Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 262 of 325
Found at i:85577365 original size:16 final size:16
Alignment explanation
Indices: 85577344--85577412 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
85577334 TTTGGTTCGC
85577344 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85577360 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85577376 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
85577393 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85577409 TGTA
1 TGTA
85577413 ATAGCTAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:85577390 original size:33 final size:32
Alignment explanation
Indices: 85577344--85577412 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
85577334 TTTGGTTCGC
85577344 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
85577376 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
85577409 TGTA
1 TGTA
85577413 ATAGCTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:85577669 original size:18 final size:19
Alignment explanation
Indices: 85577648--85577684 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
85577638 TTATTATTAA
85577648 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
85577666 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
85577685 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:85577791 original size:18 final size:17
Alignment explanation
Indices: 85577770--85577804 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85577760 TTATTATTAA
*
85577770 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
85577788 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
85577805 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:85577844 original size:120 final size:120
Alignment explanation
Indices: 85577629--85578259 Score: 1050
Period size: 120 Copynumber: 5.2 Consensus size: 120
85577619 TAATCATATT
85577629 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATAA
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATAA
* *
85577694 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
64 TTAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAA
85577751 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* *
85577816 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAA
*
85577871 TTAACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATT
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* *
85577936 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAA
* *
85577991 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATC
1 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* * *
85578056 AATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAA
*
85578111 TTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAAT-AT
1 TT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
85578174 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
65 T-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAA
*
85578231 TTAAAATAATTATTATTAAATATAATTTT
1 TTAACATAATTATTATTAAATAT-ATTTT
85578260 TCTAAATATA
Statistics
Matches: 489, Mismatches: 16, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
119 4 0.01
120 433 0.89
121 9 0.02
122 43 0.09
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAA
Found at i:85578031 original size:18 final size:17
Alignment explanation
Indices: 85578008--85578044 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
85577998 AATTATTATT
85578008 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
85578024 AAATATATGATTTAATA
1 AAATATATGATTTAATA
85578041 AAAT
1 AAAT
85578045 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:85578151 original size:18 final size:17
Alignment explanation
Indices: 85578128--85578164 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
85578118 AATTATTATT
85578128 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
85578144 AAATATATGATTTAATA
1 AAATATATGATTTAATA
85578161 AAAT
1 AAAT
85578165 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:85582424 original size:26 final size:26
Alignment explanation
Indices: 85582374--85582423 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
85582364 AATTTAATTT
*
85582374 AATTATTTAAAATTTATAAAAATATA
1 AATTATTTAAAATTAATAAAAATATA
*
85582400 AATTA-TTAAAA-TAATAAAATTATA
1 AATTATTTAAAATTAATAAAAATATA
85582424 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 6 0.27
26 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTATTTAAAATTAATAAAAATATA
Found at i:85584325 original size:15 final size:15
Alignment explanation
Indices: 85584286--85584318 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
85584276 TAAGATATAA
85584286 TTACATCATAATTTT
1 TTACATCATAATTTT
85584301 TTACATCATAATTTT
1 TTACATCATAATTTT
85584316 TTA
1 TTA
85584319 TGTCATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (15 bp):
TTACATCATAATTTT
Found at i:85585532 original size:78 final size:78
Alignment explanation
Indices: 85585419--85585563 Score: 218
Period size: 78 Copynumber: 1.9 Consensus size: 78
85585409 AGATTGTGTG
* * * * *
85585419 CTAGGCCGTGCCAAACTTGTAGGGTATACTAACTTATGCCACACAGCTAAGTCACACGCCCGTGT
1 CTAGGCCATGCCAAACCTATAGGGTATACTAACTTATGCCACACAGCCAAGTCACACGCCAGTGT
85585484 GCCAGACCTTGTA
66 GCCAGACCTTGTA
* * *
85585497 CTAGGCCATGCCAAACCTATAGGGTATACTGACTTATGCTACACGGCCAAGTCACACGCCAGTGT
1 CTAGGCCATGCCAAACCTATAGGGTATACTAACTTATGCCACACAGCCAAGTCACACGCCAGTGT
85585562 GC
66 GC
85585564 TGGGCCATGT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (78 bp):
CTAGGCCATGCCAAACCTATAGGGTATACTAACTTATGCCACACAGCCAAGTCACACGCCAGTGT
GCCAGACCTTGTA
Found at i:85593530 original size:18 final size:19
Alignment explanation
Indices: 85593499--85593534 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
85593489 TTATAAACTT
*
85593499 TTTTTTGAAGTTTTTAATA
1 TTTTTTGAAATTTTTAATA
85593518 TTTTTT-AAATTTTTAAT
1 TTTTTTGAAATTTTTAAT
85593535 TGTTATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTTGAAATTTTTAATA
Found at i:85600076 original size:46 final size:45
Alignment explanation
Indices: 85600023--85600198 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
85600013 TATTTGGGCA
85600023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
85600069 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
85600116 TCCGAGCTCGTTGAGTTGAGTCCAATTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
85600162 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85600199 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:85600178 original size:93 final size:93
Alignment explanation
Indices: 85600019--85600190 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
85600009 AGGATATTTG
* * *
85600019 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85600084 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
85600112 GGCATCCGAGCTCGTTGAGTTGAGTCCAATTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85600177 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85600191 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:85605045 original size:46 final size:45
Alignment explanation
Indices: 85604992--85605167 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
85604982 TATTTGGACA
85604992 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
85605038 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
85605085 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
85605131 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85605168 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:85605149 original size:93 final size:93
Alignment explanation
Indices: 85604990--85605158 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
85604980 GATATTTGGA
* *
85604990 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
85605055 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* *
85605083 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
85605148 GAGTCCGAGTT
66 GAGTCCGAGTT
85605159 TACTTATGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:85606493 original size:14 final size:14
Alignment explanation
Indices: 85606474--85606500 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85606464 TACAGGATTC
85606474 GTATAATTCTTATT
1 GTATAATTCTTATT
85606488 GTATAATTCTTAT
1 GTATAATTCTTAT
85606501 ATATATTGTA
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (14 bp):
GTATAATTCTTATT
Found at i:85608411 original size:3 final size:3
Alignment explanation
Indices: 85608403--85608434 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
85608393 ATATAATTCA
85608403 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
85608435 AAGAAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:85610093 original size:20 final size:19
Alignment explanation
Indices: 85610031--85610101 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
85610021 TAAGATATAA
85610031 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTA-AAATT
*
85610051 ATTTTGAA-ATTTAAAATTT
1 ATTTTGAATTTTTAAAA-TT
85610070 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
85610090 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
85610102 TTTTGTAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 17 0.38
20 17 0.38
21 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:85610103 original size:21 final size:21
Alignment explanation
Indices: 85610050--85610102 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
85610040 TTTTTATAAA
*
85610050 TATTTTGAA-ATTT-AAAATT
1 TATTTTGAATTTTTGAAAATT
85610069 TATTTTGAATTTTTGAAAA-T
1 TATTTTGAATTTTTGAAAATT
*
85610089 TATTTTGATTTTTT
1 TATTTTGAATTTTT
85610103 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (21 bp):
TATTTTGAATTTTTGAAAATT
Found at i:85618455 original size:27 final size:27
Alignment explanation
Indices: 85618425--85618545 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 27
85618415 TGGTCACCTT
85618425 CAAGCCTTTCCAAGTTTTGGTTACATC
1 CAAGCCTTTCCAAGTTTTGGTTACATC
* * *
85618452 CAAGTCTTTTCATA-TATTAATAAGTT-C-TC
1 CAAGCCTTTCCA-AGT-TT--T-GGTTACATC
*
85618481 TAAAAGCCTTTCCAAGTTTTGGTTACATC
1 -CAA-GCCTTTCCAAGTTTTGGTTACATC
*
85618510 CAAGCCTTTCCAAGTTTTTGTTACATC
1 CAAGCCTTTCCAAGTTTTGGTTACATC
*
85618537 CAAGTCTTT
1 CAAGCCTTT
85618546 TCATACATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
27 45 0.61
28 7 0.09
29 4 0.05
30 7 0.09
31 11 0.15
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (27 bp):
CAAGCCTTTCCAAGTTTTGGTTACATC
Found at i:85619209 original size:16 final size:17
Alignment explanation
Indices: 85619177--85619209 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85619167 AACTAACAGT
85619177 TATAAAATTTATATTTA
1 TATAAAATTTATATTTA
85619194 TATAAAATTT-TATTTA
1 TATAAAATTTATATTTA
85619210 AATTATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATAAAATTTATATTTA
Found at i:85619471 original size:91 final size:91
Alignment explanation
Indices: 85619311--85619486 Score: 264
Period size: 91 Copynumber: 1.9 Consensus size: 91
85619301 GTGTGGTTGA
*
85619311 AGAGTCTTTCTAGATGTTGAAGATATACTTAAAAGAAAGATAAGAAAAAAAGTGAAGGAAGAAGA
1 AGAGTCTTTCTAGATGTCGAAGATATACTTAAAAGAAAGATAAGAAAAAAAGTGAAGGAAGAAGA
* *
