Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 18
Found at i:2767036 original size:139 final size:139
Alignment explanation
Indices: 2766859--2767229 Score: 564
Period size: 139 Copynumber: 2.7 Consensus size: 139
2766849 GGGAAACCCA
*
2766859 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAAAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAAAAGTTCAT
*
2766924 AATGAGAAGAACTTGTTCAAACTTAGCTCGATTCATCACATATGGAGTTAAATTAGCAACACCTC
66 AATGAGAAGAACTTGTTCAAACTTAGCTCGATTCATCACATATGGAGTTAAATCAGCAACACCTC
2766989 ACTCGAGGG
131 ACTCGAGGG
* * *
2766998 ATCAATATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATGAAGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAAAAGTTCAT
* * * * * * *
2767063 AATGAGAAGAACTTGTTCAACCTTAGTTTGATTCGTCACATATGGAGTTGAATCAGTAACGCCTC
66 AATGAGAAGAACTTGTTCAAACTTAGCTCGATTCATCACATATGGAGTTAAATCAGCAACACCTC
2767128 ACTCGAGGG
131 ACTCGAGGG
* * * * * *
2767137 ATCAACCTTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATTTGATAAGGGAGAATAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAAAAGTTCAT
2767202 AATGAGAAGAACTTGTT-AAACCTTAGCT
66 AATGAGAAGAACTTGTTCAAA-CTTAGCT
2767230 TGTTTCCATC
Statistics
Matches: 209, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
138 2 0.01
139 207 0.99
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (139 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAAAAGTTCAT
AATGAGAAGAACTTGTTCAAACTTAGCTCGATTCATCACATATGGAGTTAAATCAGCAACACCTC
ACTCGAGGG
Found at i:2767080 original size:20 final size:19
Alignment explanation
Indices: 2767018--2767081 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
2767008 CCAATGGAGA
2767018 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* * *
2767037 CATCTGATGAAGGAGAAGAA--
1 -GT-TCAT-AATGAGAAGAACT
2767057 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
2767077 GTTCA
1 GTTCA
2767082 ACCTTAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 10 0.30
18 3 0.09
19 1 0.03
20 6 0.18
21 3 0.09
22 10 0.30
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:2771684 original size:15 final size:15
Alignment explanation
Indices: 2771664--2771710 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
2771654 TATTTTTTAC
2771664 TTATAATTTATCATT
1 TTATAATTTATCATT
*
2771679 TTATAATTTTTCATAT
1 TTATAATTTATCAT-T
2771695 TT-TAATTATAT-ATT
1 TTATAATT-TATCATT
2771709 TT
1 TT
2771711 TTATTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 3 0.11
15 20 0.71
16 5 0.18
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATAATTTATCATT
Found at i:2771698 original size:36 final size:36
Alignment explanation
Indices: 2771640--2771709 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
2771630 ATTTTATAAA
* * * *
2771640 CATTTTATTTTTTTTATTTTTTACTTATA-ATTTAT
1 CATTTTATATTTTTCATATTTTAATTATATATTTAT
2771675 CATTTTATAATTTTTCATATTTTAATTATATATTT
1 CATTTTAT-ATTTTTCATATTTTAATTATATATTT
2771710 TTTATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 8 0.28
36 17 0.59
37 4 0.14
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (36 bp):
CATTTTATATTTTTCATATTTTAATTATATATTTAT
Found at i:2771726 original size:18 final size:19
Alignment explanation
Indices: 2771695--2771731 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
2771685 TTTTTCATAT
2771695 TTTAATTATATATTTTTTA
1 TTTAATTATATATTTTTTA
2771714 TTTAATT-TATATTTTTTA
1 TTTAATTATATATTTTTTA
2771732 GTGTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTAATTATATATTTTTTA
Found at i:2771800 original size:15 final size:17
Alignment explanation
Indices: 2771769--2771805 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
2771759 ACATTTTAAG
2771769 AATTTCTTAATAATTTT
1 AATTTCTTAATAATTTT
2771786 AATTTCTT-A-AATTTT
1 AATTTCTTAATAATTTT
2771801 AATTT
1 AATTT
2771806 TTTACTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 1 0.05
17 8 0.40
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTCTTAATAATTTT
Found at i:2774366 original size:13 final size:13
Alignment explanation
Indices: 2774331--2774360 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2774321 TAAGAGAAAT
*
2774331 AGAAATAGAATTG
1 AGAAATAGAATCG
2774344 AGAAATAGAATCG
1 AGAAATAGAATCG
2774357 AGAA
1 AGAA
2774361 GAAGAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.23, T:0.17
Consensus pattern (13 bp):
AGAAATAGAATCG
Found at i:2779497 original size:13 final size:13
Alignment explanation
Indices: 2779462--2779491 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2779452 CAAGAGAAAT
*
2779462 AGAAATAGAATTG
1 AGAAATAGAATCG
2779475 AGAAATAGAATCG
1 AGAAATAGAATCG
2779488 AGAA
1 AGAA
2779492 GAAGAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.23, T:0.17
Consensus pattern (13 bp):
AGAAATAGAATCG
Found at i:2782982 original size:28 final size:29
Alignment explanation
Indices: 2782920--2783108 Score: 112
Period size: 28 Copynumber: 6.6 Consensus size: 29
2782910 TATTCTCAAC
2782920 TTTAAAAATATAATTTT-TATATTAA-ATT-A
1 TTTAAAAA-AT-ATTTTAT-TATTAATATTAA
*
2782949 -TT-AAAAATATTTTATT-TTAAAATTAA
1 TTTAAAAAATATTTTATTATTAATATTAA
*
2782975 TTTAAAAAATATTTT-TTATTATTATTAA
1 TTTAAAAAATATTTTATTATTAATATTAA
* *
2783003 -TTAAAAAATTATTTTATTCTT-ATCTTAA
1 TTTAAAAAA-TATTTTATTATTAATATTAA
* * *
2783031 TTTAATAATATATTTTATT-TTTATTTTAA
1 TTTAA-AAAATATTTTATTATTAATATTAA
* * * * * *
2783060 CTGAAAATATATTTTCTTCTT-ATCTTAAA
1 TTTAAAAAATATTTTATTATTAATATT-AA
2783089 TTTTAAAAATATATTTTATT
1 -TTTAAAAA-ATATTTTATT
2783109 TTGCCTTAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
24 4 0.03
25 9 0.07
26 4 0.03
27 16 0.12
28 50 0.38
29 30 0.23
30 8 0.06
31 9 0.07
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTAAAAAATATTTTATTATTAATATTAA
Found at i:2783035 original size:29 final size:29
Alignment explanation
Indices: 2782971--2783123 Score: 120
Period size: 29 Copynumber: 5.3 Consensus size: 29
2782961 TATTTTAAAA
* *
2782971 TTAATTTAAAAAA-TATTTT-TTATTATTA
1 TTAATTTAAAAAATTATTTTATTCTTA-TC
2782999 TTAA-TTAAAAAATTATTTTATTCTTATC
1 TTAATTTAAAAAATTATTTTATTCTTATC
* * *
2783027 TTAATTT-AATAATATATTTTATTTTTATT
1 TTAATTTAAAAAAT-TATTTTATTCTTATC
* * * *
2783056 TTAACTGAAAATA-TATTTTCTTCTTATC
1 TTAATTTAAAAAATTATTTTATTCTTATC
* **
2783084 TTAAATTTTAAAAATATATTTTATT-TTGCC
1 TT-AATTTAAAAAAT-TATTTTATTCTTATC
2783114 TTAATTTAAA
1 TTAATTTAAA
2783124 TATATTCCAA
Statistics
Matches: 97, Mismatches: 20, Indels: 15
0.73 0.15 0.11
Matches are distributed among these distances:
27 8 0.08
28 34 0.35
29 39 0.40
30 8 0.08
31 8 0.08
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (29 bp):
TTAATTTAAAAAATTATTTTATTCTTATC
Found at i:2783080 original size:57 final size:57
Alignment explanation
Indices: 2782971--2783110 Score: 169
Period size: 57 Copynumber: 2.4 Consensus size: 57
2782961 TATTTTAAAA
* * *
2782971 TTAATTTAAAAAATATTTT-TTATTATTATTAATTAAAAAATTATTTTATTCTTATC
1 TTAATTTAAAATATATTTTATTTTTATTATTAATGAAAAAATTATTTTATTCTTATC
* *
2783027 TTAATTTAATAATATATTTTATTTTTATT-TTAACTGAAAATA-TATTTTCTTCTTATC
1 TTAATTTAA-AATATATTTTATTTTTATTATTAA-TGAAAAAATTATTTTATTCTTATC
2783084 TTAAATTTTAAAAATATATTTTATTTT
1 TT-AA-TTT-AAAATATATTTTATTTT
2783111 GCCTTAATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
56 9 0.12
57 29 0.40
58 15 0.21
59 18 0.25
60 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (57 bp):
TTAATTTAAAATATATTTTATTTTTATTATTAATGAAAAAATTATTTTATTCTTATC
Found at i:2783125 original size:57 final size:54
Alignment explanation
Indices: 2782920--2783129 Score: 167
Period size: 57 Copynumber: 3.7 Consensus size: 54
2782910 TATTCTCAAC
* **
2782920 TTTAAAAATATAATTTTTATATTAAATT-ATTAAAA-ATATTTTATT-TTAAAATTAAT
1 TTTAAAAATAT-A-TTTTAT-TT-TATTAATTAAAATATATTTTATTCTT-ATCTTAAT
* * *
2782976 TTAAAAAATATTTTTTATTATTATTAATTAAAAAATTATTTTATTCTTATCTTAA-
1 TTTAAAAATATATTTTATT-TTATTAATTAAAATA-TATTTTATTCTTATCTTAAT
* * *
2783031 TTTAATAATATATTTTATTTTTATTTTAACTGAAAATATATTTTCTTCTTATCTTAAAT
1 TTTAAAAATATATTTTA-TTTTA--TTAA-TTAAAATATATTTTATTCTTATCTT-AAT
* *
2783090 TTTAAAAATATATTTTATTTTGCCTTAATTTAAATATATT
1 TTTAAAAATATATTTTATTTT--ATTAATTAAAATATATT
2783130 CCAAATATAT
Statistics
Matches: 126, Mismatches: 15, Indels: 25
0.76 0.09 0.15
Matches are distributed among these distances:
53 4 0.03
54 14 0.11
55 18 0.14
56 26 0.21
57 32 0.25
58 16 0.13
59 16 0.13
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (54 bp):
TTTAAAAATATATTTTATTTTATTAATTAAAATATATTTTATTCTTATCTTAAT
Found at i:2783177 original size:30 final size:30
Alignment explanation
Indices: 2783132--2783198 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
2783122 AATATATTCC
2783132 AAATATA-TATATTTTT-ACATTAACTTACT
1 AAATATATTATATTTTTAAC-TTAACTTACT
* *
2783161 AAATATATTTTATTTTTAACTTAACTTATT
1 AAATATATTATATTTTTAACTTAACTTACT
2783191 AAATATAT
1 AAATATAT
2783199 GTTAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 7 0.21
30 25 0.74
31 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (30 bp):
AAATATATTATATTTTTAACTTAACTTACT
Found at i:2783261 original size:30 final size:28
Alignment explanation
Indices: 2783201--2783637 Score: 212
Period size: 30 Copynumber: 14.9 Consensus size: 28
2783191 AAATATATGT
* *
2783201 TAAAA-ATATTTTTAAATTAAGATAAAAA
1 TAAAATATATTTTT-AATTAAAATAAGAA
* *
2783229 TAAAATATATTTTTTATATCAATATAAGAA
1 TAAAATATA-TTTTTA-ATTAAAATAAGAA
*
2783259 TAAAATATACATTTTAAGTTAAAATAAGAA
1 TAAAATATA-TTTTTAA-TTAAAATAAGAA
* * *
2783289 TAAAATATAAATTTTAAGTTAAGACAAGAA
1 TAAAATAT-ATTTTTAA-TTAAAATAAGAA
* * *
2783319 T-AAATATACATTTTAAGTTAAGACAAGAA
1 TAAAATATA-TTTTTAA-TTAAAATAAGAA
* * *
2783348 TAAAATAT-TGTTTAAGCTAAAATAAGAT
1 TAAAATATATTTTTAA-TTAAAATAAGAA
* *
2783376 TAAAA-ATATTTTTATAATAATATATA-AA
1 TAAAATATATTTTTA-ATTAAAATA-AGAA
* *
2783404 TAAAACT-TATTTAATAATTTAAAGTAAGAA
1 TAAAA-TATATTT-TTAA-TTAAAATAAGAA
* *
2783434 TAAAATA-ATTTTTAAAAGTTAAAATGATAA
1 TAAAATATATTTTT--AA-TTAAAATAAGAA
* *
2783464 TAAAATTATATTTTTAAAAGTTAAGATGAG-A
1 TAAAA-TATATTTTT--AA-TTAAAATAAGAA
*
2783495 TAAAATATATTTTTTAAGTT-AGATAAGAA
1 TAAAATATA-TTTTTAA-TTAAAATAAGAA
* * *
2783524 TAAACA-A-ATATATAACTAAAATAAGAA
1 TAAA-ATATATTTTTAATTAAAATAAGAA
** * *
2783551 TAAAATATATATTTTAATTTAATTTGATAA
1 TAAAATATAT-TTTTAA-TTAAAATAAGAA
* * *
2783581 TAAAAATATATTTAATAAGTTAAGATAAAAA
1 T-AAAATATATTT-TTAA-TTAAAATAAGAA
2783612 TAAAATATATTTTTAAAGTTAAAATA
1 TAAAATATATTTTT-AA-TTAAAATA
2783638 TATAAATTAT
Statistics
Matches: 328, Mismatches: 50, Indels: 60
0.75 0.11 0.14
Matches are distributed among these distances:
26 2 0.01
27 20 0.06
28 52 0.16
29 62 0.19
30 138 0.42
31 35 0.11
32 19 0.06
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (28 bp):
TAAAATATATTTTTAATTAAAATAAGAA
Found at i:2783383 original size:59 final size:58
Alignment explanation
Indices: 2783252--2783384 Score: 146
Period size: 59 Copynumber: 2.3 Consensus size: 58
2783242 TTATATCAAT
* * *
2783252 ATAAGA-ATAAAATATACATTTTAAGTTAAAATAAGAATAAAATATAAATTTTAAGTTAAG
1 ATAAGATA-AAAATATACATTTTAAGTTAAAACAAGAATAAAATAT--ATTTTAAGCTAAA
* * *
2783312 ACAAGA-ATAAATATACATTTTAAGTTAAGACAAGAATAAAATAT-TGTTTAAGCTAAA
1 ATAAGATAAAAATATACATTTTAAGTTAAAACAAGAATAAAATATAT-TTTAAGCTAAA
2783369 ATAAGATTAAAAATAT
1 ATAAGA-TAAAAATAT
2783385 TTTTATAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.02
57 14 0.23
59 41 0.66
60 6 0.10
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.32
Consensus pattern (58 bp):
ATAAGATAAAAATATACATTTTAAGTTAAAACAAGAATAAAATATATTTTAAGCTAAA
Found at i:2783509 original size:31 final size:32
Alignment explanation
Indices: 2783432--2783511 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
2783422 TTAAAGTAAG
2783432 AATAAAATA-A-TTTTTAAAAGTTAAAATGAT
1 AATAAAATATATTTTTTAAAAGTTAAAATGAT
*
2783462 AATAAAAT-TATATTTTTAAAAGTTAAGATGA-
1 AATAAAATATAT-TTTTTAAAAGTTAAAATGAT
*
2783493 GATAAAATATATTTTTTAA
1 AATAAAATATATTTTTTAA
2783512 GTTAGATAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
30 9 0.20
31 14 0.32
32 21 0.48
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (32 bp):
AATAAAATATATTTTTTAAAAGTTAAAATGAT
Found at i:2783514 original size:61 final size:59
Alignment explanation
