20 0.09
38 16 0.08
39 55 0.26
40 107 0.50
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:58258488 original size:155 final size:156
Alignment explanation
Indices: 58258214--58258497 Score: 369
Period size: 155 Copynumber: 1.8 Consensus size: 156
58258204 TTCTTCGAAT
* * * * *
58258214 TTAGCCGGATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAA
1 TTAGCCGGATAACCACAAGCACAAATGCCTTCGGGACTTAACCCGGATAAAGCAACTAGCACAAA
* * * * *
58258279 TGCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
66 TGCTTCGGGACTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATA
58258344 TCAACTCGCACAAATGCCTTCGGGTC
131 TCAACTCGCACAAATGCCTTCGGGTC
* * * * *
58258370 TTAGCCCGGATAATCACTAGCA-AAATGCCTTC-GGACTTAGCCCGGATAAATC-ACTAGCATAA
1 TTAG-CCGGATAACCACAAGCACAAATGCCTTCGGGACTTAACCCGGATAAAGCAACTAGCACAA
*
58258432 ATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCAGGACTTAGCCCGGAT
65 ATG-CTTCGGGACTTAGCCCGGAT-AAATCAACTAGCACAAATGCCTTCAGGACTTAGCCCGGAT
58258496 AT
128 AT
58258498 CATTCAAATG
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
154 11 0.10
155 66 0.61
156 17 0.16
157 15 0.14
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (156 bp):
TTAGCCGGATAACCACAAGCACAAATGCCTTCGGGACTTAACCCGGATAAAGCAACTAGCACAAA
TGCTTCGGGACTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATA
TCAACTCGCACAAATGCCTTCGGGTC
Found at i:58268335 original size:50 final size:48
Alignment explanation
Indices: 58268275--58268407 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 48
58268265 TAAGATGTGT
*
58268275 TAGTGTAAGACCATGTTTGGGACATGGCATCGACAC-CGATATATGAGAG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGAT-TATGAGAG
* * ** * * *
58268324 CTAGTGTAAGACCATGTCTGGGGCATAGTGTCGGCCTCGATTTTGATAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTATGAGAG
58268373 TCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGAC
58268408 TTGATGGATG
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.51
50 32 0.47
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTATGAGAG
Found at i:58270339 original size:27 final size:27
Alignment explanation
Indices: 58270299--58270410 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
58270289 AGGAAGCATC
*
58270299 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
58270326 CTGGTGGCTCTGCCACAAATT-TCTGTT
1 CTGGTGGCTCTGCCAC-AATTATCTGAT
*
58270353 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* ** *
58270381 CTGGTGACTCTATCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
58270407 CTGG
1 CTGG
58270411 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.65
28 18 0.24
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:58270405 original size:54 final size:53
Alignment explanation
Indices: 58270299--58270410 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
58270289 AGGAAGCATC
* *
58270299 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCAC-AATTTCTGTT
* * *
58270353 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACAATT-TCTGTT
58270407 CTGG
1 CTGG
58270411 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.06
54 33 0.65
55 15 0.29
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACAATTTCTGTT
Found at i:58273435 original size:30 final size:30
Alignment explanation
Indices: 58273399--58273459 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
58273389 CTTGAAAAGG
*
58273399 AAAGAATTTTTAGAGCTGAAGCAAGGCCAT
1 AAAGAATTTTTAGAGCTAAAGCAAGGCCAT
58273429 AAAGAATTTTTAGAGCTAAAGCAAGGCCAT
1 AAAGAATTTTTAGAGCTAAAGCAAGGCCAT
58273459 A
1 A
58273460 GGATGGTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (30 bp):
AAAGAATTTTTAGAGCTAAAGCAAGGCCAT
Found at i:58275435 original size:53 final size:53
Alignment explanation
Indices: 58275253--58275459 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
58275243 ATTAGGGTTT
* * * * * *
58275253 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG-TTCATAAGGC
* * ** * * * * *
58275307 AAGGAAATCATGTAAGACCATTTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGT-AAGTTC-ATAAGGC
* * * * *
58275362 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
* *
58275415 AAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTT
58275460 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 38 0.32
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
Found at i:58279854 original size:38 final size:38
Alignment explanation
Indices: 58279802--58280036 Score: 249
Period size: 38 Copynumber: 6.1 Consensus size: 38
