Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 122 of 161
Found at i:38650195 original size:11 final size:11
Alignment explanation
Indices: 38650154--38650196 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
38650144 TATAAGGTTA
*
38650154 ATAATAATAAT
1 ATAATAAAAAT
38650165 ATAATAATAAAT
1 ATAATAA-AAAT
*
38650177 ATAATAAAAAC
1 ATAATAAAAAT
38650188 ATAATAAAA
1 ATAATAAAA
38650197 GAAATAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:38651449 original size:18 final size:19
Alignment explanation
Indices: 38651426--38651466 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
38651416 GATGGCAAAT
38651426 ATGAGAAATG-AATATAAA
1 ATGAGAAATGAAATATAAA
38651444 ATGAGAAATGAAATATAAA
1 ATGAGAAATGAAATATAAA
38651463 ATGA
1 ATGA
38651467 TGCAATGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (19 bp):
ATGAGAAATGAAATATAAA
Found at i:38664607 original size:16 final size:17
Alignment explanation
Indices: 38664586--38664618 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38664576 TTATTTTTTT
38664586 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
38664602 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
38664619 TACATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:38669756 original size:2 final size:2
Alignment explanation
Indices: 38669749--38669777 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38669739 GACTTGATGG
38669749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38669778 AAATCCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38671741 original size:43 final size:43
Alignment explanation
Indices: 38671669--38671750 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
38671659 ACATGTTCTT
* **
38671669 GGTCTTTCCTATAGGTAGCAAGATGTCAGCTTTAAAATGACTG
1 GGTCTTTCCTATAGGTAACAAGAAATCAGCTTTAAAATGACTG
*
38671712 GGTCTTTCCTATAGGTAATAAGAAATCAGCTTTAAAATG
1 GGTCTTTCCTATAGGTAACAAGAAATCAGCTTTAAAATG
38671751 TAGATACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (43 bp):
GGTCTTTCCTATAGGTAACAAGAAATCAGCTTTAAAATGACTG
Found at i:38672247 original size:13 final size:13
Alignment explanation
Indices: 38672231--38672256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38672221 TCATCACTCC
38672231 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
38672244 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
38672257 TGTAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
CTTTTTTTCTTTT
Found at i:38681584 original size:54 final size:54
Alignment explanation
Indices: 38681486--38681588 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
38681476 GCAGGTCAAT
* * * *
38681486 CCACACGAGCATAGAGAAGTACACGGCCTGGAGACATAGTCGTGTGACCCTGAG
1 CCACACGAGCATAGAGAAGTACACAGCCTGGACACACAGCCGTGTGACCCTGAG
* * *
38681540 CCACACGATCATAGAG-AGTTACACAGCCTGGCCACACGGCCGTGTGACC
1 CCACACGAGCATAGAGAAG-TACACAGCCTGGACACACAGCCGTGTGACC
38681589 TTATATTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.05
54 39 0.95
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (54 bp):
CCACACGAGCATAGAGAAGTACACAGCCTGGACACACAGCCGTGTGACCCTGAG
Found at i:38684732 original size:20 final size:21
Alignment explanation
Indices: 38684704--38684744 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
38684694 ATATATATAT
38684704 TTATCTTATTATATCA-TTTTA
1 TTATCTTATTAT-TCACTTTTA
38684725 TTAT-TTATTATTCACTTTTA
1 TTATCTTATTATTCACTTTTA
38684745 GCTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATCTTATTATTCACTTTTA
Found at i:38690158 original size:21 final size:21
Alignment explanation
Indices: 38690119--38690160 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38690109 GTTCAGATCC
**
38690119 AATCAAAATATATTTAAAAAA
1 AATCAAAATATATCAAAAAAA
*
38690140 AATCAAAATATCTCAAAAAAA
1 AATCAAAATATATCAAAAAAA
38690161 TGAAAATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
AATCAAAATATATCAAAAAAA
Found at i:38690190 original size:13 final size:13
Alignment explanation
Indices: 38690172--38690216 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
38690162 GAAAATGATG
38690172 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
*
38690185 AAAAAAGAAGAGA
1 AAAAAAGAAAAGA
38690198 AAAAAAGGAAAAAGA
1 AAAAAA-G-AAAAGA
38690213 AAAA
1 AAAA
38690217 TGAGAGGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 18 0.64
14 1 0.04
15 9 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:38691629 original size:44 final size:44
Alignment explanation
Indices: 38691450--38691629 Score: 132
Period size: 44 Copynumber: 4.1 Consensus size: 44
38691440 GAACAGATTG
* * *
38691450 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTG
1 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTA
*** * * * * *
38691494 AAGATGGGGAA-TCTTATTTCCCTGAAGTTACAATGGAGCAGATTA
1 AAG-T-TACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTA
** * * * * *
38691539 AAGCCA-ATAATCATATCTCCCTAAAGTTGCAGTGGAA-CGGATTA
1 AAGTTACA-AGTCTTATCTCCCTGAAGTTGCAGT-GAAGCAGACTA
*
38691583 AAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGACTA
1 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTA
38691627 AAG
1 AAG
38691630 CGGAGCATAT
Statistics
Matches: 102, Mismatches: 27, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 60 0.59
45 35 0.34
46 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTA
Found at i:38691868 original size:44 final size:44
Alignment explanation
Indices: 38691798--38692426 Score: 370
Period size: 45 Copynumber: 13.7 Consensus size: 44
38691788 GATAACCAAC
** *
38691798 CTTATCTCCCTGAAGTTGCAACGGAGCA-AGTTAAAAATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAAATACAAAT
* ** **
38691842 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATACAAAT
* ** * * ** *
38691886 CCTATCTCTTTGAAGTTGCATTGGAGCGGATTAAAACGATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATACAAAT
* * * * * *
38691930 CCTATATCTCTGAAGTTGCAGTAGG-TCAGATTAAATCTACCATAACGAGT
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTAAA---A--AT-ACAAAT
* * * * *
38691980 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATA-CAAAT
* * * *
38692025 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTATTGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--AATACA--A---AT
* * * *
38692076 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCT---TAT-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAAATACAAAT
* * * * * *
38692117 CTTATCTCACGGAAGTTACAGTGGAGAAGGTTAAAAATAAACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATACA-AAT
* *
38692162 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-A--ATACAAAT
* *** *
38692211 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATACAAAT
* * *
38692255 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATA-CAAAT
* * * * *
38692300 CTTATTTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATA-CAAAT
* * * *
38692345 CTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAACTATAAATTACCGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA--ATACA--A---AT
* *
38692396 CTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
38692427 CATAACAAGT
Statistics
Matches: 462, Mismatches: 87, Indels: 65
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.00
41 26 0.06
43 2 0.00
44 140 0.30
45 148 0.32
46 4 0.01
47 12 0.03
48 5 0.01
49 35 0.08
50 31 0.07
51 57 0.12
52 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATACAAAT
Found at i:38692282 original size:93 final size:90
Alignment explanation
Indices: 38691795--38692376 Score: 278
Period size: 94 Copynumber: 6.4 Consensus size: 90
38691785 GAAGATAACC
** * * * *
38691795 AACCTTATCTCCCTGAAGTTGCAACGGAGCA-AGTTAAAAATA-CCAATCTTATCTCCCTGAAGT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGACAGCAAATCTTATCTCCCTGAAGT
* * **
38691858 TGCAGTGGAGCAGATTGAAG-CTATTA
65 TGCAGTGGAGCAGACTAAAGAC-AGCA
* ** * * * * * * *
38691884 ATCC-TATCTCTTTGAAGTTGCATTGGAGCGGATT-AAAAC-GATAAATCCTATATCTCTGAAGT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAG-CAAATCTTATCTCCCTGAAGT
* * * *
38691946 TGCAGTAGG-TCAGATTAAA-TCTACCA
65 TGCAGT-GGAGCAGACTAAAGAC-AGCA
* * * * *
38691972 TAACGAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTG
1 -AAC----CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCAAATCTTATCTCCCTG
* * **
38692037 AAGTTGCAGTGGAACAGATTAAAG-CTATAAA
61 AAGTTGCAGTGGAGCAGACTAAAGAC-A-GCA
* * * * * * * *
38692068 TTATTGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCT-----TATCAAACCTTATCTCACG
1 --A---ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TGAAGACAGCAAATCTTATCTCCCT
* * ** * * *
38692128 GAAGTTACAGTGGAGAAGGTTAAAAATA-AA
60 GAAGTTGCAGTGGAGCAGACTAAAGACAGCA
* *
38692158 CAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGGCTACAAATCTTATCTCCCTG
1 -AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-G---CAAATCTTATCTCCCTG
* * *
38692223 AAGTTGCAGTGGAGTAGATTAAAGCCA-CA
61 AAGTTGCAGTGGAGCAGACTAAAGACAGCA
* * * *
38692252 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCTTGAAGTT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCAAATCTTATCTCCCTGAAGTT
* *
38692317 GCAGTGGAGCAGACTGAAGATAGCA
66 GCAGTGGAGCAGACTAAAGACAGCA
* * * *
38692342 AATCTTATTTCCTTGAAGTTGCAGTGGAACAGATT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
38692377 AAAACTATAA
Statistics
Matches: 379, Mismatches: 82, Indels: 63
0.72 0.16 0.12
Matches are distributed among these distances:
85 1 0.00
86 30 0.08
87 4 0.01
88 57 0.15
89 46 0.12
90 35 0.09
92 35 0.09
93 39 0.10
94 62 0.16
95 37 0.10
96 29 0.08
97 3 0.01
100 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (90 bp):
AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGACTAAAGACAGCA
Found at i:38692318 original size:320 final size:317
Alignment explanation
Indices: 38691795--38692427 Score: 821
Period size: 320 Copynumber: 2.0 Consensus size: 317
38691785 GAAGATAACC
* * * * *
38691795 AACCTTATCTCCCTGAAGTTGCAACGGAGCAAGTTAAAAATACCAATCTTATCTCCCTGAAGTTG
1 AACCTTATCTCACGGAAGTTACAACGGAGCAAGTTAAAAATAACAATCTTATCTCCCTGAAGTTA
** ** * * *
38691860 CAGTGGAGCAGATTGAAGCTATTAATCCTATCTCTTTGAAGTTGCATTGGAGCGGATTAAAACGA
66 CAGTGGAGCAGATTGAAGCTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * **
38691925 TAAATCCTATATCTCTGAAGTTGCAGTAGGTCAGATTAAATCTACCATAACGAGTCTTATCTCCC
131 CAAATCCTATATCTCTGAAGTTGCAGTAGGGCAGACTAAAGATACCA-AAC-AGTCTTATCTCCC
*
38691990 TAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
194 TAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
* **
38692055 TTAAAGCTATAAATTATTGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTTATCA
259 TTAAAACTATAAATTACCGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTTATCA
**
38692114 AACCTTATCTCACGGAAGTTACAGTGGAG-AAGGTTAAAAATAAACAATCTTATCTCCCTGAAGT
1 AACCTTATCTCACGGAAGTTACAACGGAGCAA-GTTAAAAAT-AACAATCTTATCTCCCTGAAGT
* *
38692178 TACAGTGGAGCAGATTGAAGACAGGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
64 TACAGTGGAGCAGATT---GA-A-GCTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* * *
38692243 AAAGCCACAAA-CCT-TATCTCCCTGAAGTTGCAGT-GGAGCAGACTGAAGATAGC-AA-A-TCT
124 AAAACCACAAATCCTATATCT--CTGAAGTTGCAGTAGG-GCAGACTAAAGATACCAAACAGTCT
* * * *
38692302 TATTTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCTTGAAGTTGCAGT
186 TATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
38692367 GGAACAGATTAAAACTATAAATTACCGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
251 GGAACAGATTAAAACTATAAATTACCGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
38692428 ATAACAAGTC
Statistics
Matches: 272, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
318 2 0.01
319 33 0.12
320 157 0.58
321 1 0.00
323 9 0.03
324 6 0.02
325 64 0.24
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (317 bp):
AACCTTATCTCACGGAAGTTACAACGGAGCAAGTTAAAAATAACAATCTTATCTCCCTGAAGTTA
CAGTGGAGCAGATTGAAGCTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA
CAAATCCTATATCTCTGAAGTTGCAGTAGGGCAGACTAAAGATACCAAACAGTCTTATCTCCCTA
AAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
AAAACTATAAATTACCGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTTATCA
Found at i:38692804 original size:21 final size:22
Alignment explanation
Indices: 38692780--38692820 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
38692770 TAAACAGACC
38692780 AGCCCAAATGC-AAGCCCAACA
1 AGCCCAAATGCGAAGCCCAACA
*
38692801 AGCCCAAATTCGAAGCCCAA
1 AGCCCAAATGCGAAGCCCAA
38692821 TACAAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.37, G:0.15, T:0.07
Consensus pattern (22 bp):
AGCCCAAATGCGAAGCCCAACA
Found at i:38693958 original size:22 final size:22
Alignment explanation
Indices: 38693931--38693977 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
38693921 TATTTTTGCA
*
38693931 TTATTTTTTTATAT-TTTATATT
1 TTATTTGTTTATATGTTTAT-TT
*
38693953 TTATTTGTTTATTTGTTTATTT
1 TTATTTGTTTATATGTTTATTT
38693975 TTA
1 TTA
38693978 ATTATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (22 bp):
TTATTTGTTTATATGTTTATTT
Found at i:38694019 original size:20 final size:21
Alignment explanation
Indices: 38693991--38694031 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
38693981 ATATATATAT
38693991 TTATCTTATTATATCA-TTTTA
1 TTATCTTATTAT-TCACTTTTA
38694012 TTAT-TTATTATTCACTTTTA
1 TTATCTTATTATTCACTTTTA
38694032 GCTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATCTTATTATTCACTTTTA
Found at i:38696339 original size:21 final size:21
Alignment explanation
Indices: 38696315--38696382 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
38696305 AGGAGAAAGA
* *
38696315 GGTGGCGGAGAATGCACTGGT
1 GGTGGAGGAGAATGAACTGGT
* *
38696336 GGTGGAGGAGAGTGAACAGGT
1 GGTGGAGGAGAATGAACTGGT
* * * *
38696357 GGAGGTGGTGAATGAATTGGT
1 GGTGGAGGAGAATGAACTGGT
38696378 GGTGG
1 GGTGG
38696383 TGGTGGAGAG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.22, C:0.06, G:0.51, T:0.21
Consensus pattern (21 bp):
GGTGGAGGAGAATGAACTGGT
Found at i:38696405 original size:27 final size:24
Alignment explanation
Indices: 38696378--38696424 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
38696368 ATGAATTGGT
38696378 GGTGGTGGTGGAGAGTGGACTGGA
1 GGTGGTGGTGGAGAGTGGACTGGA
38696402 GGTGGTGGTGGAGAGTGGACTGG
1 GGTGGTGGTGGAGAGTGGACTGG
38696425 TAGTGTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.04, G:0.60, T:0.21
Consensus pattern (24 bp):
GGTGGTGGTGGAGAGTGGACTGGA
Found at i:38701754 original size:44 final size:44
Alignment explanation
Indices: 38701706--38701809 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
38701696 TAATCCGCTT
* * * **
38701706 CACTGTAACTTCAGGGAAGTAGGA-TTAGTAGCTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAAGTAAGACTT-GTAGATTCAACCTGCTC
*
38701750 CACTGCAACTTCAGGGAAGTAAGACTTGTATATTCAACCTGCTC
1 CACTGCAACTTCAGGGAAGTAAGACTTGTAGATTCAACCTGCTC
38701794 CACTGCAACTTCAGGG
1 CACTGCAACTTCAGGG
38701810 GATAAGGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 51 0.96
45 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAAGTAAGACTTGTAGATTCAACCTGCTC
Found at i:38702624 original size:108 final size:108
Alignment explanation
Indices: 38702429--38702640 Score: 264
Period size: 108 Copynumber: 2.0 Consensus size: 108
38702419 CTTAAAAAAT
* * * *
38702429 ATTATCACAATGGACAAAATGGAATTTTATTGAGAATAAAGTTCAAAATGAATAAATTAATCAAG
1 ATTATCACAATGGACAAAATGAAATTTTATTGAGAACAAAGCTCAAAATGAATAAACTAATCAAG
* * * * *
38702494 ATGATGAATTTTTCCAATATATGAACCGAATACGATGAAACAG
66 ATGATAAATTTTACCAAGATATGAAACGAATAAGATGAAACAG
* * * * *
38702537 ATTATCACAATGGATAAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAGCTAATCAAG
1 ATTATCACAATGGACAAAATGAAATTTTATTGAGAACAAAGCTCAAAATGAATAAACTAATCAAG
* *
38702602 ATAGA-AAATTTTACTAAGATATGAAATGAATAAGATGAA
66 AT-GATAAATTTTACCAAGATATGAAACGAATAAGATGAA
38702641 GGCAGGTGCC
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
108 85 0.98
109 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (108 bp):
ATTATCACAATGGACAAAATGAAATTTTATTGAGAACAAAGCTCAAAATGAATAAACTAATCAAG
ATGATAAATTTTACCAAGATATGAAACGAATAAGATGAAACAG
Found at i:38711230 original size:248 final size:247
Alignment explanation
Indices: 38710757--38711249 Score: 842
Period size: 248 Copynumber: 2.0 Consensus size: 247
38710747 TGACCTATGC
* *
38710757 AACTTCTTGTAATCTGTCTTCAGGCTGTCTAAATCTTCCTCTGCCTTGTTCTTCCCTTTTCTCAG
1 AACTTCTTGTAATCCGTCTTCAAGCTGTCTAAATCTTCCTCTGCCTTGTTCTTCCCTTTTCTCAG
* * * *
38710822 TTTGTCGGCTTCTAATTTTTGAACATCAACCTCTAGTCCTAATTGTATTTTTTCTTCTTCTAGTT
66 TTTGTCAGCCTCTAATTTTTGAACATCAACATCTAGTCCTAATTGCATTTTTTCTTCTTCTAGTT
* *
38710887 GCTCTATTTTCTTCCCTAACTCCAAACTCCTCTTTTCAAAATCTTGTTTGATTATTTCTATCTTA
131 GCTCTATTTTCTTCCCTAACTCCAAACACCTCTTTTCAAAATCTTGTTTGATTATTTCTATCTCA
* * *
38710952 GAGGGCAATACTTGTAGGTGCTCCTCTAAAGGTCGAGCAGTTTTTGGATTGT
196 GAGGGCAATACTTGTAGGTGCTCCTCTAAAGATCAAGCAGTTTCTGGATTGT
*
38711004 AACTTCTTGTAATCCGTCTTCAAGCTGTCTAAATCTTCCTCTGCCTTGTTTTTCCCTTTTCTCAG
1 AACTTCTTGTAATCCGTCTTCAAGCTGTCTAAATCTTCCTCTGCCTTGTTCTTCCCTTTTCTCAG
*
38711069 TTTGTCAGCCTCTAATTTTTGAACATCAACATTTAGTCCTAATTGCATTTTTTTCTTCTTCTAGT
66 TTTGTCAGCCTCTAATTTTTGAACATCAACATCTAGTCCTAATTGCA-TTTTTTCTTCTTCTAGT
*
38711134 TGCTCTATTTTCTTCCCTAACTCCAAACACCTTTTTTCAAAATCTTGTTTGATTATTTCTATCTC
130 TGCTCTATTTTCTTCCCTAACTCCAAACACCTCTTTTCAAAATCTTGTTTGATTATTTCTATCTC
*
38711199 AGAGGGCAATACTTGTAGGTTCTCCTCTAAAGATCAAGCAGTTTCTGGATT
195 AGAGGGCAATACTTGTAGGTGCTCCTCTAAAGATCAAGCAGTTTCTGGATT
38711250 CGACATCGGG
Statistics
Matches: 230, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
247 104 0.45
248 126 0.55
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (247 bp):
AACTTCTTGTAATCCGTCTTCAAGCTGTCTAAATCTTCCTCTGCCTTGTTCTTCCCTTTTCTCAG
TTTGTCAGCCTCTAATTTTTGAACATCAACATCTAGTCCTAATTGCATTTTTTCTTCTTCTAGTT
GCTCTATTTTCTTCCCTAACTCCAAACACCTCTTTTCAAAATCTTGTTTGATTATTTCTATCTCA
GAGGGCAATACTTGTAGGTGCTCCTCTAAAGATCAAGCAGTTTCTGGATTGT
Found at i:38715359 original size:5 final size:5
Alignment explanation
Indices: 38715338--38715381 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
38715328 AAGATTGTAG
* * *
38715338 AAAAT AAACAA AAAAT AAAAT AAAAT AAGAT AGAAT AAAAT AAA
1 AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
38715382 TGAAAACGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:38725407 original size:29 final size:30
Alignment explanation
Indices: 38725365--38725429 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
38725355 TAGGCAACTT
*
38725365 TTTTTTTGCGCTTTTTGCTTTTTTT-GCTG
1 TTTTTTTGCGCTTTTTGCTTTTTTTGGCTA
38725394 TTTTTTTGCGCTTTTTGCTTTTTTTGGCTA
1 TTTTTTTGCGCTTTTTGCTTTTTTTGGCTA
38725424 TTTTTT
1 TTTTTT
38725430 AAAGAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.02, C:0.12, G:0.15, T:0.71
Consensus pattern (30 bp):
TTTTTTTGCGCTTTTTGCTTTTTTTGGCTA
Found at i:38725417 original size:9 final size:9
Alignment explanation
Indices: 38725365--38725429 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
38725355 TAGGCAACTT
38725365 TTTTTTTGC
1 TTTTTTTGC
**
38725374 GCTTTTTGC
1 TTTTTTTGC
38725383 TTTTTTTGC
1 TTTTTTTGC
38725392 TGTTTTTTTGC
1 --TTTTTTTGC
**
38725403 GCTTTTTGC
1 TTTTTTTGC
38725412 TTTTTTTGGC
1 TTTTTTT-GC
38725422 TATTTTTT
1 T-TTTTTT
38725430 AAAGAATAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 26 0.59
10 3 0.07
11 15 0.34
ACGTcount: A:0.02, C:0.12, G:0.15, T:0.71
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:38725428 original size:20 final size:18
Alignment explanation
Indices: 38725365--38725429 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 18
38725355 TAGGCAACTT
**
38725365 TTTTTTTGCGCTTTTTGC
1 TTTTTTTGCTTTTTTTGC
38725383 TTTTTTTGCTGTTTTTTTGC
1 TTTTTTTGC--TTTTTTTGC
**
38725403 GCTTTTTGCTTTTTTTGGC
1 TTTTTTTGCTTTTTTT-GC
38725422 TATTTTTT
1 T-TTTTTT
38725430 AAAGAATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.43
19 2 0.05
20 19 0.51
ACGTcount: A:0.02, C:0.12, G:0.15, T:0.71
Consensus pattern (18 bp):
TTTTTTTGCTTTTTTTGC
Found at i:38728528 original size:41 final size:41
Alignment explanation
Indices: 38728482--38728559 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
38728472 GAATAATTTG
*
38728482 AAGTAGTAAATTAACACCTAGTGTCTCATCGAATAAATCCA
1 AAGTAGTAAATTAACACCCAGTGTCTCATCGAATAAATCCA
* *
38728523 AAGTAGTAAATTGACACCCAGTGTCTCATCGATTAAA
1 AAGTAGTAAATTAACACCCAGTGTCTCATCGAATAAA
38728560 CTGAATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (41 bp):
AAGTAGTAAATTAACACCCAGTGTCTCATCGAATAAATCCA
Found at i:38729501 original size:15 final size:14
Alignment explanation
Indices: 38729481--38729530 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 14
38729471 CCTAGCCTTG
38729481 TCTTTCTTCTTTCTT
1 TCTTTCTT-TTTCTT
38729496 TCTTTCCCCTTTTTCTTT
1 TCTTT---CTTTTTC-TT
38729514 TCTTTCTTTTTCTT
1 TCTTTCTTTTTCTT
38729528 TCT
1 TCT
38729531 GTTTTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 5 0.16
15 12 0.39
17 4 0.13
18 10 0.32
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TCTTTCTTTTTCTT
Found at i:38731199 original size:28 final size:28
Alignment explanation
Indices: 38731163--38731216 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
38731153 TCGTTTTTTG