85619376 ATACCTCTCTTTGAGGTGGGTGGAGG
66 ATACCTATCCTTGAGGTGGGTGGAGG
* * * *
85619402 AGAGTCTTTTTAGATGTCGAAGATATACTTAGAAA-AATGATAAGAAAAAAAGTGGAGGAATAAG
1 AGAGTCTTTCTAGATGTCGAAGATATACTTA-AAAGAAAGATAAGAAAAAAAGTGAAGGAAGAAG
*
85619466 CATACCTATCCTTGAGGTGGG
65 AATACCTATCCTTGAGGTGGG
85619487 AGAGGAGTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
91 73 0.96
92 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (91 bp):
AGAGTCTTTCTAGATGTCGAAGATATACTTAAAAGAAAGATAAGAAAAAAAGTGAAGGAAGAAGA
ATACCTATCCTTGAGGTGGGTGGAGG
Found at i:85622956 original size:42 final size:42
Alignment explanation
Indices: 85622865--85622957 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
85622855 GATATGGCTT
* * *
85622865 TGGCATCGATAAGTGATTTCGTATAAGACCATGTTTTAGACA
1 TGGCATCGATAAGAGATCTCGTATAAGACCATGTTTGAGACA
** * * * *
85622907 TCACATCGATATGAGGTCTCGTATAAGACCATGTTTGGGGCA
1 TGGCATCGATAAGAGATCTCGTATAAGACCATGTTTGAGACA
85622949 TGGCATCGA
1 TGGCATCGA
85622958 CAGTGATTCG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGGCATCGATAAGAGATCTCGTATAAGACCATGTTTGAGACA
Found at i:85630603 original size:48 final size:48
Alignment explanation
Indices: 85630548--85630673 Score: 126
Period size: 48 Copynumber: 2.6 Consensus size: 48
85630538 TGATTAACGA
* **
85630548 GATCCCGTGTAAGACCATGTCTGGGACATGGCGTCGGCATCGATACGC
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCGTCGGCACCGATAAAC
* * * * * * *
85630596 GATCCCGTGTAAGATCATATCAGGGATATGGCTTTGGCACCGATAAAT
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCGTCGGCACCGATAAAC
** * *
85630644 GATTTCGTATAAGACCATGTTTGGGACATG
1 GATCCCGTGTAAGACCATGTCTGGGACATG
85630674 AAATCGATAT
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
GATCCCGTGTAAGACCATGTCTGGGACATGGCGTCGGCACCGATAAAC
Found at i:85630725 original size:90 final size:90
Alignment explanation
Indices: 85630631--85630800 Score: 207
Period size: 90 Copynumber: 1.9 Consensus size: 90
85630621 ATATGGCTTT
* * *
85630631 GGCACCGA-TAAATGATTTCGTATAAGACCATGTTTGGGACATGAAATCGATATGAAGTCCCATA
1 GGCACCGATTAAA-GACTTCGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACA
85630695 TAAGACCATGTCTGGGGCATGGCGTC
65 TAAGACCATGTCTGGGGCATGGCGTC
* ** * * * * ** *
85630721 GGCACTGATTCGAGACTTCGTATAAGACTATATTTGGGATATGGAATCGATGTGTGGTCCTACAT
1 GGCACCGATTAAAGACTTCGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACAT
85630786 AAGACCATGTCTGGG
66 AAGACCATGTCTGGG
85630801 ACATAGCTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
90 64 0.97
91 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (90 bp):
GGCACCGATTAAAGACTTCGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACAT
AAGACCATGTCTGGGGCATGGCGTC
Found at i:85631256 original size:9 final size:9
Alignment explanation
Indices: 85631242--85631309 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
85631232 ATAAGTATAA
*
85631242 AATTAATCG
1 AATTAACCG
* *
85631251 AATTAATCA
1 AATTAACCG
85631260 AATTAACCG
1 AATTAACCG
85631269 AATT-ACTCG
1 AATTAAC-CG
* *
85631278 AATTACCCA
1 AATTAACCG
85631287 AATTAACCG
1 AATTAACCG
85631296 AATTAACCG
1 AATTAACCG
85631305 AATTA
1 AATTA
85631310 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 2 0.04
9 47 0.94
10 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:85631272 original size:27 final size:27
Alignment explanation
Indices: 85631242--85631309 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
85631232 ATAAGTATAA
*
85631242 AATTAATCGAATTAATCAAATTAACCG
1 AATTAATCGAATTAACCAAATTAACCG
* *
85631269 AATTACTCGAATTACCCAAATTAACCG
1 AATTAATCGAATTAACCAAATTAACCG
*
85631296 AATTAACCGAATTA
1 AATTAATCGAATTA
85631310 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTAATCGAATTAACCAAATTAACCG
Found at i:85634256 original size:51 final size:48
Alignment explanation
Indices: 85634136--85634429 Score: 311
Period size: 51 Copynumber: 5.9 Consensus size: 48
85634126 GCTGAAGCTA
* * *
85634136 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAG
* * *
85634185 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
* * * *
85634233 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAACAG
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAG
* * *
85634285 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CA-CAG
** * *
85634335 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
* *
85634383 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
85634430 TCAGAATAGA
Statistics
Matches: 203, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
47 2 0.01
48 6 0.03
49 73 0.36
50 40 0.20
51 78 0.38
52 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
Found at i:85634264 original size:100 final size:99
Alignment explanation
Indices: 85634139--85634429 Score: 368
Period size: 100 Copynumber: 2.9 Consensus size: 99
85634129 GAAGCTATCT
*
85634139 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
* ***
85634204 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGACCACA-CCATCG
* *
85634239 GGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAACAGTCTGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
* *
85634304 TGCACTTAGTACTACACACGTGACCTCACCATCT
66 TGCACTTAGTACTACACACGTGACCACACCATCG
** * * * * * * *
85634338 AATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCATAGTA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCTGGTACACGTAGTA
*
85634402 GCCTGCACTTAGTACTACACATGTGACC
63 GCCTGCACTTAGTACTACACACGTGACC
85634430 TCAGAATAGA
Statistics
Matches: 167, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
98 4 0.02
99 36 0.22
100 88 0.53
101 39 0.23
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCACACCATCG
Found at i:85634406 original size:150 final size:149
Alignment explanation
Indices: 85634136--85634421 Score: 457
Period size: 150 Copynumber: 1.9 Consensus size: 149
85634126 GCTGAAGCTA
* * * **
85634136 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACGTAGTA
85634201 GCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTA
66 GCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTA
85634266 CTACACTTGCGACCAACAG
131 CTACACTTGCGACCAACAG
* * * *
85634285 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACGTAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTCTAATACACGTAG
*
85634349 TAGCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAG
64 TAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAG
85634414 TACTACAC
129 TACTACAC
85634422 ATGTGACCTC
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
149 36 0.29
150 85 0.68
151 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (149 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACGTAGTA
GCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTA
CTACACTTGCGACCAACAG
Found at i:85636905 original size:16 final size:16
Alignment explanation
Indices: 85636872--85636905 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
85636862 TTCTTCTCTG
85636872 TTTTTCTCTCTTTCTT
1 TTTTTCTCTCTTTCTT
*
85636888 TTTTTTTCT-TTTCTT
1 TTTTTCTCTCTTTCTT
85636903 TTT
1 TTT
85636906 CATTTGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTCTCTTTCTT
Found at i:85637755 original size:28 final size:27
Alignment explanation
Indices: 85637724--85637803 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 27
85637714 TTCATATTAC
85637724 TTAATAA-AATATAGGAAATTATTTTATA
1 TTAATAATAATATA--AAATTATTTTATA
*
85637752 TTAAATAATAAT-TAAAATAATATTTATA
1 TT-AATAATAATATAAAATTAT-TTTATA
*
85637780 TTAAAAATAATATAATAAATTATT
1 TTAATAATAATAT-A-AAATTATT
85637804 AAAAAAGTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 14 0.33
28 11 0.26
29 9 0.21
30 9 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (27 bp):
TTAATAATAATATAAAATTATTTTATA
Found at i:85643568 original size:23 final size:23
Alignment explanation
Indices: 85643539--85643586 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
85643529 ATTTCGGTAA
85643539 TTTTCCCTAGATATAGATTTCAC
1 TTTTCCCTAGATATAGATTTCAC
85643562 TTTTCCCTAGATATAGATTTCAC
1 TTTTCCCTAGATATAGATTTCAC
85643585 TT
1 TT
85643587 ACCCTGGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (23 bp):
TTTTCCCTAGATATAGATTTCAC
Found at i:85643882 original size:28 final size:29
Alignment explanation
Indices: 85643850--85643967 Score: 118
Period size: 29 Copynumber: 4.1 Consensus size: 29
85643840 ACATACCTGT
*
85643850 ATATGGCCCATTAAGCCC-AATCATATTC
1 ATATGGCCCATTAAGCCCAAATCACATTC
* * *
85643878 ATATGCCCCATTAGGCCCAAATCACCTGT-
1 ATATGGCCCATTAAGCCCAAATCACAT-TC
* *
85643907 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAAGCCCAAATCACATTC
* *
85643936 ATATGGCCCGTT-AGACCC-AGTCACATTC
1 ATATGGCCCATTAAG-CCCAAATCACATTC
85643964 ATAT
1 ATAT
85643968 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
28 30 0.39
29 45 0.59
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAAGCCCAAATCACATTC
Found at i:85643910 original size:29 final size:29
Alignment explanation
Indices: 85643847--85643954 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
85643837 TTCACATACC
* *
85643847 TGTATATGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
85643875 T-TCATATGCCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
85643904 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
85643933 TTTATATGGCCCGTTAGACCCA
1 TGTATATGGCCCATTAGGCCCA
85643955 GTCACATTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 49 0.72
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:85643912 original size:57 final size:58
Alignment explanation
Indices: 85643844--85643954 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
85643834 AATTTCACAT
* *
85643844 ACCTGTATATGGCCCATTAAGCCC-AATCATATTCATATGCCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGCCCCATTAGACCCAAATC
* * * *
85643901 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGACCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGCCCCATTAGACCCA
85643955 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGCCCCATTAGACCCAAATC
Found at i:85644227 original size:24 final size:23
Alignment explanation
Indices: 85644176--85644229 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
85644166 CCGTAGCCAA
* * *
85644176 ACTTTTGACTTTTTGGTATTTCG
1 ACTTTTGACTTTTCGGCATCTCG
85644199 ACTTTTCGACTTTTCGGCATCTCG
1 ACTTTT-GACTTTTCGGCATCTCG
*
85644223 GCTTTTG
1 ACTTTTG
85644230 CCAGTACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (23 bp):
ACTTTTGACTTTTCGGCATCTCG
Found at i:85645359 original size:16 final size:16
Alignment explanation
Indices: 85645338--85645369 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85645328 AAGTTCAGGA
85645338 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
85645354 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
85645370 GCGTTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
TTTCAAGATTTTTGGG
Found at i:85645679 original size:18 final size:19
Alignment explanation
Indices: 85645653--85645693 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
85645643 GGCCTCTCGG
85645653 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
85645671 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
85645690 CGGT
1 CGGT