58279792 ATATTCGATG
* * * *
58279802 TATATCAGGGTTAAATCCCCCAGGCTTCGTGCTGGTAA
1 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
58279840 AATATCCGAGTTAAATCCCGTAGGCTTCGTGCTGGCAT
1 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
58279878 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
58279916 TATATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTGGTAA
1 TATATCCGAG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
58279956 AATATCTTG-GTTAAATCCCGCAGGCGTCGTGCTGGTAT
1 TATATC-CGAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
58279994 TATATCC-AGGATAAATCCCGCAGGCCTAGTGCTAGTAT
1 TATATCCGA-GTTAAATCCCGCAGGCTTCGTGCTGGTAT
58280032 TATAT
1 TATAT
58280037 TCGGGCCTTC
Statistics
Matches: 166, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
38 129 0.78
39 10 0.06
40 26 0.16
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:58279972 original size:78 final size:76
Alignment explanation
Indices: 58279803--58280018 Score: 254
Period size: 78 Copynumber: 2.8 Consensus size: 76
58279793 TATTCGATGT
* * ** * *
58279803 ATATCAGGGTTAAATCCCCCAGGCTTCGTGCTGGTAAAATATCCGAGTTAAATCCCGTAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAACCCGCAGGCTTC
**
58279868 GTGCTGGCATT
66 GTGCTGGCAAA
* *
58279879 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCTGCAGGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAG-TTAAA-ACCCGCAGGCT
*
58279944 TCGTGCTGGTAAA
64 TCGTGCTGGCAAA
** * * *
58279957 ATATCTTGGTTAAATCCCGCAGGCGTCGTGCTGGTATTATATCC-AGGATAAATCCCGCAGGC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGA-GTTAAAACCCGCAGGC
58280019 CTAGTGCTAG
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
76 50 0.42
77 9 0.08
78 60 0.50
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (76 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAACCCGCAGGCTTC
GTGCTGGCAAA
Found at i:58280026 original size:116 final size:116
Alignment explanation
Indices: 58279822--58280042 Score: 336
Period size: 116 Copynumber: 1.9 Consensus size: 116
58279812 TTAAATCCCC
* * *
58279822 CAGGCTTCGTGCTGGTAAAATATCCGAGTTAAATCCCGTAGGCTTCGTGCTGGCATTATATCCGG
1 CAGGCTTCGTGCTGGTAAAATATCCGAGTTAAATCCCGCAGGCGTCGTGCTGGCATTATATCCAG
* * * *
58279887 GTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCTG
66 GATAAATCCCGCAGGCCTAGTGCTAGTATTATATCCGGGCTTAAAGACCTG
* *
58279938 CAGGCTTCGTGCTGGTAAAATATCTTG-GTTAAATCCCGCAGGCGTCGTGCTGGTATTATATCCA
1 CAGGCTTCGTGCTGGTAAAATATC-CGAGTTAAATCCCGCAGGCGTCGTGCTGGCATTATATCCA
*
58280002 GGATAAATCCCGCAGGCCTAGTGCTAGTATTATATTCGGGC
65 GGATAAATCCCGCAGGCCTAGTGCTAGTATTATATCCGGGC
58280043 CTTCGTGCCT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 93 0.99
117 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (116 bp):
CAGGCTTCGTGCTGGTAAAATATCCGAGTTAAATCCCGCAGGCGTCGTGCTGGCATTATATCCAG
GATAAATCCCGCAGGCCTAGTGCTAGTATTATATCCGGGCTTAAAGACCTG
Found at i:58280158 original size:43 final size:43
Alignment explanation
Indices: 58280034--58280145 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
58280024 GCTAGTATTA
58280034 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
58280077 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
58280120 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
58280146 GTAATGCCGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.10, C:0.26, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:58284815 original size:46 final size:46
Alignment explanation
Indices: 58284663--58284877 Score: 206
Period size: 46 Copynumber: 4.6 Consensus size: 46
58284653 TTTGTGTGCT
* *
58284663 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * * *
58284709 AATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* * *
58284757 AGTGTAATACATGTCTAGGACATGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * *
58284803 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
58284847 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
58284878 ACACATATAG
Statistics
Matches: 139, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 61 0.44
47 28 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:58298824 original size:38 final size:39
Alignment explanation
Indices: 58298782--58298859 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
58298772 AAACCCTTTT
* * * *
58298782 CAGTACAGTATCGAT-TTTAGTTTGGCCTTAGCCCATCA
1 CAGTACAGAATCAATATGTAGTTGGGCCTTAGCCCATCA
*
58298820 CAGTACAGAATTAATCATGTAGTTGGGCCTTAGCCCATCA
1 CAGTACAGAATCAAT-ATGTAGTTGGGCCTTAGCCCATCA
