Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 94 of 97
Found at i:37302969 original size:27 final size:25
Alignment explanation
Indices: 37302871--37302962 Score: 66
Period size: 27 Copynumber: 3.6 Consensus size: 25
37302861 TTTATCTTTT
*
37302871 AAATATTAATAATTTATAATTGATTGA
1 AAATATTAATAATTTATTA-TGATT-A
*
37302898 AAATATTAATAATTGGTAATT-TAATTTA
1 AAATATTAATAATT--T-ATTATGA-TTA
*
37302926 TAAT-TT-A-AATATTATTATGATTA
1 AAATATTAATAAT-TTATTATGATTA
37302949 AAATATTAATAATT
1 AAATATTAATAATT
37302963 GTAATTAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 20
0.67 0.07 0.26
Matches are distributed among these distances:
23 9 0.18
24 5 0.10
25 5 0.10
26 5 0.10
27 16 0.31
28 6 0.12
29 3 0.06
30 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (25 bp):
AAATATTAATAATTTATTATGATTA
Found at i:37302976 original size:159 final size:153
Alignment explanation
Indices: 37302630--37302976 Score: 378
Period size: 159 Copynumber: 2.2 Consensus size: 153
37302620 TTGATAGTTT
* * *
37302630 AAATATTAATATTTTATTTATACTTTAATTATTAATATTAAATGTTATTATGATTATTTATTTTT
1 AAATATTAATATTTTAATTA-ATTTTTATTATTAATATTAAATGTTATTATGATTATTTATTTTT
* * * * *
37302695 ATTTAATTTTATCTTTTAAATATTAATAATTTATATTTTATTTATAATATTAATAATATATTATT
65 ATTTAAGTTTATCTTTTAAATATTAATAATTTATAATTGATTGAAAATATTAATAATATATTATT
*
37302760 TAAATATTAATATTTTATTTATAA
130 TAAATATTAATATTTTATTGATAA
* *
37302784 AGGAATGATTAATTTTTTAAATATAAATATTTTATTA-TAAT-TTAAATTTTATTAATGATTATT
1 A--AAT-ATTAATATTTT-AAT-T-AAT-TTTTATTATTAATATTAAATGTTATT-ATGATTATT
37302847 TATTTTTATTTAAGTTTATCTTTTAAATATTAATAATTTATAATTGATTGAAAATATTAATAATT
58 TATTTTTATTTAAGTTTATCTTTTAAATATTAATAATTTATAATTGATTGAAAATATTAATAA-T
* *
37302912 GGTAATTTAATTTATAAT-TTAAATATTATTA-TGATTA
122 -AT-A-TT-ATTTA-AATATT-AATATT-TTATTGATAA
*
37302949 AAATATTAATAATTGTAATTAATTTTTA
1 AAATATTAAT-ATTTTAATTAATTTTTA
37302977 AATTCAAAAT
Statistics
Matches: 161, Mismatches: 15, Indels: 29
0.79 0.07 0.14
Matches are distributed among these distances:
154 1 0.01
156 3 0.02
157 10 0.06
158 13 0.08
159 78 0.48
160 12 0.07
161 2 0.01
162 10 0.06
163 8 0.05
164 7 0.04
165 14 0.09
166 3 0.02
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (153 bp):
AAATATTAATATTTTAATTAATTTTTATTATTAATATTAAATGTTATTATGATTATTTATTTTTA
TTTAAGTTTATCTTTTAAATATTAATAATTTATAATTGATTGAAAATATTAATAATATATTATTT
AAATATTAATATTTTATTGATAA
Found at i:37302987 original size:51 final size:51
Alignment explanation
Indices: 37302891--37302993 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 51
37302881 AATTTATAAT
*
37302891 TGATTGAAAATATTAATAATTGGTAATTTAATTTATAATTTAAATATTATTA
1 TGATTGAAAATATTAATAATTGGTAATTTAATTTATAATTAAAATATT-TTA
*
37302943 TGATT-AAAATATTAATAATT-GTAA-TTAATTTTTAAATTCAAAATATTTTA
1 TGATTGAAAATATTAATAATTGGTAATTTAATTTAT-AATT-AAAATATTTTA
37302993 T
1 T
37302994 AATATATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
49 8 0.17
50 12 0.26
51 22 0.47
52 5 0.11
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.49
Consensus pattern (51 bp):
TGATTGAAAATATTAATAATTGGTAATTTAATTTATAATTAAAATATTTTA
Found at i:37303101 original size:15 final size:17
Alignment explanation
Indices: 37303081--37303117 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
37303071 TAAATTTCAC
37303081 TTAATA-ATTTAAAA-A
1 TTAATATATTTAAAATA
*
37303096 TTAATATTTTTAAAATA
1 TTAATATATTTAAAATA
37303113 TTAAT
1 TTAAT
37303118 TTTTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 7 0.37
17 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATATTTAAAATA
Found at i:37303122 original size:15 final size:16
Alignment explanation
Indices: 37303088--37303121 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
37303078 CACTTAATAA
37303088 TTTAAAAATTAATATT
1 TTTAAAAATTAATATT
37303104 TTTAAAATATTAAT-TT
1 TTTAAAA-ATTAATATT
37303120 TT
1 TT
37303122 ATTTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAAAATTAATATT
Found at i:37303182 original size:27 final size:29
Alignment explanation
Indices: 37303143--37303196 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
37303133 AAAAATATGG
* *
37303143 AATATTAATATTTTTTAATTTTAATTTAA
1 AATATTAATATTTTATAAATTTAATTTAA
37303172 AATATT-A-ATTTTATAAATTTAATTT
1 AATATTAATATTTTATAAATTTAATTT
37303197 GTAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 1 0.04
29 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
AATATTAATATTTTATAAATTTAATTTAA
Found at i:37315772 original size:21 final size:21
Alignment explanation
Indices: 37315742--37315791 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
37315732 AACATGAAGA
37315742 TCAT-AATTCATAGACGCAAG
1 TCATAAATTCATAGACGCAAG
*
37315762 TCATAAATTCATAGACGTAAG
1 TCATAAATTCATAGACGCAAG
37315783 TCATAAATT
1 TCATAAATT
37315792 ATTGATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (21 bp):
TCATAAATTCATAGACGCAAG
Found at i:37330364 original size:19 final size:19
Alignment explanation
Indices: 37330327--37330369 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
37330317 TAGGGTAATT
*
37330327 AATTTCTTGGTGAAGTGAA
1 AATTTATTGGTGAAGTGAA
*
37330346 TATTTATTGGTG-AGATGAA
1 AATTTATTGGTGAAG-TGAA
37330365 AATTT
1 AATTT
37330370 TAAAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (19 bp):
AATTTATTGGTGAAGTGAA
Found at i:37349754 original size:6 final size:6
Alignment explanation
Indices: 37349745--37349770 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37349735 TGCTTAATAG
37349745 TAATTT TAATTT TAATTT TAATTT TA
1 TAATTT TAATTT TAATTT TAATTT TA
37349771 TACAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:37352027 original size:2 final size:2
Alignment explanation
Indices: 37352014--37352070 Score: 89