Indices: 2783431--2783643 Score: 171
Period size: 61 Copynumber: 3.6 Consensus size: 59
2783421 TTTAAAGTAA
*
2783431 GAATAAAATA-ATTTTTAAAAGTTAAAATGATAATAAAATTATATTTTTAAAAGTTAAGAT
1 GAATAAAATATATTTTT-AAAGTTAAAATGATAATAAAA-TATATATTTAAAAGTTAAGAT
* **
2783491 GAGATAAAATATATTTTTTAAGTTAGATAA-GAATAA-ACAAATATATAACTAAAA--T-A-A-
1 GA-ATAAAATATATTTTTAAAGTTA-A-AATG-ATAATA-AAATATATATTTAAAAGTTAAGAT
* **
2783548 GAATAAAATATATATTTT-AATTTAATTTGATAATAAAA-ATATATTTAATAAGTTAAGAT
1 GAATAAAATATAT-TTTTAAAGTTAAAATGATAATAAAATATATATTTAA-AAGTTAAGAT
*
2783607 AAAAATAAAATATATTTTTAAAGTTAAAAT-AT-ATAAA
1 --GAATAAAATATATTTTTAAAGTTAAAATGATAATAAA
2783644 TTATTTTATT
Statistics
Matches: 122, Mismatches: 13, Indels: 37
0.71 0.08 0.22
Matches are distributed among these distances:
53 8 0.07
54 9 0.07
55 3 0.02
56 17 0.14
57 7 0.06
58 2 0.02
59 6 0.05
60 9 0.07
61 33 0.27
62 19 0.16
63 9 0.07
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.37
Consensus pattern (59 bp):
GAATAAAATATATTTTTAAAGTTAAAATGATAATAAAATATATATTTAAAAGTTAAGAT
Found at i:2783545 original size:175 final size:179
Alignment explanation
Indices: 2783252--2783657 Score: 434
Period size: 175 Copynumber: 2.3 Consensus size: 179
2783242 TTATATCAAT
* * *
2783252 ATAAGAATAAAATATACATTTT-AAGTTAAAATAAGAATAAAA-TATAAATTTT--AAGTTAAGA
1 ATAAGAATAAAATATA-TTTTTAAAGTTAAAAT-ATAATAAAATTAT-ATTTTTAAAAGTTAAGA
* * * *
2783313 CAAGAATAAATATACATTTTAAGTTAAGACAAGAATAAAATATTGTTTAAGCTAAAATAAGATTA
63 CAAGAATAAATATACATTTTAAGTTAAGACAAGAATAAAATAATATATAAGCTAAAATAAGAATA
* *
2783378 AAA-ATAT-TTTT-ATAATAATAT-ATAAATAAAACT-TATTTAATAATTTAA-
128 AAATATATATTTTAAT-ATAATATGAT-AATAAAAATATATTTAATAAGTTAAG
2783426 AGTAAGAATAAAATA-ATTTTTAAAAGTTAAAATGATAATAAAATTATATTTTTAAAAGTTAAGA
1 A-TAAGAATAAAATATATTTTT-AAAGTTAAAAT-ATAATAAAATTATATTTTTAAAAGTTAAGA
** ** *
2783490 TGAG-ATAAAATATATTTTTTAAGTT-AGATAAGAATAAACA-AATATATAA-CTAAAATAAGAA
63 CAAGAAT-AAATATACATTTTAAGTTAAGACAAGAATAAA-ATAATATATAAGCTAAAATAAGAA
* *
2783551 TAAAATATATATTTTAATTTAATTTGATAATAAAAATATATTTAATAAGTTAAG
126 TAAAATATATATTTTAATATAATATGATAATAAAAATATATTTAATAAGTTAAG
*
2783605 ATAAAAATAAAATATATTTTTAAAGTTAAAATAT-AT-AAATTAT-TTTATTAAAA
1 ATAAGAATAAAATATATTTTTAAAGTTAAAATATAATAAAATTATATTT-TTAAAA
2783658 ATACATAAAT
Statistics
Matches: 198, Mismatches: 18, Indels: 31
0.80 0.07 0.13
Matches are distributed among these distances:
173 4 0.02
174 5 0.03
175 65 0.33
176 29 0.15
177 47 0.24
178 41 0.21
179 7 0.04
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (179 bp):
ATAAGAATAAAATATATTTTTAAAGTTAAAATATAATAAAATTATATTTTTAAAAGTTAAGACAA
GAATAAATATACATTTTAAGTTAAGACAAGAATAAAATAATATATAAGCTAAAATAAGAATAAAA
TATATATTTTAATATAATATGATAATAAAAATATATTTAATAAGTTAAG
Found at i:2783678 original size:178 final size:177
Alignment explanation
Indices: 2783320--2783659 Score: 405
Period size: 177 Copynumber: 1.9 Consensus size: 177
2783310 AGACAAGAAT
* * * *
2783320 AAATATACATTTTAAGTTAAGACAAGAATAAAATATTGTTTAAGCTAAAATAAGATTAAAAATAT
1 AAATATACATTTTAAGTTAAGACAAGAATAAAATAATATATAAGCTAAAATAAGAATAAAAATAT
* * *
2783385 TTTTATAATAATATATAAATAAAACTTATTTAATAATTTAAAGTAAGAATAAAATAATTTTTAAA
66 TTTTATAATAATATATAAATAAAAATTATTTAATAAGTTAAAGTAAAAATAAAATAATTTTTAAA
*
2783450 AGTTAAAATGATAATAAAATTATATTTTTAAAAGTTAAGATGAGATA
131 AGTTAAAATGATAATAAAATTATATTTTTAAAAATTAAGATGAGATA
** *
2783497 AAATATATTTTTTAAGTT-AGATAAGAATAAACA-AATATATAA-CTAAAATAAGAATAAAATAT
1 AAATATACATTTTAAGTTAAGACAAGAATAAA-ATAATATATAAGCTAAAATAAGAATAAAA-AT
* *
2783559 ATATTTTA-ATTTAATTTGAT-AATAAAAATATATTTAATAAGTT-AAGATAAAAATAAAATATA
64 AT-TTTTATA-ATAATAT-ATAAATAAAAAT-TATTTAATAAGTTAAAG-TAAAAATAAAATA-A
2783621 TTTTT-AAAGTTAAAAT-AT-AT-AAATTAT-TTTATTAAAAAT
123 TTTTTAAAAGTTAAAATGATAATAAAATTATATTT-TTAAAAAT
2783660 ACATAAATTA
Statistics
Matches: 141, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
174 3 0.02
175 30 0.21
176 25 0.18
177 40 0.28
178 37 0.26
179 6 0.04
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (177 bp):
AAATATACATTTTAAGTTAAGACAAGAATAAAATAATATATAAGCTAAAATAAGAATAAAAATAT
TTTTATAATAATATATAAATAAAAATTATTTAATAAGTTAAAGTAAAAATAAAATAATTTTTAAA
AGTTAAAATGATAATAAAATTATATTTTTAAAAATTAAGATGAGATA
Found at i:2783857 original size:21 final size:21
Alignment explanation
Indices: 2783811--2783851 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2783801 AAATCCCATT
* *
2783811 GCCCTTACTTATGCGTGATTC
1 GCCCTTACTTATACGTGAGTC
2783832 GCCCTTACTTATACGTGAGT
1 GCCCTTACTTATACGTGAGT
2783852 GACCCTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (21 bp):
GCCCTTACTTATACGTGAGTC
Found at i:2799544 original size:60 final size:60
Alignment explanation
Indices: 2799442--2799560 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
2799432 TAAATTATAA
* * * *
2799442 CTCTCATTTTAAATTAATCTTTAAACTTTTGAATATTCTAATTTTAT-CCTCAAACTATGT
1 CTCTCATTATAAATTAATCCTTAAACTTTTAAACATTCTAATTTTATGCC-CAAACTATGT
* * *
2799502 CTCTTATTATAAATTAGTCCTTAAACTTTTAAACATTTTAATTTTATGCCCAAACTATG
1 CTCTCATTATAAATTAATCCTTAAACTTTTAAACATTCTAATTTTATGCCCAAACTATG
2799561 ACCTTCAACC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 49 0.96
61 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (60 bp):
CTCTCATTATAAATTAATCCTTAAACTTTTAAACATTCTAATTTTATGCCCAAACTATGT
Found at i:2799596 original size:2 final size:2
Alignment explanation
Indices: 2799589--2799620 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2799579 ACCTAATTTA
2799589 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2799621 ACTTGGCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2799780 original size:59 final size:59
Alignment explanation
Indices: 2799707--2799852 Score: 161
Period size: 59 Copynumber: 2.4 Consensus size: 59
2799697 GAAATGTTCA
* * * * *
2799707 AAAAGTTTGGGGACTAATTGAGAATGAAGGTCATAGTTTGAGGATGGAATT-GAATACTT
1 AAAAGTTTGAGGACTAATT-AGAATGAAAGTCATAATTTAAGGATGAAATTAGAATACTT
* **
2799766 AAAAGTTTGAGGACTAATTTAAAATGAAAGTCATAATTTAAGGATGAAATTAGAATGTTT
1 AAAAGTTTGAGGACTAA-TTAGAATGAAAGTCATAATTTAAGGATGAAATTAGAATACTT
*
2799826 AAAA-TTTTAGGCACTAATCTAGAATGA
1 AAAAGTTTGAGG-ACTAAT-TAGAATGA
2799853 GGATAGTAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 49 0.67
60 24 0.33
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (59 bp):
AAAAGTTTGAGGACTAATTAGAATGAAAGTCATAATTTAAGGATGAAATTAGAATACTT
Found at i:2799852 original size:60 final size:57
Alignment explanation
Indices: 2799687--2799852 Score: 152
Period size: 59 Copynumber: 2.8 Consensus size: 57
2799677 ATATAGTTTG
* ** * * *
2799687 GGATGAAATTGAAATGTTCAAAAAGTTTGGGGACTAATTGAGAATGAAGGTCATAGTTTGA
1 GGATGAAATTG-AATGTT-TAAAA-TTTTAGGACTAATT-AGAATGAAAGTCATAATTTAA
* ** * *
2799748 GGATGGAATTGAATACTTAAAAGTTTGAGGACTAATTTAAAATGAAAGTCATAATTTAA
1 GGATGAAATTGAATGTTTAAAA-TTTTAGGACTAA-TTAGAATGAAAGTCATAATTTAA
2799807 GGATGAAATTAGAATGTTTAAAATTTTAGGCACTAATCTAGAATGA
1 GGATGAAATT-GAATGTTTAAAATTTTAGG-ACTAAT-TAGAATGA
2799853 GGATAGTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
59 49 0.56
60 28 0.32
61 10 0.11
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.31
Consensus pattern (57 bp):
GGATGAAATTGAATGTTTAAAATTTTAGGACTAATTAGAATGAAAGTCATAATTTAA
Found at i:2807980 original size:70 final size:67
Alignment explanation
Indices: 2807829--2807982 Score: 204
Period size: 70 Copynumber: 2.3 Consensus size: 67
2807819 AAAAACAACA
* * *
2807829 TCAAATGAGAT-AAATTTTTGTTTAGAGTGAAACAATTTCAAAGTTTGTATTTCGAGAGAAACTA
1 TCAAGTGAGATAAAATTTTTGTTTAGAGTGAAACAATTTCAAAGTTTGTATTTCAAGAGAAACCA
2807893 TC
66 TC
* * *
2807895 TCAAGCGAGATAAAATTTTTGTTTTA-AGTGAAACCATTTCAAAGTTTTTTTTATTTCAAGAGAA
1 TCAAGTGAGATAAAATTTTTG-TTTAGAGTGAAACAATTTCAAAG---TTTGTATTTCAAGAGAA
2807959 ACCATC
62 ACCATC
2807965 TCAAGTGAGATAAAATTT
1 TCAAGTGAGATAAAATTT
2807983 ATTTTAAGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
66 9 0.12
67 26 0.34
68 4 0.05
70 37 0.49
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (67 bp):
TCAAGTGAGATAAAATTTTTGTTTAGAGTGAAACAATTTCAAAGTTTGTATTTCAAGAGAAACCA
TC
Found at i:2808198 original size:102 final size:103
Alignment explanation
Indices: 2808078--2808271 Score: 284
Period size: 102 Copynumber: 1.9 Consensus size: 103
2808068 TCAGATGAGA
* * * *
2808078 AAAATTTTGTTTCTAGTGAAACAATCTCAAATTTTGTGTTTCAAGGGAAACAGTCTTAACCGGGA
1 AAAATTTTGTTTCTAGTGAAACAATCTCAAAATTTATGTTTCAAGGGAAACAGTCTCAACCGAGA
2808143 CAAAATTGGTTT-TAAGAAAAACAATCCCAAGGAAGAT
66 CAAAATTGGTTTGTAAGAAAAACAATCCCAAGGAAGAT
* ** *
2808180 AAAATTTTGTTT-TGAGTGAAACAATTTCAAAATTTATGTTTCAAGGGAAATTGTCTCAAGCGAG
1 AAAATTTTGTTTCT-AGTGAAACAATCTCAAAATTTATGTTTCAAGGGAAACAGTCTCAACCGAG
*
2808244 ACAAAATTTGTTTGTAAGAAAAACAATC
65 ACAAAATTGGTTTGTAAGAAAAACAATC
2808272 TTAAGTGAGA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 1 0.01
102 66 0.81
103 14 0.17
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (103 bp):
AAAATTTTGTTTCTAGTGAAACAATCTCAAAATTTATGTTTCAAGGGAAACAGTCTCAACCGAGA
CAAAATTGGTTTGTAAGAAAAACAATCCCAAGGAAGAT
Found at i:2808270 original size:168 final size:167
Alignment explanation
Indices: 2807703--2808272 Score: 505
Period size: 168 Copynumber: 3.4 Consensus size: 167
2807693 GAGTGGAAAG
* * * * * *
2807703 AAATTTA--TTTCAAGAGAAACTATCTCAGGAGAGATAAAATTTCGTTTTGAGTAAAATAATTTC
1 AAATTTATGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATTTTGTTTTAAGTAAAACAATCTC
* * *
2807766 AAAATTTGTGTTTCAAGGGAAACTGTCTCGAGTGAGACAAAATTGGTTTTAAGAAAAACAA-CAT
66 AAATTTTGTGTTTCAAGGGAAACAGTCTCAAGTGAGACAAAATTGGTTTTAAGAAAAACAATC--
* *
2807830 CAAATGAGATAAATTTTTGTTTAGAGTGAAACAATTTCA
129 CAAAGGAGATAAAATTTTGTTTAGAGTGAAACAATTTCA
* * * * * * *
2807869 AAGTTTGTATTTCGAGAGAAACTATCTCAAGCGAGATAAAATTTTTGTTTTAAGTGAAACCATTT
1 AAATTTATGTTTCAAGAGAAACTATCTCAAGCGAGATAAAA-TTTTGTTTTAAGTAAAACAATCT
* * * * **
2807934 CAAAGTTTTTTTTATTTCAAGAGAAACCA-TCTCAAGTGAGATAAAATTTATTTTAAGAAAAA-A
65 CAAA---TTTTGTGTTTCAAGGGAAA-CAGTCTCAAGTGAGACAAAATTGGTTTTAAGAAAAACA
*** * *
2807997 ATCTTGAGTGAGATAAAATTTATTGTTTCGAGCGAAACAATTTCA
126 ATCCAAAG-GAGATAAAA-TT-TTGTTTAGAGTGAAACAATTTCA
* * * * * *
2808042 AAATTT-TCGCTTT-AAGTGGAAGTGTCTC-AGATGAGA-AAAATTTTGTTTCT-AGTGAAACAA
1 AAATTTAT-G-TTTCAAGAGAAACTATCTCAAG-CGAGATAAAATTTTGTTT-TAAGTAAAACAA
* ** *
2808102 TCTCAAATTTTGTGTTTCAAGGGAAACAGTCTTAACCGGGACAAAATTGGTTTTAAGAAAAACAA
62 TCTCAAATTTTGTGTTTCAAGGGAAACAGTCTCAAGTGAGACAAAATTGGTTTTAAGAAAAACAA
* *
2808167 TCCCAAGGAAGATAAAATTTTGTTTTGAGTGAAACAATTTCA
127 TCCAAAGG-AGATAAAATTTTGTTTAGAGTGAAACAATTTCA
* * * * *
2808209 AAATTTATGTTTCAAGGGAAATTGTCTCAAGCGAGACAAAA-TTTGTTTGTAAGAAAAACAATCT
1 AAATTTATGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATTTTGTTT-TAAGTAAAACAATCT
2808273 TAAGTGAGAA
Statistics
Matches: 323, Mismatches: 58, Indels: 44
0.76 0.14 0.10
Matches are distributed among these distances:
166 8 0.02
167 54 0.17
168 92 0.28
169 36 0.11
170 1 0.00
171 33 0.10
172 55 0.17
173 41 0.13
174 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (167 bp):
AAATTTATGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATTTTGTTTTAAGTAAAACAATCTC
AAATTTTGTGTTTCAAGGGAAACAGTCTCAAGTGAGACAAAATTGGTTTTAAGAAAAACAATCCA
AAGGAGATAAAATTTTGTTTAGAGTGAAACAATTTCA
Found at i:2814886 original size:21 final size:23
Alignment explanation
Indices: 2814846--2814888 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
2814836 ATTATAAAAT
*
2814846 GCTTGTAAATGAATAAAATTGGG
1 GCTTGTAAATGAAGAAAATTGGG
2814869 GCTTG-AAATG-AGAAAATTGG
1 GCTTGTAAATGAAGAAAATTGG
2814889 AATTTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (23 bp):
GCTTGTAAATGAAGAAAATTGGG
Found at i:2816577 original size:48 final size:48
Alignment explanation
Indices: 2816501--2816701 Score: 296
Period size: 48 Copynumber: 4.2 Consensus size: 48
2816491 GTCGACATAC
* * *
2816501 TTTTTGTATGATGTTTATCGATCGATTTTGTTTAATACATAAGTTGTA
1 TTTTCGTATGATGGTTATCGATCGATTTTGTTTAATACATAAGTTGCA
* *
2816549 TTTTCGTATGATGGTTATCGATCGATTTTCTTTAATGCATAAGTTGCA
1 TTTTCGTATGATGGTTATCGATCGATTTTGTTTAATACATAAGTTGCA
* *
2816597 TTTACGTATGATGGTTATCGATTGATTTTGTTTAATGA-ATAAGTTGCA
1 TTTTCGTATGATGGTTATCGATCGATTTTGTTTAAT-ACATAAGTTGCA
* * *
2816645 TTTTCATATGATAGTTATCGATCGATTTTGTTTAATACATATGTTGCA