58298860 ACGTATCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 12 0.36
40 21 0.64
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (39 bp):
CAGTACAGAATCAATATGTAGTTGGGCCTTAGCCCATCA
Found at i:58301950 original size:16 final size:16
Alignment explanation
Indices: 58301931--58301965 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
58301921 AATAATGAGT
58301931 AAAT-AAAATAACAATG
1 AAATAAAAATAA-AATG
58301947 AAATAAAAATAAAATG
1 AAATAAAAATAAAATG
58301963 AAA
1 AAA
58301966 ACAACTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAAATG
Found at i:58307452 original size:21 final size:17
Alignment explanation
Indices: 58307413--58307471 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
58307403 TAAGGTTCCA
58307413 TAGCTATTAGACACCTT
1 TAGCTATTAGACACCTT
58307430 TAGCTATTAGA-ACAC--
1 TAGCTATTAGACAC-CTT
* *
58307445 -AACTTTTAGACACCTT
1 TAGCTATTAGACACCTT
58307461 TAGCTATTAGA
1 TAGCTATTAGA
58307472 ACACAACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 9 0.27
15 2 0.06
16 2 0.06
17 20 0.61
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (17 bp):
TAGCTATTAGACACCTT
Found at i:58307454 original size:31 final size:31
Alignment explanation
Indices: 58307419--58307483 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
58307409 TCCATAGCTA
58307419 TTAGACACCTTTAGCTATTAGAACACAACTT
1 TTAGACACCTTTAGCTATTAGAACACAACTT
58307450 TTAGACACCTTTAGCTATTAGAACACAACTT
1 TTAGACACCTTTAGCTATTAGAACACAACTT
58307481 TTA
1 TTA
58307484 CACTTTACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (31 bp):
TTAGACACCTTTAGCTATTAGAACACAACTT
Found at i:58315638 original size:29 final size:29
Alignment explanation
Indices: 58315596--58315654 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
58315586 GTAAAACTCC
58315596 TAATTATTTTTGTACGATTTTTGGTGAAT
1 TAATTATTTTTGTACGATTTTTGGTGAAT
*
58315625 TAATTATTTTTGTACGATTTTTTGTGAAT
1 TAATTATTTTTGTACGATTTTTGGTGAAT
58315654 T
1 T
58315655 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (29 bp):
TAATTATTTTTGTACGATTTTTGGTGAAT
Found at i:58322283 original size:31 final size:29
Alignment explanation
Indices: 58322229--58322319 Score: 114
Period size: 28 Copynumber: 3.1 Consensus size: 29
58322219 CTTGGACGGT
*
58322229 AGAAG-AATAAGAGAAAAAGAAGAATAAG
1 AGAAGAAATAAGAGAAGAAGAAGAATAAG
*
58322257 AGAAGAAATAGAGAAGAAGAAGAAGAAAAAG
1 AGAAGAAATA-AG-AGAAGAAGAAGAATAAG
* *
58322288 AAAAGAAA-AAGAGGAGAAGAAGAATAAG
1 AGAAGAAATAAGAGAAGAAGAAGAATAAG
58322316 AGAA
1 AGAA
58322320 AACGGAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 23 0.43
29 6 0.11
30 3 0.06
31 22 0.41
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.04
Consensus pattern (29 bp):
AGAAGAAATAAGAGAAGAAGAAGAATAAG
Found at i:58322311 original size:6 final size:6
Alignment explanation
Indices: 58322229--58322316 Score: 62
Period size: 6 Copynumber: 15.5 Consensus size: 6
58322219 CTTGGACGGT
* * *
58322229 AGAAGA ATAAG- AGAAAA AGAAGA ATAAG- AGAAGA A-ATAG- AGAAGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGA-AGA AGAAGA
* * * *
58322274 AGAAGA AGAAAA AGAA-A AGAAAA AG-AGG AGAAGA AGAATA AGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGA
58322317 GAAAACGGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
5 19 0.30
6 45 0.70
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (6 bp):
AGAAGA
Found at i:58322319 original size:11 final size:10
Alignment explanation
Indices: 58322240--58322310 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 10
58322230 GAAGAATAAG
58322240 AGAAAA-AGA
1 AGAAAAGAGA
58322249 AGAATAAGAGA
1 AGAA-AAGAGA
58322260 AGAAATAGAGA
1 AGAAA-AGAGA
*
58322271 AGAAGA-AGA
1 AGAAAAGAGA
*
58322280 AGAAAAAGAAA
1 AG-AAAAGAGA
*
58322291 AGAAAAAGAGG
1 AG-AAAAGAGA
58322302 AGAAGAAGA
1 AGAA-AAGA
58322311 ATAAGAGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
9 9 0.18
10 9 0.18
11 33 0.65
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (10 bp):
AGAAAAGAGA
Found at i:58325997 original size:34 final size:34
Alignment explanation
Indices: 58325954--58326031 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
58325944 CATATGAAAA
* *
58325954 AACAATTCAT-GCATAATAACAGTTCGCTCAATAT
1 AACAATTCATAGAAT-ATAACAGTTCACTCAATAT
* * *
58325988 AACAGTTCATAGAATATAACATTTCATTCAATAT
1 AACAATTCATAGAATATAACAGTTCACTCAATAT
*
58326022 AATAATTCAT
1 AACAATTCAT
58326032 TCATACCACA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 33 0.92
35 3 0.08
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (34 bp):