Period size: 2 Copynumber: 28.5 Consensus size: 2
37352004 ACAAACCATG
*
37352014 TC TC TT TC TC TC TC TC TC TC TC NTC TC T- TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC -TC TC TC TC TC TC TC TC TC TC
37352056 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
37352071 ATATATATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 48 0.94
3 2 0.04
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:37360106 original size:207 final size:205
Alignment explanation
Indices: 37359744--37360155 Score: 546
Period size: 207 Copynumber: 2.0 Consensus size: 205
37359734 TAACAAGCAA
*
37359744 TAGAAAATTCAATTATGATATCGTCCAATGAACAAAAAGCCTGAAACTGTGAAGTTAATCACTAC
1 TAGAAAATTCAATTATGATATCGTCCAA-GAACAAAAAACCTGAAACTGTGAAGTTAATCACTAC
* * * * *
37359809 TTTGGAACAAACGGTAACTTTTTATTCAGTTACACCTTATGCACAATGCTGCTCTCTCATTTCGA
65 TTTGGAACAAACAGAAACTTTTTATTCAGTTACACCTCATGCACAATGCTGCTATCTCATTTCAA
* * *
37359874 CAATAACAGAATAGATCGAAACCAGAGGAGAAAATAACTTCAAGCAAAGACCTAAACCTCATTTG
130 CAATAACAGAATAAATAGAAACCAGAGGAGAAAAT--CTTCAAGAAAAGACCTAAACCTCATTTG
37359939 AACAATAACACAC
193 AACAATAACACAC
* * *
37359952 TAGAAAATTGAATTATGATA-CAGTACCACA-AACAAAAAACCTGAAACTTTGAAGTT-ATCATT
1 TAGAAAATTCAATTATGATATC-GT-CCA-AGAACAAAAAACCTGAAACTGTGAAGTTAATCACT
* *
37360014 ACTTTGGAACAAATAGAAATTTTTTA-TCAAGTTACACCTCATGCACAATGCTGCTATCTCATTT
63 ACTTTGGAACAAACAGAAACTTTTTATTC-AGTTACACCTCATGCACAATGCTGCTATCTCATTT
* * * * *
37360078 CAACAATAACCA-AATAAATAGCAACCAGAGGAGGAAATGTTCAAGAAAAGACCTAGATCTCATT
127 CAACAATAA-CAGAATAAATAGAAACCAGAGGAGAAAATCTTCAAGAAAAGACCTAAACCTCATT
37360142 TGAACAATAACACA
191 TGAACAATAACACA
37360156 AGAAAAGACT
Statistics
Matches: 180, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
205 36 0.20
206 2 0.01
207 91 0.51
208 47 0.26
209 3 0.02
210 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (205 bp):
TAGAAAATTCAATTATGATATCGTCCAAGAACAAAAAACCTGAAACTGTGAAGTTAATCACTACT
TTGGAACAAACAGAAACTTTTTATTCAGTTACACCTCATGCACAATGCTGCTATCTCATTTCAAC
AATAACAGAATAAATAGAAACCAGAGGAGAAAATCTTCAAGAAAAGACCTAAACCTCATTTGAAC
AATAACACAC
Found at i:37363408 original size:2 final size:2
Alignment explanation
Indices: 37363401--37363442 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
37363391 AAAGTTGAGA
37363401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37363443 GCCTTTAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37366224 original size:3 final size:3
Alignment explanation
Indices: 37366204--37366241 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
37366194 CCATAACTTT
* *
37366204 TTA TTC TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37366242 TTAATTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:37366672 original size:14 final size:15
Alignment explanation
Indices: 37366655--37366685 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37366645 TTCATATAAT
37366655 ATATTTT-TTAAAAA
1 ATATTTTATTAAAAA
37366669 ATATTTTATTAAAAA
1 ATATTTTATTAAAAA
37366684 AT
1 AT
37366686 TTAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTTTATTAAAAA
Found at i:37385667 original size:54 final size:54
Alignment explanation
Indices: 37385609--37385733 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 54
37385599 ACCTCCACGT
*
37385609 CCAGCACCATCTGCAGTATCCT-CTCAGCCACCAGC-ATCTGCAGTT-CCTACTCAG
1 CCAGCACCATCTGCACT-TCCTGCTCAGCCACCA-CAATCTGCAGTTCCCT-CTCAG
* * ** *
37385663 CCAGCGCAATCTGTTCTTCCTGCTCAGCCACCACAATCTGCAGTTCCCTGTCAG
1 CCAGCACCATCTGCACTTCCTGCTCAGCCACCACAATCTGCAGTTCCCTCTCAG
* *
37385717 CCATCACCATCTACACT
1 CCAGCACCATCTGCACT
37385734 CCCCACTCAA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
53 5 0.09
54 48 0.86
55 3 0.05
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (54 bp):
CCAGCACCATCTGCACTTCCTGCTCAGCCACCACAATCTGCAGTTCCCTCTCAG
Found at i:37385728 original size:27 final size:26
Alignment explanation
Indices: 37385613--37385728 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 26
37385603 CCACGTCCAG
37385613 CACCATCTGCAGTATCCTCTCAGCCAC
1 CACCATCTGCAGT-TCCTCTCAGCCAC
* *
37385640 CAGCATCTGCAGTTCCTACTCAGCCAG
1 CACCATCTGCAGTTCCT-CTCAGCCAC
* * ***
37385667 CGCAATCTGTTCTTCCTGCTCAGCCAC
1 CACCATCTGCAGTTCCT-CTCAGCCAC
* * *
37385694 CACAATCTGCAGTTCCCTGTCAGCCAT
1 CACCATCTGCAGTT-CCTCTCAGCCAC
37385721 CACCATCT
1 CACCATCT
37385729 ACACTCCCCA
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
26 4 0.06
27 63 0.90
28 3 0.04
ACGTcount: A:0.21, C:0.41, G:0.14, T:0.25
Consensus pattern (26 bp):
CACCATCTGCAGTTCCTCTCAGCCAC
Found at i:37385853 original size:24 final size:24
Alignment explanation
Indices: 37385826--37385873 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37385816 CCACCAGTAC
*
37385826 GAAAAGAAGATATTCCATCTGTTA
1 GAAAAGAAGATATTCCAACTGTTA
* *
37385850 GAAATGAAGATGTTCCAACTGTTA
1 GAAAAGAAGATATTCCAACTGTTA
37385874 TTGCTTCTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (24 bp):
GAAAAGAAGATATTCCAACTGTTA
Found at i:37431171 original size:2 final size:2
Alignment explanation
Indices: 37431164--37431193 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37431154 TCTGAATTCA
37431164 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37431194 GTATCACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:37432750 original size:22 final size:23
Alignment explanation
Indices: 37432714--37432756 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37432704 TATATGTAAT
37432714 TTATACATAAACATTATTATAAC
1 TTATACATAAACATTATTATAAC
* *
37432737 TTATA-ATAGACATTTTTATA
1 TTATACATAAACATTATTATA
37432757 TGATTACACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (23 bp):
TTATACATAAACATTATTATAAC