* *
38731163 AAAATTGGCATAGTCCTG-TAATTTTTCA
1 AAAAATGGCATAAT-CTGATAATTTTTCA
*
38731191 AAAAATGGCCTAATCTGATAATTTTT
1 AAAAATGGCATAATCTGATAATTTTT
38731217 TTTAATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (28 bp):
AAAAATGGCATAATCTGATAATTTTTCA
Found at i:38734037 original size:73 final size:73
Alignment explanation
Indices: 38733951--38734091 Score: 194
Period size: 73 Copynumber: 1.9 Consensus size: 73
38733941 TACGATGGTG
* * *
38733951 GTTTTTGATTGGCTTGCTAGAGTGACACTGTGACGATGATCTATCGACTCT-ATGGAGTGACACT
1 GTTTTTGACTGGCTCGCTAGAGTGACACTGTGACGATGATCTATCGA-TCTGATGGAATGACACT
38734015 ACAACAACA
65 ACAACAACA
* * * * *
38734024 GTTTTTTACTGGCTCGTTAGAGTGACATTGTGATGATGATCTATCGATTTGATGGAATGACACTA
1 GTTTTTGACTGGCTCGCTAGAGTGACACTGTGACGATGATCTATCGATCTGATGGAATGACACTA
38734089 CAA
66 CAA
38734092 AGGCGATATT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
72 2 0.03
73 57 0.97
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (73 bp):
GTTTTTGACTGGCTCGCTAGAGTGACACTGTGACGATGATCTATCGATCTGATGGAATGACACTA
CAACAACA
Found at i:38734437 original size:67 final size:68
Alignment explanation
Indices: 38734194--38734455 Score: 240
Period size: 69 Copynumber: 3.8 Consensus size: 68
38734184 CAAAATTTAC
* * * * * * *
38734194 AGTTTGCCAGGACATTAAACATGAGATTCACAATATGTAAGACCATAATTAGACTAT-TACAACA
1 AGTTCGCCAAGACATTAAACATG-GGTTTATAATATGTAAGACCATAATTAGGCTATGGA-AACA
*
38734258 TATGA
64 TATGG
* * * * * * *
38734263 AGTTTGTCAGGATATTAAACATGGGATTCACAATATGTAAGACCATAGTTAGGCTATGGAAACAT
1 AGTTCGCCAAGACATTAAACATGGG-TTTATAATATGTAAGACCATAATTAGGCTATGGAAACAT
38734328 ATGG
65 ATGG
* * * * * * * * *
38734332 AGTTCTCCAAGACATTAAACAAGGGTTTATATTGTGTAAGACCGTAATTAGGGTATGGCAATATG
1 AGTTCGCCAAGACATTAAACATGGGTTTATAATATGTAAGACCATAATTAGGCTATGGAAACATA
38734397 TGG
66 TGG
* * *
38734400 AG-TCGCCAAGACATTAAACATGGGTTTATACTATGTAAGACCATAGTTGGGCTATG
1 AGTTCGCCAAGACATTAAACATGGGTTTATAATATGTAAGACCATAATTAGGCTATG
38734456 ACGTCCGATA
Statistics
Matches: 160, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
67 46 0.29
68 36 0.22
69 77 0.48
70 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (68 bp):
AGTTCGCCAAGACATTAAACATGGGTTTATAATATGTAAGACCATAATTAGGCTATGGAAACATA
TGG
Found at i:38740889 original size:37 final size:37
Alignment explanation
Indices: 38740833--38740903 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
38740823 AGTACAAGTT
*
38740833 GAGTGGTGAACCGTCCTAGTACAAACAAAGCCAATAA
1 GAGTGGTGAACCATCCTAGTACAAACAAAGCCAATAA
*
38740870 GAGTGGTGAACCATTCTAGTACAAACAAAGCCAA
1 GAGTGGTGAACCATCCTAGTACAAACAAAGCCAA
38740904 ACAAGAATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (37 bp):
GAGTGGTGAACCATCCTAGTACAAACAAAGCCAATAA
Found at i:38741578 original size:20 final size:20
Alignment explanation
Indices: 38741554--38741607 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
38741544 TTCTAGGACT
*
38741554 ATACCAAAAATTATAA-AAGT
1 ATACCAAAAATTATAAGAA-A
*
38741574 GTACCAAAAATTATAAGAAA
1 ATACCAAAAATTATAAGAAA
38741594 ATACCAAAAATTAT
1 ATACCAAAAATTAT
38741608 GAGGGTGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (20 bp):
ATACCAAAAATTATAAGAAA
Found at i:38741866 original size:20 final size:19
Alignment explanation
Indices: 38741828--38741903 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
38741818 AACCATACCA
*
38741828 AAAAATT-TAAGGTAATACT
1 AAAAATTATGAGG-AATACT
38741847 AAAAATTATGAGGAAGTACT
1 AAAAATTATGAGGAA-TACT
*
38741867 AAAAATGT-TGAGGGAATACC
1 AAAAAT-TATGA-GGAATACT
*
38741887 ATAAATTATGAGAGAAT
1 AAAAATTATGAG-GAAT
38741904 GCCAAAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 11 0.23
20 32 0.67
21 5 0.10
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.26
Consensus pattern (19 bp):
AAAAATTATGAGGAATACT
Found at i:38741985 original size:20 final size:21
Alignment explanation
Indices: 38741957--38742014 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
38741947 TATAAGAAAG
*
38741957 TACCAAAAAAACATGAGGGAT-
1 TACC-AAAAAATATGAGGGATA
*
38741978 TACCAAAAATTATGA-GGATA
1 TACCAAAAAATATGAGGGATA
*
38741998 TACTAAAAAATATGAGG
1 TACCAAAAAATATGAGG
38742015 AAGTAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.13
20 22 0.71
21 5 0.16
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (21 bp):
TACCAAAAAATATGAGGGATA
Found at i:38742025 original size:39 final size:39
Alignment explanation
Indices: 38741962--38742125 Score: 154
Period size: 39 Copynumber: 4.2 Consensus size: 39
38741952 GAAAGTACCA
* * *
38741962 AAAAAACATGAGGGATTACCAAAAATTATGAGGATATACT
1 AAAAAATATGAGGAAGTACCAAAAATTATGAGGA-ATACT
* * *
38742002 AAAAAATATGAGGAAGTA-GAAAAATTTTGTGGAAGTACT
1 AAAAAATATGAGGAAGTACCAAAAATTATGAGGAA-TACT
* * * * * *
38742041 AAAAATTATGAGGATGTACCAAAAATTATAAAAGAATGCC
1 AAAAAATATGAGGAAGTACCAAAAATTAT-GAGGAATACT
*
38742081 AAAAAA-ATGAGGAAGTACCAAACATTATGAAGGAATAC-
1 AAAAAATATGAGGAAGTACCAAAAATTATG-AGGAATACT
38742119 AAAAAAT
1 AAAAAAT
38742126 TTATTAGAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
38 7 0.07
39 58 0.59
40 30 0.31
41 3 0.03
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (39 bp):
AAAAAATATGAGGAAGTACCAAAAATTATGAGGAATACT
Found at i:38742044 original size:20 final size:20
Alignment explanation
Indices: 38741982--38742126 Score: 102
Period size: 20 Copynumber: 7.3 Consensus size: 20
38741972 AGGGATTACC
38741982 AAAAATTATGAGGATA-TACT
1 AAAAATTATGAGGA-AGTACT
* *
38742002 AAAAAATATGAGGAAGTA-G
1 AAAAATTATGAGGAAGTACT
* *
38742021 AAAAATTTTGTGGAAGTACT
1 AAAAATTATGAGGAAGTACT
* *
38742041 AAAAATTATGAGGATGTACC
1 AAAAATTATGAGGAAGTACT
* * * *
38742061 AAAAATTATAAAAGAA-TGCC
1 AAAAATTAT-GAGGAAGTACT
* *
38742081 AAAAA-AATGAGGAAGTACC
1 AAAAATTATGAGGAAGTACT
* *
38742100 AAACATTATGAAGGAA-TACA
1 AAAAATTATG-AGGAAGTACT
38742120 AAAAATT
1 AAAAATT
38742127 TATTAGAAAG
Statistics
Matches: 97, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
18 4 0.04
19 25 0.26
20 60 0.62
21 8 0.08
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (20 bp):
AAAAATTATGAGGAAGTACT
Found at i:38742295 original size:18 final size:18
Alignment explanation
Indices: 38742274--38742315 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38742264 AATAATTTTT
38742274 ATTTATT-TATTTATTTAA
1 ATTTATTATATTT-TTTAA
38742292 ATTT-TTATATTTTTTAA
1 ATTTATTATATTTTTTAA
*
38742309 AATTATT
1 ATTTATT
38742316 GTGAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATTATATTTTTTAA
Found at i:38742524 original size:20 final size:20
Alignment explanation
Indices: 38742482--38742673 Score: 121
Period size: 20 Copynumber: 9.7 Consensus size: 20
38742472 TTCATAATAA
*
38742482 TACCAATAATTATGAGG-AG
1 TACCAAAAATTATGAGGAAG
*
38742501 TACCAAGAATTATGAGGAAG
1 TACCAAAAATTATGAGGAAG
*
38742521 TACCAAAAAATATGAGGAA-
1 TACCAAAAATTATGAGGAAG
* *
38742540 TAACAAAAAAATATGA-GAATG
1 T-ACCAAAAATTATGAGGAA-G
** * ** *
38742561 TATAAAAAAAATATGAAAAAAA
1 TA-CCAAAAATTATG-AGGAAG
**
38742583 TATAAAAAAATT-TGAGGAAG
1 TA-CCAAAAATTATGAGGAAG
*
38742603 TACCAAAAATTATGA-AAATG
1 TACCAAAAATTATGAGGAA-G
38742623 TA--AAAAATTATGAGGGAA-
1 TACCAAAAATTATGA-GGAAG
* *
38742641 TACCAAAAAATATGAGCAAG
1 TACCAAAAATTATGAGGAAG
38742661 TACCAAAAATTAT
1 TACCAAAAATTAT
38742674 AAAGGAATAC
Statistics
Matches: 141, Mismatches: 18, Indels: 27
0.76 0.10 0.15
Matches are distributed among these distances:
18 13 0.09
19 32 0.23
20 68 0.48
21 14 0.10
22 12 0.09
23 2 0.01
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.21
Consensus pattern (20 bp):
TACCAAAAATTATGAGGAAG
Found at i:38742581 original size:10 final size:11
Alignment explanation
Indices: 38742561--38742592 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38742551 TATGAGAATG
38742561 TATAAAAAAAA
1 TATAAAAAAAA
*
38742572 TATGAAAAAAA
1 TATAAAAAAAA
38742583 TATAAAAAAA
1 TATAAAAAAA
38742593 TTTGAGGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (11 bp):
TATAAAAAAAA
Found at i:38742610 original size:21 final size:21
Alignment explanation
Indices: 38742492--38742752 Score: 103
Period size: 20 Copynumber: 13.0 Consensus size: 21
38742482 TACCAATAAT
* *
38742492 TATGAGG-AGTACC-AAGAAT
1 TATGAGGAAGTACCAAAAAAA
38742511 TATGAGGAAGTACC-AAAAAA
1 TATGAGGAAGTACCAAAAAAA
*
38742531 TATGAGGAA-TAACAAAAAAA
1 TATGAGGAAGTACCAAAAAAA
**
38742551 TATGA-GAATGTATAAAAAAAA
1 TATGAGGAA-GTACCAAAAAAA
** * *
38742572 TATGAAAAAAATA-TAAAAAAA
1 TATG-AGGAAGTACCAAAAAAA
* *
38742593 TTTGAGGAAGTACC-AAAAAT
1 TATGAGGAAGTACCAAAAAAA
* *
38742613 TATGA-AAATGT---AAAAAAT
1 TATGAGGAA-GTACCAAAAAAA
38742631 TATGAGGGAA-TACC-AAAAAA
1 TATGA-GGAAGTACCAAAAAAA
* *
38742651 TATGAGCAAGTACC-AAAAAT
1 TATGAGGAAGTACCAAAAAAA
*
38742671 TATAAAGGAA-TA-CAAAAAAA
1 TAT-GAGGAAGTACCAAAAAAA
* * *
38742691 GT-TGAAGAATTACAAAAAAAA
1 -TATGAGGAAGTACCAAAAAAA
* *
38742712 AATTGAGGATA-TA-CAAAAAAT
1 TA-TGAGGA-AGTACCAAAAAAA
*
38742733 TACGAAGGAA-TACCAAAAAA
1 TATG-AGGAAGTACCAAAAAA
38742753 TGAGGGAATT
Statistics
Matches: 185, Mismatches: 32, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
18 12 0.06
19 23 0.12
20 84 0.45
21 53 0.29
22 10 0.05
23 3 0.02
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (21 bp):
TATGAGGAAGTACCAAAAAAA
Found at i:38742709 original size:22 final size:22
Alignment explanation
Indices: 38742684--38742731 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
38742674 AAAGGAATAC
*
38742684 AAAAAAAGTTGAAGAAT-TACAA
1 AAAAAAAATTG-AGAATATACAA
*
38742706 AAAAAAAATTGAGGATATACAA
1 AAAAAAAATTGAGAATATACAA
38742728 AAAA
1 AAAA
38742732 TTACGAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.67, C:0.04, G:0.12, T:0.17
Consensus pattern (22 bp):
AAAAAAAATTGAGAATATACAA
Found at i:38742729 original size:20 final size:19
Alignment explanation
Indices: 38742676--38742731 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 19
38742666 AAAATTATAA
*
38742676 AGGAATACAAAAAAAGTTG
1 AGGAATACAAAAAAAATTG
*
38742695 AAGAATTACAAAAAAAAAATTG
1 AGGAA-TAC--AAAAAAAATTG
38742717 AGGATATACAAAAAA
1 AGGA-ATACAAAAAA
38742732 TTACGAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.13
20 9 0.30
22 16 0.53
23 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.16
Consensus pattern (19 bp):
AGGAATACAAAAAAAATTG
Found at i:38743226 original size:21 final size:20
Alignment explanation
Indices: 38743197--38743274 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
38743187 TTTGAAACAA
38743197 TACAAAAAATTATGAGGAAG
1 TACAAAAAATTATGAGGAAG
*
38743217 TACAAAAAAAATT-TGAGGGAG
1 TAC--AAAAAATTATGAGGAAG
*
38743238 TACCAAAAAA-TATGAGGAAA
1 TA-CAAAAAATTATGAGGAAG