AACAATTCATAGAATATAACAGTTCACTCAATAT
Found at i:58326020 original size:17 final size:17
Alignment explanation
Indices: 58325954--58326034 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 17
58325944 CATATGAAAA
*
58325954 AACAATTCATGC-ATAAT
1 AACAATTCATTCAAT-AT
* **
58325971 AACAGTTCGCTCAATAT
1 AACAATTCATTCAATAT
* **
58325988 AACAGTTCATAGAATAT
1 AACAATTCATTCAATAT
*
58326005 AACATTTCATTCAATAT
1 AACAATTCATTCAATAT
*
58326022 AATAATTCATTCA
1 AACAATTCATTCA
58326035 TACCACATCG
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
17 48 0.96
18 2 0.04
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
AACAATTCATTCAATAT
Found at i:58327089 original size:31 final size:31
Alignment explanation
Indices: 58327030--58327105 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
58327020 CTTCAAGCGC
*** *
58327030 ATATATATTATATATTTTATGACCCATAAAT
1 ATATATATTATATATAACAAGACCCATAAAT
*
58327061 ATATATATTATATATAACAAGACGCATAAAT
1 ATATATATTATATATAACAAGACCCATAAAT
58327092 ATAT-TATT-TATATA
1 ATATATATTATATATA
58327106 CATATCTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 6 0.15
30 4 0.10
31 30 0.75
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (31 bp):
ATATATATTATATATAACAAGACCCATAAAT
Found at i:58334925 original size:30 final size:30
Alignment explanation
Indices: 58334868--58334925 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58334858 TATAATTTCA
* *
58334868 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* *
58334898 TTTTATTTTTGTTTCAATTTAGTCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
58334926 TGGCTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:58335204 original size:11 final size:11
Alignment explanation
Indices: 58335174--58335326 Score: 79
Period size: 12 Copynumber: 14.0 Consensus size: 11
58335164 TTAAAAAAAT
*
58335174 TATTATATATA
1 TATTATTTATA
* *
58335185 TTTTTATTTATG
1 -TATTATTTATA
*
58335197 TATTATTTGTTA
1 TATTATTT-ATA
58335209 TATTATTTATA
1 TATTATTTATA
58335220 TATTATATATATA
1 TATTAT-T-TATA
*
58335233 TTTTATTTATA
1 TATTATTTATA
*
58335244 TATTTTATTATA
1 TATTAT-TTATA
*
58335256 TATTA--AATCA
1 TATTATTTAT-A
*
58335266 TTTTATTATATA
1 TATTATT-TATA
* *
58335278 TATTATTCATT
1 TATTATTTATA
*
58335289 TCTTATTT-TA
1 TATTATTTATA
58335299 TA-TA--TAT-
1 TATTATTTATA
58335306 TATTATTTAT-
1 TATTATTTATA
*
58335316 TATTATATATA
1 TATTATTTATA
58335327 ACTTTAAAAT
Statistics
Matches: 106, Mismatches: 22, Indels: 27
0.68 0.14 0.17
Matches are distributed among these distances:
7 3 0.03
8 3 0.03
9 4 0.04
10 19 0.18
11 31 0.29
12 35 0.33
13 11 0.10
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (11 bp):
TATTATTTATA
Found at i:58335258 original size:47 final size:47
Alignment explanation
Indices: 58335174--58335326 Score: 149
Period size: 47 Copynumber: 3.2 Consensus size: 47
58335164 TTAAAAAAAT
*
58335174 TATTATATATAT-TTTTATTTATGTATTATT-TGT-TATATTATTTATA
1 TATTATATATATATTTTATTTAT-TATT-TTATATATATATTATTTATA
*
58335220 TATTATATATATATTTTATTTATATATTTTAT-TATATATTA--AATCA
1 TATTATATATATATTTTATTTAT-TATTTTATATATATATTATTTAT-A
* *
58335266 TTTTATTATATATATTATTCATTTCTTATTTTATATATATTATTATTTAT-
1 TATTA-TATATATATT-TT-ATTTATTATTTTATATATA-TATTATTTATA
58335316 TATTATATATA
1 TATTATATATA
58335327 ACTTTAAAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
45 2 0.02
46 20 0.22
47 32 0.36
48 10 0.11
49 15 0.17
50 9 0.10
52 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (47 bp):
TATTATATATATATTTTATTTATTATTTTATATATATATTATTTATA
Found at i:58335272 original size:25 final size:26
Alignment explanation
Indices: 58335244--58335307 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
58335234 TTTATTTATA
58335244 TATTTTATTATATATTAAATCA-TT-T
1 TATTTTA-TATATATTAAATCATTTCT
*
58335269 TA--TTATATATATT-ATTCATTTCT
1 TATTTTATATATATTAAATCATTTCT
58335292 TATTTTATATATATTA
1 TATTTTATATATATTA
58335308 TTATTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 4 0.12
22 10 0.30
23 6 0.18
25 13 0.39
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (26 bp):
TATTTTATATATATTAAATCATTTCT
Found at i:58335308 original size:25 final size:24
Alignment explanation
Indices: 58335176--58335326 Score: 127
Period size: 24 Copynumber: 6.3 Consensus size: 24
58335166 AAAAAAATTA
*
58335176 TTATATATATTTTTATTTATGTATT
1 TTATATATATTATTATTTAT-TATT
*
58335201 ATT-TGT-TA-TATTATTTATATATT
1 -TTATATATATTATTATTTAT-TATT
*
58335224 ATATATATATT-TTATTTATATATT
1 TTATATATATTATTATTTAT-TATT
* *
58335248 TTAT-TATA-TATTAAATCATT-TT