85645694 CCATGATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:85647540 original size:28 final size:29
Alignment explanation
Indices: 85647508--85647569 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
85647498 TACCTGTATC
*
85647508 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
85647536 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
85647565 TGGCC
1 TGGCC
85647570 AGTTGGACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:85647580 original size:29 final size:28
Alignment explanation
Indices: 85647508--85647593 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
85647498 TACCTGTATC
* *
85647508 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
85647536 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
85647565 TGG-CCAGTT-GGACCCAGTCACATTCATA
1 TGGCCCA-TTAGG-CCCAATCACATTCATA
85647593 T
1 T
85647594 TCATGCTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 31 0.62
29 19 0.38
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:85648987 original size:16 final size:16
Alignment explanation
Indices: 85648963--85648994 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85648953 AAGTTCAGGA
*
85648963 TTTCGAGATTTTTGGG
1 TTTCAAGATTTTTGGG
85648979 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
85648995 GCGTTACAAC
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:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
TTTCAAGATTTTTGGG
Found at i:85653925 original size:50 final size:50
Alignment explanation
Indices: 85653863--85653963 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
85653853 TCAAAACATA
* *
85653863 CCTTAATTAAGATATATGCTAGTCGAAACCTAAAACACCAAAAATAGCTT
1 CCTTAATCAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
*
85653913 CCTTAATCAAGATATATGCTAGCCGAACCCTAAAACACCAAAAATAGCTT
1 CCTTAATCAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
85653963 C
1 C
85653964 TTTTTCTTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (50 bp):
CCTTAATCAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
Found at i:85669176 original size:11 final size:12
Alignment explanation
Indices: 85669006--85669243 Score: 96
Period size: 12 Copynumber: 20.4 Consensus size: 12
85668996 TGATTGTTAT
*
85669006 TATTATTATTTC
1 TATTATTATTAC
*
85669018 TATTATTATTAT
1 TATTATTATTAC
* *
85669030 TCCTCT-TTATTAT
1 T-AT-TATTATTAC
85669043 TATTATCTATTATC
1 TATTAT-TATTA-C
* *
85669057 GA-TATTATTAT
1 TATTATTATTAC
*
85669068 TACTATTATTAC
1 TATTATTATTAC
85669080 TATT-TT-TT--
1 TATTATTATTAC
* *
85669088 TATTTTTATTGC
1 TATTATTATTAC
* *
85669100 TATTAATATTAG
1 TATTATTATTAC
85669112 TATTATTA-T-C
1 TATTATTATTAC
*
85669122 -ATT-TTATTTC
1 TATTATTATTAC
*
85669132 -ATTATCATTA-
1 TATTATTATTAC
*
85669142 TCATTTTTA-TA-
1 T-ATTATTATTAC
85669153 -ATTATTATTAC
1 TATTATTATTAC
85669164 TATTATT-TTAC
1 TATTATTATTAC
85669175 TATTATTATTTAAC
1 TATTATTA-TT-AC
*
85669189 ATACTATTATTAC
1 -TATTATTATTAC
* * *
85669202 CATT-TTGTTAT
1 TATTATTATTAC
*
85669213 TATTATTACTAC
1 TATTATTATTAC
85669225 TATTGTATTATTAC
1 TA-T-TATTATTAC
85669239 TATTA
1 TATTA
85669244 GTATATTTTC
Statistics
Matches: 170, Mismatches: 31, Indels: 50
0.68 0.12 0.20
Matches are distributed among these distances:
8 7 0.04
9 12 0.07
10 10 0.06
11 30 0.18
12 65 0.38
13 23 0.14
14 16 0.09
15 7 0.04
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:85669183 original size:14 final size:15
Alignment explanation
Indices: 85669161--85669199 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
85669151 TAATTATTAT
*
85669161 TACTATTATTTTAC-
1 TACTATTATTTAACA
*
85669175 TATTATTATTTAACA
1 TACTATTATTTAACA
85669190 TACTATTATT
1 TACTATTATT
85669200 ACCATTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (15 bp):
TACTATTATTTAACA
Found at i:85669200 original size:3 final size:3
Alignment explanation
Indices: 85669002--85669184 Score: 110
Period size: 3 Copynumber: 61.7 Consensus size: 3
85668992 TAATTGATTG
*
85669002 TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTCC TCT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
* * * * *
85669048 TCTA TTA TCGA -TA TTA TTA TTA CTA TTA TTA CTA TT- TTT TTA TTT
1 T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
85669093 TTA TTG CTA TTA ATA TTA GTA TTA TTA TCA TT- TTA TT- TCA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
85669139 TTA TCA TTT TTA TAA TTA TTA TTA CTA TTA TT- TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
85669185 TAACATACTA
Statistics
Matches: 134, Mismatches: 34, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
2 10 0.07
3 117 0.87
4 6 0.04
5 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:85669233 original size:14 final size:15
Alignment explanation
Indices: 85669210--85669247 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
85669200 ACCATTTTGT
*
85669210 TATTATTATTACTAC
1 TATTAGTATTACTAC
*
85669225 TATT-GTATTATTAC
1 TATTAGTATTACTAC
85669239 TATTAGTAT
1 TATTAGTAT
85669248 ATTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (15 bp):
TATTAGTATTACTAC
Found at i:85680312 original size:45 final size:45
Alignment explanation
Indices: 85680183--85681158 Score: 453
Period size: 41 Copynumber: 21.8 Consensus size: 45
85680173 CTATAAATCA
* *
85680183 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TCA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AG
* * * * * *
85680227 CTAGTCTTATCTCCCTGAAGTTGTAGTAGAGTAGACTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
85680272 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATGAATAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A---A-G-AT-AG
* * ** * * * **
85680324 CAGATTTTATCTATCTGAAGCTGCA--GCAG-AG-TAGATCATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
85680365 CGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
85680409 -AAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
85680453 CTAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AG
* * * * *
85680502 CACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGA-TCAA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
85680545 CAAACCTTATCTCCCTGAAGTTGCAATGGAACAGGTTGAAGTTA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
85680589 -AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
85680633 CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AG
* * ***
85680682 CACAGATCTTATCTCTCTGAAGTTGCAATACTGCAGATT-AA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
85680725 CAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGA-TCAA-A-A-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
85680766 CAAACCTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
** * * * *
85680811 TGAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AG
* * ***
85680860 CACAGATCTTATCTCTCTGAAGTTGAAGTACTGCAGATT-AA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
85680903 CAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGA-TCAA-A-A-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
85680944 CAAACCTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
85680989 CAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AG
* * *
85681038 CACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATT-AA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * *
85681081 CAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGA-TCAA-A-A-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * *
85681122 CAAACCTTATCTCACTAAAGTTGCAGTGGAGCAGATT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
85681159 AAAGCAACAA
Statistics
Matches: 703, Mismatches: 173, Indels: 114
0.71 0.17 0.12
Matches are distributed among these distances:
40 3 0.00
41 224 0.32
42 13 0.02
43 81 0.12
44 43 0.06
45 167 0.24
46 1 0.00
47 13 0.02
48 2 0.00
49 11 0.02
50 16 0.02
51 110 0.16
52 19 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
Found at i:85680575 original size:137 final size:135
Alignment explanation
Indices: 85680370--85681103 Score: 410
Period size: 137 Copynumber: 5.4 Consensus size: 135
85680360 CATAGCGAAC
* * * * *** *
85680370 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTAAAGTTGCAGT
1 CTTATCTCTCTAAAGTTGCAGTGGAGCA-GATCAAAACAAA-TCTTATCTCCCTGAAGTTGCAGT
* *
85680435 GGAACAGACTAAAGATAGCTAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAA
64 GGAACAGATTAAAGATAGC-AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAA
85680500 ATCACAGAT
128 A-CACAGAT
* * * *
85680509 CTTATCTCTCTAAAGTTACAGTAGAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAATGG
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * * * *
85680574 AACAGGTTGAAGTTA--AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAG--AT-AGC
66 AACAGATTAAAGATAGCAA-TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAAC
*
85680634 -GA-AT
130 ACAGAT
* * * * *
85680638 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAA
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGA-T----C-A-AAA-CA-A-ATCTTATCTCCCTGAA
* **** * * * * *
85680703 GTTGCAATACTGCAGATTAAA-ACAG--ATCTTATCTCTCTGAAGTTGCAAT-G--GAG-TAG-A
56 GTTGCAGTGGAACAGATTAAAGATAGCAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAA
* *
85680760 TC-A-AAACA-A-AC
121 GCTATAAACACAGAT
* * * *
85680771 CTTATCTCACTAAAGTTGCAGTGGAGCAGA-CTAAAGATAGTGAATCTTATTTTCCTGAAGTTGC
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGATC-AAA-ACA---AATCTTATCTCCCTGAAGTTGC
* * * *
85680835 AGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTG-A--AGTAC----TG
61 AGTGGAACAGATTAAAG--AT--A--GCA-ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTG
* *
85680893 CAGAT-TAAA-ACAGAT
119 AAGCTATAAACACAGAT
* * * * * *
85680908 CTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAACCTTATCTCACTAAAGTTGCAGTGG
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
85680973 AGCAGACTAAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAAT
66 AACAGATTAAAGATAGC-AATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAA-
85681038 CACAGAT
129 CACAGAT
* * * *
85681045 CTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAACAGATCTTATCTCTCTGAAGTTG
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTG
85681104 TAGTAGAGTA
Statistics
Matches: 445, Mismatches: 102, Indels: 98
0.69 0.16 0.15
Matches are distributed among these distances:
126 3 0.01
127 50 0.11
128 3 0.01
129 27 0.06
130 6 0.01
131 3 0.01
132 3 0.01
133 64 0.14
134 11 0.02
135 39 0.09
136 11 0.02
137 161 0.36
138 11 0.02
139 53 0.12
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (135 bp):
CTTATCTCTCTAAAGTTGCAGTGGAGCAGATCAAAACAAATCTTATCTCCCTGAAGTTGCAGTGG
AACAGATTAAAGATAGCAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAACA
CAGAT
Found at i:85680839 original size:178 final size:178
Alignment explanation
Indices: 85680232--85681162 Score: 1227
Period size: 178 Copynumber: 5.2 Consensus size: 178
85680222 AGTCACTAGT
* * * * * * *
85680232 CTTATCTCCCTGAAGTTGTAGTAGAGTAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
* * * * * * * *
85680297 GTGGAACAGATTGAAGCTATGAATAAACAGATTTTATCTATCTGAAGCTGCAGCAGAGTAGATCA
66 GTGGAACAGATTGAAGCTATAAAT-CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
* * * * * * * * *** *