1 TTTTCGTATGATGGTTATCGATCGATTTTGTTTAATACATAAGTTGCA
2816693 TTTTCGTAT
1 TTTTCGTAT
2816702 CAGTACTATA
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 135 0.99
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.49
Consensus pattern (48 bp):
TTTTCGTATGATGGTTATCGATCGATTTTGTTTAATACATAAGTTGCA
Found at i:2816804 original size:53 final size:53
Alignment explanation
Indices: 2816724--2816825 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
2816714 TACGTTAGGT
*
2816724 ACTATGTGTGAACCCATGGTATTCATAATGAGTTTATGAATGACCATTTCAGC
1 ACTATGTGTGAACCCATGGAATTCATAATGAGTTTATGAATGACCATTTCAGC
* * *
2816777 ACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATGACCATTT
1 ACTATGTGTGAACCCATGGAATTCATAATGAGTTTATGAATGACCATTT
2816826 TGACACTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (53 bp):
ACTATGTGTGAACCCATGGAATTCATAATGAGTTTATGAATGACCATTTCAGC
Found at i:2822166 original size:17 final size:16
Alignment explanation
Indices: 2822144--2822177 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2822134 TAAAAACAGT
2822144 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
2822161 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
2822177 A
1 A
2822178 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:2822696 original size:24 final size:24
Alignment explanation
Indices: 2822652--2822701 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2822642 ATAAAGAACC
*
2822652 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
2822676 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
2822700 AA
1 AA
2822702 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:2823406 original size:21 final size:21
Alignment explanation
Indices: 2823380--2823426 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2823370 TCCCTCAAAC
2823380 AGCACCATTAAGAAATAAAAT
1 AGCACCATTAAGAAATAAAAT
2823401 AGCACCATTAAGAAATAAAAT
1 AGCACCATTAAGAAATAAAAT
2823422 AGCAC
1 AGCAC
2823427 AACTACCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.17, G:0.11, T:0.17
Consensus pattern (21 bp):
AGCACCATTAAGAAATAAAAT
Found at i:2831996 original size:18 final size:17
Alignment explanation
Indices: 2831981--2832033 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
2831971 CAAGTAAACT
2831981 ATACAAAA-AAAATAAA
1 ATACAAAACAAAATAAA
* *
2831997 ATAAAAAATAAAATAAAA
1 ATACAAAACAAAAT-AAA
*
2832015 ATGCAAAACAAAATAAA
1 ATACAAAACAAAATAAA
2832032 AT
1 AT
2832034 GCTCTGGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 7 0.23
17 10 0.32
18 14 0.45
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (17 bp):
ATACAAAACAAAATAAA
Found at i:2832004 original size:12 final size:12
Alignment explanation
Indices: 2831987--2832015 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2831977 AACTATACAA
2831987 AAAAAATAAAAT
1 AAAAAATAAAAT
2831999 AAAAAATAAAAT
1 AAAAAATAAAAT
2832011 AAAAA
1 AAAAA
2832016 TGCAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:2832014 original size:23 final size:23
Alignment explanation
Indices: 2831952--2832033 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
2831942 AATAAACCTG
* *
2831952 AAAAATAAAACAAAAATATCAAGTA
1 AAAAATAAAATAAAAATA--AAATA
**
2831977 AACTATACAAA-AAAAATAAAATA
1 AAAAATA-AAATAAAAATAAAATA
*
2832000 AAAAATAAAATAAAAATGCAAA-A
1 AAAAATAAAATAAAAAT-AAAATA
*
2832023 CAAAATAAAAT
1 AAAAATAAAAT
2832034 GCTCTGGCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.06
23 26 0.55
24 3 0.06
25 12 0.26
26 3 0.06
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAATAAAATAAAAATAAAATA
Found at i:2832434 original size:17 final size:16
Alignment explanation
Indices: 2832412--2832445 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2832402 TAAAAACAGT
2832412 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
2832429 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
2832445 A
1 A
2832446 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:2832964 original size:24 final size:24
Alignment explanation
Indices: 2832920--2832966 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2832910 ATAAAGAACC
*
2832920 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
2832944 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
2832967 GCATCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:2835653 original size:24 final size:24
Alignment explanation
Indices: 2835625--2835795 Score: 84
Period size: 24 Copynumber: 7.1 Consensus size: 24
2835615 TATCGATCGA
2835625 TTTTGTTTAATGCATAAGTTGCAT
1 TTTTGTTTAATGCATAAGTTGCAT
* * ** * *
2835649 TTTTGTATGATGGTTATCGAT-CGA-
1 TTTTGTTTAATGCATA-AGTTGC-AT
2835673 TTTTGTTTAATGCATAAGTTGCAT
1 TTTTGTTTAATGCATAAGTTGCAT
* * ** *
2835697 TTTTGTATGATGGTTATTGATTG-A-
1 TTTTGTTTAATGCATA-AG-TTGCAT
2835721 TTTTGTTTAATGCATAAGTTGCAT
1 TTTTGTTTAATGCATAAGTTGCAT
* * * ** *
2835745 TTTCGTGTGATGGTTATCGATTG-A-
1 TTTTGTTTAATGCATA-AG-TTGCAT
*
2835769 TTTTGTTTAATGCATATGTTGCAT
1 TTTTGTTTAATGCATAAGTTGCAT
2835793 TTT
1 TTT
2835796 CGTATGATGG
Statistics
Matches: 101, Mismatches: 34, Indels: 24
0.64 0.21 0.15
Matches are distributed among these distances:
22 6 0.06
23 7 0.07
24 75 0.74
25 7 0.07
26 6 0.06
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (24 bp):
TTTTGTTTAATGCATAAGTTGCAT
Found at i:2835666 original size:48 final size:48
Alignment explanation
Indices: 2835604--2835896 Score: 469
Period size: 48 Copynumber: 6.1 Consensus size: 48
2835594 ACATACTTTG
*
2835604 TGTATGATGTTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
1 TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
2835652 TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
1 TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
* *
2835700 TGTATGATGGTTATTGATTGATTTTGTTTAATGCATAAGTTGCATTTT
1 TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
* * * *
2835748 CGTGTGATGGTTATCGATTGATTTTGTTTAATGCATATGTTGCATTTT
1 TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
* * *
2835796 CGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGTATTTT
1 TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
* * *
2835844 CGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGTATTTT
1 TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
2835892 TGTAT
1 TGTAT
2835897 CAGTACTATA
Statistics
Matches: 234, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 234 1.00
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.50
Consensus pattern (48 bp):
TGTATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTT
Found at i:2835981 original size:53 final size:53
Alignment explanation
Indices: 2835918--2836021 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
2835908 GTACTTTCGA
*
2835918 CACTATGTGTGCACCCATGGTATTCATAATGAGTTTATGAA-TGACCATTTCAG
1 CACTATGTGTGCACCCATGGAATTCATAATGAGTTTATGAATTGA-CATTTCAG
* * *
2835971 CACTATGTGTGCATCCATGGAATTTATAATGAGTTTGTGAATTGACATTTC
1 CACTATGTGTGCACCCATGGAATTCATAATGAGTTTATGAATTGACATTTC
2836022 GTCATTTAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 43 0.93
54 3 0.07
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (53 bp):
CACTATGTGTGCACCCATGGAATTCATAATGAGTTTATGAATTGACATTTCAG
Found at i:2836573 original size:15 final size:17
Alignment explanation
Indices: 2836543--2836574 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2836533 TATTACATTA
2836543 AAATTCTTTATTTATAG
1 AAATTCTTTATTTATAG
2836560 AAATT-TTT-TTTATAG
1 AAATTCTTTATTTATAG
2836575 GTTTACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
AAATTCTTTATTTATAG
Found at i:2836966 original size:11 final size:11
Alignment explanation
Indices: 2836950--2836974 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2836940 TTATCTTATC
2836950 TTTTTTTTCTT
1 TTTTTTTTCTT
2836961 TTTTTTTTCTT
1 TTTTTTTTCTT
2836972 TTT
1 TTT
2836975 CTTTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:2851096 original size:43 final size:43
Alignment explanation
Indices: 2851050--2851202 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
2851040 TAATATCATT
* * * * *
2851050 TTTTTATCTTTATAATAGATTTCACTATTTTTTTCAATTTCAT
1 TTTTTATATTTATAATTGAGTCCACTATTTTTTTCAATTTCAC
* * * *
2851093 TTTTTATATTTATAATTGAGGCCTACAATTTTTTTTAATTCCAC
1 TTTTTATATTTATAATTGAGTCC-ACTATTTTTTTCAATTTCAC
* * *
2851137 TTTTTATATTTATAATTG-GTGCACCTAATTTTTTCAATCTCAC
1 TTTTTATATTTATAATTGAGTCCA-CTATTTTTTTCAATTTCAC
* *
2851180 TCTTTATCTTTATAATTGAGTCC
1 TTTTTATATTTATAATTGAGTCC
2851203 CTTAATGTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 1 0.01
43 50 0.57
44 37 0.42
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.54
Consensus pattern (43 bp):
TTTTTATATTTATAATTGAGTCCACTATTTTTTTCAATTTCAC
Found at i:2851167 original size:44 final size:43
Alignment explanation
Indices: 2851076--2851199 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 43
2851066 AGATTTCACT
* *
2851076 ATTTTTTTCAATTTCATTTTTTATATTTATAATTGAGGCCTACA
1 ATTTTTTTCAATTCCACTTTTTATATTTATAATTGAGGCCTA-A
*
2851120 ATTTTTTTTAATTCCACTTTTTATATTTATAATTG-GTGCACCT-A
1 ATTTTTTTCAATTCCACTTTTTATATTTATAATTGAG-G--CCTAA
* *
2851164 A-TTTTTTCAA-TCTCACTCTTTATCTTTATAATTGAG
1 ATTTTTTTCAATTC-CACTTTTTATATTTATAATTGAG
2851200 TCCCTTAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.03
43 28 0.41
44 36 0.52
46 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (43 bp):
ATTTTTTTCAATTCCACTTTTTATATTTATAATTGAGGCCTAA
Found at i:2851214 original size:43 final size:43
Alignment explanation
Indices: 2851134--2851218 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
2851124 TTTTTAATTC
* *
2851134 CACTTTTTATATTTATAATTGGTGCACCTAATTTTTTCAATCT
1 CACTCTTTATATTTATAATTGGTGCACCTAATGTTTTCAATCT
*
2851177 CACTCTTTATCTTTATAATTGAGT-C-CCTTAATGTTTTCAATC
1 CACTCTTTATATTTATAATTG-GTGCACC-TAATGTTTTCAATC
2851219 CTATTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.05
43 33 0.89
44 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (43 bp):
CACTCTTTATATTTATAATTGGTGCACCTAATGTTTTCAATCT
Found at i:2858735 original size:27 final size:28
Alignment explanation
Indices: 2858683--2858736 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
2858673 CTAAAAATAT
**
2858683 TAATAATTACAAAAATTAATTTATAAAC
1 TAATAATTACAAAAATTAATAAATAAAC
2858711 TAATAA-TA-AAAAATTGAATAAATAAA
1 TAATAATTACAAAAATT-AATAAATAAA
2858737 TTATTACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 10 0.43
28 6 0.26
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (28 bp):
TAATAATTACAAAAATTAATAAATAAAC
Found at i:2858874 original size:13 final size:13
Alignment explanation
Indices: 2858856--2858931 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
2858846 AACTGCAAAA
2858856 AAATAAAATAATT
1 AAATAAAATAATT
**
2858869 AAATAAAATACTAAA
1 AAATAAAATA--ATT
*
2858884 AAATGTAAATAATT
1 AAAT-AAAATAATT
2858898 AAATAAAATAA-T
1 AAATAAAATAATT
*
2858910 -AACAAAAT-ATT
1 AAATAAAATAATT
*
2858921 AAATAGAATAA
1 AAATAAAATAA
2858932 AATATACCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
10 1 0.02
11 8 0.17
12 7 0.15
13 17 0.35
14 5 0.10
15 5 0.10
16 5 0.10
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:2858893 original size:29 final size:28
Alignment explanation
Indices: 2858853--2858918 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
2858843 TATAACTGCA
*
2858853 AAAAAATAAAATAATTAAATAAAATACT
1 AAAAAATAAAATAATTAAATAAAATAAT
*
2858881 AAAAAATGTAAATAATTAAATAAAATAAT
1 AAAAAAT-AAAATAATTAAATAAAATAAT
2858910 AACAAAATA
1 AA-AAAATA
2858919 TTAAATAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 7 0.21
29 21 0.64
30 5 0.15
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (28 bp):
AAAAAATAAAATAATTAAATAAAATAAT
Found at i:2859182 original size:51 final size:51
Alignment explanation
Indices: 2859127--2859234 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
2859117 CTATGCACTA
*
2859127 CGCCTTACACTGA-ATGGCGCCACATCAGCGTAAGGCGCAATGCATGGGTCG
1 CGCCTTACAC-GACATGGCGCCACATCAGCGTAAGGCGCAATGCATGGGCCG
* * **
2859178 CGCCTTACTCGACGTGGCGCCACATCAGCGTAAGGCGCGGTGCATGGGCCG
1 CGCCTTACACGACATGGCGCCACATCAGCGTAAGGCGCAATGCATGGGCCG
*
2859229 CACCTT
1 CGCCTT