1 TTATATATATTATT-ATTTATTATT
*
58335270 ATTATATATATTATTCATTTCTTATT
1 -TTATATATATTATT-ATTTATTATT
58335296 TTATATATATTATTATTTATTATT
1 TTATATATATTATTATTTATTATT
*
58335320 ATATATA
1 TTATATA
58335327 ACTTTAAAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.04
23 26 0.25
24 43 0.42
25 25 0.25
26 4 0.04
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATATATATTATTATTTATTATT
Found at i:58335324 original size:20 final size:20
Alignment explanation
Indices: 58335173--58335325 Score: 78
Period size: 23 Copynumber: 7.7 Consensus size: 20
58335163 TTTAAAAAAA
*
58335173 TTATTA-TATATATTTTTAT
1 TTATTATTATATATTATTAT
* *
58335192 TTATGTATTATTTGTTATATTAT
1 TTAT-TATTATAT-AT-TATTAT
58335215 TTATATATTATATA-TA-TA-
1 TTAT-TATTATATATTATTAT
58335233 TT-TTATTTATATATT-TTA-
1 TTATTA-TTATATATTATTAT
*
58335251 TTATATATTA-A-ATCA-T-T
1 TTAT-TATTATATATTATTAT
58335268 TTATTA-TATATATTATTCATTT
1 TTATTATTATATATTATT-A--T
*
58335290 CTTATTTTATATATATTATTAT
1 -TTATTAT-TATATATTATTAT
58335312 TTATTATTATATAT
1 TTATTATTATATAT
58335326 AACTTTAAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 41
0.67 0.06 0.27
Matches are distributed among these distances:
15 2 0.02
16 5 0.05
17 18 0.17
18 9 0.09
19 10 0.10
20 13 0.13
21 10 0.10
22 3 0.03
23 21 0.20
24 1 0.01
25 11 0.11
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (20 bp):
TTATTATTATATATTATTAT
Found at i:58345374 original size:39 final size:39
Alignment explanation
Indices: 58345329--58345458 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
58345319 GGACTAAGAT
*
58345329 CCGAAGGTATTTGTGCGAGTTATTAATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCGGGTTAAGTC
* * *
58345368 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATT-CGGGTTAAGTC
* *
58345408 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT--AATTCGGGTTAAGTC
58345448 CCGAAGGCATT
1 CCGAAGGCATT
58345459 GAATGAGTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 25 0.32
40 51 0.65
41 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCGGGTTAAGTC
Found at i:58345412 original size:40 final size:40
Alignment explanation
Indices: 58345276--58345458 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
58345266 TTGAATGCTG
* *
58345276 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
** * * *
58345315 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
58345356 T-CGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* ** *
58345395 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
58345435 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58345459 GAATGAGTTA
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 33 0.28
40 74 0.62
41 12 0.10
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:58345414 original size:79 final size:80
Alignment explanation
Indices: 58345276--58345455 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
58345266 TTGAATGCTG
* * *
58345276 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
*
58345340 TGTGCGAGTTATT-AA
66 CGTGCGAGTT-TTAAA
* **
58345355 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
58345416 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTT-AAA
58345435 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
58345456 ATTGAATGAG
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 4 0.05
79 52 0.60
80 31 0.36
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAA
Found at i:58345471 original size:79 final size:79
Alignment explanation
Indices: 58345310--58345495 Score: 191
Period size: 79 Copynumber: 2.4 Consensus size: 79
58345300 GTGCTAAGTG
* * * * *
58345310 ACTATATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAATTCGGGTTAAGTCCCGAAG
1 ACTATAACCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAG
* **
58345374 GCCTTTGTGCGAGAT
65 GCCATTGAACGAGAT
* *
58345389 ACTA-ATTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGA
1 ACTATA-ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT--AATCCGGGTTAAGTCCCGA
* *
58345452 AGG-CATTGAATGAGTT
63 AGGCCATTGAACGAGAT
*
58345468 ACTATAACCGGGCTATGTCCCGAAGGCA
1 ACTATAACCGGGCTAAGTCCCGAAGGCA
58345496 CTTGAACGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 4 0.04
79 63 0.71
80 22 0.25
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
ACTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGG
CCATTGAACGAGAT
Found at i:58345479 original size:39 final size:39
Alignment explanation
Indices: 58345357--58345505 Score: 131
Period size: 40 Copynumber: 3.7 Consensus size: 39