85680362 TAGC-GAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAAAGT
130 AAACAG-ATCTTATCTCTCTGAAGTTGCAATGGAGTA-GATCAAAACAAA-C
* * *
85680413 CTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGATAGCTAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
* * * *
85680478 GTAGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCAA
66 GTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAA
* * * ** * * *** *
85680543 AACAAACCTTATCTCCCTGAAGTTGCAATGGAACAGGTTGAAGTTAAAGT
131 AACAGATCTTATCTCTCTGAAGTTGCAATGGAGTA-GATCAAAACAAA-C
* *
85680593 CTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 CTTATCTCAC-TAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGC
* **
85680657 AGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAATACTGCAGATTA
65 AGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
85680722 AAACAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAAC
130 AAACAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAAC
** *
85680771 CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGTGAATCTTATTTTCCTGAAGTTGCA
1 CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
* **
85680836 GTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGAAGTACTGCAGATTAA
66 GTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAA
85680901 AACAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAAC
131 AACAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAAC
*
85680949 CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTTCCTGAAGTTGCA
1 CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
*
85681014 GTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAA
66 GTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAA
* * *
85681079 AACAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCAAAACAAAC
131 AACAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAAC
*
85681127 CTTATCTCACTAAAGTTGCAGTGGAGCAGATTAAAG
1 CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAG
85681163 CAACAAGATG
Statistics
Matches: 688, Mismatches: 59, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
178 375 0.55
179 9 0.01
180 225 0.33
181 79 0.11
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (178 bp):
CTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAA
AACAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAAC
Found at i:85682591 original size:25 final size:23
Alignment explanation
Indices: 85682499--85682587 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 23
85682489 AAATTAATTG
* *
85682499 ATTATTATTATTTTTATTACTACT
1 ATTATTA-TGTTTTTATTATTACT
*
85682523 ATTATTAT-TCCTCTTTATTATTATT
1 ATTATTATGT--T-TTTATTATTACT
* *
85682548 ATCTATTATCGATATTATTATTACT
1 AT-TATTAT-GTTTTTATTATTACT
85682573 ATTATTACTGTTTTT
1 ATTATTA-TGTTTTT
85682588 TATTTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 17 0.33
25 25 0.49
26 7 0.14
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTATTATGTTTTTATTATTACT
Found at i:85682676 original size:11 final size:12
Alignment explanation
Indices: 85682499--85682743 Score: 93
Period size: 12 Copynumber: 20.3 Consensus size: 12
85682489 AAATTAATTG
*
85682499 ATTATTATTATT
1 ATTATTATTACT
* *
85682511 TTTATTACTACT
1 ATTATTATTACT
*
85682523 ATTATTATTCCT
1 ATTATTATTACT
* *
85682535 CTTTATTATTATT
1 -ATTATTATTACT
*
85682548 ATCTATTATCGA-T
1 AT-TATTAT-TACT
85682561 ATTATTATTACT
1 ATTATTATTACT
**
85682573 ATTATTACTGTTTTTT
1 ATTATTA----TTACT
* *
85682589 ATTTTTATTGCT
1 ATTATTATTACT
* *
85682601 ATTAATATTAGT
1 ATTATTATTACT
85682613 ATTATTA-T-C-
1 ATTATTATTACT
*
85682622 ATT-TTATTTC-
1 ATTATTATTACT
*
85682632 ATTATCATTA-T
1 ATTATTATTACT
85682643 CATT-TT-TGTA--
1 -ATTATTAT-TACT
85682653 ATTATTATTACT
1 ATTATTATTACT
85682665 ATTATT-TTACT
1 ATTATTATTACT
85682676 ATTATTATTTAACAT
1 ATTATTA-TT-AC-T
* *
85682691 ACTATTATTACC
1 ATTATTATTACT
* *
85682703 ATT-TTGTTATT
1 ATTATTATTACT
*
85682714 ATTATTACTACT
1 ATTATTATTACT
85682726 ATTGTATTATTACT
1 A-T-TATTATTACT
85682740 ATTA
1 ATTA
85682744 ATATATTTTC
Statistics
Matches: 172, Mismatches: 36, Indels: 50
0.67 0.14 0.19
Matches are distributed among these distances:
8 3 0.02
9 7 0.04
10 9 0.05
11 29 0.17
12 69 0.40
13 24 0.14
14 15 0.09
15 7 0.04
16 9 0.05
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:85682683 original size:14 final size:15
Alignment explanation
Indices: 85682661--85682699 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
85682651 TAATTATTAT
*
85682661 TACTATTATTTTAC-
1 TACTATTATTTAACA
*
85682675 TATTATTATTTAACA
1 TACTATTATTTAACA
85682690 TACTATTATT
1 TACTATTATT
85682700 ACCATTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (15 bp):
TACTATTATTTAACA
Found at i:85682700 original size:3 final size:3
Alignment explanation
Indices: 85682499--85682684 Score: 89
Period size: 3 Copynumber: 63.0 Consensus size: 3
85682489 AAATTAATTG
* * * *
85682499 ATT ATT ATT ATT TTT ATT ACT ACT ATT ATT ATT CCTCT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT ATT ATT
* * * *
85682545 ATT ATCT ATT ATCG A-T ATT ATT ATT ACT ATT ATT ACT GTT -TT -TT
1 ATT AT-T ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
85682589 ATT TTT ATT GCT ATT AAT ATT AGT ATT ATT ATC ATT -TT ATT -TC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
85682635 ATC ATT ATC ATT TTT GTA ATT ATT ATT ACT ATT ATT -TT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
85682682 ATT
1 ATT
85682685 TAACATACTA
Statistics
Matches: 134, Mismatches: 39, Indels: 20
0.69 0.20 0.10
Matches are distributed among these distances:
2 11 0.08
3 117 0.87
4 5 0.04
5 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:85682791 original size:15 final size:14
Alignment explanation
Indices: 85682773--85682807 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
85682763 TATTTTCTTA
85682773 TTATTTATCTGATTT
1 TTATTTATCT-ATTT
85682788 TTATTTATCTATTT
1 TTATTTATCTATTT
*
85682802 ATATTT
1 TTATTT
85682808 TGTTATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (14 bp):
TTATTTATCTATTT
Found at i:85685042 original size:123 final size:123
Alignment explanation
Indices: 85684915--85686188 Score: 977
Period size: 123 Copynumber: 10.4 Consensus size: 123
85684905 GTTTGTAGGA
* * * * *
85684915 AGCTTTACTTCGTTTTGCTCAGTTTCCGCTATTGATATGCGGCCATTAGTGACCTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAGTGACTTCATTATAAGC
* * * * * *
85684980 TGTGTCATTGACAAGCTTTTCATTGTCATCATGCCCAATATTAAAGAATTCTAC-GGGG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCT-CTGGGG
* * ** * * * * * * * *
85685038 AGCTTTACTTCGTTATGCTCAGTTTCAACTATTAATATGTCGCCATTGGTGACCTCATTGTAAGG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAGTGACTTCATTATAAGC
* * ** * * * *
85685103 TGTGTCAACGACAAGCTTTCTGTTACCATCAGGCTCAATATTAAAGGATTCTCTGGGG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
** * * ** *
85685161 AGCTTCACTTTGTTTTGCTCAGTTTCCGCTACTGATATGCCATCATT-GATGACTTCATTACAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAG-TGACTTCATTATAAG
* * * * * *
85685225 -TCGTGTCAATGACGAAGTTCCCCTTATCATCATACCCAACATT-AAGAGATT-TACTGGCG
65 CT-GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAG-GATTCT-CTGGGG
* * * * * * * * *
85685284 AGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATTGGTGACATCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAGTGACTTCATTATAAGC
* ** ** * * *
85685349 TGTGTCAAAGACAAGTTTTTGATTATCATCATGCCGAACATTAAGGGATTCTGTGGGG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * * * * *
85685407 AGCTTTACTTCATTATGCTCAGCTTCAGTTACTAATACGTCGCCATT-GATGA-TCTCATTGTAA
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAG-TGACT-TCATTATAA
* *** * *
85685470 G-TCGTGTCAGTGACAAACTTTTTGTTATCGTCATGCCCAACATTAAGGGATTCTCTGGGG
64 GCT-GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * *
85685530 AGCTTCGCTACGTTTTGCTCCA-TTTCCACTATTGATACGCCGTCATTCA-TGACTTCATTATAA
1 AGCTTTGCTTCGTTTTGCT-CAGTTTCCGCTACTGATACGCCGCCATT-AGTGACTTCATTATAA
* * * * * *
85685593 GCTGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGG
64 GCTGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * *
85685653 AGCTTCGCTACGTTTTGCTCCA-TTTCCACTATTGATACGCCGTCATTCA-TGACTTCATTATAA
1 AGCTTTGCTTCGTTTTGCT-CAGTTTCCGCTACTGATACGCCGCCATT-AGTGACTTCATTATAA
* * * * * *
85685716 GCTGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGG
64 GCTGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * *
85685776 AGCTTTGCTTCATTTTGCTCAGTTTCCGCTACTGATATGCAGCCATT-GACGACTTCATTATAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAG-TGACTTCATTATAAG
* * * * *
85685840 CTATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGTATTCTCTGGAG
65 CTGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * *
85685899 AGCTTTGCTTCGTTTTGCTTAGTTTCCACTACTGATACACCGTCATTAATGACTTCATTATAAG-
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAGTGACTTCATTATAAGC
* * *
85685963 TCGAGTAAATGACAAACTTTCC---ATCATCATGCCCAACATTAAAGGATTCTTTGGGG
66 T-GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * * * * * *
85686019 AGCTTTGCTTCGATATCCTCAGGTTCAGCTACTAATACGTCGCCATT-GATGACCTCATTGTATG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAG-TGACTTCATTATAAG
* * * ** * * * * * * *
85686083 TTGTGTCAACGACAAGCTTAT-TTTTATCGTAATGTCCAACATCAAGGGATTTTATGGAGG
65 CTGTGTCAATGACAAACTT-TCCATTATCATCATGCCCAACATTAAAGGATTCTCTGG-GG
* ** * *
85686143 -GCTTTACTTCGTTCGGCTTAGTTTCCGCTATTGATACGCCGCCATT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATT
85686189 GACCTTGTTA
Statistics
Matches: 933, Mismatches: 189, Indels: 58
0.79 0.16 0.05
Matches are distributed among these distances:
120 92 0.10
121 2 0.00
122 12 0.01
123 816 0.87
124 11 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (123 bp):
AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTAGTGACTTCATTATAAGC
TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
Found at i:85685525 original size:369 final size:364
Alignment explanation
Indices: 85684915--85686152 Score: 1170
Period size: 369 Copynumber: 3.4 Consensus size: 364
85684905 GTTTGTAGGA
* * * * *
85684915 AGCTTTACTTCGTTTTGCTCAGTTTCCGCTATTGATATGCGGCCATT-AGTGACCTCATTATAAG
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGA-TGACCTCATTATAAG
* * * * *
85684979 CTGTGTCATTGACAAGCTTTTCATTGTCATCATGCCCAATATTAAAGAATTCTACGGGGAGCTTT
65 CTGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATT-AAGGATTCTATGGGGAGCTTT
* * * *
85685044 ACTTCGTTATGCTCAGTTTCAACTATTAATATGTCGCCATTGGTGACCTCATTGTAAGGT-GTGT
129 ACTTCATTATGCTCAGTTTCAGCTACTAATATGTCGCCATTGATGA-CTCATTGTAA-GTCGTGT
* * * * * * * *
85685108 CAACGACAAGCTTTCTGTTACCATCAGGCTCAATATTAAAGGATTCTCTGGGGAGCTTCACTTTG
192 CAATGACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCG
* * * * *
85685173 TTTTGCTCAGTTTCCGCTACTGATATGCCATCATTGATGACTTCATTACAAGTCGTGTCAATGAC
257 TTTTGCTCAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAGTCGTGT-AATGAC
* * * *
85685238 GAAGTTCCCCTTATCATCATACCCAACATTAAGAGATT-TACTGGCG
321 AAACTT-CCC-TATCATCATGCCCAACATTAAGAGATTCT-CTGGGG
* * * * * * *
85685284 AGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATTGGTGACATCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
* * * * *
85685349 TGTGTCAAAGACAAGTTTTTGATTATCATCATGCCGAACATTAAGGGATTCTGTGGGGAGCTTTA