2859235 TCTGCAAAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 2 0.04
51 48 0.96
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (51 bp):
CGCCTTACACGACATGGCGCCACATCAGCGTAAGGCGCAATGCATGGGCCG
Found at i:2859857 original size:28 final size:26
Alignment explanation
Indices: 2859789--2859862 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 26
2859779 ATATTTATTT
2859789 TAATTAATATATAATTTATAATAGTA
1 TAATTAATATATAATTTATAATAGTA
* *
2859815 TAA-AAATATGTTATAATTTGTAATAAGTCA
1 TAATTAATA---TATAATTTATAAT-AGT-A
2859845 TAATTAATATATAATTTA
1 TAATTAATATATAATTTA
2859863 AAATTATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
25 4 0.11
26 3 0.08
28 20 0.53
29 3 0.08
30 4 0.11
31 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (26 bp):
TAATTAATATATAATTTATAATAGTA
Found at i:2860800 original size:2 final size:2
Alignment explanation
Indices: 2860793--2860846 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2860783 TCTTATCCCT
2860793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2860835 TA TA TA TA TA TA
1 TA TA TA TA TA TA
2860847 GTTTATCTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2861786 original size:30 final size:30
Alignment explanation
Indices: 2861750--2861817 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
2861740 TTTTTCTAAT
*
2861750 ATTTTTTTAACATTTGTTATCAAAGGCTTA
1 ATTTTTTTAACACTTGTTATCAAAGGCTTA
* * **
2861780 ATTTTTTCAATACTTGTTATCAGGGGCTTA
1 ATTTTTTTAACACTTGTTATCAAAGGCTTA
2861810 ATTTTTTT
1 ATTTTTTT
2861818 CAATATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (30 bp):
ATTTTTTTAACACTTGTTATCAAAGGCTTA
Found at i:2861816 original size:31 final size:31
Alignment explanation
Indices: 2861750--2861837 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
2861740 TTTTTCTAAT
* **
2861750 ATTTTTTT-AACATTTGTTATCAAAGGCTTA
1 ATTTTTTTCAATATTTGTTATCAGGGGCTTA
*
2861780 A-TTTTTTCAATACTTGTTATCAGGGGCTTA
1 ATTTTTTTCAATATTTGTTATCAGGGGCTTA
* *
2861810 ATTTTTTTCAATATTTTTTATTAGGGGC
1 ATTTTTTTCAATATTTGTTATCAGGGGC
2861838 ATACTTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 6 0.12
30 20 0.41
31 23 0.47
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTTTTTTCAATATTTGTTATCAGGGGCTTA
Found at i:2864051 original size:12 final size:12
Alignment explanation
Indices: 2864014--2864092 Score: 70
Period size: 12 Copynumber: 6.5 Consensus size: 12
2864004 GGAAAAAATG
*
2864014 AATAAATGAAAA
1 AATAAATAAAAA
* *
2864026 AATGAAGAATAAA
1 AATAAATAA-AAA
*
2864039 AATAAGTAAAAAA
1 AATAAAT-AAAAA
*
2864052 AATAAA-AGAAA
1 AATAAATAAAAA
*
2864063 AATAAATAAATA
1 AATAAATAAAAA
*
2864075 AATAAATAAATA
1 AATAAATAAAAA
2864087 AATAAA
1 AATAAA
2864093 AATATTAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
11 10 0.19
12 27 0.50
13 15 0.28
14 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:2864069 original size:4 final size:4
Alignment explanation
Indices: 2864062--2864092 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2864052 AATAAAAGAA
2864062 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2864093 AATATTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2864245 original size:21 final size:23
Alignment explanation
Indices: 2864188--2864239 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2864178 AATATAATAT
2864188 AAATAAATAAA-ACTA-AAACCAA
1 AAATAAATAAATA-TATAAACCAA
2864210 AAATAAATAAATATATAAACCAA
1 AAATAAATAAATATATAAACCAA
*
2864233 ATATAAA
1 AAATAAA
2864240 AGTATACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (23 bp):
AAATAAATAAATATATAAACCAA
Found at i:2864424 original size:19 final size:19
Alignment explanation
Indices: 2864393--2864430 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2864383 AAGTATATGT
*
2864393 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
2864412 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
2864431 CCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:2864507 original size:11 final size:11
Alignment explanation
Indices: 2864491--2864526 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
2864481 ATAGTGTAAA
2864491 AAAATCATTTG
1 AAAATCATTTG
2864502 AAAATCATTTG
1 AAAATCATTTG
2864513 AAAATCATTT-
1 AAAATCATTTG
2864523 AAAA
1 AAAA
2864527 AACATACGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (11 bp):
AAAATCATTTG
Found at i:2865006 original size:37 final size:37
Alignment explanation
Indices: 2864956--2865060 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
2864946 GTGCTTGTTG
* * *
2864956 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTAT
* * *
2864993 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTAT
*
2865030 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAG
2865061 GACGAAAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTAT
Found at i:2866140 original size:106 final size:106
Alignment explanation
Indices: 2865791--2866302 Score: 633
Period size: 106 Copynumber: 4.9 Consensus size: 106
2865781 AGCATTGTTC
* * ** * *
2865791 TGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGAC
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAC
* **
2865855 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTATTGTCT
65 AACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
2865897 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT-TAA-TGA-AA--T-TTTGTTAACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
* * * ** * * *
2865956 ATCAGCCGCCCCTTTGTTTTGAAGTTGAGCTTGTGTTGCCT
66 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * * * *
2865997 TGGGTTCAAGATCTTTCGCTGAGAAGTTGAATTTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
*
2866062 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
2866103 TGAGTCCAATATCCTACGCTATGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
*
2866168 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
2866209 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
* *
2866274 ACCAGCTGTCTCTTCGTCGTGAAGTTGAA
66 ACCAGCCGTCCCTTCGTCGTGAAGTTGAA
2866303 ATTGGCTCTG
Statistics
Matches: 348, Mismatches: 51, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
100 75 0.22
101 3 0.01
102 2 0.01
103 4 0.01
104 1 0.00
105 3 0.01
106 259 0.74
107 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (106 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:2866302 original size:63 final size:63
Alignment explanation
Indices: 2866229--2866365 Score: 220
Period size: 63 Copynumber: 2.2 Consensus size: 63
2866219 ATCCTTCGCT
* * * *
2866229 GTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCTGTCTCTTCGTC
1 GTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCATC
* *
2866292 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATC
1 GTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCATC
2866355 GTGAAGTTGAA
1 GTGAAGTTGAA
2866366 CTTGCGTTGT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (63 bp):
GTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCATC
Found at i:2866315 original size:169 final size:169
Alignment explanation
Indices: 2866124--2866471 Score: 633
Period size: 169 Copynumber: 2.1 Consensus size: 169
2866114 TCCTACGCTA
* *
2866124 TGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTG
2866189 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
* *
2866254 TGAGAAGTTGTTTATTGACAACCAGCTGTCTCTTCGTCG
131 TGAGAAGTTGTTTATTGACAACCAGCAGTCCCTTCGTCG
*
2866293 TGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTG
*
2866358 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAT
66 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
*
2866423 TGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCG
131 TGAGAAGTTGTTTATTGACAACCAGCAGTCCCTTCGTCG
2866462 TGAAGTTGAA
1 TGAAGTTGAA
2866472 CTTGCGTTGT
Statistics
Matches: 172, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
169 172 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (169 bp):
TGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTG
AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
TGAGAAGTTGTTTATTGACAACCAGCAGTCCCTTCGTCG
Found at i:2866347 original size:275 final size:275
Alignment explanation
Indices: 2866019--2866577 Score: 965
Period size: 275 Copynumber: 2.0 Consensus size: 275
2866009 CTTTCGCTGA
* * *
2866019 GAAGTTGAATTTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
1 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCATCGTGA
*
2866084 AGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTATGAAGTTGAAATTGGCTCTGAAATT
66 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTACGCTATGAAGTTGAAATTGGCTCTGAAATT
*
2866149 GAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
131 GAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
2866214 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAG
196 CCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTATTGACAACCAG
* *
2866279 CTGTCTCTTCGTCGT
261 CGGTCCCTTCGTCGT
*
2866294 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGA
1 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCATCGTGA
* * *
2866359 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
66 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTACGCTATGAAGTTGAAATTGGCTCTGAAATT
2866424 GAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
131 GAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
2866489 CCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTGTTGACAACTAG
196 CCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTATTGACAACCAG
*
2866554 CGGTCCCTTCGTTGT
261 CGGTCCCTTCGTCGT
2866569 GAAGTTGAA
1 GAAGTTGAA
2866578 CTTGCGTTGT
Statistics
Matches: 267, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
275 267 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (275 bp):
GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCATCGTGA
AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTACGCTATGAAGTTGAAATTGGCTCTGAAATT
GAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
CCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTATTGACAACCAG
CGGTCCCTTCGTCGT
Found at i:2866470 original size:106 final size:105
Alignment explanation
Indices: 2866285--2866911 Score: 941
Period size: 106 Copynumber: 5.9 Consensus size: 105
2866275 CCAGCTGTCT
* *
2866285 CTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCT
1 CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACAACCAGCGGTCCCT
*
2866350 TCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
65 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
* * *
2866391 CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCT
1 CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTG-GAAATTGTTTGTTGACAACCAGCGGTCCCT
2866456 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
65 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
* * *
2866497 CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTGTTGACAACTAGCGGTCCCT
1 CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTG-GAAATTGTTTGTTGACAACCAGCGGTCCCT
* *
2866562 TCGTTGTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATC
65 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
* * * *
2866603 CTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCT
1 CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACAACCAGCGGTCCCT
*
2866668 TCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATATC
65 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
* * *
2866709 CTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCT
1 CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGG-AAATTGTTTGTTGACAACCAGCGGTCCCT
2866774 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
65 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
** * * *
2866815 CTTCACTGTGAAGTTAAAATTGACTCTGAAATTGGAAAATT-ATTGTTGACAACCAGCCGTCCCT
1 CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGG-AAATTGTTTGTTGACAACCAGCGGTCCCT
* ** *
2866879 TCGTTGTGAAGTTGAACTTTTGTTGTCTTGAGT
65 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
2866912 GGCACGATAT
Statistics
Matches: 482, Mismatches: 36, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