58345347 GTTATTAATT
* ** * *
58345357 CGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT-AATTC
1 CGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAATC
** *
58345397 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAATC
1 CGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAATC
* *
58345437 CGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA-C
1 CGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAATC
* *
58345476 CGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CGGGTTAAGTCCCGAAGGCA-TTGAACGAG
58345506 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAATC
Found at i:58352287 original size:40 final size:40
Alignment explanation
Indices: 58352256--58352386 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
58352246 GGACTAAGAT
*
58352256 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * * *
58352296 CCGAAGGCCTTTGGGCGAGATAGTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
58352336 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
58352376 CCGAAGGCATT
1 CCGAAGGCATT
58352387 GAATGAGTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:58352407 original size:39 final size:39
Alignment explanation
Indices: 58352283--58352433 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
58352273 AGTTATTAAT
* ** ** *
58352283 TCCGGGTTAAGTCCCGAAGGCCTTTGGGCGAGATAGT-AAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
58352323 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* *
58352363 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
58352403 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
58352434 GAGCTAAATC
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 30 0.32
40 64 0.68
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:58357467 original size:90 final size:90
Alignment explanation
Indices: 58357315--58358095 Score: 1071
Period size: 90 Copynumber: 8.7 Consensus size: 90
58357305 GTAGATCACT
* * * *
58357315 GAAGCAGATCGAAGATGATAGATTTGGTGTCTCTGTATTGGACGGGGAGCAGATCGAAGATAGCA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
* *
58357380 GATCTAACATTCGTGTGTTTACATT
66 GATCTGACATTCGTGTGTTTACATC
* * * * *
58357405 GAAGCAGATCAAAAATGATAGATTTGGCATCTTTGTATTAGACGAGGAGCAGATCGAAGATAGCA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
* *
58357470 GATCTGACATTTGTATGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* *
58357495 GAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACAAGGAGCAGATCGAAGATAGCA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
* * * * *
58357560 TATTTGACATCCGTGTATTTACATT
66 GATCTGACATTCGTGTGTTTACATC
* * * * *
58357585 GAAGCAAATCGAAGATGATAGATTTGACGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
*
58357650 GACCTGACATTCGTGTGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * * *
58357675 GAAGCAAATCGAAGATGATAGATTTGGCGTCTCTGTATTGGACGGGGAGCAGATCGAAGATAGCA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
*
58357740 GATCTGACATTCATGTGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * * *
58357765 GAAGCATATCGAAGATGACAGATTTAGCGTCTCTGTATTAGACG-GAGAGCAGATCGAAAATAGA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAG-GAGCAGATCGAAGATAGC
58357829 AGATCTGACATTCGTGTGTTTACATC
65 AGATCTGACATTCGTGTGTTTACATC
* * * *
58357855 GAAGCAGATTGAAGATGACAGGTTTGGCGTCTCTATATTAGACGAGGAGCAGATCAAAGATAGCA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
* *
58357920 GGTCTGACATTCGTGTATTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * * *
58357945 GAAGCAGATTGAAGATGACAGATTTGGCGTCTTTGTATTAGAC-AGGGGCAGATCGAAGATAGGA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
*
58358009 GATCTGACATTTGTGTGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * * * * *
58358034 GAAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTATTTGACGGGGAGCAGCTCAAAGATA
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATA
58358096 TTAACATGGT
Statistics
Matches: 610, Mismatches: 78, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
89 79 0.13
90 530 0.87
91 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
GATCTGACATTCGTGTGTTTACATC
Found at i:58358085 original size:45 final size:45
Alignment explanation
Indices: 58357317--58358095 Score: 282
Period size: 45 Copynumber: 17.3 Consensus size: 45
58357307 AGATCACTGA
* * ** * **
58357317 AGCAGATCGAAGATGATAGATTTGGTGTCTCTGTATTGGACGGGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* * * * * * *
58357362 AGCAGATCGAAGATAGCAGATCTAACAT-TCGTGTGTTT-ACATTGA