Found at i:37432827 original size:219 final size:220
Alignment explanation
Indices: 37432470--37432992 Score: 637
Period size: 219 Copynumber: 2.4 Consensus size: 220
37432460 AATTGTATAA
* *
37432470 ATATATTATATATATTTAATTTATACA-AAAGTATTTTTTATAACTTATAATAAAACTTTATTTT
1 ATATA-TACATATATTTAATTTATACATAAA-TA-TTATTATAACTTATAAT-AAAC-TT-TTTT
* * ** *
37432534 ATATAATTACACTTAATAACTTTATTAGTTATCACTTTAGTTTTTTATAACATATTGTTTATAAT
60 ATATAATTACACTTAATAAATTTATTAGTTATCACCTTAGAATTTTATAACATATTATTTATAAT
* * ** * * *
37432599 TAATTATTATTTATACAAATTTTGATATAAAACATTATAACA-TATAAGTTGTATCATTAATTTC
125 TAATTATTATTTATACAAACTTTGATATAAAA-ATTAAAACATTATAACATATA-AATT-ATGTC
*
37432663 A-TATATAT-AAATATATAATAAAGTAATATA-TT
187 ATTA-ATATCAAATATAGAATAAAGTAATATATTT
* * * * *
37432695 ATATATACATATATGTAATTTATACATAAACATTATTATAACTTATAATAGACATTTTTATATGA
1 ATATATACATATATTTAATTTATACATAAATATTATTATAACTTATAATAAACTTTTTTATATAA
*
37432760 TTACACTTAATAAATTTATTAGTTATCACCTTA-AATTTTATAACATATTATTTATAATTAGTTA
66 TTACACTTAATAAATTTATTAGTTATCACCTTAGAATTTTATAACATATTATTTATAATTAATTA
* *
37432824 TTATTTATACAAACTTTGATATAAAAATTAAAATATTATAACATATAAATTATGTCATTAATTTC
131 TTATTTATACAAACTTTGATATAAAAATTAAAACATTATAACATATAAATTATGTCATTAATATC
* *
37432889 ATATTTAGAATAAAGTAATATATTT
196 AAATATAGAATAAAGTAATATATTT
* *
37432914 ATATATACATATATTTAATTTAT-CTATAAATATTGTTATAATTTATAATAAACTTTATTTATAT
1 ATATATACATATATTTAATTTATAC-ATAAATATTATTATAACTTATAATAAACTTT-TTTATAT
*
37432978 TATTACACTTAATAA
64 AATTACACTTAATAA
37432993 TTATGTGAGT
Statistics
Matches: 259, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
217 8 0.03
218 32 0.12
219 110 0.42
220 61 0.24
221 1 0.00
222 3 0.01
223 16 0.06
224 20 0.08
225 8 0.03
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (220 bp):
ATATATACATATATTTAATTTATACATAAATATTATTATAACTTATAATAAACTTTTTTATATAA
TTACACTTAATAAATTTATTAGTTATCACCTTAGAATTTTATAACATATTATTTATAATTAATTA
TTATTTATACAAACTTTGATATAAAAATTAAAACATTATAACATATAAATTATGTCATTAATATC
AAATATAGAATAAAGTAATATATTT
Found at i:37432934 original size:21 final size:23
Alignment explanation
Indices: 37432910--37432965 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
37432900 AAAGTAATAT
*
37432910 ATTTATATATACATA-TATT-TA
1 ATTTATATATAAATATTATTATA
* *
37432931 ATTTATCTATAAATATTGTTATA
1 ATTTATATATAAATATTATTATA
37432954 ATTTATA-ATAAA
1 ATTTATATATAAA
37432966 CTTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 13 0.45
22 8 0.28
23 8 0.28
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTTATATATAAATATTATTATA
Found at i:37436181 original size:26 final size:25
Alignment explanation
Indices: 37436123--37436184 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
37436113 TTTTTAAATG
37436123 AATAAAAAAATTAATACAAGTTATT
1 AATAAAAAAATTAATACAAGTTATT
* *
37436148 TATAAAAAAATTATTAACAAG-TATT
1 AATAAAAAAATTAAT-ACAAGTTATT
37436173 AATTGAAAAAAA
1 AA-T-AAAAAAA
37436185 AAACATGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 18 0.58
26 6 0.19
27 7 0.23
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (25 bp):
AATAAAAAAATTAATACAAGTTATT
Found at i:37437406 original size:92 final size:90
Alignment explanation
Indices: 37437301--37437478 Score: 241
Period size: 92 Copynumber: 2.0 Consensus size: 90
37437291 CGTTACACAC
* * **
37437301 GTTATGATTAATTCATTACGTGAACGTGTGAAA-GATAAGAATTGAACAATTAATATTTTTTTTT
1 GTTATAATTAATTCATTACGTGAACGTG-CAAAGGATAAGAATTGAACAATTAATA--AATTTTT
* *
37437365 GTCGTTGTTATCGTTTCACTACATATAT
63 ATCGTTGTTAACGTTTCACTACATATAT
* *
37437393 GTTATAATTAATTCATTACGTGAACGTGCAAAGGATAAGAGTTGAACAATTGATAAATTTTTATC
1 GTTATAATTAATTCATTACGTGAACGTGCAAAGGATAAGAATTGAACAATTAATAAATTTTTATC
*
37437458 GTTGTTAACGTTTCGCTACAT
66 GTTGTTAACGTTTCACTACAT
37437479 TCATAATGAC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
90 26 0.34
91 3 0.04
92 47 0.62
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (90 bp):
GTTATAATTAATTCATTACGTGAACGTGCAAAGGATAAGAATTGAACAATTAATAAATTTTTATC
GTTGTTAACGTTTCACTACATATAT
Found at i:37438040 original size:13 final size:13
Alignment explanation
Indices: 37438022--37438047 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37438012 TAATAATACG
37438022 ATAAGAACATTAA
1 ATAAGAACATTAA
37438035 ATAAGAACATTAA
1 ATAAGAACATTAA
37438048 TCTTAATCAT
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
ATAAGAACATTAA
Found at i:37444782 original size:45 final size:45
Alignment explanation
Indices: 37444716--37444802 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
37444706 AAGGTTTAAG
*
37444716 TATTCAAAGTAGCCATCTCTAGTATAAAGATCGAGACCTATTCCA
1 TATTCAAAGTAGCCATCTCTAGCATAAAGATCGAGACCTATTCCA
* * *
37444761 TATTCACAGTAGCCATTTCTAGCATAAAGATCGAGACTTATT
1 TATTCAAAGTAGCCATCTCTAGCATAAAGATCGAGACCTATT
37444803 TGATTTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (45 bp):
TATTCAAAGTAGCCATCTCTAGCATAAAGATCGAGACCTATTCCA
Found at i:37450405 original size:20 final size:21
Alignment explanation
Indices: 37450380--37450436 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
37450370 ATACTCTTAT
37450380 TTTTTTATATTATAAAATT-A
1 TTTTTTATATTATAAAATTAA
** *
37450400 TTTTTTATAAAAAAAAATTAA
1 TTTTTTATATTATAAAATTAA
* *
37450421 ATATTTATATTATAAA
1 TTTTTTATATTATAAA
37450437 TAATATAAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTTTATATTATAAAATTAA
Found at i:37458021 original size:19 final size:20
Alignment explanation
Indices: 37457997--37458034 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37457987 AAAGCACGTT
37457997 CAACTAAT-CCATAATTAAG
1 CAACTAATACCATAATTAAG
*
37458016 CAACTAATATCATAATTAA
1 CAACTAATACCATAATTAA
37458035 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (20 bp):
CAACTAATACCATAATTAAG