105 52 0.11
106 429 0.89
107 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (105 bp):
CTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACCAGCGGTCCCTT
CGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
Found at i:2866579 original size:381 final size:381
Alignment explanation
Indices: 2865975--2866680 Score: 1162
Period size: 381 Copynumber: 1.9 Consensus size: 381
2865965 CCCTTTGTTT
* * * * *
2865975 TGAAGTTGAGCTTGTGTTGCCTTGGGTTCAAGATCTTTCGCTGAGAAGTTGAATTTGGCTCTGAA
1 TGAAGTTGAACTTGCGTTGCCTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAA
* * *
2866040 ATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 ATTGAGAAGTTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2866105 AGTCCAATATCCTACGCTATGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
131 AGTCCAATATCCTACGCTATGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTGTTGACAAC
2866170 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
196 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* * * *
2866235 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCTGTCTCTTCGTCGTGAAGTT
261 TTAAAATTGGCTCTGAAATTGAGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
2866300 GAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCG
326 GAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCG
* * * *
2866356 TGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAACTTGCGTTGCCTTGG-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGA
*
2866420 AATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 AATTGAGAAGTTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2866485 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTGTTGACAA
130 GAGTCCAATATCCTACGCTATGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTGTTGACAA
* * *
2866550 CTAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATCCTTCGCTGTGAA
195 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
*
2866615 GTTAAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
260 GTTAAAATTGGCTCTGAAATTGAGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
2866680 T
325 T
2866681 AAACTTGCGT
Statistics
Matches: 298, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
380 3 0.01
381 295 0.99
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (381 bp):
TGAAGTTGAACTTGCGTTGCCTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAA
ATTGAGAAGTTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTACGCTATGAAGTTAAAATTGGCTCTGAAATTGAGAAGTAGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
TTAAAATTGGCTCTGAAATTGAGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCG
Found at i:2867763 original size:22 final size:21
Alignment explanation
Indices: 2867738--2867811 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 21
2867728 TGTTTGGTCA
2867738 AAGGTTTGGCATTTGATGCTCC
1 AAGGTTTGGCATTTGATGCT-C
2867760 AAGGTTTGGCATTTGATGCTC
1 AAGGTTTGGCATTTGATGCTC
*
2867781 ATAGGTTTGGCATTTTATGCTC
1 A-AGGTTTGGCATTTGATGCTC
2867803 AACGGTTTG
1 AA-GGTTTG
2867812 ATGGGGTAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
21 3 0.06
22 46 0.94
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (21 bp):
AAGGTTTGGCATTTGATGCTC
Found at i:2868446 original size:36 final size:34
Alignment explanation
Indices: 2868406--2868481 Score: 80
Period size: 36 Copynumber: 2.1 Consensus size: 34
2868396 TTTGCATGTG
*
2868406 CTTTTTATCCCTTTTTCTTTTTGATTTTTGTTCTTT
1 CTTTTTATCCCTTTTT-TCTTTGATTTTTGTTC-TT
* * * *
2868442 CTTTTTTTTCTCTTTTTTCTTTGTTTTTTTTTCTT
1 C-TTTTTATCCCTTTTTTCTTTGATTTTTGTTCTT
2868477 CTTTT
1 CTTTT
2868482 GCTTCTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 4 0.12
35 3 0.09
36 14 0.41
37 13 0.38
ACGTcount: A:0.03, C:0.16, G:0.04, T:0.78
Consensus pattern (34 bp):
CTTTTTATCCCTTTTTTCTTTGATTTTTGTTCTT
Found at i:2868459 original size:26 final size:23
Alignment explanation
Indices: 2868431--2868502 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 23
2868421 TCTTTTTGAT
2868431 TTTTGTTCTTTCTTTTTTTTCTC
1 TTTTGTTCTTTCTTTTTTTTCTC
*
2868454 TTTT-TTCTTTGTTTTTTTTTCTTC
1 TTTTGTTCTTT-CTTTTTTTTC-TC
2868478 TTTTGCTTCTTTTCTTTTTTGTTCT
1 TTTTG-TTC-TTTCTTTTTT-TTCT
2868503 TGATTGGATC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.15
23 13 0.32
24 6 0.15
26 10 0.24
27 6 0.15
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (23 bp):
TTTTGTTCTTTCTTTTTTTTCTC
Found at i:2868468 original size:9 final size:8
Alignment explanation
Indices: 2868439--2868497 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 8
2868429 ATTTTTGTTC
2868439 TTTCTTTTT
1 TTTC-TTTT
2868448 TTTCTCTTT
1 TTTCT-TTT
2868457 TTTC-TTT
1 TTTCTTTT
*
2868464 GTT-TTTT
1 TTTCTTTT
2868471 TTTCTTCTT
1 TTTCTT-TT
* *
2868480 TTGCTTCT
1 TTTCTTTT
2868488 TTTCTTTT
1 TTTCTTTT
2868496 TT
1 TT
2868498 GTTCTTGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 10 0.25
8 12 0.30
9 18 0.45
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTCTTTT
Found at i:2868490 original size:17 final size:15
Alignment explanation
Indices: 2868430--2868503 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 15
2868420 TTCTTTTTGA
2868430 TTTTTGTTC-TTTCT
1 TTTTTGTTCTTTTCT
2868444 TTTTT-TTCTCTTT-T
1 TTTTTGTTCT-TTTCT
*
2868458 TTCTTTGTTTTTTTTTCT
1 TT-TTTG--TTCTTTTCT
2868476 TCTTTTGCTTCTTTTCT
1 T-TTTTG-TTCTTTTCT
2868493 TTTTTGTTCTT
1 TTTTTGTTCTT
2868504 GATTGGATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
13 3 0.06
14 8 0.16
15 11 0.22
16 5 0.10
17 12 0.24
18 9 0.18
19 1 0.02
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (15 bp):
TTTTTGTTCTTTTCT
Found at i:2868495 original size:23 final size:20
Alignment explanation
Indices: 2868440--2868496 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
2868430 TTTTTGTTCT
2868440 TTCTTTTTTTTCTCTTTTTTC
1 TTCTTTTTTTT-TCTTTTTTC
*
2868461 TTTGTTTTTTTTTCTTCTTTTGC
1 -TTCTTTTTTTTTCTT-TTTT-C
2868484 TTCTTTTCTTTTT
1 TTCTTTT-TTTTT
2868497 TGTTCTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.13
22 20 0.67
23 6 0.20
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.81
Consensus pattern (20 bp):
TTCTTTTTTTTTCTTTTTTC
Found at i:2869663 original size:8 final size:8
Alignment explanation
Indices: 2869650--2869685 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
2869640 GTAGATGAAG
2869650 ATGCAAAA
1 ATGCAAAA
2869658 ATGCAAAA
1 ATGCAAAA
2869666 ATGC-AAA
1 ATGCAAAA
*
2869673 ATGCAAGA
1 ATGCAAAA
2869681 ATGCA
1 ATGCA
2869686 TGAAATGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:2869675 original size:15 final size:15
Alignment explanation
Indices: 2869650--2869685 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
2869640 GTAGATGAAG
2869650 ATGCAAAAATGCAAAA
1 ATGC-AAAATGCAAAA
*
2869666 ATGCAAAATGCAAGA
1 ATGCAAAATGCAAAA
2869681 ATGCA
1 ATGCA
2869686 TGAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:2873000 original size:4 final size:4
Alignment explanation
Indices: 2872940--2873018 Score: 54
Period size: 4 Copynumber: 19.2 Consensus size: 4
2872930 TTAGAGGAAA
* * * * *
2872940 AAAT GAAT AAAT GAAA- AAAT AAAG AATAA AAAT AAGT AAAA AAAT AAA-
1 AAAT AAAT AAAT -AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
*
2872988 AGGAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 A-AAT AAAT AAAT AAAT AAAT AAAT -AAAT A
2873019 TTAATATATA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
3 4 0.07
4 43 0.74
5 11 0.19
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:2873105 original size:18 final size:18
Alignment explanation
Indices: 2873056--2873109 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
2873046 AAAATAGAAA
*
2873056 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
2873077 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
2873096 AATA-TAATATAAAA
1 AATAGTAATATAAAA
2873110 AAAACCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:2873110 original size:18 final size:19
Alignment explanation
Indices: 2873060--2873110 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
2873050 TAGAAAAATA
*
2873060 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
2873080 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
2873099 ATAATATAAAAA
1 ATAATATAAAAA
2873111 AAACCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:2873321 original size:19 final size:19
Alignment explanation
Indices: 2873292--2873383 Score: 60
Period size: 21 Copynumber: 4.6 Consensus size: 19
2873282 CTTATAAGTA
*
2873292 AAATATTTATAAAAAAAGTAT
1 AAATATATATAAAAAAA--AT
* *
2873313 ATATATATATAAAAATAAT
1 AAATATATATAAAAAAAAT
*
2873332 AAATATAGTATTAAAAAAAACC
1 AAATATA-TA-TAAAAAAAA-T
* *
2873354 AAATGA-ATATAAATAATAT
1 AAAT-ATATATAAAAAAAAT
*
2873373 ATATATATATA
1 AAATATATATA
2873384 TATATATATA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
18 1 0.02
19 16 0.29
20 9 0.16
21 24 0.43
22 5 0.09
23 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATATATAAAAAAAAT
Found at i:2873323 original size:21 final size:20
Alignment explanation
Indices: 2873290--2873350 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
2873280 CGCTTATAAG
*
2873290 TAAA-ATATTTATAAAAAAA
1 TAAATATATATATAAAAAAA
*
2873309 GTATATATATATATAAAAATAA
1 -TAAATATATATATAAAAA-AA
2873331 TAAATATAGTAT-TAAAAAAA
1 TAAATATA-TATATAAAAAAA
2873351 ACCAAATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAATATATATATAAAAAAA
Found at i:2873376 original size:2 final size:2
Alignment explanation
Indices: 2873360--2873405 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
2873350 AACCAAATGA
*
2873360 AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2873399 AT AT AT A
1 AT AT AT A
2873406 GTGTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2873525 original size:21 final size:22
Alignment explanation
Indices: 2873479--2873527 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
2873469 ATAATGTAAA
*
2873479 TAATA-AATAAATAAAAATATC
1 TAATATAATAAATAAAAAGATC
*
2873500 T-ATATAATAAATAAAAGGAT-
1 TAATATAATAAATAAAAAGATC
2873520 TAATATAA
1 TAATATAA
2873528 AGAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
TAATATAATAAATAAAAAGATC
Found at i:2873924 original size:37 final size:37
Alignment explanation
Indices: 2873883--2873979 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
2873873 GGATCCTATC
* *
2873883 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
* * * * *
2873920 TTTAGTAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
2873957 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCCTAGTAG
2873980 GACGAAAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
Found at i:2875191 original size:20 final size:19
Alignment explanation
Indices: 2875159--2875208 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
2875149 GTGACATTTC
2875159 TATTATATATATAATATATCA
1 TATTAT-TATATAATATAT-A
2875180 TATTATTATATAATATATA
1 TATTATTATATAATATATA
2875199 TCATTATTAT
1 T-ATTATTAT
2875209 TATTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.07
20 20 0.71
21 6 0.21
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTATTATATAATATATA
Found at i:2883661 original size:20 final size:20
Alignment explanation
Indices: 2883637--2883777 Score: 176
Period size: 20 Copynumber: 7.1 Consensus size: 20
2883627 TTTCCCACAA
*
2883637 ATTTGTAAAACCTCCGGGTA
1 ATTTGTAAAACCTCCGGGTC
2883657 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAACCTCCGGGTC
*
2883677 ATTTGTAAAACCTTCGGGTC
1 ATTTGTAAAACCTCCGGGTC
* **
2883697 ATTTGTAAAGCCTCCAAGTC
1 ATTTGTAAAACCTCCGGGTC
* *
2883717 ATCTGTAAAGCCTCCGGGTC
1 ATTTGTAAAACCTCCGGGTC
* *
2883737 ATTTGT-AAACCTTCGGGTA
1 ATTTGTAAAACCTCCGGGTC
* *
2883756 ATTTGTAAATCCTTCGGGTC
1 ATTTGTAAAACCTCCGGGTC
2883776 AT
1 AT
2883778 CTGTCAGTCT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
19 16 0.15
20 89 0.85
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (20 bp):
ATTTGTAAAACCTCCGGGTC
Found at i:2883876 original size:36 final size:36
Alignment explanation
Indices: 2883828--2884037 Score: 221
Period size: 36 Copynumber: 5.9 Consensus size: 36
2883818 TTCTCAAGAT
*