* *
38743258 TACCAAAAATTCTGAGG
1 TACAAAAAATTATGAGG
38743275 GAATACGAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.15
20 23 0.48
21 9 0.19
22 9 0.19
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (20 bp):
TACAAAAAATTATGAGGAAG
Found at i:38743279 original size:20 final size:20
Alignment explanation
Indices: 38743223--38743294 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
38743213 GAAGTACAAA
*
38743223 AAAAATT-TGAGGGAGTACC
1 AAAAATTCTGAGGGAATACC
* * *
38743242 AAAAAATATGAGGAAATACC
1 AAAAATTCTGAGGGAATACC
*
38743262 AAAAATTCTGAGGGAATACG
1 AAAAATTCTGAGGGAATACC
38743282 AAGAAA-TCTGAGG
1 AA-AAATTCTGAGG
38743295 AAGTATTGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 6 0.14
20 35 0.80
21 3 0.07
ACGTcount: A:0.49, C:0.10, G:0.24, T:0.18
Consensus pattern (20 bp):
AAAAATTCTGAGGGAATACC
Found at i:38750825 original size:19 final size:17
Alignment explanation
Indices: 38750789--38750833 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
38750779 GACCCTAAAC
38750789 CCTTAA-AAAACCCTAA
1 CCTTAACAAAACCCTAA
38750805 CCTTAACAAAACCCCTGAA
1 CCTTAACAAAA-CCCT-AA
38750824 CC-TAACAAAA
1 CCTTAACAAAA
38750834 TAAAAGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.23
17 4 0.15
18 12 0.46
19 4 0.15
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.16
Consensus pattern (17 bp):
CCTTAACAAAACCCTAA
Found at i:38751248 original size:19 final size:19
Alignment explanation
Indices: 38751224--38751264 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
38751214 TTATTTACTC
38751224 AAAATCTATATATAGTACG
1 AAAATCTATATATAGTACG
38751243 AAAATCTATATATAGTACG
1 AAAATCTATATATAGTACG
38751262 AAA
1 AAA
38751265 TCCTCGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAATCTATATATAGTACG
Found at i:38751348 original size:20 final size:20
Alignment explanation
Indices: 38751318--38751392 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
38751308 AAAATAAAGG
*
38751318 AATAT-AAAAATTCTGACAA
1 AATATAAAAAATTATGACAA
*
38751337 AATATAAAAAATTATGATAA
1 AATATAAAAAATTATGACAA
* *
38751357 AGTATAAAAAA-AATGA-AGA
1 AATATAAAAAATTATGACA-A
38751376 AAT-TGAAAAAATTATGA
1 AATAT-AAAAAATTATGA
38751393 GAGAATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.04
19 18 0.39
20 26 0.57
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (20 bp):
AATATAAAAAATTATGACAA
Found at i:38751405 original size:20 final size:20
Alignment explanation
Indices: 38751317--38751415 Score: 55
Period size: 20 Copynumber: 5.0 Consensus size: 20
38751307 AAAAATAAAG
* *
38751317 GAATA-TAAAAATTCTGACA
1 GAATATTAAAAATTATGAGA
* * *
38751336 AAATATAAAAAATTATGATA
1 GAATATTAAAAATTATGAGA
**
38751356 -AAGTA-TAAAAAAAATGA-A
1 GAA-TATTAAAAATTATGAGA
38751374 GAA-ATTGAAAAAATTATGAGA
1 GAATATT--AAAAATTATGAGA
*
38751395 GAATATTAAAAGAATATGAGA
1 GAATATTAAAA-ATTATGAGA
38751416 TAGTACCAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
17 1 0.02
18 2 0.03
19 17 0.28
20 26 0.43
21 12 0.20
22 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.13, T:0.24
Consensus pattern (20 bp):
GAATATTAAAAATTATGAGA
Found at i:38751797 original size:3 final size:3
Alignment explanation
Indices: 38751775--38751827 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
38751765 TCGGCAGCAA
* * * *
38751775 AAG AAA AAG AAG CA- AAG AAG AAG AAG AAG AAA AAG AAG AAG AA- AAA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
38751821 AAG AAG A
1 AAG AAG A
38751828 GGAGGAGGAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 3 0.07
3 38 0.93
ACGTcount: A:0.74, C:0.02, G:0.25, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:38752029 original size:3 final size:3
Alignment explanation
Indices: 38752023--38752057 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
38752013 TTTCTTCTAC
38752023 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38752058 CTTTTTGCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38752579 original size:28 final size:26
Alignment explanation
Indices: 38752544--38752615 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 26
38752534 AAATAAAAAA
38752544 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA---TTTTTTAT
* *
38752572 TTTCCAAAAAATATATAATTTTTTAT
1 TTACCAAAATATATATAATTTTTTAT
38752598 TTACCAAAATATATATAA
1 TTACCAAAATATATATAA
38752616 AAAAAACCTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 24 0.62
28 10 0.26
29 5 0.13
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (26 bp):
TTACCAAAATATATATAATTTTTTAT
Found at i:38752741 original size:27 final size:27
Alignment explanation
Indices: 38752664--38752764 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
38752654 CCTTGGTCAC
* *
38752664 GCCAATGGCATTGGCGGCACCAAAGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
** *
38752691 GCCAAAACCATTAGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
*
38752718 GCCAATGCCATTGGCGGCACCAATGAT
1 GCCAATGCCATTGGCGGCACCAATGGT
38752745 GCCATATTG--ATTGGCGGCAC
1 GCCA-A-TGCCATTGGCGGCAC
38752765 TATTCGTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 60 0.95
28 1 0.02
29 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.18
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAATGGT
Found at i:38752992 original size:3 final size:3
Alignment explanation
Indices: 38752986--38753020 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
38752976 AGTATTATTA
38752986 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
38753021 AGTATTAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:38753816 original size:18 final size:18
Alignment explanation
Indices: 38753772--38753816 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
38753762 TTGACATGGT
*
38753772 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
***
38753790 TGCCAGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
38753808 TGGTGGCGA
1 TGGTGGCGA
38753817 TCATTGGGAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.47, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:38758185 original size:162 final size:161
Alignment explanation
Indices: 38758000--38758827 Score: 718
Period size: 160 Copynumber: 5.2 Consensus size: 161
38757990 AAAATTTCTA
38758000 ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTA
1 ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTA
*
38758065 AATTATTTTGGTGTCAAAAAATAACCCTTAACCCTG-TCTCTTACTCGTATTATTTTCTCGATTT
66 AATTATTTTGGTGT-AAAAAATAACCCTTAACCCTGCTCT-TTGCTCGTATTATTTTCTCGATTT
38758129 TTATTACTTTAAATAAAAATATATTATTCTCGT
129 TTATTACTTTAAATAAAAATATATTATTCTCGT
** * * ** * * * * *
38758162 ATTTTATTGTTTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTA-T-TAAT-TATT-TC
1 ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAAT-TTAT-TACTCTAGTGTGTTATT
* **** * ** * * * *
38758223 TGAATT-TTATAAAAGTTAGTAATACACTCTT-ACTTCTGC-CATTTGTTCGTATTTTTTTCTCC
64 TAAATTATT-TTGGTGTAAAAAATA-ACCCTTAAC-CCTGCTC-TTTGCTCGTATTATTTTCT-C
*
38758285 GCA-TTTTATTACTTT--A-AAAAATATCATAATT-TC-T
124 G-ATTTTTATTACTTTAAATAAAAATAT-ATTATTCTCGT
38758319 AATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTT
1 -ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTT
* * *
38758384 AAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTGCTCGTATTATTTTCTCGATTT
65 AAATTATTTTGGTGT-AAAAAATAACCCTTAACCCTGCTCTTTGCTCGTATTATTTTCTCGATTT
38758449 TTATTACTTTAAATAAAAATATATTATTCTCGT
129 TTATTACTTTAAATAAAAATATATTATTCTCGT
** * * ** * * * * *
38758482 ATTTTATTGTTTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTA-T-TAAT-TATT-TC
1 ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAAT-TTAT-TACTCTAGTGTGTTATT
* **** * ** * ** ** * *
38758543 TGAATT-TTATAAAAGTTAGTAATACACTCTT-ACTTTTTTCATTTGTTCGTATTTTTTTCTCCG
64 TAAATTATT-TTGGTGTAAAAAATA-ACCCTTAACCCTGCTC-TTTGCTCGTATTATTTTCT-CG
*
38758606 CA-TTTTATTACTTT--A-AAAAATATCATAATT-TC-T
125 -ATTTTTATTACTTTAAATAAAAATAT-ATTATTCTCGT
38758639 AATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTT
1 -ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTT
* * *
38758704 AAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTGCTCGTATTATTTTCTCGATTT
65 AAATTATTTTGGTGT-AAAAAATAACCCTTAACCCTGCTCTTTGCTCGTATTATTTTCTCGATTT
38758769 TTATTACTTTAAATAAAAATATATTATTCTCGT
129 TTATTACTTTAAATAAAAATATATTATTCTCGT
** *
38758802 ATTTTATTGTTTTATATTATTTCAGT
1 ATTTTATAATTTTACATTATTTCAGT
38758828 ACATTTTCTT
Statistics
Matches: 505, Mismatches: 114, Indels: 94
0.71 0.16 0.13
Matches are distributed among these distances:
156 4 0.01
157 10 0.02
158 98 0.19
159 64 0.13
160 130 0.26
161 64 0.13
162 121 0.24
163 10 0.02
164 4 0.01
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (161 bp):
ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATTTATTACTCTAGTGTGTTATTTA
AATTATTTTGGTGTAAAAAATAACCCTTAACCCTGCTCTTTGCTCGTATTATTTTCTCGATTTTT
ATTACTTTAAATAAAAATATATTATTCTCGT
Found at i:38758495 original size:320 final size:320
Alignment explanation
Indices: 38757913--38759021 Score: 1997
Period size: 320 Copynumber: 3.5 Consensus size: 320
38757903 AAGTTGAAAA
* * * * *
38757913 AAAAGTTAGTAAAAAAATCTTACTTCAGCCATTTATTCGTATTTTTTTCTCCGCATTTTATTACT
1 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
*
38757978 TTAAAAAATATCAAAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
66 TTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
* * * *
38758043 TATTACTCTAGTGTGTTATTTAAATTATTTTGGTGTCAAAAAATAACCCTTAACCCTG-TCTCTT
131 TATTACTCTAGTGTGTTATTTAAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCT-TT
*
38758107 ACTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTATTTTATTGT
195 GCTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTATTTTATTGT
38758172 TTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAATTTTAT
260 TTTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAATTTTAT
38758233 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
1 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
38758298 TTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
66 TTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
38758363 TATTACTCTAGTGTGTTATTTAAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTG
131 TATTACTCTAGTGTGTTATTTAAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTG
38758428 CTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTATTTTATTGTT
196 CTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTATTTTATTGTT
38758493 TTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAATTTTAT
261 TTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAATTTTAT
* **
38758553 AAAAGTTAGTAATACACTCTTACTTTTTTCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
1 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
38758618 TTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
66 TTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
38758683 TATTACTCTAGTGTGTTATTTAAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTG
131 TATTACTCTAGTGTGTTATTTAAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTG
38758748 CTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTATTTTATTGTT
196 CTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTATTTTATTGTT
38758813 TTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAATTTTAT
261 TTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAATTTTAT
38758873 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
1 AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
** * *
38758938 TTAAAAAATATCATAAACT-TAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAA
66 TTAAAAAATATCATAATTTCTA--ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
* *
38759002 TTTATTAATTTAGTGTGTTA
129 TTTATTACTCTAGTGTGTTA
38759022 AGGGGGAATA
Statistics
Matches: 763, Mismatches: 23, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
319 2 0.00
320 702 0.92
321 59 0.08
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (320 bp):
AAAAGTTAGTAATACACTCTTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
TTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
TATTACTCTAGTGTGTTATTTAAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTG
CTCGTATTATTTTCTCGATTTTTATTACTTTAAATAAAAATATATTATTCTCGTATTTTATTGTT
TTATATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCTGAATTTTAT
Found at i:38759502 original size:303 final size:303
Alignment explanation
Indices: 38758949--38759555 Score: 1169
Period size: 303 Copynumber: 2.0 Consensus size: 303
38758939 TAAAAAATAT
38758949 CATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTAATTTA
1 CATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTAATTTA
*
38759014 GTGTGTTAAGGGGGAATAAAAGAAAATAATAAATAAGGAGGGATTAAAAGGTAATTAGCCACATA
66 CTGTGTTAAGGGGGAATAAAAGAAAATAATAAATAAGGAGGGATTAAAAGGTAATTAGCCACATA
* *
38759079 TTTGTGCCACCTTTTTTTTCCCTCCATCACTCTTTTTTTCCCTCTATTATTTTGGTAAATAAAGA
131 TTTGTGCCACCTTTTTTTCCCCTCCATCACCCTTTTTTTCCCTCTATTATTTTGGTAAATAAAGA
*
38759144 AAAAGTTTATAATATTTTGGTTTTTTTTTGTAATATTTTGCTAAAAAAGCCGCAATAAACCCTTT
196 AAAAGTTTATAATATTTTGGTTTTTTTTTGTAATATTTTGCTAAAAAACCCGCAATAAACCCTTT
38759209 CCTCTGCCCTTTGGTCGTATTATTATTTTCCCGATTTTTATTA
261 CCTCTGCCCTTTGGTCGTATTATTATTTTCCCGATTTTTATTA
38759252 CATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTAATTTA
1 CATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTAATTTA
38759317 CTGTGTTAAGGGGGAATAAAAGAAAATAATAAATAAGGAGGGATTAAAAGGTAATTAGCCACATA
66 CTGTGTTAAGGGGGAATAAAAGAAAATAATAAATAAGGAGGGATTAAAAGGTAATTAGCCACATA
*
38759382 TTTGTGCCGCCTTTTTTTCCCCTCCATCACCCTTTTTTTCCCTCTATTATTTTGGTAAATAAAGA
131 TTTGTGCCACCTTTTTTTCCCCTCCATCACCCTTTTTTTCCCTCTATTATTTTGGTAAATAAAGA
38759447 AAAAGTTTATAATATTTTGGTTTTTTTTTGTAATATTTTGCTAAAAAACCCGCAATAAACCCTTT
196 AAAAGTTTATAATATTTTGGTTTTTTTTTGTAATATTTTGCTAAAAAACCCGCAATAAACCCTTT
38759512 CCTCTGCCCTTTGGTCGTATTATTATTTTCCCGATTTTTATTA
261 CCTCTGCCCTTTGGTCGTATTATTATTTTCCCGATTTTTATTA
38759555 C
1 C
38759556 TTTCAATAAA
Statistics
Matches: 299, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
303 299 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (303 bp):
CATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATCATGTTTGAAATTTATTAATTTA
CTGTGTTAAGGGGGAATAAAAGAAAATAATAAATAAGGAGGGATTAAAAGGTAATTAGCCACATA
TTTGTGCCACCTTTTTTTCCCCTCCATCACCCTTTTTTTCCCTCTATTATTTTGGTAAATAAAGA
AAAAGTTTATAATATTTTGGTTTTTTTTTGTAATATTTTGCTAAAAAACCCGCAATAAACCCTTT
CCTCTGCCCTTTGGTCGTATTATTATTTTCCCGATTTTTATTA
Found at i:38760191 original size:22 final size:21
Alignment explanation
Indices: 38760158--38760234 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
38760148 CCCTCCTCTT
38760158 CTTT-TTTT-TTTCTCTTCTC
1 CTTTCTTTTCTTTCTCTTCTC
*
38760177 CTTTCCTTTTCTTTC-CTTCTTT
1 CTTT-CTTTTCTTTCTCTTC-TC
* *
38760199 CTTTCTTTTTTCTTCTCTTTTC
1 CTTTCTTTTCT-TTCTCTTCTC
38760221 CTTTTCTTCTTCTT
1 C-TTTCTT-TTCTT
38760235 CTTTCTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 4 0.09
21 14 0.31
22 14 0.31
23 10 0.22
24 3 0.07
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTTCTTTTCTTTCTCTTCTC
Found at i:38760200 original size:4 final size:4
Alignment explanation
Indices: 38760184--38760313 Score: 85
Period size: 4 Copynumber: 32.0 Consensus size: 4
38760174 CTCCTTTCCT
*
38760184 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C TTTC T-TTC
* * *
38760230 -TTC -TTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
*
38760276 TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC
38760314 CCTCTCCTTC
Statistics
Matches: 102, Mismatches: 9, Indels: 30
0.72 0.06 0.21
Matches are distributed among these distances:
3 16 0.16
4 64 0.63
5 15 0.15
6 7 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:38760223 original size:44 final size:42
Alignment explanation
Indices: 38760160--38760309 Score: 153
Period size: 39 Copynumber: 3.7 Consensus size: 42
38760150 CTCCTCTTCT
*
38760160 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTC
1 TTTTTTCTTCTCTTCT-CTTTCCTTTTCTTTCCTTC-TTCTTTC
38760204 TTTTTTC-T-TC-TCT-TTTCCTTTTC-TT-CTTCTTCTTTC
1 TTTTTTCTTCTCTTCTCTTTCCTTTTCTTTCCTTCTTCTTTC
38760240 -TTTTT-TTCTCTTCTCCTTTCCTTTTCTTTCCTTCTT-TTTC
1 TTTTTTCTTCTCTTCT-CTTTCCTTTTCTTTCCTTCTTCTTTC
*
38760280 TTTCTTTCCTCTCCTT-TCTTT-C-TTTCTTTC
1 TTT-TTTCTTCT-CTTCTCTTTCCTTTTCTTTC
38760310 TTTCCCTCTC
Statistics
Matches: 93, Mismatches: 2, Indels: 26
0.77 0.02 0.21
Matches are distributed among these distances:
35 6 0.06
36 9 0.10
37 7 0.08
38 2 0.02
39 20 0.22
40 14 0.15
41 12 0.13
42 9 0.10
43 5 0.05
44 9 0.10
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (42 bp):
TTTTTTCTTCTCTTCTCTTTCCTTTTCTTTCCTTCTTCTTTC
Found at i:38760276 original size:18 final size:18
Alignment explanation
Indices: 38760177--38760314 Score: 88
Period size: 18 Copynumber: 7.3 Consensus size: 18
38760167 TTCTCTTCTC
38760177 CTTTCCTTTTCTTTCCTT
1 CTTTCCTTTTCTTTCCTT
* * *
38760195 CTTTCTTTCTTTTTTCTTCT
1 CTTTCCTT-TTCTTTCCT-T
*
38760215 CTTTTCCTTTTCTTCTTCTT
1 C-TTTCCTTTTCTT-TCCTT
38760235 CTTT-CTTTT-TTTCTCTTCT
1 CTTTCCTTTTCTTTC-C-T-T
38760254 CCTTTCCTTTTCTTTCCTT
1 -CTTTCCTTTTCTTTCCTT
*
38760273 CTTT-TTCTTTCTTTCCTCT
1 CTTTCCT-TTTCTTTCCT-T
*
38760292 CCTTT-C-TTTCTTTCTTT
1 -CTTTCCTTTTCTTTCCTT
38760309 CTTTCC
1 CTTTCC
38760315 CTCTCCTTCT
Statistics
Matches: 95, Mismatches: 11, Indels: 29
0.70 0.08 0.21
Matches are distributed among these distances:
16 5 0.05
17 6 0.06
18 36 0.38
19 13 0.14
20 17 0.18
21 14 0.15
22 4 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTCCTTTTCTTTCCTT
Found at i:38760432 original size:27 final size:27
Alignment explanation
Indices: 38760357--38760423 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
38760347 TATTATTAAC
38760357 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
38760384 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
38760411 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
38760424 ACCATTGGCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:38760490 original size:13 final size:13
Alignment explanation
Indices: 38760474--38760498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38760464 TTTTTGCAAA
38760474 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
38760487 TTTTTTTGTTTT
1 TTTTTTTGTTTT
38760499 TTTATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:38769930 original size:43 final size:42
Alignment explanation
Indices: 38769875--38770003 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 42
38769865 ATATCGTACA
*
38769875 ATGCCAACGTCCCAGATGTTGTCTTACACGTAATCACATAACG
1 ATGCCAACGTCCCAGAAGTTGTCTTACACGTAA-CACATAACG
*
38769918 ATGCC-ACTGTCCCAGACAG-TGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGA-AGTTGTCTTACACGT-AACACATA-ACG
* * *
38769961 ATGCCAACGTCCTAGACGTGGTCTTACACGATAACACATAACG
1 ATGCCAACGTCCCAGAAGTTGTCTTACACG-TAACACATAACG
38770004 GAATCCTATG
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
42 4 0.06
43 61 0.85
44 7 0.10
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGAAGTTGTCTTACACGTAACACATAACG
Found at i:38777236 original size:18 final size:18
Alignment explanation
Indices: 38777194--38777236 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38777184 GGTTTACAAA
*
38777194 AATTTGAATTTATTTCCT
1 AATTTAAATTTATTTCCT
*
38777212 GATTTAAATTTATTT-CT
1 AATTTAAATTTATTTCCT
38777229 AATATTAA
1 AAT-TTAA
38777237 TTAATTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (18 bp):
AATTTAAATTTATTTCCT
Found at i:38777485 original size:14 final size:14
Alignment explanation
Indices: 38777466--38777505 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
38777456 TTGATTGCCA
38777466 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
38777480 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
38777494 GGAAAATGTTTT
1 GTAAAATGTTTT
38777506 ACTTTTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:38777519 original size:34 final size:35
Alignment explanation
Indices: 38777474--38777540 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
38777464 CAGTAAAATG
* * *
38777474 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTATAAAATGATTTACTGAAAAATATTTTAC
38777508 TTTTCTATAAAATGATTTACTGAAAAATATTTT
1 TTTTCTATAAAATGATTTACTGAAAAATATTTT
38777541 GTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCTATAAAATGATTTACTGAAAAATATTTTAC
Found at i:38785845 original size:35 final size:35
Alignment explanation
Indices: 38785798--38785871 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
38785788 TACTCTCTAT
*
38785798 TTGGCGTATTTCGGTTAGATTAGCTCTTATGAGCA
1 TTGGCGTATTTCGGTTAGATTAGCTCTTATAAGCA
*
38785833 TTGGCGTGTTTCGGTTAGATTAGCTCTTATAAGCA
1 TTGGCGTATTTCGGTTAGATTAGCTCTTATAAGCA
38785868 TTGG
1 TTGG
38785872 TGTTTTATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.19, C:0.14, G:0.27, T:0.41
Consensus pattern (35 bp):
TTGGCGTATTTCGGTTAGATTAGCTCTTATAAGCA
Found at i:38790002 original size:17 final size:17
Alignment explanation
Indices: 38789966--38790029 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
38789956 TCCTGATTGG
* * *
38789966 TTTATTGATTTTAGTCA
1 TTTATTTATTTTTGTTA
*
38789983 TTTGTTTATTTTTCG-TA