1 AGCAGATCGAAGATAACAGATTTGACGTCTC-TGTATTTGAC-TCGG
* * * * * * * * **
58357407 AGCAGATCAAAAATGATAGATTTGGCATCTTTGTATTAGACGAGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* * * * *
58357452 AGCAGATCGAAGATAGCAGATCTGACAT-T-TGTATGTTTACATCGA
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTAT-TTGAC-TCGG
* * * * **
58357497 AGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACAAGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* * * * *
58357542 AGCAGATCGAAGATAGCATATTTGACATC-CGTGTATTT-ACATTGA
1 AGCAGATCGAAGATAACAGATTTGACGTCTC-TGTATTTGAC-TCGG
* * * * **
58357587 AGCAAATCGAAGATGATAGATTTGACGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* * ** * * *
58357632 AGCAGATCAAAGATAGCAGACCTGACAT-TCGTGTGTTT-ACATCGA
1 AGCAGATCGAAGATAACAGATTTGACGTCTC-TGTATTTGAC-TCGG
* * * * * **
58357677 AGCAAATCGAAGATGATAGATTTGGCGTCTCTGTATTGGACGGGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* * * * *
58357722 AGCAGATCGAAGATAGCAGATCTGACAT-TCATGTGTTT-ACATCGA
1 AGCAGATCGAAGATAACAGATTTGACGTCTC-TGTATTTGAC-TCGG
* * * *
58357767 AGCATATCGAAGATGACAGATTT-AGCGTCTCTGTATTAGAC-GGAG
1 AGCAGATCGAAGATAACAGATTTGA-CGTCTCTGTATTTGACTCG-G
* * * * *
58357812 AGCAGATCGAAAATAGA-AGATCTGACAT-TCGTGTGTTT-ACATCGA
1 AGCAGATCGAAGATA-ACAGATTTGACGTCTC-TGTATTTGAC-TCGG
* * * * * * **
58357857 AGCAGATTGAAGATGACAGGTTTGGCGTCTCTATATTAGACGAGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* * * * * *
58357902 AGCAGATCAAAGATAGCAGGTCTGACAT-TCGTGTATTT-ACATCGA
1 AGCAGATCGAAGATAACAGATTTGACGTCTC-TGTATTTGAC-TCGG
* * * * * *
58357947 AGCAGATTGAAGATGACAGATTTGGCGTCTTTGTATTAGAC-AGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* ** * * * * * *
58357991 GGCAGATCGAAGATAGGAGATCTGACATTTGTGTGTTT-ACATCGA
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGAC-TCGG
* * **
58358036 AGCAGATCGAAGATAACGGATTTGGCGTCTCTGTATTTGACGGGG
1 AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
* *
58358081 AGCAGCTCAAAGATA
1 AGCAGATCGAAGATA
58358096 TTAACATGGT
Statistics
Matches: 504, Mismatches: 193, Indels: 74
0.65 0.25 0.10
Matches are distributed among these distances:
43 7 0.01
44 57 0.11
45 405 0.80
46 30 0.06
47 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGACGTCTCTGTATTTGACTCGG
Found at i:58359569 original size:25 final size:27
Alignment explanation
Indices: 58359523--58359573 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
58359513 AATCCTTTTT
* *
58359523 AAATTTTTTATATAATTTATTTATTTA
1 AAATGTTTTATATAATTCATTTATTTA
58359550 AAATGTTTTATAT-A-TCATTTATTT
1 AAATGTTTTATATAATTCATTTATTT
58359574 TTATTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 1 0.05
27 12 0.55
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
AAATGTTTTATATAATTCATTTATTTA
Found at i:58359576 original size:27 final size:26
Alignment explanation
Indices: 58359518--58359575 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
58359508 ATTTTAATCC
58359518 TTTTT-AAATTTTTTATATAATTTAT
1 TTTTTAAAATTTTTTATATAATTTAT
*
58359543 TTATTTAAAATGTTTTATATATCATTTAT
1 TT-TTTAAAAT-TTTT-TATATAATTTAT
58359572 TTTT
1 TTTT
58359576 ATTATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.07
26 3 0.11
27 4 0.14
28 6 0.21
29 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTAAAATTTTTTATATAATTTAT
Found at i:58359638 original size:11 final size:11
Alignment explanation
Indices: 58359608--58359758 Score: 72
Period size: 12 Copynumber: 13.0 Consensus size: 11
58359598 TTAAAAAAAT
*
58359608 TATTATATATA
1 TATTATTTATA
* *
58359619 TTTTTATTTATG
1 -TATTATTTATA
*
58359631 TATTATTTGTTA
1 TATTATTT-ATA
58359643 TATTATTTATA
1 TATTATTTATA
*
58359654 TTTTATTTATA
1 TATTATTTATA
*
58359665 TATTTTATTATA
1 TATTAT-TTATA
* * *
58359677 TATTAAATCATTT
1 TATT-ATTTA-TA
*
58359690 TATTATATATA
1 TATTATTTATA
*
58359701 TTATTCATTTCT-
1 -TATT-ATTTATA
*
58359713 TATTTTATTATA
1 TATTAT-TTATA
*
58359725 TATTATGTTATCT
1 TATTAT-TTAT-A
58359738 TATTATTTATA
1 TATTATTTATA
*
58359749 -ATTATATATA
1 TATTATTTATA
58359759 ATTTTAAAAT
Statistics
Matches: 103, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
10 10 0.10
11 31 0.30
12 47 0.46
13 15 0.15
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTATTTATA
Found at i:58359663 original size:20 final size:20
Alignment explanation
Indices: 58359640--58359764 Score: 76
Period size: 23 Copynumber: 6.0 Consensus size: 20
58359630 GTATTATTTG
58359640 TTATATTATTTATATTTTAT
1 TTATATTATTTATATTTTAT
*
58359660 TTATA-TATTT-TATTATAT
1 TTATATTATTTATATTTTAT