Found at i:37467785 original size:25 final size:25
Alignment explanation
Indices: 37467751--37467803 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
37467741 GGAATGATTC
37467751 ATTTGTTAGCAAGCTGTTCCACCTT
1 ATTTGTTAGCAAGCTGTTCCACCTT
37467776 ATTTGTTAGCAAGCTGTTCCACCTT
1 ATTTGTTAGCAAGCTGTTCCACCTT
37467801 ATT
1 ATT
37467804 ACATACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (25 bp):
ATTTGTTAGCAAGCTGTTCCACCTT
Found at i:37470515 original size:2 final size:2
Alignment explanation
Indices: 37470508--37470532 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37470498 AAAAATTAGC
37470508 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
37470533 CATACGCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37470689 original size:2 final size:2
Alignment explanation
Indices: 37470682--37470708 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37470672 CATATGCCAC
37470682 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
37470709 CCTACTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37472423 original size:20 final size:21
Alignment explanation
Indices: 37472395--37472455 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 21
37472385 CTATTGCAGC
*
37472395 ATAGCTAGATATTAATGAAGG
1 ATAGATAGATATTAATGAAGG
* * * *
37472416 ATA-ATAGAT-CTATTGCAGC
1 ATAGATAGATATTAATGAAGG
*
37472435 ATAGCTAGATATTAATGAAGG
1 ATAGATAGATATTAATGAAGG
37472456 CCAACGTACC
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
19 9 0.32
20 10 0.36
21 9 0.32
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (21 bp):
ATAGATAGATATTAATGAAGG
Found at i:37472429 original size:40 final size:40
Alignment explanation
Indices: 37472374--37472455 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
37472364 GCCAAAATAT
37472374 GGATAATAGATCTATTGCAGCATAGCTAGATATTAATGAA
1 GGATAATAGATCTATTGCAGCATAGCTAGATATTAATGAA
37472414 GGATAATAGATCTATTGCAGCATAGCTAGATATTAATGAA
1 GGATAATAGATCTATTGCAGCATAGCTAGATATTAATGAA
37472454 GG
1 GG
37472456 CCAACGTACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (40 bp):
GGATAATAGATCTATTGCAGCATAGCTAGATATTAATGAA
Found at i:37487911 original size:6 final size:6
Alignment explanation
Indices: 37487896--37487927 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
37487886 TTGTTTCATT
*
37487896 TCCATA TCCATC TCCATC TCCATC TCCATC TC
1 TCCATC TCCATC TCCATC TCCATC TCCATC TC
37487928 TCACTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.47, G:0.00, T:0.34
Consensus pattern (6 bp):
TCCATC
Found at i:37491836 original size:2 final size:2
Alignment explanation
Indices: 37491829--37491872 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
37491819 CAGGTTTTGG
* *
37491829 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37491871 TA
1 TA
37491873 AATAAGAGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:37492394 original size:2 final size:2
Alignment explanation
Indices: 37492387--37492416 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37492377 CTTCCTCTTC
37492387 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
37492417 TGTTCTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:37495537 original size:87 final size:87
Alignment explanation
Indices: 37495391--37495564 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
37495381 GATGTGTTGT
37495391 TCCTTCCTTGCTCCCTTGGAACTCGAAAGAAAGCTTTGTCTCCTCCTTGTTCATAGCCCTGACTA
1 TCCTTCCTTGCTCCCTTGGAACTCGAAAGAAAGCTTTGTCTCCTCCTTGTTCATAGCCCTGACTA
37495456 ACCCTTTCATTCTCTAGAATCA
66 ACCCTTTCATTCTCTAGAATCA
37495478 TCCTTCCTTGCTCCCTTGGAACTCGAAAGAAAGCTTTGTCTCCTCCTTGTTCATAGCCCTGACTA
1 TCCTTCCTTGCTCCCTTGGAACTCGAAAGAAAGCTTTGTCTCCTCCTTGTTCATAGCCCTGACTA
37495543 ACCCTTTCATTCTCTAGAATCA
66 ACCCTTTCATTCTCTAGAATCA
37495565 CCCCATGTTC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (87 bp):
TCCTTCCTTGCTCCCTTGGAACTCGAAAGAAAGCTTTGTCTCCTCCTTGTTCATAGCCCTGACTA
ACCCTTTCATTCTCTAGAATCA
Found at i:37495903 original size:2 final size:2
Alignment explanation
Indices: 37495896--37495929 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
37495886 TGTTAACATA
37495896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37495930 GTATTTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37519338 original size:2 final size:2
Alignment explanation
Indices: 37519331--37519367 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37519321 GTACGTATGC
37519331 AT AT AT AT 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 AT AT AT AT A
37519368 ATACAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37523051 original size:32 final size:32
Alignment explanation
Indices: 37523010--37523072 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
37523000 CATATCTTAC
37523010 TCGAAACCATCCATCTGACAATTACCTTTATG
1 TCGAAACCATCCATCTGACAATTACCTTTATG
37523042 TCGAAACCATCCATCTGACAATTACCTTTAT
1 TCGAAACCATCCATCTGACAATTACCTTTAT
37523073 ATAAAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (32 bp):
TCGAAACCATCCATCTGACAATTACCTTTATG
Found at i:37537923 original size:611 final size:611
Alignment explanation
Indices: 37536760--37537946 Score: 2338
Period size: 611 Copynumber: 1.9 Consensus size: 611
37536750 ACGTCACGAC
37536760 AGTAGGTAAATAAGAAACTTGAATTTGATACAAAGATACAGTCATAGATCTCCACACTTGGTTAC
1 AGTAGGTAAATAAGAAACTTGAATTTGATACAAAGATACAGTCATAGATCTCCACACTTGGTTAC
*
37536825 AATAGTATTAAGGACCAAAACCGAAAAGGGACACACACAATAATTTATGCATGATCATTTTGTAT
66 AATAGTATTAAGGACCAAAACCGAAAAGGGACACACACAATAATTGATGCATGATCATTTTGTAT
*
37536890 ATACTAAAAATTTTAATTTTATTTGAATATTTAATTCAGTGATTGATATGTGATCATTCGATTTA
131 ATACTAAAAAATTTAATTTTATTTGAATATTTAATTCAGTGATTGATATGTGATCATTCGATTTA