1 TTTATTTATTTTT-GTTA
38790000 TTTATTTATTTTTGTTA
1 TTTATTTATTTTTGTTA
38790017 TTTATTTATTTTT
1 TTTATTTATTTTT
38790030 ATCTCCTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 1 0.03
17 38 0.95
18 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (17 bp):
TTTATTTATTTTTGTTA
Found at i:38791443 original size:16 final size:17
Alignment explanation
Indices: 38791422--38791463 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
38791412 ACATTCTCTG
38791422 TTCTTTCTTTTTC-TTT
1 TTCTTTCTTTTTCATTT
*
38791438 TTCTTTTTTTTTCATTT
1 TTCTTTCTTTTTCATTT
38791455 TTGCTTTCT
1 TT-CTTTCT
38791464 GGATCCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 12 0.55
17 5 0.23
18 5 0.23
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (17 bp):
TTCTTTCTTTTTCATTT
Found at i:38805679 original size:16 final size:16
Alignment explanation
Indices: 38805658--38805690 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38805648 GACGAAGAGA
*
38805658 AAATGAGGAGGAAATG
1 AAATGAGAAGGAAATG
38805674 AAATGAGAAGGAAATG
1 AAATGAGAAGGAAATG
38805690 A
1 A
38805691 GAGGCTGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (16 bp):
AAATGAGAAGGAAATG
Found at i:38805802 original size:14 final size:14
Alignment explanation
Indices: 38805783--38805812 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38805773 TTCCGTGTTT
38805783 TTGAAAATGAATTC
1 TTGAAAATGAATTC
38805797 TTGAAAATGAATTC
1 TTGAAAATGAATTC
38805811 TT
1 TT
38805813 TTGGTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (14 bp):
TTGAAAATGAATTC
Found at i:38806002 original size:26 final size:28
Alignment explanation
Indices: 38805946--38806002 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
38805936 CTCGATTTCT
*
38805946 AATATTATTTATGGAAATGGGCCACTTAA
1 AATATTATTTATGGAAATGGG-CACTAAA
38805975 AATATTATTTACT-GAAAT-GG-ACTAAA
1 AATATTATTTA-TGGAAATGGGCACTAAA
38806001 AA
1 AA
38806003 ACTCAAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 7 0.27
28 2 0.08
29 16 0.62
30 1 0.04
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (28 bp):
AATATTATTTATGGAAATGGGCACTAAA
Found at i:38806215 original size:28 final size:28
Alignment explanation
Indices: 38806178--38806316 Score: 105
Period size: 28 Copynumber: 5.1 Consensus size: 28
38806168 TGGGTAAGGC
38806178 TTTTGAAAAAATAAATTAGGGTTTAGGAT
1 TTTTG-AAAAATAAATTAGGGTTTAGGAT
* *
38806207 TTTTGAAAATTAAATTTGGGTTTAGGA-
1 TTTTGAAAAATAAATTAGGGTTTAGGAT
** *
38806234 TTTT--AAGGT---TTAGGG-TTAGGGT
1 TTTTGAAAAATAAATTAGGGTTTAGGAT
* * *
38806256 TTTTGAAAAAAATAAATTAAGGTTTATGTT
1 TTTTG--AAAAATAAATTAGGGTTTAGGAT
*
38806286 TTTTAAAAAATAAA-TATGGGTTTAGGAT
1 TTTTGAAAAATAAATTA-GGGTTTAGGAT
38806314 TTT
1 TTT
38806317 AGGGTTTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
21 5 0.06
22 9 0.11
25 3 0.04
26 3 0.04
27 6 0.07
28 40 0.47
29 10 0.12
30 9 0.11
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (28 bp):
TTTTGAAAAATAAATTAGGGTTTAGGAT
Found at i:38806300 original size:79 final size:78
Alignment explanation
Indices: 38806178--38806323 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 78
38806168 TGGGTAAGGC
* * * *
38806178 TTTTGAAAAAATAAATTAGGGTTTAGGATTTTTGAAAATTAAATTTGGGTTTAGGATTTTAAGGT
1 TTTTGAAAAAATAAATTAAGGTTTAGGATTTTTAAAAAATAAATATGGGTTTAGGATTTTAAGGT
38806243 TTAGGGTTAGGGT
66 TTAGGGTTAGGGT
* * *
38806256 TTTTGAAAAAAATAAATTAAGGTTTATGTTTTTTAAAAAATAAATATGGGTTTAGGATTTTAGGG
1 TTTTG-AAAAAATAAATTAAGGTTTAGGATTTTTAAAAAATAAATATGGGTTTAGGATTTTAAGG
38806321 TTT
65 TTT
38806324 TTTAATAGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
78 5 0.08
79 55 0.92
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (78 bp):
TTTTGAAAAAATAAATTAAGGTTTAGGATTTTTAAAAAATAAATATGGGTTTAGGATTTTAAGGT
TTAGGGTTAGGGT
Found at i:38816195 original size:12 final size:12
Alignment explanation
Indices: 38816178--38816214 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
38816168 AATCGATTGA
38816178 GAAGATAAAGTT
1 GAAGATAAAGTT
*
38816190 GAAGATAAAGAT
1 GAAGATAAAGTT
38816202 GAAGATGAAAGTT
1 GAAGAT-AAAGTT
38816215 TTGATGATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (12 bp):
GAAGATAAAGTT
Found at i:38816857 original size:14 final size:14
Alignment explanation
Indices: 38816840--38816894 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
38816830 TTATAGAAGG
*
38816840 TTTAGTATAATATA
1 TTTAGCATAATATA
*
38816854 TTTAACATAATATA
1 TTTAGCATAATATA
38816868 TTTAGCAT--T-TA
1 TTTAGCATAATATA
38816879 -TTAGCATAATATA
1 TTTAGCATAATATA
38816892 TTT
1 TTT
38816895 GATATTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 7 0.21
11 2 0.06
12 2 0.06
13 2 0.06
14 21 0.62
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (14 bp):
TTTAGCATAATATA
Found at i:38816887 original size:24 final size:24
Alignment explanation
Indices: 38816859--38816911 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
38816849 ATATATTTAA
38816859 CATAATATATTT-AGCATTTATTAG
1 CATAATATATTTGA-CATTTATTAG
*
38816883 CATAATATATTTGATATTTATTAG
1 CATAATATATTTGACATTTATTAG
*
38816907 TATAA
1 CATAA
38816912 AAATCTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (24 bp):
CATAATATATTTGACATTTATTAG
Found at i:38818503 original size:50 final size:52
Alignment explanation
Indices: 38818449--38818545 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
38818439 TTACGGGGTG
*
38818449 TTTTACCCAAATAATA-TTTTTTT-AAAAACCCTAAATGGCATGTTGGGTTT
1 TTTTACCCAAATAATATTTTTTTTAAAAAAACCTAAATGGCATGTTGGGTTT
38818499 TTTTACCCAAATAATATTTTTTTTAAAAAAACCTAAATGGCATGTTG
1 TTTTACCCAAATAATATTTTTTTTAAAAAAACCTAAATGGCATGTTG
38818546 CAAGAATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 16 0.36
51 7 0.16
52 21 0.48
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (52 bp):
TTTTACCCAAATAATATTTTTTTTAAAAAAACCTAAATGGCATGTTGGGTTT
Found at i:38820966 original size:14 final size:14
Alignment explanation
Indices: 38820947--38820981 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
38820937 TTGAATTTTT
*
38820947 TTCTAATGATACTA
1 TTCTAACGATACTA
38820961 TTCTAACGATACTA
1 TTCTAACGATACTA
38820975 TTCTAAC
1 TTCTAAC
38820982 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:38821633 original size:6 final size:6
Alignment explanation
Indices: 38821622--38821663 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
38821612 TATAGAGGCC
*
38821622 GAGCCA GAGCCA GAGCCA GAACCA GAGCCCA -AGCCA GAGCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAG-CCA GAGCCA GAGCCA
38821664 AAGCTCGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 3 0.09
6 26 0.81
7 3 0.09
ACGTcount: A:0.36, C:0.36, G:0.29, T:0.00
Consensus pattern (6 bp):
GAGCCA
Found at i:38822372 original size:62 final size:62
Alignment explanation
Indices: 38822235--38822527 Score: 421
Period size: 62 Copynumber: 4.7 Consensus size: 62
38822225 CAACATTACA
* * * * * *
38822235 ACATTAAAACACTAAAACTTGTAACAAAATTTATAATATAAAATTTCTTTGTAATATAAATTAAA
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATAT-AAA--T-TTTGTTATATAAATTAAA
38822300 T
62 T
* *
38822301 ACATTACAACACTAAAAATTGGAACAAACTTTATAATATAAGTTTTGTTATATAAATTAAAT
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
*
38822363 ACATTACAACACTAAAAATTGGAACAAACCTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
* *
38822425 ACATTAAAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
*
38822487 ACATTACAACA-T--TAATTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATT
38822528 AGGTACATTG
Statistics
Matches: 213, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
59 28 0.13
61 1 0.00
62 146 0.69
63 1 0.00
65 2 0.01
66 35 0.16
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (62 bp):
ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
Found at i:38824230 original size:101 final size:102
Alignment explanation
Indices: 38824111--38824297 Score: 279
Period size: 101 Copynumber: 1.8 Consensus size: 102
38824101 AAAGTGATGG
** *
38824111 TCACGTGTGTAGTACTATGTGCCGGCTACTACGTGTACCAGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
38824174 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTTGA
65 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTTGA
* * * *
38824212 TCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
*
38824277 CTATGTGCAGGCTACTGTGTG
66 CTATGTGCAGGCTACTATGTG
38824298 AACTGAACAT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
100 5 0.07
101 36 0.47
102 35 0.46
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGTGTACCGGATAGTTTTGA
Found at i:38824232 original size:51 final size:51
Alignment explanation
Indices: 38824108--38824297 Score: 231
Period size: 51 Copynumber: 3.7 Consensus size: 51
38824098 GTGAAAGTGA
* * * *
38824108 TGGTCACGTGTGTAGTACTATGTGCCGGCTACTACGTGTACCAGA-A-TGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-AT
* * *
38824158 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTAT
* * * * * *
38824209 TGATCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTATCGGATGGTAA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTAT
*
38824260 TGGTCACATGTGTAGTACTATGTGCAGGCTACTGTGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
38824298 AACTGAACAT
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 39 0.33
51 78 0.66
52 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTAT
Found at i:38824355 original size:45 final size:45
Alignment explanation
Indices: 38824304--38824392 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
38824294 TGTGAACTGA
*
38824304 ACATCATTGATTAGTAAGGTGGTTGCTATATGCT-AATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATATGCTGAA-TCCACCGG
*
38824349 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCG
38824393 AGTATCTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 39 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCGG
Found at i:38824518 original size:21 final size:21
Alignment explanation
Indices: 38824492--38824547 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
38824482 AACAACGGTG
*
38824492 GCGGTGAGATTAGCTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
38824513 GCGGTGAGACTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
**
38824534 GTAGTGAGATTAGA
1 GCGGTGAGATTAGA
38824548 AACAATGGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:38836370 original size:66 final size:62
Alignment explanation
Indices: 38836149--38836382 Score: 342
Period size: 62 Copynumber: 3.7 Consensus size: 62
38836139 CAATGTACCT
* *
38836149 AATTTATATTACAAAGTTTGTTCTAATTTTTAATGCTCTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTCTAATGTATTTAATTTATATAACAA
* *
38836211 AATTTATGTTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTCTAATGTATTTAATTTATATAACAA
* *
38836273 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATTACAAACA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTCTAATGTATTTAATTTATA-T---AACA
38836338 A
62 A
* * * *
38836339 AATTTATATTACAAATTTTGTTACAAGTTTTAGTGTTCTAATGT
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTCTAATGT
38836383 TGTAATGTTG
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
62 112 0.71
63 1 0.01
66 45 0.28
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.48
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTCTAATGTATTTAATTTATATAACAA
Found at i:38837578 original size:14 final size:14
Alignment explanation
Indices: 38837559--38837586 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38837549 CAAATTGCAT
38837559 GTTAGAATAGTATC
1 GTTAGAATAGTATC
38837573 GTTAGAATAGTATC
1 GTTAGAATAGTATC
38837587 ATTAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:38838913 original size:2 final size:2
Alignment explanation
Indices: 38838901--38838930 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
38838891 TTGGTTTAAA
38838901 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38838931 GAATAACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:38840799 original size:33 final size:34
Alignment explanation
Indices: 38840752--38840824 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 34
38840742 GTTAATAAAA
* *
38840752 TTATATTTGTATTAA-AAATAATTATTTAAATT-AT
1 TTATAGTTGTATTAAGAAA-AA-TATTAAAATTAAT
38840786 TTATAGTTG-ATTAATGAAAAATATTAAAATTAAT
1 TTATAGTTGTATTAA-GAAAAATATTAAAATTAAT
38840820 TTATA
1 TTATA
38840825 TTAAACAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
33 14 0.41
34 17 0.50
35 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (34 bp):
TTATAGTTGTATTAAGAAAAATATTAAAATTAAT
Found at i:38857238 original size:12 final size:12
Alignment explanation
Indices: 38857217--38857254 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
38857207 AGTCGATTCT
*
38857217 ATTTAATATACA
1 ATTTAGTATACA
38857229 ATTTAGTATACA
1 ATTTAGTATACA
*
38857241 ATTTAGTACACA
1 ATTTAGTATACA
38857253 AT
1 AT
38857255 ATTCTCGTAA
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:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (12 bp):
ATTTAGTATACA
Found at i:38857691 original size:35 final size:35
Alignment explanation
Indices: 38857644--38857760 Score: 89
Period size: 35 Copynumber: 3.3 Consensus size: 35
38857634 GCACTCAACG
38857644 CTAGTC-GAATAAACTGATGATAAGTGTGCTCTGCA
1 CTAGTCAG-ATAAACTGATGATAAGTGTGCTCTGCA
* * * * *
38857679 CTAGTCAGATAAA-TGATAAT-ATTTTGCGCCTAGTA
1 CTAGTCAGATAAACTGATGATAAGTGTGC-TCT-GCA
* * *
38857714 CTAGTCAGATAAACCGACGATAGGTGTG-TCTTGCA
1 CTAGTCAGATAAACTGATGATAAGTGTGCTC-TGCA
*
38857749 CTAGTCGGATAA
1 CTAGTCAGATAA
38857761 TCGACAATGG
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
33 5 0.08
34 8 0.13
35 40 0.65
36 6 0.10
37 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (35 bp):
CTAGTCAGATAAACTGATGATAAGTGTGCTCTGCA
Found at i:38857726 original size:70 final size:70
Alignment explanation
Indices: 38857644--38857798 Score: 174
Period size: 70 Copynumber: 2.2 Consensus size: 70
38857634 GCACTCAACG
* * * *
38857644 CTAGTC-GAATAAACTGATGATAAGTGTG-CTCTGCACTAGTCAGATAAAT-GATAATATTTTGC
1 CTAGTCAG-ATAAACCGACGATAAGTGTGTCT-TGCACTAGTCAGAT-AATCGACAATAGTTTGC
*
38857706 G-CCTAGTA
63 GTCC-AGCA
* * *
38857714 CTAGTCAGATAAACCGACGATAGGTGTGTCTTGCACTAGTCGGATAATCGACAATGGTTTGCGTC
1 CTAGTCAGATAAACCGACGATAAGTGTGTCTTGCACTAGTCAGATAATCGACAATAGTTTGCGTC
38857779 CAGCA
66 CAGCA
38857784 CTAGTCAGATAAACC
1 CTAGTCAGATAAACC
38857799 AACAATATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
69 3 0.04
70 65 0.89
71 5 0.07
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (70 bp):
CTAGTCAGATAAACCGACGATAAGTGTGTCTTGCACTAGTCAGATAATCGACAATAGTTTGCGTC
CAGCA
Found at i:38858796 original size:52 final size:53
Alignment explanation
Indices: 38858739--38858844 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
38858729 TTATCTCCTA
38858739 AACTTTAGCATCTAATCTCCTAATT-AAAAAGAAAGAGATATACACAAAAACT
1 AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
38858791 AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
1 AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
38858844 A
1 A
38858845 CCATACATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 25 0.47
53 28 0.53
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.25
Consensus pattern (53 bp):
AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
Found at i:38868158 original size:14 final size:15
Alignment explanation
Indices: 38868139--38868168 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38868129 TTTAAATAAT
38868139 AATATGAAT-GATTA
1 AATATGAATAGATTA
38868153 AATATGAATAGATTA
1 AATATGAATAGATTA
38868168 A
1 A
38868169 GTAATACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
AATATGAATAGATTA
Found at i:38870656 original size:128 final size:128
Alignment explanation
Indices: 38870370--38870610 Score: 338
Period size: 128 Copynumber: 1.9 Consensus size: 128
38870360 TTAGTCTGCT
* * * *
38870370 CCACTGCAACCTCAAGGAGAAAAGACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGA
1 CCACCGCAACC-CAGGGAGAGAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGA
* * * *
38870435 TTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGTGACGAGATCTGTAATTTCTAACCTATC
65 TTCGCCGTCTTCGACCTGCTCCGATACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATC
** * *
38870499 CCACCGCTGCCCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGAT
1 CCACCGCAACCCAGGGAGAGAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGAT
** *
38870564 TTTCCGTCTTCGACCTGCTCCGATATTGCTTAGGGAGACAAGATCTG
66 TCGCCGTCTTCGACCTGCTCCGATACTGCTTAGGGAGACAAGATCTG
38870611 CTATCTTCAA
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
128 90 0.92
129 8 0.08
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (128 bp):
CCACCGCAACCCAGGGAGAGAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGAT
TCGCCGTCTTCGACCTGCTCCGATACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATC
Found at i:38870751 original size:88 final size:87
Alignment explanation
Indices: 38870602--38871229 Score: 755
Period size: 88 Copynumber: 7.2 Consensus size: 87
38870592 CTTAGGGAGA
* * * *
38870602 CAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGATGGAGGCGAGGCTTGTGTCTTCGATCT
1 CAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAGGGAGGCAAGGC-TGTGTCTTCGATCT
* *
38870667 TCTTCGTTGTCTACGCAGGAAGG
65 GCTTCGCTGTCTACGCAGGAAGG
* *
38870690 CAAGATCTGCTATCTTTAACCCGCTCCACTACAACCAAGGGAGGCAAGGCTGGTGTCTTCGATCT
1 CAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAGGGAGGCAAGGCT-GTGTCTTCGATCT
* *
38870755 GCTTCGCTATCTACGTAGGAAGG
65 GCTTCGCTGTCTACGCAGGAAGG
* * *
38870778 CAAGATCTGCTACCTTTAACCCACTCCACTGCAACCGAGAGAGGCAAGGCTGGTGTCTTCGATCT
1 CAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAGGGAGGCAAGGCT-GTGTCTTCGATCT
*
38870843 GCTTCGCTGTCTACGTAGGAAGG
65 GCTTCGCTGTCTACGCAGGAAGG
* * * *
38870866 CAAGATCTGCTAT-TTTCAACCTGCTCCACTGCAACCGAGGGAGGCGAGGCCGGTGTCTTTGATC
1 CAAGATCTGCTATCTTT-AACCCGCTCCACTGCAACCGAGGGAGGCAAGG-CTGTGTCTTCGATC
*
38870930 TGCTTCGCTGTCTACACAGGAAGG
64 TGCTTCGCTGTCTACGCAGGAAGG
* ** * * *
38870954 CAAGATCTGCTATTTTTAACCTACTCCACTGCAATCGAGGG-GGCAAGGCTTTGTTTTCGATCTG
1 CAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAGGGAGGCAAGGCTGTGTCTTCGATCTG
* *
38871018 CTTCGCTGTCAATGCAGGAAGG
66 CTTCGCTGTCTACGCAGGAAGG
* *
38871040 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCT-T-TACTTTCGATC
1 CAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAGGGAGGCAAGGCTGTGT-C-TTCGATC
* * * *
38871103 TGTTTCGCTGTCGATGCAAGAAGG
64 TGCTTCGCTGTCTACGCAGGAAGG
* * *
38871127 CAAGATCTGCTATCTTTAACCCGTTCCACTACAACCGATGGAGGCAAGGCT-T-TACTTTCGATC
1 CAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAGGGAGGCAAGGCTGTGT-C-TTCGATC
* * * * *
38871190 TACTTCACTGTCGATGCAAGAAGG
64 TGCTTCGCTGTCTACGCAGGAAGG
*
38871214 CAAGATCTGTTATCTT
1 CAAGATCTGCTATCTT
38871230 CACTGATCTG
Statistics
Matches: 482, Mismatches: 51, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
85 1 0.00
86 68 0.14
87 143 0.30
88 266 0.55
89 4 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (87 bp):
CAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAGGGAGGCAAGGCTGTGTCTTCGATCTG
CTTCGCTGTCTACGCAGGAAGG
Found at i:38870779 original size:44 final size:43
Alignment explanation
Indices: 38870731--38870869 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 43
38870721 CAACCAAGGG
38870731 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCTACGTAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCT-TCTACGTAGGA
* * ** ** * ** * * * *
38870775 AGGCAAGATCTGCTACCTTTAACCCACTCCACTGCAACCG-A-GA
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTTCTA-CGTAGGA
38870818 GAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTACGTAGGA
1 -AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCT-TCTACGTAGGA
38870863 AGGCAAG
1 AGGCAAG
38870870 ATCTGCTATT
Statistics
Matches: 63, Mismatches: 26, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
43 18 0.29
44 27 0.43
45 18 0.29
ACGTcount: A:0.22, C:0.26, G:0.27, T:0.24
Consensus pattern (43 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTTCTACGTAGGA
Found at i:38872386 original size:42 final size:42
Alignment explanation
Indices: 38872323--38872417 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
38872313 GTATAACAAG
* *
38872323 ATCACCACATGCCCCAATCTGATCAAAATTTAAATTGCTCTG
1 ATCACCTCATGCCCCAATCTGATCAAAATTTAAATTGCTCTA
* * * * *
38872365 ATCACTTCATGCCCCACTCTGATTAGAATTTGAATTGCTCTA
1 ATCACCTCATGCCCCAATCTGATCAAAATTTAAATTGCTCTA
38872407 ATCACCTCATG
1 ATCACCTCATG
38872418 TCCTGATCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (42 bp):
ATCACCTCATGCCCCAATCTGATCAAAATTTAAATTGCTCTA
Found at i:38873407 original size:15 final size:15
Alignment explanation
Indices: 38873387--38873427 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
38873377 TGGCCTCTCC
*
38873387 TTTTCCTTTTTTCTT
1 TTTTCCTTTTCTCTT
*
38873402 TTTTCCTTCTCTCTT
1 TTTTCCTTTTCTCTT
*
38873417 TTTTCATTTTC
1 TTTTCCTTTTC
38873428 ATTCTGACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCCTTTTCTCTT
Found at i:38873408 original size:21 final size:22
Alignment explanation