* * *
58359678 ATTAAATCATTT-TATTATAT
1 -TTATATTATTTATATTTTAT
* *
58359698 ATATTATTCATTTCTTATTTTAT
1 TTA-TATT-ATTT-ATATTTTAT
*
58359721 TATATATTATGTTATCTTATTAT
1 T-TATATTAT-TTATATT-TTAT
*
58359744 TTATAATTATATATAATTTTA
1 TTAT-ATTATTTAT-ATTTTA
58359765 AAATTTACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
18 7 0.09
19 11 0.13
20 19 0.23
21 4 0.05
22 14 0.17
23 25 0.30
24 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (20 bp):
TTATATTATTTATATTTTAT
Found at i:58359675 original size:23 final size:25
Alignment explanation
Indices: 58359606--58359677 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 25
58359596 ATTTAAAAAA
58359606 ATTATTATATATATTTTTATT-TATGT
1 ATTATT-TATATA-TTTTATTATATGT
* *
58359632 ATTATTTGT-TATATTATTTATAT-T
1 ATTATTTATATATTTTA-TTATATGT
58359656 -TTATTTATATATTTTATTATAT
1 ATTATTTATATATTTTATTATAT
58359678 ATTAAATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
23 17 0.44
24 11 0.28
25 5 0.13
26 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
ATTATTTATATATTTTATTATATGT
Found at i:58359679 original size:34 final size:33
Alignment explanation
Indices: 58359608--58359705 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 33
58359598 TTAAAAAAAT
*
58359608 TATTATATATATTTTTATTTATGTATTATTTGTTA
1 TATTAT-TATA-TTTTATTTATATATTATTTGTTA
58359643 TATTATTTATATTTTATTTATATATT-TTAT-TATA
1 TATTA-TTATATTTTATTTATATATTATT-TGT-TA
*
58359677 TATTA-AATCATTTTATTATATATATTATT
1 TATTATTAT-ATTTTATT-TATATATTATT
58359706 CATTTCTTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
32 2 0.04
33 11 0.20
34 30 0.55
35 11 0.20
36 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (33 bp):
TATTATTATATTTTATTTATATATTATTTGTTA
Found at i:58359741 original size:48 final size:48
Alignment explanation
Indices: 58359643--58359764 Score: 137
Period size: 48 Copynumber: 2.6 Consensus size: 48
58359633 TTATTTGTTA
*
58359643 TATTATTTATATT-TTATTTATATATTTTATTATATATTAAATCATTT
1 TATTATTTATATTATTATTTATATATTTTATTATATATTAAATCATCT
* * ** *
58359690 TATTATATATATTATTCATTTCT-TATTTTATTATATATTATGTTATCT
1 TATTATTTATATTATT-ATTTATATATTTTATTATATATTAAATCATCT
*
58359738 TATTATTTATA--ATTATATATA-ATTTTA
1 TATTATTTATATTATTATTTATATATTTTA
58359765 AAATTTACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
45 10 0.16
46 3 0.05
47 12 0.19
48 33 0.52
49 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (48 bp):
TATTATTTATATTATTATTTATATATTTTATTATATATTAAATCATCT
Found at i:58359743 original size:28 final size:26
Alignment explanation
Indices: 58359622--58359757 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 26
58359612 ATATATATTT
* * *
58359622 TTATTTATGTATT-ATTTGTTATATTA
1 TTATATAT-TATTCATTTATTATTTTA
58359648 TT-TATATT-TT-ATTTATATATTTTA
1 TTATATATTATTCATTTAT-TATTTTA
*
58359672 TTATATATTAAATCA-TT-TTA--TTA
1 TTATATATT-ATTCATTTATTATTTTA
*
58359695 -TATATATTATTCATTTCTTATTTTA
1 TTATATATTATTCATTTATTATTTTA
*
58359720 TTATATATTATGTTATCTTATTATTTATAA
1 TTATATATTAT-TCAT-TTATTATTT-T-A
58359750 TTATATAT
1 TTATATAT
58359758 AATTTTAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
21 4 0.04
22 10 0.11
23 13 0.15
24 9 0.10
25 15 0.17
26 13 0.15
27 6 0.07
28 9 0.10
29 1 0.01
30 9 0.10
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (26 bp):
TTATATATTATTCATTTATTATTTTA
Found at i:58368590 original size:5 final size:5
Alignment explanation
Indices: 58368568--58368638 Score: 51
Period size: 6 Copynumber: 13.8 Consensus size: 5
58368558 TCCTCCTATT
*
58368568 TTTTA -TTT- TTTTA GTTTTA TTTTTA TTTTA TTTTTA TTTTTC TTTTGA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA -TTTTA TTTT-A
58368616 TTTTGA TTTTA --TTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTT
58368639 GAAAGACATA
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 17 0.30
6 30 0.54
ACGTcount: A:0.15, C:0.01, G:0.04, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:58368596 original size:11 final size:11
Alignment explanation
Indices: 58368575--58368638 Score: 67
Period size: 11 Copynumber: 5.4 Consensus size: 11
58368565 ATTTTTTATT
58368575 TTTTTAGTTTTA
1 TTTTTA-TTTTA
58368587 TTTTTATTTTA
1 TTTTTATTTTA
58368598 TTTTTATTTT-
1 TTTTTATTTTA
58368608 TCTTTTGATTTTGA
1 T-TTTT-ATTTT-A
58368622 TTTTATTATTTTA
1 -TTT-TTATTTTA
58368635 TTTT
1 TTTT
58368639 GAAAGACATA
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.02
11 20 0.43
12 14 0.30
13 1 0.02
14 7 0.15
15 3 0.07
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTTTATTTTA
Done.