2883828 CTTCACGGAAGAGTAGTGAAGTCAATCATTTTCAAC
1 CTTCACAGAAGAGTAGTGAAGTCAATCATTTTCAAC
* * *
2883864 ATTCACAGAAGAGTAGTGAAGTAAATCA-TTT-AGC
1 CTTCACAGAAGAGTAGTGAAGTCAATCATTTTCAAC
* * * * *
2883898 CTTCACGGAAGATTAGTGAAGTTAATACAATTCCAAC
1 CTTCACAGAAGAGTAGTGAAGTCAAT-CATTTTCAAC
* ** **
2883935 CTTCACAAAAGAGTAGTGAAGT-AATGCAAATTCTGC
1 CTTCACAGAAGAGTAGTGAAGTCAAT-CATTTTCAAC
*
2883971 CTTCACGGAAGAGTAGTGAAGTCAATCATTTTCAAC
1 CTTCACAGAAGAGTAGTGAAGTCAATCATTTTCAAC
*
2884007 CTTCACAGAAGAGTAGTGGAG-CAAATCATTT
1 CTTCACAGAAGAGTAGTGAAGTC-AATCATTT
2884038 GCAAATCATT
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
34 24 0.17
35 6 0.04
36 89 0.62
37 24 0.17
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (36 bp):
CTTCACAGAAGAGTAGTGAAGTCAATCATTTTCAAC
Found at i:2884299 original size:20 final size:20
Alignment explanation
Indices: 2884259--2884301 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2884249 TTCTATTATA
*
2884259 TATATAATATACTATATTAT
1 TATATAATATACTATAGTAT
2884279 TATATAATATA-TATTAGTAT
1 TATATAATATACTA-TAGTAT
2884299 TAT
1 TAT
2884302 TATTATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATAATATACTATAGTAT
Found at i:2885577 original size:12 final size:12
Alignment explanation
Indices: 2885560--2885587 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2885550 TAATATTTTA
2885560 ATTTTAAATATT
1 ATTTTAAATATT
2885572 ATTTTAAATATT
1 ATTTTAAATATT
2885584 ATTT
1 ATTT
2885588 ATTATTATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTTAAATATT
Found at i:2887133 original size:137 final size:137
Alignment explanation
Indices: 2886963--2887212 Score: 369
Period size: 137 Copynumber: 1.8 Consensus size: 137
2886953 ATACTATTCA
* * * * *
2886963 ATTTTAATCAATTATGCAATTCGAATAATTAAATTAGAACATCAAGAAAAAGTGAA-TACCAAAT
1 ATTTTAATCAATTATACAATTCAAATAACTAAATTAGAACATCAAGAAAAAG-CAAGGACCAAAT
* * *
2887027 TAAGAATTCTCC-TATTTTGAGGGCTAAATGTGAAATTAGGCCTAAGATAAAGATTCTAATATTA
65 GAAGAATTCTCCTTA-TTTAAGGACTAAATGTGAAATTAGGCCTAAGATAAAGATTCTAATATTA
2887091 CCCTAACCG
129 CCCTAACCG
* * *
2887100 ATTTTAATCAATTATACAATTCAAATAACTAAATTGGAACTTCGAGAAAAAGCAAGGACCAAATG
1 ATTTTAATCAATTATACAATTCAAATAACTAAATTAGAACATCAAGAAAAAGCAAGGACCAAATG
2887165 AAGAATTCTCCTTATTTAAGGACTAAATGTGAAATTAGGCCTAAGATA
66 AAGAATTCTCCTTATTTAAGGACTAAATGTGAAATTAGGCCTAAGATA
2887213 GATCTCTAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 2 0.02
137 96 0.96
138 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (137 bp):
ATTTTAATCAATTATACAATTCAAATAACTAAATTAGAACATCAAGAAAAAGCAAGGACCAAATG
AAGAATTCTCCTTATTTAAGGACTAAATGTGAAATTAGGCCTAAGATAAAGATTCTAATATTACC
CTAACCG
Found at i:2893710 original size:31 final size:31
Alignment explanation
Indices: 2893675--2893770 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 31
2893665 AGGGACCAAT
2893675 TTAGAAAGAGATTCATAGTTTAAGGATGAAA
1 TTAGAAAGAGATTCATAGTTTAAGGATGAAA
* * *
2893706 TTAG-AA-TG-TTCAAAGTTTAAGGACT-AAT
1 TTAGAAAGAGATTCATAGTTTAAGGA-TGAAA
* * *
2893734 TTA-AAATGAGAGTCATAGTTTGATGATGAAA
1 TTAGAAA-GAGATTCATAGTTTAAGGATGAAA
2893765 TTAGAA
1 TTAGAA
2893771 TATCCAAAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
28 21 0.43
29 2 0.04
30 4 0.08
31 20 0.41
32 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (31 bp):
TTAGAAAGAGATTCATAGTTTAAGGATGAAA
Found at i:2893726 original size:28 final size:28
Alignment explanation
Indices: 2893686--2893787 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
2893676 TAGAAAGAGA
*
2893686 TTCATAGTTTAAGGATGAAATTAGAATG
1 TTCAAAGTTTAAGGATGAAATTAGAATG
* *
2893714 TTCAAAGTTTAAGGACT-AATTTAAAATGAG
1 TTCAAAGTTTAAGGA-TGAAATTAGAAT--G
* * * * *
2893744 AGTCATAGTTTGATGATGAAATTAGAATA
1 -TTCAAAGTTTAAGGATGAAATTAGAATG
*
2893773 TCCAAAGTTTAAGGA
1 TTCAAAGTTTAAGGA
2893788 CCAATTTAAA
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
28 32 0.59
29 1 0.02
30 2 0.04
31 19 0.35
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (28 bp):
TTCAAAGTTTAAGGATGAAATTAGAATG
Found at i:2893750 original size:59 final size:59
Alignment explanation
Indices: 2893638--2893805 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 59
2893628 ATGAATTCAG
* *
2893638 GGATGAAATT-GAAATATTCAAAAGTTTAGGGACCAATTTAGAAA-GAGATTCATAGTTTAA
1 GGATGAAATTAG-AATATTC-AAAGTTTAAGGACCAATTTA-AAATGAGAGTCATAGTTTAA
* * *
2893698 GGATGAAATTAGAATGTTCAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAGTTTGA
1 GGATGAAATTAGAATATTCAAAGTTTAAGGACCAATTTAAAATGAGAGTCATAGTTTAA
* * *
2893757 TGATGAAATTAGAATATCCAAAGTTTAAGGACCAATTTAAAATAAGAGT
1 GGATGAAATTAGAATATTCAAAGTTTAAGGACCAATTTAAAATGAGAGT
2893806 TATAATTTGG
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
58 3 0.03
59 76 0.79
60 16 0.17
61 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (59 bp):
GGATGAAATTAGAATATTCAAAGTTTAAGGACCAATTTAAAATGAGAGTCATAGTTTAA
Found at i:2903593 original size:29 final size:29
Alignment explanation
Indices: 2903527--2903583 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2903517 TAACTACTAT
* *
2903527 CTTTCATTTTATTGCATATTAACCACTGA
1 CTTTTATTTTATTGCATACTAACCACTGA
2903556 CTTTTATTTTATTGCACT-CTAACCACTG
1 CTTTTATTTTATTGCA-TACTAACCACTG
2903584 TTATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.46
Consensus pattern (29 bp):
CTTTTATTTTATTGCATACTAACCACTGA
Found at i:2906232 original size:23 final size:22
Alignment explanation
Indices: 2906175--2906293 Score: 127
Period size: 23 Copynumber: 5.3 Consensus size: 22
2906165 CATCACAACT
*
2906175 CACATAATTTG-CACCGAAGTG-C
1 CACATAGTTTGTC-CCGAAG-GAC
* *
2906197 CACATA-TTTGTCCCAAAAGAC
1 CACATAGTTTGTCCCGAAGGAC
2906218 CACATAGGTTTGTCCCGAAGGAC
1 CACATA-GTTTGTCCCGAAGGAC
2906241 CACATAGTTTTGTCCCGAAGGAC
1 CACATAG-TTTGTCCCGAAGGAC
* *
2906264 CACATTATTTTGTCTCGAAGGAC
1 CACA-TAGTTTGTCCCGAAGGAC
2906287 CACATAG
1 CACATAG
2906294 AACCCTTGAC
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
20 1 0.01
21 15 0.18
22 10 0.12
23 56 0.67
24 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (22 bp):
CACATAGTTTGTCCCGAAGGAC
Found at i:2907150 original size:21 final size:21
Alignment explanation
Indices: 2907107--2907162 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
2907097 TTACTTACAA
*
2907107 TATCGATAC-CTTCACATCAG
1 TATCGATACTCTTCACACCAG
2907127 TATCGATACTTCTTCA-ACCAG
1 TATCGATAC-TCTTCACACCAG
*
2907148 TATCGATACTATTCA
1 TATCGATACTCTTCA
2907163 TCCCATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.44
21 13 0.41
22 5 0.16
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (21 bp):
TATCGATACTCTTCACACCAG
Found at i:2910085 original size:20 final size:19
Alignment explanation
Indices: 2910060--2910099 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2910050 ACAAAAAAAT
2910060 AAAGAGAGAAAAGAAAGAAA
1 AAAGAGAGAAAA-AAAGAAA
**
2910080 AAAGAGTTAAAAAAAGAAA
1 AAAGAGAGAAAAAAAGAAA
2910099 A
1 A
2910100 CAAATCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAGAGAGAAAAAAAGAAA
Found at i:2910793 original size:28 final size:28
Alignment explanation
Indices: 2910733--2910796 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
2910723 CGCAAGAAGA
2910733 CAACCTAAAACACATTACCTTCCCCAAT
1 CAACCTAAAACACATTACCTTCCCCAAT
* * *
2910761 TAACCTGAAACACATTACCTT-TCCAAGT
1 CAACCTAAAACACATTACCTTCCCCAA-T
2910789 CAACCTAA
1 CAACCTAA
2910797 GCTTTATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.39, C:0.34, G:0.03, T:0.23
Consensus pattern (28 bp):
CAACCTAAAACACATTACCTTCCCCAAT
Found at i:2912812 original size:18 final size:20
Alignment explanation
Indices: 2912789--2912830 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
2912779 CTGCGCTTAT
2912789 TTTTCAAAATCAAA-ATAG-
1 TTTTCAAAATCAAAGATAGA
2912807 TTTTCAAAATCAAAGATAGA
1 TTTTCAAAATCAAAGATAGA
2912827 TTTT
1 TTTT
2912831 GGTCAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.64
19 4 0.18
20 4 0.18
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
TTTTCAAAATCAAAGATAGA
Found at i:2915822 original size:20 final size:19
Alignment explanation
Indices: 2915780--2915824 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2915770 GTTGTGGTTA
*
2915780 AAATAAAAAAATAAGAATT
1 AAATAAAAAAAAAAGAATT
*
2915799 AAATAAAAGAAAAAATAATT
1 AAATAAAA-AAAAAAGAATT
2915819 AAATAA
1 AAATAA
2915825 TTAAACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (19 bp):
AAATAAAAAAAAAAGAATT
Found at i:2916552 original size:75 final size:76
Alignment explanation
Indices: 2916470--2916617 Score: 237
Period size: 76 Copynumber: 2.0 Consensus size: 76
2916460 TTCTATATCC
2916470 TAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAAT-ATAAAAATAA
1 TAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-ATAAAATGATAAAAATAA
2916533 TATCCTAAAACT
65 TATCCTAAAACT
* * * *
2916545 TAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAAATATT
1 TAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATAAAATGATAAAAATAAT
2916610 ATCCTAAA
66 ATCCTAAA
2916618 TTTGAGTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
75 19 0.28
76 48 0.72
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (76 bp):
TAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATAAAATGATAAAAATAAT
ATCCTAAAACT
Found at i:2923130 original size:18 final size:17
Alignment explanation
Indices: 2923096--2923138 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
2923086 AAAAGAAAAG
2923096 AAAAATAATATAATAAT
1 AAAAATAATATAATAAT
* *
2923113 AAAAATATTAATAGTAAT
1 AAAAATAAT-ATAATAAT
*
2923131 AAATATAA
1 AAAAATAA
2923139 AAGGGGGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATAATATAATAAT
Found at i:2923206 original size:22 final size:23
Alignment explanation
Indices: 2923165--2923213 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
2923155 AAGTTGTGGT
* *
2923165 TAAAATAAAAAATAAGAATTAAA
1 TAAAAGAAAAAATAACAATTAAA
2923188 TAAAAGAAAAAA-AACAATTAAA
1 TAAAAGAAAAAATAACAATTAAA
2923210 TAAA
1 TAAA
2923214 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAAGAAAAAATAACAATTAAA
Found at i:2923897 original size:19 final size:19
Alignment explanation
Indices: 2923841--2923903 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
2923831 CTATTTAAAC
**
2923841 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
2923861 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
2923881 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
2923900 TAAA
1 TAAA
2923904 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:2923931 original size:64 final size:68
Alignment explanation
Indices: 2923806--2924003 Score: 199
Period size: 64 Copynumber: 2.8 Consensus size: 68
2923796 TAAAACATCT
* * ** *
2923806 TAAATTCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAC--CTA-AAAAAT-AATATAAT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAAT
*
2923866 ATTC
65 ATCC
2923870 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC------AAAGATAAAA-ATAAA
2923935 AATAATATCC
59 AATAATATCC
* *
2923945 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAA-ATAA
2924004 TGTTTAAAAT
Statistics
Matches: 113, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
63 5 0.04
64 35 0.31
70 15 0.13
72 1 0.01
73 4 0.04
74 2 0.02
75 28 0.25
76 23 0.20
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (68 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAATA
TCC
Found at i:2923948 original size:75 final size:76
Alignment explanation
Indices: 2923861--2924025 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
2923851 AAAAAATAAT
*
2923861 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
2923925 AAAAT-ATAAAA
65 AAAATGATAAAA
* *
2923936 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
2924001 TAATGTTTAAA
66 AAATGATAAAA
*
2924012 ATATTATCCTAAAT
1 ATAATATCCTAAAT
2924026 TTGAGTTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:2925753 original size:52 final size:53
Alignment explanation
Indices: 2925661--2925762 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
2925651 TCTGCTGTGG
* *
2925661 ATTTTTTTGCACTGTTTGAACCAAATCAGTTTTTTCTGCACTGTTCTGTTCGA
1 ATTTTTCTGCACAGTTTGAACCAAATCAGTTTTTTCTGCACTGTTCTGTTCGA
* *
2925714 ATTTTTCTGCACAGTTTGAACCAAGTCAG-TTTTTCTGCACTGTTTTGTT