Indices: 38873384--38873426 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38873374 CCTTGGCCTC
* *
38873384 TCCTTTTC-CTTTTTTCTTTTT
1 TCCTTCTCTCTTTTTTCATTTT
38873405 TCCTTCTCTCTTTTTTCATTTT
1 TCCTTCTCTCTTTTTTCATTTT
38873427 CATTCTGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (22 bp):
TCCTTCTCTCTTTTTTCATTTT
Found at i:38873427 original size:21 final size:21
Alignment explanation
Indices: 38873384--38873432 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
38873374 CCTTGGCCTC
* *
38873384 TCCTTTTCCTTTTTTCTTTTT
1 TCCTTCTCCTTTTTTCTATTT
38873405 TCCTTCTCTCTTTTTTC-ATTT
1 TCCTTCTC-CTTTTTTCTATTT
*
38873426 TCATTCT
1 TCCTTCT
38873433 GACTTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (21 bp):
TCCTTCTCCTTTTTTCTATTT
Found at i:38873455 original size:40 final size:40
Alignment explanation
Indices: 38873411--38873490 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
38873401 TTTTTCCTTC
*
38873411 TCTCTTTTTTCATTTTCATTCTGACTTTGATTTTGATTTT
1 TCTCTTTCTTCATTTTCATTCTGACTTTGATTTTGATTTT
* ** * **
38873451 TCTCTTTCTTCTTTTTGTTTTTGTTTTTGATTTTGATTTT
1 TCTCTTTCTTCATTTTCATTCTGACTTTGATTTTGATTTT
38873491 GATTTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.09, C:0.12, G:0.09, T:0.70
Consensus pattern (40 bp):
TCTCTTTCTTCATTTTCATTCTGACTTTGATTTTGATTTT
Found at i:38873471 original size:6 final size:6
Alignment explanation
Indices: 38873462--38873504 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
38873452 CTCTTTCTTC
* * *
38873462 TTTTTG TTTTTG TTTTTG ATTTTG ATTTTG ATTTTTT TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG TTTTTG
38873505 AATTGGATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (6 bp):
TTTTTG
Found at i:38874217 original size:12 final size:12
Alignment explanation
Indices: 38874208--38874232 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38874198 ATATGTACCG
38874208 AAGAATGTACAA
1 AAGAATGTACAA
38874220 AAGAATGTACAA
1 AAGAATGTACAA
38874232 A
1 A
38874233 TTCATGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (12 bp):
AAGAATGTACAA
Found at i:38878189 original size:14 final size:15
Alignment explanation
Indices: 38878170--38878199 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38878160 TTTAAATAAT
38878170 AATATGAAT-GATTA
1 AATATGAATAGATTA
38878184 AATATGAATAGATTA
1 AATATGAATAGATTA
38878199 A
1 A
38878200 GTAATACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
AATATGAATAGATTA
Found at i:38885845 original size:25 final size:25
Alignment explanation
Indices: 38885806--38885854 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
38885796 TACAGTCTAA
* *
38885806 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAGGATATACTAC
*
38885831 CTATAGCAGTTTCAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
38885855 TCAAAAACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAC
Found at i:38891741 original size:16 final size:16
Alignment explanation
Indices: 38891716--38891749 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38891706 CATTTCACGA
* *
38891716 TTCTGTCTTTTGTATT
1 TTCTGACTTTTATATT
38891732 TTCTGACTTTTATATT
1 TTCTGACTTTTATATT
38891748 TT
1 TT
38891750 TCATGCATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.68
Consensus pattern (16 bp):
TTCTGACTTTTATATT
Found at i:38898889 original size:37 final size:37
Alignment explanation
Indices: 38898838--38898953 Score: 90
Period size: 37 Copynumber: 3.3 Consensus size: 37
38898828 ATTCTAAAAA
*
38898838 TAATA-TTATTTTAATTGTTTAATATTAAATTTAATT
1 TAATAGTTATCTTAATTGTTTAATATTAAATTTAATT
*
38898874 TAATAGTTATCTTAATAGTAGTT--TATT-AATTTAATAT
1 TAATAGTTATCTTAATTGT--TTAATATTAAATTTAAT-T
* *
38898911 TAA-AGTGA--TT-A-T-CTTAATATTAAATTTAATT
1 TAATAGTTATCTTAATTGTTTAATATTAAATTTAATT
*
38898942 TAATATTTATCT
1 TAATAGTTATCT
38898954 ACAAGATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
29 2 0.03
31 8 0.13
32 11 0.17
33 1 0.02
34 3 0.05
36 17 0.27
37 19 0.30
39 2 0.03
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (37 bp):
TAATAGTTATCTTAATTGTTTAATATTAAATTTAATT
Found at i:38901553 original size:3 final size:3
Alignment explanation
Indices: 38901545--38901592 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
38901535 GCTCTACACT
*
38901545 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38901593 GAGAGAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:38904417 original size:20 final size:21
Alignment explanation
Indices: 38904361--38904420 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
38904351 CATAATTCGT
* * *
38904361 AACCCTAAACCTTAAATTTTG
1 AACCCAAAACCTTAAATCTTA
* *
38904382 ATCCCAAAATCTTAAATCTTA
1 AACCCAAAACCTTAAATCTTA
38904403 AACCC-AAACCTTAAATCT
1 AACCCAAAACCTTAAATCT
38904421 CGGGGTTCGG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 12 0.38
21 20 0.62
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.30
Consensus pattern (21 bp):
AACCCAAAACCTTAAATCTTA
Found at i:38904613 original size:17 final size:18
Alignment explanation
Indices: 38904591--38904624 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38904581 TTGTTTATAA
38904591 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
38904608 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
38904625 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:38909366 original size:67 final size:67
Alignment explanation
Indices: 38909258--38909392 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
38909248 AACAACAAAA
38909258 TCCATTAACTGTGGAAGGATGATAGGTTTGGTAATATCCAGGCTCTATTATCATCCCTATTTGGG
1 TCCATTAACTGTGGAAGGATGATAGGTTTGGTAATATCCAGGCTCTATTATCATCCCTATTTGGG
38909323 TT
66 TT
38909325 TCCATTAACTGTGGAAGGATGATAGGTTTGGTAATATCCAGGCTCTATTATCATCCCTATTTGGG
1 TCCATTAACTGTGGAAGGATGATAGGTTTGGTAATATCCAGGCTCTATTATCATCCCTATTTGGG
38909390 TT
66 TT
38909392 T
1 T
38909393 GATATAGATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (67 bp):
TCCATTAACTGTGGAAGGATGATAGGTTTGGTAATATCCAGGCTCTATTATCATCCCTATTTGGG
TT
Found at i:38915102 original size:24 final size:24
Alignment explanation
Indices: 38915070--38915117 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38915060 AATAATAAAG
38915070 AGAGAGAGAGAGAGAAATATGAAT
1 AGAGAGAGAGAGAGAAATATGAAT
38915094 AGAGAGAGAGAGAGAAATATGAAT
1 AGAGAGAGAGAGAGAAATATGAAT
38915118 TACTGACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.33, T:0.12
Consensus pattern (24 bp):
AGAGAGAGAGAGAGAAATATGAAT
Found at i:38916012 original size:19 final size:18
Alignment explanation
Indices: 38915971--38916015 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
38915961 ATGTATTTAT
38915971 ATAATTT-ATTTTAATAA
1 ATAATTTAATTTTAATAA
*
38915988 AAAATTTAATTTTATATAA
1 ATAATTTAATTTTA-ATAA
*
38916007 TTAATTTAA
1 ATAATTTAA
38916016 GTAATCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAATTTAATTTTAATAA
Found at i:38920658 original size:24 final size:24
Alignment explanation
Indices: 38920631--38920688 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
38920621 ATTTCTTAAA
*
38920631 TGTTTACTAAAAGAAAACAAATAG
1 TGTTTAATAAAAGAAAACAAATAG
* * *
38920655 TGTTTAATGAAAGCAAATAAATAG
1 TGTTTAATAAAAGAAAACAAATAG
38920679 TGTTTAATAA
1 TGTTTAATAA
38920689 CTGTTTGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (24 bp):
TGTTTAATAAAAGAAAACAAATAG
Found at i:38922644 original size:39 final size:40
Alignment explanation
Indices: 38922597--38922832 Score: 288
Period size: 39 Copynumber: 6.0 Consensus size: 40
38922587 ATGCTCGTTT
* *
38922597 GAGC-TAC-TTTCAATAGAATCGGTAGGTATGGCTCGATA
1 GAGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGATA
*
38922635 GAGCATAC-TTTCAGTAGAATTAGTAGGTATGGCTCGATA
1 GAGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGATA
* *
38922674 GCGCATACATTTCAGTA-AATTCAGTAGGTATGGCTCGCTA
1 GAGCATACATTTCAGTAGAA-TCAGTAGGTATGGCTCGATA
* * *
38922714 AAGCATAC-TTTCATTAGAATCAGTAGGTATGGCTCAATA
1 GAGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGATA
* * *
38922753 GCGCATACATTTCAGTA-AATCATTAGGTATGGCTCAATA
1 GAGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGATA
* *
38922792 -ACACATACATTTCAGTAGATTCAGTAGGTATGGCTCGATA
1 GA-GCATACATTTCAGTAGAATCAGTAGGTATGGCTCGATA
38922832 G
1 G
38922833 TATTTCAACT
Statistics
Matches: 170, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
38 4 0.02
39 106 0.62
40 60 0.35
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (40 bp):
GAGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGATA
Found at i:38922709 original size:79 final size:77
Alignment explanation
Indices: 38922604--38922832 Score: 307
Period size: 79 Copynumber: 2.9 Consensus size: 77
38922594 TTTGAGCTAC
* *
38922604 TTTCAATAGAATCGGTAGGTATGGCTCGATAGAGCATACTTTCAGTAGAATTAGTAGGTATGGCT
1 TTTCAGTA-AATCAGTAGGTATGGCTCGATA-AGCATACTTTCAGTAGAATTAGTAGGTATGGCT
38922669 CGATAGCGCATACA
64 CGATAGCGCATACA
* * *
38922683 TTTCAGTAAATTCAGTAGGTATGGCTCGCTAAAGCATACTTTCATTAGAATCAGTAGGTATGGCT
1 TTTCAGTAAA-TCAGTAGGTATGGCTCGAT-AAGCATACTTTCAGTAGAATTAGTAGGTATGGCT
*
38922748 CAATAGCGCATACA
64 CGATAGCGCATACA
* * *
38922762 TTTCAGTAAATCATTAGGTATGGCTCAATAACACATACATTTCAGTAG-ATTCAGTAGGTATGGC
1 TTTCAGTAAATCAGTAGGTATGGCTCGATAA-GCATAC-TTTCAGTAGAATT-AGTAGGTATGGC
38922826 TCGATAG
63 TCGATAG
38922833 TATTTCAACT
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
77 2 0.02
78 25 0.19
79 104 0.79
80 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (77 bp):
TTTCAGTAAATCAGTAGGTATGGCTCGATAAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCG
ATAGCGCATACA
Found at i:38922814 original size:118 final size:118
Alignment explanation
Indices: 38922601--38922828 Score: 350
Period size: 118 Copynumber: 1.9 Consensus size: 118
38922591 TCGTTTGAGC
* * *
38922601 TACTTTCAATAGAATCGGTAGGTATGGCTCGATAGAGCATACTTTCAGTAGAATTAGTAGGTATG
1 TACTTTCAATAGAATCAGTAGGTATGGCTCAATAGAGCATACTTTCAGTAGAATCAGTAGGTATG
* * *
38922666 GCTCGATAGCGCATACATTTCAGTAAATTCAGTAGGTATGGCTCGCTAAAGCA
66 GCTCAATAACACATACATTTCAGTAAATTCAGTAGGTATGGCTCGCTAAAGCA
* * *
38922719 TACTTTCATTAGAATCAGTAGGTATGGCTCAATAGCGCATACATTTCAGTA-AATCATTAGGTAT
1 TACTTTCAATAGAATCAGTAGGTATGGCTCAATAGAGCATAC-TTTCAGTAGAATCAGTAGGTAT
*
38922783 GGCTCAATAACACATACATTTCAGTAGATTCAGTAGGTATGGCTCG
65 GGCTCAATAACACATACATTTCAGTAAATTCAGTAGGTATGGCTCG
38922829 ATAGTATTTC
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 91 0.92
119 8 0.08
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (118 bp):
TACTTTCAATAGAATCAGTAGGTATGGCTCAATAGAGCATACTTTCAGTAGAATCAGTAGGTATG
GCTCAATAACACATACATTTCAGTAAATTCAGTAGGTATGGCTCGCTAAAGCA
Done.