37536955 AAAAGTAAAATTCGAATTTTCTTTCTCAATTTCTATTATGATAAAAACCTCAAGAAAATATGTCT
196 AAAAGTAAAATTCGAATTTTCTTTCTCAATTTCTATTATGATAAAAACCTCAAGAAAATATGTCT
*
37537020 CGATCAATCTAATTATTAAAAGTCTAGTTAGTAAAGGTATTATAATGTATTATGTGATGATGAGA
261 CGATCAATCTAATTATTAAAAGTCTAGCTAGTAAAGGTATTATAATGTATTATGTGATGATGAGA
37537085 AGTTGACAAATGCCAACAAAATCAAGAATGGTAGCTAGATTTTGCATCATAACATGTGGTTGGTG
326 AGTTGACAAATGCCAACAAAATCAAGAATGGTAGCTAGATTTTGCATCATAACATGTGGTTGGTG
37537150 GTAGGTTAAAGAAAAGTATGCATGTTTTAATGTGGTAAACGAGTAATTTGATGTGAGGTTGTAGC
391 GTAGGTTAAAGAAAAGTATGCATGTTTTAATGTGGTAAACGAGTAATTTGATGTGAGGTTGTAGC
*
37537215 TGCCAAACCAAAATTCCCAACTTGGGGTTTTGAATGTTTCCAATTGAAAATGAAGAGTTAATGCG
456 TGCCAAACCAAAACTCCCAACTTGGGGTTTTGAATGTTTCCAATTGAAAATGAAGAGTTAATGCG
37537280 AGATGGGTCAAACCCAAACCTTATTGGCTAAGTAAAGTTTGTATTATATATTTAATGAGATTGAA
521 AGATGGGTCAAACCCAAACCTTATTGGCTAAGTAAAGTTTGTATTATATATTTAATGAGATTGAA
37537345 ATACATATCTAGATTCTATGGCATGA
586 ATACATATCTAGATTCTATGGCATGA
37537371 AGTAGGTAAATAAGAAACTTGAATTTGATACAAAGATACAGTCATAGATCTCCACACTTGGTTAC
1 AGTAGGTAAATAAGAAACTTGAATTTGATACAAAGATACAGTCATAGATCTCCACACTTGGTTAC
37537436 AATAGTATTAAGGACCAAAACCGAAAAGGGACACACACAATAATTGATGCATGATCATTTTGTAT
66 AATAGTATTAAGGACCAAAACCGAAAAGGGACACACACAATAATTGATGCATGATCATTTTGTAT
37537501 ATACTAAAAAATTTAATTTTATTTGAATATTTAATTCAGTGATTGATATGTGATCATTCGATTTA
131 ATACTAAAAAATTTAATTTTATTTGAATATTTAATTCAGTGATTGATATGTGATCATTCGATTTA
37537566 AAAAGTAAAATTCGAATTTTCTTTCTCAATTTCTATTATGATAAAAACCTCAAGAAAATATGTCT
196 AAAAGTAAAATTCGAATTTTCTTTCTCAATTTCTATTATGATAAAAACCTCAAGAAAATATGTCT
37537631 CGATCAATCTAATTATTAAAAGTCTAGCTAGTAAAGGTATTATAATGTATTATGTGATGATGAGA
261 CGATCAATCTAATTATTAAAAGTCTAGCTAGTAAAGGTATTATAATGTATTATGTGATGATGAGA
37537696 AGTTGACAAATGCCAACAAAATCAAGAATGGTAGCTAGATTTTGCATCATAACATGTGGTTGGTG
326 AGTTGACAAATGCCAACAAAATCAAGAATGGTAGCTAGATTTTGCATCATAACATGTGGTTGGTG
37537761 GTAGGTTAAAGAAAAGTATGCATGTTTTAATGTGGTAAACGAGTAATTTGATGTGAGGTTGTAGC
391 GTAGGTTAAAGAAAAGTATGCATGTTTTAATGTGGTAAACGAGTAATTTGATGTGAGGTTGTAGC
37537826 TGCCAAACCAAAACTCCCAACTTGGGGTTTTGAATGTTTCCAATTGAAAATGAAGAGTTAATGCG
456 TGCCAAACCAAAACTCCCAACTTGGGGTTTTGAATGTTTCCAATTGAAAATGAAGAGTTAATGCG
37537891 AGATGGGTCAAACCCAAACCTTATTGGCTAAGTAAAGTTTGTATTATATATTTAAT
521 AGATGGGTCAAACCCAAACCTTATTGGCTAAGTAAAGTTTGTATTATATATTTAAT
37537947 TATGAAGCTA
Statistics
Matches: 572, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
611 572 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (611 bp):
AGTAGGTAAATAAGAAACTTGAATTTGATACAAAGATACAGTCATAGATCTCCACACTTGGTTAC
AATAGTATTAAGGACCAAAACCGAAAAGGGACACACACAATAATTGATGCATGATCATTTTGTAT
ATACTAAAAAATTTAATTTTATTTGAATATTTAATTCAGTGATTGATATGTGATCATTCGATTTA
AAAAGTAAAATTCGAATTTTCTTTCTCAATTTCTATTATGATAAAAACCTCAAGAAAATATGTCT
CGATCAATCTAATTATTAAAAGTCTAGCTAGTAAAGGTATTATAATGTATTATGTGATGATGAGA
AGTTGACAAATGCCAACAAAATCAAGAATGGTAGCTAGATTTTGCATCATAACATGTGGTTGGTG
GTAGGTTAAAGAAAAGTATGCATGTTTTAATGTGGTAAACGAGTAATTTGATGTGAGGTTGTAGC
TGCCAAACCAAAACTCCCAACTTGGGGTTTTGAATGTTTCCAATTGAAAATGAAGAGTTAATGCG
AGATGGGTCAAACCCAAACCTTATTGGCTAAGTAAAGTTTGTATTATATATTTAATGAGATTGAA
ATACATATCTAGATTCTATGGCATGA
Found at i:37539255 original size:2 final size:2
Alignment explanation
Indices: 37539248--37539276 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37539238 GTATACATAC
37539248 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
37539277 ATAAAATAGT
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:37539911 original size:160 final size:165
Alignment explanation
Indices: 37539543--37539959 Score: 469
Period size: 160 Copynumber: 2.5 Consensus size: 165
37539533 TATACGAAAC
* * * * *
37539543 ATAATTATATATACGTGTAAATATTGTGAAATGTATTGATTACAA--AAATTAATGAAGAGAA-T
1 ATAATTATATATACGTGTAAATATTATAAAATATATTGACTA-AACGAAATTAATGAA-AAAAGT
* * * *
37539605 TGAATTCGTTGTGTAATTATAATTCTTGAATTTAAATAATTTTATCAAAATTTATTATTGGGTAC
64 TGAATTTGTTGTGTAATTATAATTCTTAAATTT--AT-ATTTTATCAAAATTCATTACTGGGTAC
*
37539670 AATTATCACTAATGCTCACATATATGAGATCTAATCATTA
126 AATTATCACTAATACTCACATATATGAGATCTAATCATTA
* *
37539710 A-AATTTATATATACGTGTAAATATTACGAACA-ATATTGACTAAACGAAATTAATGAAAAAAGT
1 ATAA-TTATATATACGTGTAAATATTA-TAAAATATATTGACTAAACGAAATTAATGAAAAAAGT
** * *
37539773 TGAATTTGCCGTGCAATTATAATTCTTAAATTT-T-TTTTAT-AAGAATTCATTACT-GGTCCAA
64 TGAATTTGTTGTGTAATTATAATTCTTAAATTTATATTTTATCAA-AATTCATTACTGGGTACAA
* ** *
37539834 TTATCATTCGTACTCACATATATGAG-T-TAATTATTA
128 TTATCACTAATACTCACATATATGAGATCTAATCATTA
* * **
37539870 ATAATTATATATACATGTAAATATTATAAAATATATTGACTAAACGAAATTAATGAAAAGAGCCG
1 ATAATTATATATACGTGTAAATATTATAAAATATATTGACTAAACGAAATTAATGAAAAAAGTTG
37539935 AATTTGTTGTGTAATTATAATTCTT
66 AATTTGTTGTGTAATTATAATTCTT
37539960 GAACCTAATA
Statistics
Matches: 213, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
159 3 0.01
160 82 0.38
161 3 0.01
162 30 0.14
163 15 0.07
165 1 0.00
166 4 0.02
167 33 0.15
168 42 0.20
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (165 bp):
ATAATTATATATACGTGTAAATATTATAAAATATATTGACTAAACGAAATTAATGAAAAAAGTTG
AATTTGTTGTGTAATTATAATTCTTAAATTTATATTTTATCAAAATTCATTACTGGGTACAATTA
TCACTAATACTCACATATATGAGATCTAATCATTA
Found at i:37547403 original size:123 final size:123
Alignment explanation
Indices: 37547225--37547463 Score: 281
Period size: 123 Copynumber: 1.9 Consensus size: 123
37547215 TAATGCGGCC
* * * * *
37547225 CCATCAGGAATTTCTTCAGATGAAGGTGCTTCAGCTGAGCCCAGGTTCTCCTGACCTTCACCA-G
1 CCATCAGGAACTTCTACAGATGAAGGTGCTTCAGATGAGACCAGGTCCTCCTGACCTTCA-CAGG
* * * *
37547289 AAATGGCAATCAGAGGTTCTC-CTAAGGGAACCTGCC-CATCAA-CTTTCCTTAAATTGGTT
65 AAATGACAATCACAGATTCTCTC-AAGGGAACAT-CCTCATCAATCTTT-CTTAAATTGGTT
** *
37547348 CCATCAGGAACTTCTACAGATGAAGGTGCTTCCA-ATGAGATGAGGTCCTCTTGACCTTCACAGG