66 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAA-GGATTCTATGGGGAGCTTTA
* * *
85685414 CTTCATTATGCTCAGCTTCAGTTACTAATACGTCGCCATTGATGATCTCATTGTAAGTCGTGTCA
130 CTTCATTATGCTCAGTTTCAGCTACTAATATGTCGCCATTGATGA-CTCATTGTAAGTCGTGTCA
* * * * *
85685479 GTGACAAACTTTTTGTTATCGTCATGCCCAACATTAAGGGATTCTCTGGGGAGCTTCGCTACGTT
194 ATGACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCGTT
* * *
85685544 TTGCTCCA-TTTCCACTATTGATACGCCGTCATTCATGACTTCATTATAAGCTGCGT-TAATGTC
259 TTGCT-CAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAG-T-CGTGTAATGAC
* *
85685607 AAACTTTCCATCATCATCCTGCCCAACATTGAAG-GATTCTCTGGGG
321 AAAC-TTCCCT-ATCATCATGCCCAACATT-AAGAGATTCTCTGGGG
* * * * * * * * *
85685653 AGCTTCGCTACGTTTTGCTCCATTTCCACTATTGATACGCCGTCATTCATGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
* * * * * * * * *
85685718 TGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGGAGCTTTG
66 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATT-AAGGATTCTATGGGGAGCTTTA
* * * * * *
85685783 CTTCATTTTGCTCAGTTTCCGCTACTGATATG-CAGCCATTGACGACTTCATTATAAG-CTATGT
130 CTTCATTATGCTCAGTTTCAGCTACTAATATGTC-GCCATTGATGAC-TCATTGTAAGTC-GTGT
* ** * * * *
85685846 CAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGTATTCTCTGGAGAGCTTTGCTTCG
192 CAATGACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCG
* * *
85685911 TTTTGCTTAGTTTCCACTACTGATACACCGTCATTAATGACTTCATTATAAGTCGAGTAAATGAC
257 TTTTGCTCAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAGTCGTGT-AATGAC
* *
85685976 AAACTTTCC-ATCATCATGCCCAACATTAA-AGGATTCTTTGGGG
321 AAACTTCCCTATCATCATGCCCAACATTAAGA-GATTCTCTGGGG
* * * ** * * * *
85686019 AGCTTTGCTTCGATATCCTCAGGTTCAGCTACTAATACG-TCGCCATTGATGACCTCATTGTATG
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCT-GCCATTGATGACCTCATTATAAG
* * * * * * * *
85686083 TTGTGTCAACGACAAGCTTATT-TTTATCGTAATGTCCAACATCAAGGGATTTTATGGAGG-GCT
65 CTGTGTCAATGACAAGCTT-TTCATTATCATCATGCCCAACATTAA-GGATTCTATGG-GGAGCT
85686146 TTACTTC
127 TTACTTC
85686153 GTTCGGCTTA
Statistics
Matches: 697, Mismatches: 149, Indels: 49
0.78 0.17 0.05
Matches are distributed among these distances:
365 4 0.01
366 118 0.17
367 5 0.01
368 14 0.02
369 541 0.78
370 12 0.02
371 3 0.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (364 bp):
AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAGGATTCTATGGGGAGCTTTAC
TTCATTATGCTCAGTTTCAGCTACTAATATGTCGCCATTGATGACTCATTGTAAGTCGTGTCAAT
GACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCGTTTT
GCTCAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAGTCGTGTAATGACAAACT
TCCCTATCATCATGCCCAACATTAAGAGATTCTCTGGGG
Found at i:85686413 original size:120 final size:120
Alignment explanation
Indices: 85685989--85686415 Score: 330
Period size: 120 Copynumber: 3.5 Consensus size: 120
85685979 CTTTCCATCA
* * * * * * *
85685989 TCATGCCCAACATTAAAGGATTCTTTGG-GGAGCTTTGCTTCGATATCCTCAGGTTCAGCTACTA
1 TCATGCCTAACATTAAGGGATTCTGTGGAGG-GCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
* * *
85686053 ATACGTCGCCATTGATGACCTCATTGTATGTTGTGTCAACGACAAGCTTATTT-TTATCG
65 ATACGTCGCC---GTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTT-TTTGTTATCG
* * * * * ** * * *
85686112 TAATGTCC-AACATCAAGGGATTTTATGGAGGGCTTTACTTCGTTCGGCTTAGTTTCCGCTATTG
1 TCATG-CCTAACATTAAGGGATTCTGTGGAGGGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
* * * * * * *
85686176 ATACGCCGCCATTGACCTTG-TTATAAACTT-T-TCCGATGACAAGCTTTTTGTTATCA
65 ATACGTCGCCGTTGACC-TGATTGT-AAGTTGTGT-CAACGACAAGCTTTTTGTTATCG
* ** * * ** * *
85686232 TCGTGCCTAACATTAATCGATTCTGTGGAGGGTTTTGCTTTGTTCCGGTCAG-TTCGCGCTACTG
1 TCATGCCTAACATTAAGGGATTCTGTGGAGGGCTTTGCTTCGTTATGCTCAGTTTC-AGCTACTG
* *
85686296 ATACATCACCGTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCG
65 ATACGTCGCCGTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCG
** *
85686352 TCATGCCTAATGTTAGGGGATTCTGTGG-GGAGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
1 TCATGCCTAACATTAAGGGATTCTGTGGAGG-GCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
85686416 GCACATTGCC
Statistics
Matches: 231, Mismatches: 60, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
119 17 0.07
120 150 0.65
121 8 0.03
123 52 0.23
124 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (120 bp):
TCATGCCTAACATTAAGGGATTCTGTGGAGGGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTGA
TACGTCGCCGTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCG
Found at i:85698667 original size:12 final size:12
Alignment explanation
Indices: 85698650--85698676 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
85698640 ACAATAATTA
85698650 TTGGGTATTGTT
1 TTGGGTATTGTT
85698662 TTGGGTATTGTT
1 TTGGGTATTGTT
85698674 TTG
1 TTG
85698677 CATAAATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59
Consensus pattern (12 bp):
TTGGGTATTGTT
Found at i:85698921 original size:32 final size:32
Alignment explanation
Indices: 85698880--85698944 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
85698870 CAAGATGATG
*
85698880 AGATAGATGTAAAGGCTAAGGGAAAATATAAA
1 AGATAGATGTAAAGGCCAAGGGAAAATATAAA
*
85698912 AGATAGATGTAAAGGCCAAGGGCAAATATAAA
1 AGATAGATGTAAAGGCCAAGGGAAAATATAAA
85698944 A
1 A
85698945 TAAATTGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.06, G:0.25, T:0.17
Consensus pattern (32 bp):
AGATAGATGTAAAGGCCAAGGGAAAATATAAA
Found at i:85700286 original size:42 final size:42
Alignment explanation
Indices: 85700171--85700292 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
85700161 TACCATACCA
* *
85700171 ATGCCATATCTCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCTCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
85700213 ATGCCAATAGCCCA-ACTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCTCAGA-TATGGTCTTACACGAAGTCTCATATCG
*
85700256 ATGCCATATCTCAGATATGGTCTTACACGAAATCTCA
1 ATGCCATATCTCAGATATGGTCTTACACGAAGTCTCA
85700293 AATAACCCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 33 0.48
43 35 0.51
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCTCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:85702247 original size:24 final size:24
Alignment explanation
Indices: 85702219--85702278 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
85702209 TGGAGTTTGT
85702219 AATCAACATTTTATTTTCTAAAAC
1 AATCAACATTTTATTTTCTAAAAC
*
85702243 AATCAACATTTTTTTTTCTAAAAC
1 AATCAACATTTTATTTTCTAAAAC
85702267 AATCAACTATTT
1 AATCAAC-ATTT
85702279 AATTACAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (24 bp):
AATCAACATTTTATTTTCTAAAAC
Found at i:85703883 original size:33 final size:33
Alignment explanation
Indices: 85703834--85703897 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
85703824 CCGTGTGTTA
* *
85703834 GGCCATGTGTGACACAT-GGTCTAGGCTATTTTG
1 GGCCATGTGGGACACATCGG-CTAGGCAATTTTG
*
85703867 GGCCATGTGGGCCACATCGGCTAGGCAATTT
1 GGCCATGTGGGACACATCGGCTAGGCAATTT
85703898 GAGTCGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (33 bp):
GGCCATGTGGGACACATCGGCTAGGCAATTTTG
Found at i:85705969 original size:33 final size:33
Alignment explanation
Indices: 85705905--85705969 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
85705895 ATCCTTACTT
**
85705905 TAATTTTTTTTATCAAATTAATCACTTAACAAA
1 TAATTTTTTTTATCAAATTAATCACCAAACAAA
* *
85705938 TAATTTTTTTT-TCAATTTACTCATCCAAACAA
1 TAATTTTTTTTATCAAATTAATCA-CCAAACAA
85705970 TATTCACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATTTTTTTTATCAAATTAATCACCAAACAAA
Found at i:85710350 original size:28 final size:28
Alignment explanation
Indices: 85710313--85710374 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
85710303 GACGATATGC
* *
85710313 ATGTTTATGTATGGATTATGT-TATATTT
1 ATGTTAATGTATGGA-AATGTATATATTT
* *
85710341 ATGTTAATGTTTGGAAATGTATATGTTT
1 ATGTTAATGTATGGAAATGTATATATTT
85710369 ATGTTA
1 ATGTTA
85710375 CGTTTTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.53
Consensus pattern (28 bp):
ATGTTAATGTATGGAAATGTATATATTT
Found at i:85712639 original size:5 final size:5
Alignment explanation
Indices: 85712629--85712654 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
85712619 TTTTTCTTGA
85712629 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
85712655 TTATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:85726084 original size:43 final size:43
Alignment explanation
Indices: 85725937--85726093 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
85725927 TGTGTTATCG
* *
85725937 TGTAAGACCACGTCTGAGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * *
85725981 TATAAGACCATGCCTAGGACGTTGGCATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
*
85726023 TGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
85726066 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
85726094 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 26 0.29
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:85731981 original size:35 final size:35
Alignment explanation
Indices: 85731914--85732071 Score: 156
Period size: 35 Copynumber: 4.5 Consensus size: 35
85731904 CAAAGTATGG
* * * * *
85731914 TACCTACATTTCATAGCTCAGTACGGACAATACCA
1 TACCTACGTGTCATAACTCGGTATGGACAATACCA
* * *
85731949 TAACTACGTTTCACAACTCGGTATGGGA-AATACCA
1 TACCTACGTGTCATAACTCGGTAT-GGACAATACCA
* * * * *
85731984 TACCTACGTATTATACCTCGATATGGATAATACCA
1 TACCTACGTGTCATAACTCGGTATGGACAATACCA
* * *
85732019 TACCTACGTGTCATAGCTCAGTATAGACAATACCA
1 TACCTACGTGTCATAACTCGGTATGGACAATACCA
85732054 TACCTACGTGTCATAACT
1 TACCTACGTGTCATAACT
85732072 TTGCCATGGA
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
34 3 0.03
35 95 0.94
36 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (35 bp):
TACCTACGTGTCATAACTCGGTATGGACAATACCA
Found at i:85737207 original size:49 final size:49
Alignment explanation
Indices: 85737144--85737302 Score: 172
Period size: 49 Copynumber: 3.4 Consensus size: 49
85737134 CATCAAAGTC
*
85737144 GATGCCATGTCCCAGACAGGGCTTACACTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * *
85737193 GATGCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * * *
85737237 GATGCTATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTTGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCT
85737286 GATG-CATGTCCCAGACA
1 GATGCCATGTCCCAGACA
85737303 TTTCCTACAC
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 33 0.36
45 1 0.01
46 3 0.03
47 3 0.03
48 12 0.13
49 38 0.42
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:85737253 original size:44 final size:46
Alignment explanation
Indices: 85737099--85737265 Score: 187
Period size: 49 Copynumber: 3.6 Consensus size: 46
85737089 AGATGCCGAC
* *
85737099 GCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAG-TCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTA-CACAACAAAGCT-GAT
* * * * *
85737147 GCCATGTCCCAGACAGGGCTTACACTGACTTTCATATATCGAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGAC-TACACA-A-CAAAGCTGAT
85737196 GCCATGTCCCAGACAGGTCTTACACTGAC-ACACAAC-AAGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTACACAACAAAGCTGAT
*
85737240 GCTATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
85737266 AGCTTGTATA
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