1 ATTTTTCTGCACAGTTTGAACCAAATCAGTTTTTTCTGCACTGTTCTGTT
2925763 TTTGTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 19 0.42
53 26 0.58
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (53 bp):
ATTTTTCTGCACAGTTTGAACCAAATCAGTTTTTTCTGCACTGTTCTGTTCGA
Found at i:2925758 original size:28 final size:28
Alignment explanation
Indices: 2925662--2925758 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 28
2925652 CTGCTGTGGA
* *
2925662 TTTTTTTGCACTGTTTGAACCAAATCAG
1 TTTTTCTGCACTGTTTGAACCAAGTCAG
** *
2925690 TTTTTTCTGCACTGTTCTG-TTC--G--AA
1 -TTTTTCTGCACTGTT-TGAACCAAGTCAG
*
2925715 TTTTTCTGCACAGTTTGAACCAAGTCAG
1 TTTTTCTGCACTGTTTGAACCAAGTCAG
2925743 TTTTTCTGCACTGTTT
1 TTTTTCTGCACTGTTT
2925759 TGTTTTTGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
23 2 0.04
24 15 0.29
25 1 0.02
26 1 0.02
28 16 0.31
29 15 0.29
30 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (28 bp):
TTTTTCTGCACTGTTTGAACCAAGTCAG
Found at i:2957232 original size:59 final size:60
Alignment explanation
Indices: 2957137--2957263 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 60
2957127 AAATGATTCC
** * *
2957137 CTGACTATAGCGTATTGTTTTGTTGAGTCCCACGACTGTTAAGAGTTACAAAATAATCTT
1 CTGACTATAGCGTATTAATTTGTTGAGTCCCACGACTATTAAAAGTTACAAAATAATCTT
* * * * *
2957197 -TCGACTATAGGGTATTAATTT-TTGAGTCTCTCGACTATTAAAAGTTATAAAATGATCTT
1 CT-GACTATAGCGTATTAATTTGTTGAGTCCCACGACTATTAAAAGTTACAAAATAATCTT
2957256 CTGACTAT
1 CTGACTAT
2957264 TCCTTATGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 39 0.70
60 17 0.30
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (60 bp):
CTGACTATAGCGTATTAATTTGTTGAGTCCCACGACTATTAAAAGTTACAAAATAATCTT
Found at i:2961828 original size:21 final size:21
Alignment explanation
Indices: 2961802--2961844 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2961792 GTAACGGTTG
2961802 GAATAACAGTGATTGCATCCC
1 GAATAACAGTGATTGCATCCC
*
2961823 GAATAACGGTGATTGCATCCC
1 GAATAACAGTGATTGCATCCC
2961844 G
1 G
2961845 TTATCGGCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
GAATAACAGTGATTGCATCCC
Found at i:2962664 original size:565 final size:567
Alignment explanation
Indices: 2961823--2962944 Score: 1919
Period size: 565 Copynumber: 2.0 Consensus size: 567
2961813 ATTGCATCCC
* *
2961823 GAATAACGGTGATTGCATCCCGTTATCGGCGCAATCGTCCGTTTCCCGTTAAATTACGGGCGCGA
1 GAATAACAGTGATTGCATCCCGTTATCGGCGCAATCGTCCGTTTCCCGTTAAATTACGGGCGCAA
2961888 TCAACCACAATCGGTGTGAATCCATGACCCACCACAAAAATCATAAATAGCGGTTTCGGACGGTG
66 TCAACCACAATCGGTGTGAATCCATGACCCACCACAAAAATCATAAATAGCGGTTTCGGACGGTG
* * *
2961953 GCGCAACCGCAATATCGCGTCTGCTATAGCGTTTTCGAAACGCTATTTGATACCCTGACTCATAT
131 GCACAACCGCAATATCGCGCCTGCTATAGCATTTTCGAAACGCTATTTGATACCCTGACTCATAT
2962018 TCACCATCGTCTAGGCCATCGTGGGGTACACAGTCTATACCAGCGTGTTGTCCACATCATTCTGG
196 TCACCATCGTCTAGGCCATCGTGGGGTACACAGTCTATACCAGCGTGTTGTCCACATCATTCTGG
2962083 TTCTGTCGAGCCCATCACCATATCTTGTGTCGTCGTCGTTCGTGAGATAT-GGAGGAAACTTT-G
261 TTCTGTCGAGCCCATCACCATATCTTGTGTCGTCGTCGTTCGTGAGATATGGGAGGAAACTTTCG
* *
2962146 GCCATATTCAAGATTTTCTCCACCACTCCGTTTCTCACCGTCGTAAAATAAGATCAGGATGAGAC
326 GCCATATTCAAGATTTGCTCCACCACTCCGTTTCTCACCATCGTAAAATAAGATCAGGATGAGAC
* * *
2962211 TCCCCACACCTTAAAATGAAAAGCTTAAATTTTTGGTGTAATTCCGACCATCGGAGGGCGTGTGA
391 TCCCCAAACCTTAAAATGAAAAGCTTAAATTTTTGGTGTAATTCCGACCACCAGAGGGCGTGTGA
2962276 GATTGATTTTCTACAAATCGATTAAACTGATTTATAGGGTTGAACCGGTCTGATCGAGCCAGTCT
456 GATTGATTTTCTACAAATCGATTAAACTGATTTATAGGGTTGAACCGGTCTGATCGAGCCAGTCT
*
2962341 TGAATCGAACTACTGATTTAATCAAAACATTGACCAAATAACGGTTG
521 TGAATCGAACTACTGATTGAATCAAAACATTGACCAAATAACGGTTG
** * * *
2962388 GAATAACAGTGATTGTGTCCCGTTATTGGCGCAATCGTCCTTTTCCCGTTAAATTGCGGGCGCAA
1 GAATAACAGTGATTGCATCCCGTTATCGGCGCAATCGTCCGTTTCCCGTTAAATTACGGGCGCAA
* * * * *
2962453 TCGACCGCAATCGGTGTGAATCCATGACCCATCGCAAAAATCATGAATAGCGGTTTCGGACGGTG
66 TCAACCACAATCGGTGTGAATCCATGACCCACCACAAAAATCATAAATAGCGGTTTCGGACGGTG
*
2962518 GCACGACCGCAATATCGCGGCCT-CTATAGCATTTTC-AGAACGCTATTTGATACCCTGACTCAT
131 GCACAACCGCAATATCGC-GCCTGCTATAGCATTTTCGA-AACGCTATTTGATACCCTGACTCAT
*
2962581 ATTCACCATCGTCTAGGCCATCGTGGGGTACACAGTCTGTACCAGCGTGTTGTCCACATCATTCT
194 ATTCACCATCGTCTAGGCCATCGTGGGGTACACAGTCTATACCAGCGTGTTGTCCACATCATTCT
*
2962646 GGTTTTGTCGAGCCCATCACCATATCTTGTGTCGTCGTCGTTCGTGAGATATGGAGGAGGAAACT
259 GGTTCTGTCGAGCCCATCACCATATCTTGTGTCGTCGTCGTTCGTGAGATAT-G-GGAGGAAACT
** *
2962711 TTCGGCCATATTCAAGATTTGCTCTGCCACTCCGTTTCTCACCATCGTAAAATAAGATTAGGATG
322 TTCGGCCATATTCAAGATTTGCTCCACCACTCCGTTTCTCACCATCGTAAAATAAGATCAGGATG
*
2962776 AGACTCCCCAAACCTTAAAATGAAAAGCTTAAATTTTTGGTGTAATTCCGACCACCAGAGGTCGT
387 AGACTCCCCAAACCTTAAAATGAAAAGCTTAAATTTTTGGTGTAATTCCGACCACCAGAGGGCGT
2962841 GTGAGATTGATTTTCTACAAATCGATTAAACTGATTTATAGGGTTGAACCGGTCTGATCGAGCCA
452 GTGAGATTGATTTTCTACAAATCGATTAAACTGATTTATAGGGTTGAACCGGTCTGATCGAGCCA
*
2962906 GTCTTGAATCGAACTACTGATTGAATCAAACCATTGACC
517 GTCTTGAATCGAACTACTGATTGAATCAAAACATTGACC
2962945 GAACCGTTTT
Statistics
Matches: 522, Mismatches: 29, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
564 1 0.00
565 286 0.55
566 3 0.01
568 12 0.02
569 220 0.42
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (567 bp):
GAATAACAGTGATTGCATCCCGTTATCGGCGCAATCGTCCGTTTCCCGTTAAATTACGGGCGCAA
TCAACCACAATCGGTGTGAATCCATGACCCACCACAAAAATCATAAATAGCGGTTTCGGACGGTG
GCACAACCGCAATATCGCGCCTGCTATAGCATTTTCGAAACGCTATTTGATACCCTGACTCATAT
TCACCATCGTCTAGGCCATCGTGGGGTACACAGTCTATACCAGCGTGTTGTCCACATCATTCTGG
TTCTGTCGAGCCCATCACCATATCTTGTGTCGTCGTCGTTCGTGAGATATGGGAGGAAACTTTCG
GCCATATTCAAGATTTGCTCCACCACTCCGTTTCTCACCATCGTAAAATAAGATCAGGATGAGAC
TCCCCAAACCTTAAAATGAAAAGCTTAAATTTTTGGTGTAATTCCGACCACCAGAGGGCGTGTGA
GATTGATTTTCTACAAATCGATTAAACTGATTTATAGGGTTGAACCGGTCTGATCGAGCCAGTCT
TGAATCGAACTACTGATTGAATCAAAACATTGACCAAATAACGGTTG
Found at i:2963816 original size:16 final size:17
Alignment explanation
Indices: 2963787--2963819 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2963777 CGTTCTTTGA
2963787 ATATTTTAAATTATTTT
1 ATATTTTAAATTATTTT
2963804 ATATTTT-AATTATTTT
1 ATATTTTAAATTATTTT
2963820 GTGTATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTAAATTATTTT
Found at i:2965030 original size:17 final size:18
Alignment explanation
Indices: 2964991--2965037 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
2964981 TGTTTCTGAG
2964991 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
2965009 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
2965026 GGAATTGGAATC
1 GGAATTGGAATC
2965038 CAATTCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:2965694 original size:37 final size:38
Alignment explanation
Indices: 2965615--2965700 Score: 138
Period size: 38 Copynumber: 2.3 Consensus size: 38
2965605 CTAAACTCGA
2965615 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCG
* * *
2965653 ACCCGACTCGACCTGAATATCACACTT-AAAAAACCCT
1 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCG
2965690 ACCCGACCCGA
1 ACCCGACCCGA
2965701 ACGAAATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 19 0.43
38 25 0.57
ACGTcount: A:0.37, C:0.40, G:0.10, T:0.13
Consensus pattern (38 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCG
Found at i:2966621 original size:20 final size:20
Alignment explanation
Indices: 2966593--2966637 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2966583 CAAGCTTTTC
* *
2966593 TTTTCTTTCTTGT-TTTCCCT
1 TTTTTTTTCTT-TCTTTCACT
2966613 TTTTTTTTCTTTCTTTCACT
1 TTTTTTTTCTTTCTTTCACT
2966633 TTTTT
1 TTTTT
2966638 ATGATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCTTTCTTTCACT
Found at i:2970365 original size:23 final size:23
Alignment explanation
Indices: 2970339--2970394 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
2970329 CTTAATTAGT
* *
2970339 TAATAAAATATGTAGCGTTTATA
1 TAATAAAATAGGTAGCGCTTATA
*
2970362 TAATATAATAGGTAGCGCTTATA
1 TAATAAAATAGGTAGCGCTTATA
2970385 TAATAAAATA
1 TAATAAAATA
2970395 AGTTAATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.36
Consensus pattern (23 bp):
TAATAAAATAGGTAGCGCTTATA
Found at i:2970945 original size:38 final size:38
Alignment explanation
Indices: 2970890--2970966 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
2970880 AACCTTATAC
2970890 ATTGTTTACTTAAATTTTCATGATACCGAATGAATTTA
1 ATTGTTTACTTAAATTTTCATGATACCGAATGAATTTA
*
2970928 ATTGTTTACTTATATTTTCATGATACCGAATGAATTTA
1 ATTGTTTACTTAAATTTTCATGATACCGAATGAATTTA
2970966 A
1 A
2970967 CCGTTTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (38 bp):
ATTGTTTACTTAAATTTTCATGATACCGAATGAATTTA
Found at i:2973432 original size:199 final size:198
Alignment explanation
Indices: 2972882--2974245 Score: 2013
Period size: 199 Copynumber: 6.8 Consensus size: 198
2972872 GTAATTTTAA
* * *
2972882 AAAAATATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACTGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
* * *
2972947 TATATTTCTACCGGTTATATTGTAAATTTACTTATTACATTATAACTATCGGTTTCGATGTTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
** *
2973012 GGGATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTG
131 GGG-TCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTG
2973077 GACC
195 GACC
* * * *
2973081 AAAAGTATCGAAACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTTTTTATTAATCG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTA-TTTTCTAATTAACCG
* * *
2973146 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTGTTTCAATTTTTT
65 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA-TGTTT
* ** * * *
2973211 TTGGGTCGATACTTTTAATAAATGTATCGATACTTTATGATTGCAACT-GATTTGGCATACATTC
129 TTGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGGCATTCATTC
2973275 TGGA-C
193 TGGACC
*
2973280 ATAAAGTATCGACAC-AATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAACC
1 A-AAAGTATCGACACAAATTTAAAAA-GTGTCGATACATTATGTTGACCTATTTTCTAATTAACC
*
2973344 GGTATATTTCTACCGGTTGCATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
64 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* ** * * *
2973409 TTGGGATCAATACTTACAATAAATGTATCAACACTTTATGCGTGCACCTCATTGGGCATTCATTT
129 TTGGG-TCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
2973474 TGGACC
193 TGGACC
* * *
2973480 AAAAGTATCGACACAAATTTAAAAAGCGTCGATACATTATGTTGACCTATTTTCTAATTAGCTGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
* *
2973545 TATATTTCTACCGATTACATTGTAAATTTACCTATTACATTATAATTATCCTGTTTCGATGTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-CGGTTTCGATG-TTT
* * * *
2973610 TTGGGTCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTGGTTTGGCATACATTCT
129 TTGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCT
*
2973675 GGA-A
194 GGACC
* * *
2973679 ATAAAGTATCGATAC-AATTTAAAAATGTATCGATACATTATGTTCACCTATTTTCTAATTAACC
1 A-AAAGTATCGACACAAATTTAAAAA-GTGTCGATACATTATGTTGACCTATTTTCTAATTAACC
* *
2973743 GATATATTTCTACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
64 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
2973808 TTCGGGTCGATACTTTTAATAACTGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
129 TT-GGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
2973873 TGGACC
193 TGGACC
* * * *
2973879 AAAAGTATTGACACAATTTTAAAAATTGTCGATACATTATGTTGACCTATTTTCTAATTAATCGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
2973944 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * * *
2974009 GGGGTGGATACTTTTAGTAAATGTATCGATACTTTATGCGTACACCTCGTTGGGCAGTCATTCTG
131 -GGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTG
2974074 GACC
195 GACC
*
2974078 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
2974143 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* *
2974208 GGGATCGATAAAATTTTAA-AAAT-TATCGATACTTTATG
131 GGG-TCGAT--ACTTTTAATAAATGTATCGACACTTTATG
2974246 TTTAACTATT
Statistics
Matches: 1048, Mismatches: 98, Indels: 38
0.89 0.08 0.03
Matches are distributed among these distances:
198 17 0.02
199 674 0.64
200 334 0.32
201 23 0.02
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
GGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGG
ACC
Found at i:2973634 original size:399 final size:397
Alignment explanation