1 CCATCAGGAACTTCTACAGATGAAGGTGCTT-CAGATGAGACCAGGTCCTCCTGACCTTCACAGG
*
37547412 AAATGACAGTCACAGATTCTCTCAAGGGAACATCCTCATCAATCTTTCTTAA
65 AAATGACAATCACAGATTCTCTCAAGGGAACATCCTCATCAATCTTTCTTAA
37547464 TGAGTCTCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
122 4 0.04
123 87 0.89
124 7 0.07
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (123 bp):
CCATCAGGAACTTCTACAGATGAAGGTGCTTCAGATGAGACCAGGTCCTCCTGACCTTCACAGGA
AATGACAATCACAGATTCTCTCAAGGGAACATCCTCATCAATCTTTCTTAAATTGGTT
Found at i:37552914 original size:17 final size:19
Alignment explanation
Indices: 37552881--37552915 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
37552871 CAACATTTGA
37552881 AGGGATTGATCCACAACAT
1 AGGGATTGATCCACAACAT
37552900 AGGGA-TGAT-CACAACA
1 AGGGATTGATCCACAACA
37552916 CTGCCAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (19 bp):
AGGGATTGATCCACAACAT
Found at i:37566153 original size:30 final size:30
Alignment explanation
Indices: 37566119--37566188 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
37566109 TTTCAACAGC
37566119 TAGAAGCTCTCCTCGATCTGGTCAAACTGG
1 TAGAAGCTCTCCTCGATCTGGTCAAACTGG
37566149 TAGAAGCTCTCCTCGATCTGGTCAAACTGG
1 TAGAAGCTCTCCTCGATCTGGTCAAACTGG
37566179 TAGAAGCTCT
1 TAGAAGCTCT
37566189 ACAAATTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (30 bp):
TAGAAGCTCTCCTCGATCTGGTCAAACTGG
Found at i:37568479 original size:19 final size:17
Alignment explanation
Indices: 37568457--37568512 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 17
37568447 TATAAGATAA
37568457 TAATAATTATAATTTAC
1 TAATAATTATAATTTAC
37568474 ATTAATTAA-TATAATTTAC
1 --TAA-TAATTATAATTTAC
37568493 TAATAATTA-AATTTA-
1 TAATAATTATAATTTAC
37568508 TAATA
1 TAATA
37568513 TGAAATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.14
16 9 0.26
17 5 0.14
19 13 0.37
20 3 0.09
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATTATAATTTAC
Found at i:37568526 original size:25 final size:24
Alignment explanation
Indices: 37568497--37568550 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
37568487 ATTTACTAAT
* *
37568497 AATTAAATTTATAATATGAAATAAA
1 AATTAAAATTAAAATAT-AAATAAA
*
37568522 CATTAAAATTAAAATATAAATAAA
1 AATTAAAATTAAAATATAAATAAA
37568546 AATTA
1 AATTA
37568551 GAGTAACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTAAAATTAAAATATAAATAAA
Found at i:37572390 original size:17 final size:16
Alignment explanation
Indices: 37572351--37572394 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
37572341 CGATACAAAC
*
37572351 AAAAAAAAAACAAATT
1 AAAAAAAATACAAATT
37572367 AAGAAAAAATACAAAATT
1 AA-AAAAAATAC-AAATT
*
37572385 TAAAAAAATA
1 AAAAAAAATA
37572395 ATTATATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 16 0.67
18 6 0.25
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAAAAAATACAAATT
Found at i:37576461 original size:18 final size:19
Alignment explanation
Indices: 37576440--37576475 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37576430 TGTTTAGCGA
*
37576440 AAAATATT-TTTTTAAAAT
1 AAAATATTCATTTTAAAAT
37576458 AAAATATTCATTTTAAAA
1 AAAATATTCATTTTAAAA
37576476 ATTAATAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATATTCATTTTAAAAT
Found at i:37577642 original size:16 final size:16
Alignment explanation
Indices: 37577621--37577663 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
37577611 TTTTTCCTTG
37577621 ATTTCTCCCTTTACTC
1 ATTTCTCCCTTTACTC
*
37577637 ATTTCT-CCTTTTCTC
1 ATTTCTCCCTTTACTC
37577652 -TTCTCTCCCTTT
1 ATT-TCTCCCTTT
37577664 TGCTCTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 11 0.46
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTCTCCCTTTACTC
Found at i:37577664 original size:16 final size:15
Alignment explanation
Indices: 37577622--37577669 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
37577612 TTTTCCTTGA
*
37577622 TTTCTCCCTTTACTC
1 TTTCTCCCTTTTCTC
37577637 ATTTCT-CCTTTTCTC
1 -TTTCTCCCTTTTCTC
37577652 TTCTCTCCCTTTTGCTC
1 TT-TCTCCCTTTT-CTC
37577669 T
1 T
37577670 CTTTTCACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 11 0.39
16 11 0.39
17 4 0.14
ACGTcount: A:0.04, C:0.38, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTCTCCCTTTTCTC
Found at i:37580492 original size:129 final size:129
Alignment explanation
Indices: 37580257--37580505 Score: 426
Period size: 129 Copynumber: 1.9 Consensus size: 129
37580247 CGGTCACTGT
*
37580257 AGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGGTAACCCAATTATATATTTACCTC
1 AGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGGTAACCCAATTATATACTTACCTC
* *
37580322 CGGGGGGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTTGAATGCGCCTCACAGTCATTGC
66 CGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTCACAGTCATTGC
*
37580386 AGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGTACGGTAACCCAATTATATACTTACCTC
1 AGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGGTAACCCAATTATATACTTACCTC
* * * *
37580451 TGGGGGGAGATGTTGGGTGAAGTATCTCCTGAGGTATGATTTGAGTGCACCTCAC
66 CGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTCAC
37580506 GTTCGGGCCA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 112 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.28
Consensus pattern (129 bp):
AGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGGTAACCCAATTATATACTTACCTC
CGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTCACAGTCATTGC
Found at i:37581531 original size:24 final size:24
Alignment explanation
Indices: 37581504--37581561 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
37581494 AAAAAATATT
* *
37581504 TTAGTAATTAAGGAATTAATTAAA
1 TTAGTAATTAAGAAATAAATTAAA