44 32 0.31
45 1 0.01
46 1 0.01
47 18 0.17
48 16 0.16
49 34 0.33
50 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTACACAACAAAGCTGAT
Found at i:85737262 original size:93 final size:97
Alignment explanation
Indices: 85737093--85737303 Score: 267
Period size: 93 Copynumber: 2.2 Consensus size: 97
85737083 GGTATAAGAT
* * *
85737093 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTCGATGCCATGTCCCA
85737158 GACAGGGCTTACACT-GACTT-TCATATATCGAG
66 GACAGGGCTTACACTAG-CTTGT-ATATATCGAG
* *
85737190 GCTGATGCCATGTCCCAGACA-GGTCTTACACTGAC-A-CACAAC-AAG-CTGATGCTATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTC-GATGCCATGTCCC
* * *
85737250 AGACAGGTCTTACACTAGCTTGTATATCTTGAG
65 AGACAGGGCTTACACTAGCTTGTATATATCGAG
85737283 GCCGATG-CATGTCCCAGACAT
1 GCCGATGCCATGTCCCAGACAT
85737304 TTCCTACACT
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
92 14 0.14
93 47 0.47
94 7 0.07
95 1 0.01
96 13 0.13
97 19 0.19
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTCGATGCCATGTCCCA
GACAGGGCTTACACTAGCTTGTATATATCGAG
Found at i:85744731 original size:6 final size:6
Alignment explanation
Indices: 85744720--85744799 Score: 65
Period size: 6 Copynumber: 13.3 Consensus size: 6
85744710 AATCCTCCTA
* * *
85744720 TTTTAT TTTTA- -TTTAT TCTTGT TTTTAT TTTTAT TTATTTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT-TTAT -TTTTAT
* * * *
85744768 TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
85744800 CAATTTTCTT
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
4 4 0.07
6 45 0.79
7 6 0.11
8 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:85744746 original size:16 final size:15
Alignment explanation
Indices: 85744725--85744777 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
85744715 TCCTATTTTA
85744725 TTTTTATTTATTCTT
1 TTTTTATTTATTCTT
*
85744740 GTTTTTATTT-TTATT
1 -TTTTTATTTATTCTT
85744755 TATTTTATTTTATTCTT
1 T-TTTTA-TTTATTCTT
85744772 ATTTTT
1 -TTTTT
85744778 CTTTTGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 1 0.03
15 9 0.29
16 12 0.39
17 8 0.26
18 1 0.03
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTATTTATTCTT
Found at i:85744760 original size:32 final size:32
Alignment explanation
Indices: 85744721--85744787 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
85744711 ATCCTCCTAT
* *
85744721 TTTATTTT-TATTTATTCTTGTTTTTATTTTTA
1 TTTATTTTAT-TTTATTCTTATTTTTATTTTGA
*
85744753 TTTATTTTATTTTATTCTTATTTTTCTTTTGA
1 TTTATTTTATTTTATTCTTATTTTTATTTTGA
85744785 TTT
1 TTT
85744788 TTATTTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 30 0.97
33 1 0.03
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (32 bp):
TTTATTTTATTTTATTCTTATTTTTATTTTGA
Found at i:85744800 original size:22 final size:22
Alignment explanation
Indices: 85744720--85744799 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
85744710 AATCCTCCTA
85744720 TTTTATTTTTATTTATTCTTG-T
1 TTTTATTTTTATTTATT-TTGAT
85744742 TTTTATTTTTATTTATTTT-A-
1 TTTTATTTTTATTTATTTTGAT
* *
85744762 TTTTATTCTTATTTTTCTTTTGAT
1 TTTTATT-TT-TATTTATTTTGAT
*
85744786 TTTTATTTTCATTT
1 TTTTATTTTTATTT
85744800 CAATTTTCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.14
21 4 0.08
22 28 0.57
23 3 0.06
24 7 0.14
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTTATTTTTATTTATTTTGAT
Found at i:85752972 original size:14 final size:14
Alignment explanation
Indices: 85752940--85752984 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
85752930 CTTGGGTTTC
*
85752940 TTTATCCTGGATCTT
1 TTTATTCTGGAT-TT
85752955 TTTATTCTGGATTT
1 TTTATTCTGGATTT
*
85752969 TTTATTCTGGGTTT
1 TTTATTCTGGATTT
85752983 TT
1 TT
85752985 CTATCTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.62
Consensus pattern (14 bp):
TTTATTCTGGATTT
Found at i:85755599 original size:54 final size:54
Alignment explanation
Indices: 85755533--85755712 Score: 245
Period size: 54 Copynumber: 3.3 Consensus size: 54
85755523 TTAGTTTACC
* *
85755533 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * *
85755587 AAATTACTAAAATACCCTTTA-TTTATAAAATTACCAAAATACACTTGGTTTGTA
1 AAATTACCAAAATACCC-TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * *
85755641 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
**
85755695 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
85755713 CGACCTGTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.02
54 105 0.96
55 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:85755699 original size:81 final size:81
Alignment explanation
Indices: 85755533--85755783 Score: 288
Period size: 81 Copynumber: 3.1 Consensus size: 81
85755523 TTAGTTTACC
** * *
85755533 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* *
85755598 ATACCCTTTATTTATA
66 ATACCCCTGATTTATA
*
85755614 AAATTACCAAAATACACTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* *
85755679 ATACCCCTGATTTGTG
66 ATACCCCTGATTTATA
** * *** *** * *
85755695 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAA
*
85755759 AGTACCCCTGATTTATA
65 AATACCCCTGATTTATA
*
85755776 GAATTACC
1 AAATTACC
85755784 GTTTACCCTC
Statistics
Matches: 143, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 5 0.03
81 138 0.97
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCCTGATTTATA
Found at i:85755764 original size:27 final size:27
Alignment explanation
Indices: 85755533--85755783 Score: 213
Period size: 27 Copynumber: 9.3 Consensus size: 27
85755523 TTAGTTTACC
* * **
85755533 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
85755560 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* ** *
85755587 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
85755614 AAATTACCAAAATACACTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
85755641 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
85755668 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
85755695 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
85755722 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
85755749 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
85755776 GAATTACC
1 AAATTACC
85755784 GTTTACCCTC
Statistics
Matches: 185, Mismatches: 33, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 182 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:85755822 original size:27 final size:27
Alignment explanation
Indices: 85755785--85755953 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
85755775 AGAATTACCG
85755785 TTTACCCTCGATTTACAAAATTATCAT
1 TTTACCCTCGATTTACAAAATTATCAT
* * *
85755812 TTTACCCTCGATTTATAGAATTATTAT
1 TTTACCCTCGATTTACAAAATTATCAT
* ** * * *
85755839 TTTACCTTATATTTACAGAATTACCGT
1 TTTACCCTCGATTTACAAAATTATCAT
*
85755866 TTTACCCTCGATTTACAAAATTA-CTGT
1 TTTACCCTCGATTTACAAAATTATC-AT
* *
85755893 TTTACCCTTGATTTACAAAATTATCGT
1 TTTACCCTCGATTTACAAAATTATCAT
* *
85755920 TTTACCCTCGATTTATAAAATTACCAT
1 TTTACCCTCGATTTACAAAATTATCAT
85755947 TTTACCC
1 TTTACCC
85755954 CTAGGGTGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (27 bp):
TTTACCCTCGATTTACAAAATTATCAT
Found at i:85755900 original size:81 final size:81
Alignment explanation
Indices: 85755764--85755953 Score: 242
Period size: 81 Copynumber: 2.4 Consensus size: 81
85755754 ACCAAAGTAC
85755764 CCCT-GATTTATAGAATTACCG-TTTACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTA
1 CCCTAGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTA
* * *
85755827 TAGAATTATTATTTTA
66 CAAAATTATCATTTTA
* * * * *
85755843 CCTTATATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTA-CTGTTTTACCCTTGATTT
1 CCCTAGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTATC-ATTTTACCCTCGATTT
*
85755907 ACAAAATTATCGTTTTA
65 ACAAAATTATCATTTTA
* * *
85755924 CCCTCGATTTATAAAATTACCATTTTACCC
1 CCCTAGATTTATAGAATTACCGTTTTACCC
85755954 CTAGGGTGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 3 0.03
80 16 0.17
81 74 0.80
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (81 bp):
CCCTAGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTA
CAAAATTATCATTTTA
Found at i:85755953 original size:54 final size:54
Alignment explanation
Indices: 85755764--85755953 Score: 233
Period size: 54 Copynumber: 3.6 Consensus size: 54
85755754 ACCAAAGTAC
* * * *
85755764 CCCT-GATTTATAGAATTACC-GTTTACCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAAAATTATCGTTTTA
* ** * * *
85755816 CCCTCGATTTATAGAATTATTATTTTA-CCTTATATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTT-GATTTACAAAATTATCGTTTTA
* **
85755870 CCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAAAATTATCGTTTTA
85755924 CCCTCGATTTATAAAATTACCATTTTACCC
1 CCCTCGATTTATAAAATTACCATTTTACCC
85755954 CTAGGGTGTT
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
52 4 0.03
53 17 0.15
54 91 0.78
55 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (54 bp):
CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAAAATTATCGTTTTA
Found at i:85756309 original size:26 final size:27
Alignment explanation
Indices: 85756280--85756339 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
85756270 CCACATATAT
*
85756280 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
85756306 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
85756333 ATATCTG
1 ATATCTG
85756340 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:85756488 original size:25 final size:25
Alignment explanation
Indices: 85756460--85756523 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
85756450 CATTCATATT
* *
85756460 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
* *
85756485 CTGATTCTGATTCTGTCACTTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
85756510 CTGATTCGGATTCT
1 CTGATTCTGATTCT
85756524 AGTTCTGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:85756496 original size:6 final size:6
Alignment explanation
Indices: 85756457--85756532 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
85756447 TTGCATTCAT
* * *
85756457 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
*
85756507 ATTCTG ATTCGG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
85756533 AGTGTTTCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 4 0.07
6 41 0.76
7 7 0.13
8 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:85758507 original size:27 final size:27
Alignment explanation
Indices: 85758482--85758733 Score: 209
Period size: 27 Copynumber: 9.3 Consensus size: 27
85758472 TTAATTTACC
* *
85758482 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
85758509 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
85758536 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
*
85758563 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
85758590 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
** * *
85758617 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTATA
** *** *
85758644 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTATA
*** * ** *
85758671 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
85758698 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
*
85758725 GAATTACCA
1 AAATTACCA
85758734 TTTTACCCTC
Statistics
Matches: 188, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.02
27 181 0.96