Indices: 2972887--2974217 Score: 2152
Period size: 399 Copynumber: 3.3 Consensus size: 397
2972877 TTTAAAAAAA
* * *
2972887 TATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACTGGTATAT
1 TATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATAT
* * *
2972952 TTCTACCGGTTATATTGTAAATTTACTTATTACATTATAACTATCGGTTTCGATGTTTTTGGGAT
66 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
2973017 CGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACCA
131 CGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACCA
* * *
2973082 AAAGTATCGAAACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTTTTTATTAATCGG
196 AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTA-TTTTCTAATTAATCGG
* *
2973147 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTGTTTCAATTTTTTT
260 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTGTTTCGATGTTTTT
** *
2973212 TGGGTCGATACTTTTAATAAATGTATCGATACTTTATGATTGCAACTGATTTGGCATACATTCTG
325 TGGGTCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTG-TTTGGCATACATTCTG
2973277 GACATAAAG
389 GACATAAAG
2973286 TATCGACAC-AATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATA
1 TATCGACACAAATTTAAAAA-GTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATA
*
2973350 TTTCTACCGGTTGCATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
65 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
* * *
2973415 TCAATACTTACAATAAATGTATCAACACTTTATGCGTGCACCTCATTGGGCATTCATTTTGGACC
130 TCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACC
* *
2973480 AAAAGTATCGACACAAATTTAAAAAGCGTCGATACATTATGTTGACCTATTTTCTAATT-AGCTG
195 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATC-G
*
2973544 GTATATTTCTACCGATTACATTGTAAATTTACCTATTACATTATAATTATCCTGTTTCGATGTTT
259 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-CTGTTTCGATGTTT
2973609 TTTGGGTCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTGGTTTGGCATACATTC
323 TTTGGGTCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCT-GTTTGGCATACATTC
*
2973674 TGGAAATAAAG
387 TGGACATAAAG
* * *
2973685 TATCGATAC-AATTTAAAAATGTATCGATACATTATGTTCACCTATTTTCTAATTAACCGATATA
1 TATCGACACAAATTTAAAAA-GTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATA
*
2973749 TTTCTACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTCGGG
65 TTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT-GGG
** * *
2973814 -TCGATACTTTTAATAACTGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGAC
129 ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGAC
* * *
2973878 CAAAAGTATTGACACAATTTTAAAAATTGTCGATACATTATGTTGACCTATTTTCTAATTAATCG
194 CAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCG
*
2973943 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
259 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTGTTTCGATGTTTT
* * * * *
2974008 TGGGGTGGATACTTTTAGTAAATGTATCGATACTTTATGCGTACACCTCGTTGGGCAGT-CATTC
324 TTGGGTCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCT-GTTTGGCA-TACATTC
2974072 TGGACCA-AAAG
387 TGGA-CATAAAG
* *
2974083 TATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCGGTATAT
1 TATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATAT
2974148 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
66 TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
2974213 CGATA
131 CGATA
2974218 AAATTTTAAA
Statistics
Matches: 868, Mismatches: 54, Indels: 21
0.92 0.06 0.02
Matches are distributed among these distances:
397 5 0.01
398 260 0.30
399 597 0.69
400 6 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (397 bp):
TATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACCGGTATAT
TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
CGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTGGACCA
AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCGGT
ATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTGTTTCGATGTTTTTT
GGGTCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTGTTTGGCATACATTCTGGA
CATAAAG
Found at i:2974032 original size:598 final size:597
Alignment explanation
Indices: 2972882--2974245 Score: 2080
Period size: 598 Copynumber: 2.3 Consensus size: 597
2972872 GTAATTTTAA
* *
2972882 AAAAATATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACTGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATT-ACTGG
* * *
2972947 TATATTTCTACCGGTTATATTGTAAATTTACTTATTACATTATAACTATCGGTTTCGATGTTTTT
65 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
** * * *
2973012 GGGATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTTTG
130 GGGATCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTCGTTGGGCATACATTCTG
* * * * *
2973077 GACCAAAAGTATCGAAACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTTTTTATTA
195 GACAAAAAGTATCGAAACAAATTTAAAAAGTATCGATACATTATGTTCACCTATTTTTCTAATTA
* * * * *
2973142 ATCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTGTTTCAATT
260 ACCGATATATTTCTACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATG
* * * *
2973207 TTTTTTGGGTCGATACTTTTAATAAATGTATCGATACTTTATGATTGCAACTGATTTGGCATACA
325 TTTTTCGGGTCGATACTTTTAATAAATGTATCGACACTTTATGAGTGCAACTGATTGGGCATACA
2973272 TTCTGGACATAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTA
390 TTCTGGACATAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTA
*
2973337 ATTAACCGGTATATTTCTACCGGTTGCATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
455 ATTAACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
*
2973402 GATGTTTTTGGGATCAATACTTACAATAAATGTATCAACACTTTATGCGTGCACCTCATTGGGCA
520 GATGTTTTTGGGATCAATACTTACAATAAATGTATCAACACTTTATGCGTACACCTCATTGGGCA
* *
2973467 TTCATTTTGGACC
585 GTCATTCTGGACC
*
2973480 AAAAGTATCGACACAAATTTAAAAAGCGTCGATACATTATGTTGACCTATTTTCTAATTAGCTGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTA-CTGG
* *
2973545 TATATTTCTACCGATTACATTGTAAATTTACCTATTACATTATAATTATCCTGTTTCGATGTTTT
65 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-CGGTTTCGATG-TTT
* *
2973610 TTGGG-TCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTGGTTTGGCATACATTC
128 TTGGGATCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTCGTTGGGCATACATTC
*
2973674 TGGA-AATAAAGTATCGATAC-AATTTAAAAATGTATCGATACATTATGTTCACCTA-TTTTCTA
193 TGGACAA-AAAGTATCGAAACAAATTTAAAAA-GTATCGATACATTATGTTCACCTATTTTTCTA
2973736 ATTAACCGATATATTTCTACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
256 ATTAACCGATATATTTCTACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* * * *
2973801 GATGTTTTTCGGGTCGATACTTTTAATAACTGTATCGACACTTTATGCGTGCACCTCG-TTGGGC
321 AATGTTTTTCGGGTCGATACTTTTAATAAATGTATCGACACTTTATGAGTGCAACT-GATTGGGC
* * *
2973865 ATTCATTCTGGACCA-AAAGTATTGACACAATTTTAAAAAT-TGTCGATACATTATGTTGACCTA
385 ATACATTCTGGA-CATAAAGTATCGACACAA-TTTAAAAATGTATCGATACATTATGTTGACCTA
*
2973928 TTTTCTAATTAATCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT
448 TTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT
* ** ** * * * *
2973993 CGGTTTCGATGTTTTTGGGGTGGATACTTTTAGTAAATGTATCGATACTTTATGCGTACACCTCG
513 CGGTTTCGATGTTTTTGGGATCAATACTTACAATAAATGTATCAACACTTTATGCGTACACCTCA
2974058 TTGGGCAGTCATTCTGGACC
578 TTGGGCAGTCATTCTGGACC
*
2974078 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTACT-GG
2974143 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
65 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
*
2974208 GGGATCGATAAAATTTTAA-AAAT-TATCGATACTTTATG
130 GGGATCGAT--ACTTTTAATAAATGTATCGATACTTTATG
2974246 TTTAACTATT
Statistics
Matches: 698, Mismatches: 56, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
596 8 0.01
597 32 0.05
598 531 0.76
599 119 0.17
600 8 0.01
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (597 bp):
AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTACTGGT
ATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTCGTTGGGCATACATTCTGG
ACAAAAAGTATCGAAACAAATTTAAAAAGTATCGATACATTATGTTCACCTATTTTTCTAATTAA
CCGATATATTTCTACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGT
TTTTCGGGTCGATACTTTTAATAAATGTATCGACACTTTATGAGTGCAACTGATTGGGCATACAT
TCTGGACATAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAA
TTAACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
ATGTTTTTGGGATCAATACTTACAATAAATGTATCAACACTTTATGCGTACACCTCATTGGGCAG
TCATTCTGGACC
Found at i:2977131 original size:12 final size:12
Alignment explanation
Indices: 2977114--2977151 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2977104 ACTTGTTTGG
*
2977114 ATCATCATCATC
1 ATCATCATCTTC
2977126 ATCATCATCTTC
1 ATCATCATCTTC
*
2977138 ATCGTCATCTTC
1 ATCATCATCTTC
2977150 AT
1 AT
2977152 TGAGCGCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:2978953 original size:198 final size:199
Alignment explanation
Indices: 2978042--2979374 Score: 1901
Period size: 198 Copynumber: 6.7 Consensus size: 199
2978032 TAATTTTAAA
* * **
2978042 AAAAATATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATTGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
* *
2978107 TATATTTCTACCGGTTATATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
** * * *
2978171 TGGGATCGATACTTACAATAAATGTATCGACAC-TTATGCATGCACCTCGTTGGACATTCATTTT
131 TGGG-TCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCT
2978235 GGACC
195 GGACC
* * * * *
2978240 AAAAGTATCGAAACAAATTTAAAAAGTGTCAATACATTATGTTGACCTATTTTTTTTATTAATCG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTA-TTTTCTAATTAACCG
* * *
2978305 ATATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTT
65 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT-GTTT
* * ** * * * *
2978370 TTTGGGTCGATACTTTTAATAAATGTATCGATATTTTATGATTGCAGCTGGTTTGGCATACATTC
129 TTTGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
2978435 TGGA-C
194 TGGACC
* *
2978440 ATAAAGTATCGACAC-AATTTAAAAATGTATCGATACATTCTGTTGACCTATTTTCTAATTAACC
1 A-AAAGTATCGACACAAATTTAAAAA-GTGTCGATACATTATGTTGACCTATTTTCTAATTAACC
* *
2978504 GGTATATTTCTACCGGTTGCATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATG-TT
64 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* ** * *
2978568 TTTGGGATCAATACTTACAATAAATGTATCAACACTTTATGCGTGCACCTCATTGGGCATTCATT
129 TTTGGG-TCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATT
*
2978633 TTGGACC
193 CTGGACC
2978640 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
* *
2978705 TATATTTCTACCGGTTACATTGTAAATTTACCTATTATATTATAATTATCGGTTTCAATGTTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * * * *
2978770 TGGGTCGATACTTTTAATAAATGTATCGATAATTTATGCGTGCATCTGGTTTGGCATACATTCTG
131 TGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTG
2978835 GA-C
196 GACC
* *
2978838 ATAAAGTATCGTCAC-AATTTAAAAATGTATCGATACATTATGTTGACCTATTTT-TAATTAACC
1 A-AAAGTATCGACACAAATTTAAAAA-GTGTCGATACATTATGTTGACCTATTTTCTAATTAACC
* * * *
2978901 GATATATTTATACCGGTTATATTGTAAATTTACCTATTATATTATAATTATCGGTTTCGATGTTT
64 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
2978966 TTCGGGTCAATACTTTTAATAACTGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
129 TTTGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
2979031 TGGACC
194 TGGACC
* * * * *
2979037 AAAAGTATCGACACAATTTTAAAAAGTGTTGATACAATATGTCGACATATTTTCTAATTAACCGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
*
2979102 TATATTTCTA-CAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * *
2979166 GGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCAGTCATTCCG
131 TGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTG
*
2979231 AACC
196 GACC
*
2979235 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
* * *
2979300 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCTGTTTCGATATTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
*
2979365 TGGATCGATA
131 TGGGTCGATA
2979375 AAATTTTTAA
Statistics
Matches: 1006, Mismatches: 113, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
198 413 0.41
199 402 0.40
200 124 0.12
201 67 0.07
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (199 bp):
AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
TATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
TGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTG
GACC
Done.