*
37581528 TTAGTTATTAAGAAATAAATTAAA
1 TTAGTAATTAAGAAATAAATTAAA
*
37581552 TAAGTAATTA
1 TTAGTAATTA
37581562 GATAATATTT
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:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (24 bp):
TTAGTAATTAAGAAATAAATTAAA
Found at i:37583772 original size:25 final size:25
Alignment explanation
Indices: 37583718--37583772 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
37583708 ATTCACTAAT
*
37583718 AATTAAAACTATAATACAAAATAAA
1 AATTAAAACTAAAATACAAAATAAA
* * *
37583743 CATTAAAATTAAAATA-TAAATAAGA
1 AATTAAAACTAAAATACAAAATAA-A
37583768 AATTA
1 AATTA
37583773 GAATAAAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (25 bp):
AATTAAAACTAAAATACAAAATAAA
Found at i:37584314 original size:29 final size:29
Alignment explanation
Indices: 37584251--37584307 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
37584241 GAGGTGAACA
*
37584251 AGAATAGGTACAAGAGAAGAAGCTGTACG
1 AGAATAGGTACAAGAAAAGAAGCTGTACG
* *
37584280 AGAATAGGTACAAGAAAATAAGTTGTAC
1 AGAATAGGTACAAGAAAAGAAGCTGTAC
37584308 ATGAATAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.18
Consensus pattern (29 bp):
AGAATAGGTACAAGAAAAGAAGCTGTACG
Found at i:37584605 original size:35 final size:35
Alignment explanation
Indices: 37584554--37584664 Score: 107
Period size: 35 Copynumber: 3.2 Consensus size: 35
37584544 CTTATTCTAA
* * *
37584554 TTGTTCTACTTTAAGTAGTACTTCACTTGTTATAG
1 TTGTTCTACGTGAAGTAGCACTTCACTTGTTATAG
* * * * *
37584589 TTGTTCTGCGTGAAGTAACGCTTCACTTGTTCTAA
1 TTGTTCTACGTGAAGTAGCACTTCACTTGTTATAG
* * *
37584624 TTATTATACGTGAAATAGCACTTCACTTGTTCA-AG
1 TTGTTCTACGTGAAGTAGCACTTCACTTGTT-ATAG
37584659 TTGTTC
1 TTGTTC
37584665 CCTGTACAAC
Statistics
Matches: 57, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.43
Consensus pattern (35 bp):
TTGTTCTACGTGAAGTAGCACTTCACTTGTTATAG
Found at i:37584606 original size:70 final size:70
Alignment explanation
Indices: 37584532--37584664 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 70
37584522 TTCCATATGG
* * * * * * * *
37584532 AGTAATGCTTTACTTATTCTAATTGTTCTACTTTAAGTAGTACTTCACTTGTT-ATAGTTGTTCT
1 AGTAACGCTTCACTTATTCTAATTATTATACGTGAAATAGCACTTCACTTGTTCA-AGTTGTTCT
37584596 GCGTGA
65 GCGTGA
*
37584602 AGTAACGCTTCACTTGTTCTAATTATTATACGTGAAATAGCACTTCACTTGTTCAAGTTGTTC
1 AGTAACGCTTCACTTATTCTAATTATTATACGTGAAATAGCACTTCACTTGTTCAAGTTGTTC
37584665 CCTGTACAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 52 0.98
71 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (70 bp):
AGTAACGCTTCACTTATTCTAATTATTATACGTGAAATAGCACTTCACTTGTTCAAGTTGTTCTG
CGTGA
Found at i:37584921 original size:13 final size:13
Alignment explanation
Indices: 37584903--37584928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37584893 ATAATTTTCA
37584903 AAACAAAAATTAT
1 AAACAAAAATTAT
37584916 AAACAAAAATTAT
1 AAACAAAAATTAT
37584929 TTTAAAATTA
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACAAAAATTAT
Found at i:37584973 original size:23 final size:22
Alignment explanation
Indices: 37584943--37584986 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
37584933 AAATTATCTA
*
37584943 AAATAATAATTTA-AATAATTAT
1 AAATAAT-ATTCATAATAATTAT
37584965 AAATAAATATTCATAATAATTA
1 AAAT-AATATTCATAATAATTA
37584987 AATTTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATAATATTCATAATAATTAT
Found at i:37606415 original size:20 final size:20
Alignment explanation
Indices: 37606378--37606433 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
37606368 ATGATGTCTA
37606378 TTTATATAAATTTATATTTT
1 TTTATATAAATTTATATTTT
*
37606398 TTTAT-TTAATTT-T-TTATT
1 TTTATATAAATTTATATT-TT
*
37606416 TTTATTTAAATTTATATT
1 TTTATATAAATTTATATT
37606434 AAAACAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 8 0.27
19 12 0.40
20 6 0.20
21 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATATAAATTTATATTTT
Found at i:37606433 original size:18 final size:18
Alignment explanation
Indices: 37606378--37606433 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
37606368 ATGATGTCTA
*
37606378 TTTATATAAATTTATATTTT
1 TTTATTTAAATTTATA--TT
* *
37606398 TTTATTTAATTTTTTATT
1 TTTATTTAAATTTATATT
37606416 TTTATTTAAATTTATATT
1 TTTATTTAAATTTATATT
37606434 AAAACAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 18 0.58
20 13 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAAATTTATATT
Found at i:37610017 original size:94 final size:95
Alignment explanation
Indices: 37609842--37610020 Score: 281
Period size: 94 Copynumber: 1.9 Consensus size: 95
37609832 ACAAAAGAAT
*
37609842 GTTGAATTTGATATATGCTACATGTGTAAGGATGTAACATTGGTATTTCACTTGCAATCATAGGG
1 GTTGAATTTGA-AGATGCTACATGTGTAAGGATGTAACATTGGTATTTCACTTGCAATCATAGGG
* *
37609907 ACTCATGGGCCACTATGTCTAGCATTTGAAA
65 ACTCATAGCCCACTATGTCTAGCATTTGAAA
*
37609938 GTTGAATTTG-AGATGCTATATGTGTAAGGATGTAACATT-GTAATTTCACTTGCAATCATAGGG
1 GTTGAATTTGAAGATGCTACATGTGTAAGGATGTAACATTGGT-ATTTCACTTGCAATCATAGGG
*
37610001 ATTCATAGCCCACTATGTCT
65 ACTCATAGCCCACTATGTCT
37610021 CTATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
93 2 0.03
94 65 0.84
96 10 0.13
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (95 bp):
GTTGAATTTGAAGATGCTACATGTGTAAGGATGTAACATTGGTATTTCACTTGCAATCATAGGGA
CTCATAGCCCACTATGTCTAGCATTTGAAA
Found at i:37610466 original size:6 final size:6
Alignment explanation
Indices: 37610455--37610479 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37610445 CAAATGAAAA
37610455 GAAAGG GAAAGG GAAAGG GAAAGG G
1 GAAAGG GAAAGG GAAAGG GAAAGG G
37610480 GGTGGCTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAAAGG
Found at i:37610683 original size:3 final size:3
Alignment explanation