28 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:85758548 original size:54 final size:54
Alignment explanation
Indices: 85758482--85758661 Score: 245
Period size: 54 Copynumber: 3.3 Consensus size: 54
85758472 TTAATTTACC
* * * *
85758482 AAATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
*
85758536 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * ** *
85758590 AAATTA-TCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACT-AAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
*
85758644 AAATTACTGAAATACCCT
1 AAATTACTAAAATACCCT
85758662 CGACCTGTAA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 110 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:85758648 original size:81 final size:81
Alignment explanation
Indices: 85758473--85758733 Score: 256
Period size: 81 Copynumber: 3.2 Consensus size: 81
85758463 TAGAATACTT
** * ** * * *
85758473 TAATTTACCAAATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTGGTTTGTAAA
1 TAATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAA
* *
85758538 ATTACTAAAATACCCT
66 ATTACCAAAATACCCC
**
85758554 TTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAA
1 TAATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAA
85758619 ATTACCAAAATACCCC
66 ATTACCAAAATACCCC
* * ** *** ** * *
85758635 TAATTTGTGAAATTACTGAAATA-CCCTCGACCTGTAAAATTATTGAAATA-CCCTTGACTTGTA
1 TAATTTATAAAATTACCAAAATACCCCT-GGTTTGTAAAATTATCAAAATACCCCTAG-TTTGTA
*
85758698 AAATTACCAAAGTACCCC
64 AAATTACCAAAATACCCC
* *
85758716 TGATTTATAGAATTACCA
1 TAATTTATAAAATTACCA
85758734 TTTTACCCTC
Statistics
Matches: 146, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
80 9 0.06
81 137 0.94
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TAATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAA
ATTACCAAAATACCCC
Found at i:85758740 original size:27 final size:27
Alignment explanation
Indices: 85758713--85758984 Score: 330
Period size: 27 Copynumber: 10.1 Consensus size: 27
85758703 ACCAAAGTAC
* *
85758713 CCCT-GATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
85758739 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
85758766 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* **
85758793 CCCTCGATTTATAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
85758820 CCCTCGATTTACAGAATTACTATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
85758847 CCCTTGATTGACAGAATTACTATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
85758874 CTCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
85758901 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
85758928 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
85758955 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
85758982 CCC
1 CCC
85758985 CTAGGGTGTT
Statistics
Matches: 220, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
26 4 0.02
27 216 0.98
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:85758741 original size:54 final size:54
Alignment explanation
Indices: 85758713--85758984 Score: 366
Period size: 54 Copynumber: 5.1 Consensus size: 54
85758703 ACCAAAGTAC
*
85758713 CCCT-GATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTA
* *
85758766 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTA
* * * * * * **
85758820 CCCTCGATTTACAGAATTACTATTTTACCCTTGATTGACAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTA
* * * * * *
85758874 CTCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTA
* *
85758928 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTA
85758982 CCC
1 CCC
85758985 CTAGGGTGTT
Statistics
Matches: 193, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
53 4 0.02
54 189 0.98
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (54 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTA
Found at i:85758768 original size:81 final size:81
Alignment explanation
Indices: 85758713--85758984 Score: 375
Period size: 81 Copynumber: 3.4 Consensus size: 81
85758703 ACCAAAGTAC
* *
85758713 CCCT-GATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
* *
85758777 TAGAATTACCGTTTTA
66 TAAAATTACCATTTTA
** * * * *
85758793 CCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATTGA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
* * *
85758858 CAGAATTACTATTTTA
66 TAAAATTACCATTTTA
* * * *
85758874 CTCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCAATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
*
85758939 TAGAATTACCATTTTA
66 TAAAATTACCATTTTA
85758955 CCCTCGATTTATAAAATTACCATTTTACCC
1 CCCTCGATTTATAAAATTACCATTTTACCC
85758985 CTAGGGTGTT
Statistics
Matches: 167, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 4 0.02
81 163 0.98
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (81 bp):
CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
TAAAATTACCATTTTA
Found at i:85759521 original size:6 final size:6
Alignment explanation
Indices: 85759489--85759576 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
85759479 TTGCATTCAC
* *
85759489 ATTCTG ATTTTG ATTCT- ATTACTTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
85759538 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
85759577 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 5 0.07
6 54 0.79
7 6 0.09
8 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:85759524 original size:31 final size:31
Alignment explanation
Indices: 85759489--85759568 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
85759479 TTGCATTCAC
* * *
85759489 ATTCTGATTTTGATTCTATTACTTGATACTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
* *
85759520 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
85759551 ATTCTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTA
85759569 GTTCTGATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCTGATACTG
Found at i:85760895 original size:46 final size:45
Alignment explanation
Indices: 85760842--85761017 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 45
85760832 TATTTGGGCA
85760842 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
85760888 TCCGAACTCATTGAGTTGAGTCCAAGTT--CGTA-AGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* **
85760933 CCTCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
85760981 CCCGAGCTCGTTGAGTTGAGTCTGATTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85761018 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 1 0.01
46 59 0.57
47 25 0.24
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:85761344 original size:32 final size:32
Alignment explanation
Indices: 85761308--85761372 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
85761298 TTTGCTTATA
85761308 TGGTTATGTTACTTGCTATTTGCATGTGAACT
1 TGGTTATGTTACTTGCTATTTGCATGTGAACT
85761340 TGGTTATGTTACTTGCTATTTGCATGTGAACT
1 TGGTTATGTTACTTGCTATTTGCATGTGAACT
85761372 T
1 T
85761373 ACTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.48
Consensus pattern (32 bp):
TGGTTATGTTACTTGCTATTTGCATGTGAACT
Found at i:85765886 original size:20 final size:20
Alignment explanation
Indices: 85765849--85765886 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85765839 GGACTAAACT
*
85765849 GAAAACTTGAAAAGTTTCAA
1 GAAAACTTGAAAACTTTCAA
85765869 GAAAACTT-AGAAACTTTC
1 GAAAACTTGA-AAACTTTC
85765887 CCCATGAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
GAAAACTTGAAAACTTTCAA
Found at i:85767391 original size:49 final size:49
Alignment explanation
Indices: 85767292--85767551 Score: 197
Period size: 49 Copynumber: 5.5 Consensus size: 49
85767282 AGATGCCGAC
* ** * * *
85767292 GCCATGTCCCAGACATGGTCTTACACTGGCTAGC--ACATCAAAGTTGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCAAGGCTGAT
* *
85767340 GCCATGTCCCTGACAGGTCTTACACTGACTTTCATATATCAAGGATGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
* * *
85767389 GCCATGTCCCAGACAGGTCTTACACTGGCTCTT-ATCTATC--GGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCAAGG-CT-GAT
* * * *
85767438 GCCATG-CCCTAGACAGGTCTTACATTAAC--ACACA-A-CAA-GCTGAT
1 GCCATGTCCC-AGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
* * *
85767482 GCCATGTCCCAGACAGGTCTTACACT-ACTTGT-ATATCTCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCAAGGCTGAT
*
85767530 G-CATGTCCCAGACATGTCTTAC
1 GCCATGTCCCAGACAGGTCTTAC
85767552 GCTAGTACAC
Statistics
Matches: 171, Mismatches: 25, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 24 0.14
45 7 0.04
46 2 0.01
47 40 0.23
48 24 0.14
49 70 0.41
50 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
Found at i:85767562 original size:93 final size:93
Alignment explanation
Indices: 85767385--85767551 Score: 218
Period size: 93 Copynumber: 1.8 Consensus size: 93
85767375 ATATCAAGGA
* * *
85767385 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGGTGTCGATGCCATGCCCTAG
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGGTGCCGATGCCATGCCCTAG
*
85767450 ACAGGTCTTACATTAACACACAACAAGC
66 ACAGGTCTTACACTAACACACAACAAGC
*
85767478 TGATGCCATGTCCCAGACAGGTCTTACACT-ACT-TGTATATCTCGAG-GCCGATG-CATGTCCC
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTCT-TATATATCG-GTGCCGATGCCATG-CCC
*
85767539 -AGACATGTCTTAC
63 TAGACAGGTCTTAC
85767552 GCTAGTACAC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
91 17 0.26
92 18 0.27
93 31 0.47
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGGTGCCGATGCCATGCCCTAG
ACAGGTCTTACACTAACACACAACAAGC
Found at i:85771585 original size:68 final size:68
Alignment explanation
Indices: 85771496--85771653 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
85771486 TTCACTTGGA
*
85771496 ATCACTCATGTGACCTAGCTACATTTATCTCTCAAGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCAAGTAGCTCTCTTGTCTACATGGGATACATCC
85771561 CGT
66 CGT
*
85771564 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCAAGTAGCTCTCTTGTCTACATGGGATACATCC
85771629 CGT
66 CGT
85771632 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
85771654 TATATAGTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCAAGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:85771686 original size:68 final size:66
Alignment explanation
Indices: 85771436--85771679 Score: 275
Period size: 68 Copynumber: 3.6 Consensus size: 66
85771426 TAGTACCACT
* * * *
85771436 CATGTGACCTAGC--CGATTTA--TCTCGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGA
1 CATGTGACCTAGCTAC-ATTTATCTCTCGTAGCTCTCTTGTCTACATGG-GATACATC-C--CGT
*
85771496 ATCACT
61 ATCACA
85771502 CATGTGACCTAGCTACATTTATCTCTCAAGTAGCTCTCTTGTCTACATGGGATACATCCCGTATC
1 CATGTGACCTAGCTACATTTATCTCTC--GTAGCTCTCTTGTCTACATGGGATACATCCCGTATC
85771567 ACA
64 ACA
85771570 CATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATC
1 CATGTGACCTAGCTACATTTATCTCT--CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATC
85771635 ACA
64 ACA
* *
85771638 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGTGACCTAGCTAC-ATTTA-TCTCTCGTAGCTC-TCTTGT
85771680 ACACATGATG
Statistics
Matches: 159, Mismatches: 7, Indels: 22
0.85 0.04 0.12
Matches are distributed among these distances:
66 13 0.08
67 6 0.04
68 100 0.63
69 8 0.05
70 7 0.04
71 25 0.16
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.34
Consensus pattern (66 bp):
CATGTGACCTAGCTACATTTATCTCTCGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCAC
A
Found at i:85773029 original size:35 final size:35
Alignment explanation
Indices: 85772990--85773256 Score: 299
Period size: 35 Copynumber: 7.6 Consensus size: 35
85772980 CAGTATGGTT
* **
85772990 AATACCATACCTTCGTTTCATAGCTCAATATGGAC
1 AATACCATACCTACGTTTCATAGCTCGGTATGGAC
* * *
85773025 AATACCATACCTACGTTTCACAACTTGGTATGGGA-
1 AATACCATACCTACGTTTCATAGCTCGGTAT-GGAC
* * *
85773060 AATACCATACCTACATATT-ATAGCTCGGTTTGGAT
1 AATACCATACCTACGT-TTCATAGCTCGGTATGGAC
* * *
85773095 AATACCATACCTACGTTTTAAAGCTCAGTATGGAC
1 AATACCATACCTACGTTTCATAGCTCGGTATGGAC
* * *
85773130 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCATAGCTCGGTAT-GGAC
*
85773165 AATACCATACCTACGTATT-ATAGCTCGGTATGGAT
1 AATACCATACCTACGT-TTCATAGCTCGGTATGGAC
* *
85773200 AATACCATACCTACGTGTCATAGCTCAGTATGGAC
1 AATACCATACCTACGTTTCATAGCTCGGTATGGAC
*
85773235 AATACCATACCTACGTGTCATA
1 AATACCATACCTACGTTTCATA
85773257 ACTTTTCCAT
Statistics
Matches: 197, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
34 9 0.05
35 178 0.90
36 10 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTTTCATAGCTCGGTATGGAC
Found at i:85773171 original size:105 final size:105
Alignment explanation
Indices: 85772982--85773248 Score: 444
Period size: 105 Copynumber: 2.5 Consensus size: 105
85772972 TCACAACTCA
* * * *
85772982 GTATGGTTAATACCATACCTTCGTTTCATAGCTCAATATGGACAATACCATACCTACGTTTCACA
1 GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACATTTCACA
*
85773047 ACTTGGTATGGGAAATACCATACCTACATATTATAGCTCG
66 ACTCGGTATGGGAAATACCATACCTACATATTATAGCTCG
* * *
85773087 GTTTGGATAATACCATACCTACGTTTTAAAGCTCAGTATGGACAATACCATACCTACATTTCACA
1 GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACATTTCACA
*
85773152 ACTCGGTATGGGAAATACCATACCTACGTATTATAGCTCG
66 ACTCGGTATGGGAAATACCATACCTACATATTATAGCTCG
*
85773192 GTATGGATAATACCATACCTACGTGTCATAGCTCAGTATGGACAATACCATACCTAC
1 GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTAC
85773249 GTGTCATAAC
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 149 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (105 bp):
GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACATTTCACA
ACTCGGTATGGGAAATACCATACCTACATATTATAGCTCG
Found at i:85777181 original size:43 final size:42
Alignment explanation
Indices: 85777072--85777186 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
85777062 GATTTACGTA
* * * *
85777072 TAAGACCACATCTGGGACGTTGGCATCGTATTTGATTTCGTG
1 TAAGACCACATCTGGGAAGTTGGCATTGTATTTGATTACATG
**
85777114 TAAGACTC-TGTCTGGGACAG-TGGCATTGATATTTGATTACATG
1 TAAGAC-CACATCTGGGA-AGTTGGCATTG-TATTTGATTACATG
* *
85777157 TAAGACCACATCTGAGATGTTGGCATTGTA
1 TAAGACCACATCTGGGAAGTTGGCATTGTA
85777187 CGAGCTTTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TAAGACCACATCTGGGAAGTTGGCATTGTATTTGATTACATG
Found at i:85785151 original size:39 final size:39
Alignment explanation
Indices: 85785097--85785174 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
85785087 GAAGCAAAAG
* * *
85785097 TTAGTGCGTTGGTTGTACGACTTCTGTAATATGTACTGT
1 TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
85785136 TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
1 TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
85785175 CATTCACAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (39 bp):
TTAGTGCATTAGTTGTACGACTTCTGCAATATGTACTGT
Found at i:85787861 original size:32 final size:33
Alignment explanation
Indices: 85787805--85787879 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 33
85787795 TGTATTTTGC
*
85787805 ACTGTACTGAGACTGGATAGGGCTTTGGCCCAA
1 ACTGTACTGAGACTGAATAGGGCTTTGGCCCAA
* *
85787838 ACTGTACTG-TACTGAATAGGGCTTTGGCCCAG
1 ACTGTACTGAGACTGAATAGGGCTTTGGCCCAA
*
85787870 ACTATACTGA
1 ACTGTACTGA
85787880 TATTGTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 28 0.76
33 9 0.24
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (33 bp):
ACTGTACTGAGACTGAATAGGGCTTTGGCCCAA
Found at i:85795695 original size:33 final size:33
Alignment explanation
Indices: 85795651--85795730 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
85795641 TGCATTTTGC
*
85795651 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTTGGCCAAG
*
85795684 ATTGTACTGATACTGAATAGGGCTTTGGCCAAG
1 ACTGTACTGATACTGAATAGGGCTTTGGCCAAG
85795717 ACTGTACTGATACT
1 ACTGTACTGATACT
85795731 ATGTTATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTTTGGCCAAG
Found at i:85808924 original size:27 final size:27
Alignment explanation
Indices: 85808847--85808973 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
85808837 CGTACCTGAA
*
85808847 CCCTTATGAGACAAAATGACTATTTTG
1 CCCTTATGAGATAAAATGACTATTTTG
* *
85808874 CCCTTATGGGGT-AAATGACTATTTTG
1 CCCTTATGAGATAAAATGACTATTTTG
* *
85808900 CCCTTATGCGATAAAATGA-TGATTTTA
1 CCCTTATGAGATAAAATGACT-ATTTTG
* * * * *
85808927 CCCCTATGCGATAAAATAACGATTTTT
1 CCCTTATGAGATAAAATGACTATTTTG
85808954 CCCTTATGAGATAAAATGAC
1 CCCTTATGAGATAAAATGAC
85808974 CGAAATACTT
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
26 25 0.30
27 59 0.70
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (27 bp):
CCCTTATGAGATAAAATGACTATTTTG
Found at i:85809059 original size:27 final size:27
Alignment explanation
Indices: 85808965--85809077 Score: 97
Period size: 27 Copynumber: 4.3 Consensus size: 27
85808955 CCTTATGAGA
** *
85808965 TAAAATGACCGAAATA-CTTTCATAGGG
1 TAAAATGACCGAAATACCCCT-ATATGG
* * *
85808992 TAAAATAATCGAAATACCCC--TATGA
1 TAAAATGACCGAAATACCCCTATATGG
*
85809017 TAAAATGACCGAAATACCCTTATATGG
1 TAAAATGACCGAAATACCCCTATATGG
* * * *
85809044 TAAAATGACTGTAATACCCCTGTAAGG
1 TAAAATGACCGAAATACCCCTATATGG
85809071 TAAAATG
1 TAAAATG
85809078 GCTGATTTGC
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
25 20 0.29
27 47 0.69
28 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCTATATGG
Found at i:85816393 original size:20 final size:20
Alignment explanation
Indices: 85816368--85816412 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
85816358 ATTAGCTCAT
85816368 AATCTTTAATTAACTCTAGC
1 AATCTTTAATTAACTCTAGC
85816388 AATCTTTAATTAACTCTAGC
1 AATCTTTAATTAACTCTAGC
85816408 AATCT
1 AATCT
85816413 ACGTTGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (20 bp):
AATCTTTAATTAACTCTAGC
Found at i:85826724 original size:20 final size:19
Alignment explanation
Indices: 85826699--85826740 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
85826689 AGCTCAATAA
85826699 TGATTAAATTGAATTAATTT
1 TGATTAAA-TGAATTAATTT
**
85826719 TGATTAAATGGGTTAATTT
1 TGATTAAATGAATTAATTT
85826738 TGA
1 TGA
85826741 ATACATATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTAAATGAATTAATTT
Found at i:85827022 original size:40 final size:41
Alignment explanation
Indices: 85826949--85827043 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 41
85826939 ACTATGTTTG
* * *
85826949 GCACTTAGTGTGCG-ATTCGAGATAGCTTGGGCTATATAAA
1 GCACTTAGTGTGTGAATTCGAGATAACTTCGGCTATATAAA
* ***
85826989 GCACTTAGTGTGTGAATTGGA-ATAACTTCGGCTATATGTG
1 GCACTTAGTGTGTGAATTCGAGATAACTTCGGCTATATAAA
*
85827029 GCACTAAGTGTGTGA
1 GCACTTAGTGTGTGA
85827044 TACCGAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 41 0.89
41 5 0.11
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (41 bp):
GCACTTAGTGTGTGAATTCGAGATAACTTCGGCTATATAAA
Found at i:85830993 original size:13 final size:13
Alignment explanation
Indices: 85830975--85830999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85830965 TCAAGCTTGT
85830975 TTTTATTTTTTTA
1 TTTTATTTTTTTA
85830988 TTTTATTTTTTT
1 TTTTATTTTTTT
85831000 GCAGAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:85835002 original size:20 final size:19
Alignment explanation
Indices: 85834964--85835006 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
85834954 TATTAATTAC
85834964 TAAACTAAATGAAACACAT
1 TAAACTAAATGAAACACAT
* *
85834983 TAAATTAAATTAAGACACAT
1 TAAACTAAATGAA-ACACAT
85835003 TAAA
1 TAAA
85835007 GACTTAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAACTAAATGAAACACAT
Found at i:85837044 original size:24 final size:23
Alignment explanation
Indices: 85837004--85837049 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
85836994 AGAACTTTTA
*
85837004 ATCAGGAAGCTCACAAAGAGCCT
1 ATCAAGAAGCTCACAAAGAGCCT
85837027 ATCAAGAATGCTCACAAAGAGCC
1 ATCAAGAA-GCTCACAAAGAGCC
85837050 ATGTAACAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.41, C:0.26, G:0.20, T:0.13
Consensus pattern (23 bp):
ATCAAGAAGCTCACAAAGAGCCT
Found at i:85850635 original size:42 final size:42
Alignment explanation
Indices: 85850568--85850664 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
85850558 AGAATTGGGC
* *
85850568 ACACGGCTGTGTGCCTCAACCGTGTGTGCCACACGGCCTAGA
1 ACACGGGTGTGTGCCTCAACCGTGTGTACCACACGGCCTAGA
* * *
85850610 ACATGGGTGTGTGCCTCAACTGTGTGTACCACATGGCCTAGA
1 ACACGGGTGTGTGCCTCAACCGTGTGTACCACACGGCCTAGA
*
85850652 ACACGGGCGTGTG
1 ACACGGGTGTGTG
85850665 TCTTGGCCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.20, C:0.28, G:0.31, T:0.22
Consensus pattern (42 bp):
ACACGGGTGTGTGCCTCAACCGTGTGTACCACACGGCCTAGA
Found at i:85857186 original size:29 final size:31
Alignment explanation
Indices: 85857126--85857186 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
85857116 GTGTTTTTAT
* * *
85857126 TATGGTACTTGTACTTTTATAAAATATTCAA
1 TATGATACGTGTACTTTTATAAAATATCCAA
85857157 TATGATACGTGTAC-TTTA-AAAATATCCAA
1 TATGATACGTGTACTTTTATAAAATATCCAA
85857186 T
1 T
85857187 GTGGTACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 11 0.41
30 4 0.15
31 12 0.44
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (31 bp):
TATGATACGTGTACTTTTATAAAATATCCAA
Found at i:85859067 original size:2 final size:2
Alignment explanation
Indices: 85859060--85859092 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
85859050 AGGCAAGCTT
*
85859060 TC TC TC TC TC TC TC TC TC TC TC T- TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
85859093 ACTTCATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:85877957 original size:20 final size:20
Alignment explanation
Indices: 85877932--85877971 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
85877922 AAGTATGGTT
85877932 TTCCATTAAGAAGATAGCCC
1 TTCCATTAAGAAGATAGCCC
*
85877952 TTCCATTAAGAATATAGCCC
1 TTCCATTAAGAAGATAGCCC
85877972 CCTAGTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (20 bp):
TTCCATTAAGAAGATAGCCC
Found at i:85880758 original size:12 final size:12
Alignment explanation
Indices: 85880730--85880765 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
85880720 GAAAATGAAT
*
85880730 CATTTCTCATTTT
1 CATTTC-CATTTC
85880743 CATTTCCATTTC
1 CATTTCCATTTC
85880755 CATTTCCATTT
1 CATTTCCATTT
85880766 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:85880764 original size:18 final size:19
Alignment explanation
Indices: 85880730--85880765 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
85880720 GAAAATGAAT
*
85880730 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
85880749 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
85880766 TGAGAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Done.