Indices: 37610677--37610708 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
37610667 GAAAAAAAGA
37610677 AAG AAG AAG AAG AAG AAG AAG AAG AAGG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG A
37610709 GGAGGAGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37611676 original size:3 final size:3
Alignment explanation
Indices: 37611668--37611693 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37611658 TTTTATACAT
37611668 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
37611694 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37619306 original size:20 final size:20
Alignment explanation
Indices: 37619231--37619307 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
37619221 CAACTTCTCC
*
37619231 ATTATTAATGA-TCGATTTAT
1 ATTATTAAT-ATTAGATTTAT
37619251 ATTATATAA-ATTAG-TTTAT
1 ATTAT-TAATATTAGATTTAT
* *
37619270 ATTCTTAATATAAGATTTAT
1 ATTATTAATATTAGATTTAT
*
37619290 ATTATTAATATTTGATTT
1 ATTATTAATATTAGATTT
37619308 TTTATATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.06
19 14 0.30
20 27 0.57
21 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (20 bp):
ATTATTAATATTAGATTTAT
Found at i:37620224 original size:20 final size:20
Alignment explanation
Indices: 37620149--37620225 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
37620139 CAACTTCTCC
*
37620149 ATTATTAATACTAGATTTAT
1 ATTATTAATATTAGATTTAT
*
37620169 ATTATATAA-ATTAG-TATAT
1 ATTAT-TAATATTAGATTTAT
* *
37620188 ATTTTTAATATAAGATTTAT
1 ATTATTAATATTAGATTTAT
*
37620208 ATTATTAATATTTGATTT
1 ATTATTAATATTAGATTT
37620226 TTTTCTATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.07
19 12 0.26
20 28 0.61
21 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.53
Consensus pattern (20 bp):
ATTATTAATATTAGATTTAT
Found at i:37620938 original size:18 final size:18
Alignment explanation
Indices: 37620915--37620950 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37620905 ACGTCGTCGG
* *
37620915 GGACTTCAGTTTCAAGCC
1 GGACTTCACTCTCAAGCC
37620933 GGACTTCACTCTCAAGCC
1 GGACTTCACTCTCAAGCC
37620951 TTCGAGAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (18 bp):
GGACTTCACTCTCAAGCC
Found at i:37628219 original size:18 final size:17
Alignment explanation
Indices: 37628196--37628230 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37628186 GGTTAAAATC
*
37628196 AAACTAAACTAAACTAAA
1 AAACTAAAATAAA-TAAA
37628214 AAACTAAAATAAATAAA
1 AAACTAAAATAAATAAA
37628231 TAAATAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACTAAAATAAATAAA
Found at i:37629826 original size:10 final size:10
Alignment explanation
Indices: 37629806--37629835 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
37629796 TATCTCGAGT
37629806 ATAAT-AATA
1 ATAATAAATA
37629815 ATAATAAATA
1 ATAATAAATA
37629825 ATAATAAATA
1 ATAATAAATA
37629835 A
1 A
37629836 AATTTTTNGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAATAAATA
Found at i:37629826 original size:13 final size:14
Alignment explanation
Indices: 37629808--37629836 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
37629798 TCTCGAGTAT
37629808 AATAATAAT-AATA
1 AATAATAATAAATA
37629821 AATAATAATAAATA
1 AATAATAATAAATA
37629835 AA
1 AA
37629837 ATTTTTNGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:37630115 original size:3 final size:3
Alignment explanation
Indices: 37630107--37630132 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37630097 TATCTCGAGT
37630107 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
37630133 TAAATTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37630314 original size:252 final size:259
Alignment explanation
Indices: 37629844--37630411 Score: 911
Period size: 252 Copynumber: 2.2 Consensus size: 259
37629834 AAAATTTTTN
*
37629844 GTATTATAATAATAATAATAATAGATAATAAAATTACAATTCAAATCTAAATATAAAAAATTCCC
1 GTATAATAATAATAATAATAATA-ATAATAAAATTACAATTCAAATCTAAATATAAAAAATTCCC
*
37629909 ATCAACAGGGAGACATCAACAGCTTTTCAAAAAATCACGTCCACGAGAAATTAGATAGCACATCC
65 ATCAACAGGGAGACAT--A-AGCTTTTCAAAAAATCACGTCCACAAGAAATTAGATAGCACATCC
37629974 AGATTGTAATAAATACACCAAATAATACAAACAATTTCATTATAATCAAAAACCCATAGTATTAG
127 AGATTGTAATAAATACACCAAATAATACAAACAATTTCATTATAATCAAAAACCCATAGTATTAG
* *
37630039 TATATTTTTTTTCAAATAAAAAAAATTAATATACTTAAATATTATCCCAATTCAATT-TTATC-T
192 TACATTTTCTTTCAAATAAAAAAAATTAATATACTTAAATATTATCCCAATTC-ATTCTTATCTT
37630102 C-GA
256 CTGA
*
37630105 GTATAATAATAATAATAATAATAATAATTAAATTACAATTCAAATCTAAATATAAAAAATTCCCA
1 GTATAATAATAATAATAATAATAATAATAAAATTACAATTCAAATCTAAATATAAAAAATTCCCA
*
37630170 TCAACA-GG-GA-AT-AGCTTTTC-AAAAATCACGTCCACAAGAAATTAGATAGCACATCCATAT
66 TCAACAGGGAGACATAAGCTTTTCAAAAAATCACGTCCACAAGAAATTAGATAGCACATCCAGAT
37630230 TGTAATAAATACACCAAATAATACAAACAATTTCATTATAATCAAAAACCCATAGTATTAGTACA
131 TGTAATAAATACACCAAATAATACAAACAATTTCATTATAATCAAAAACCCATAGTATTAGTACA
*
37630295 -TTTCTTTCAAATAAAAAAAATTAATATACTTAAATATTATCTCAATTCATTCTTATCTTATCTT
196 TTTTCTTTCAAATAAAAAAAATTAATATACTTAAATATTATCCCAATTCATTCTTATC-T-TC-T
37630359 GA
258 GA
* *
37630361 GTATAATAATAATAATAATAAAAATAAAAAAATTACAATTCAAAATCTAAA
1 GTATAATAATAATAATAATAATAATAATAAAATTACAATTC-AAATCTAAA
37630412 AGTACTAATT
Statistics
Matches: 290, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
250 3 0.01
251 51 0.18
252 102 0.35
253 8 0.03
254 2 0.01
256 40 0.14
257 11 0.04
258 2 0.01
259 2 0.01
260 47 0.16
261 22 0.08
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.31
Consensus pattern (259 bp):
GTATAATAATAATAATAATAATAATAATAAAATTACAATTCAAATCTAAATATAAAAAATTCCCA
TCAACAGGGAGACATAAGCTTTTCAAAAAATCACGTCCACAAGAAATTAGATAGCACATCCAGAT
TGTAATAAATACACCAAATAATACAAACAATTTCATTATAATCAAAAACCCATAGTATTAGTACA
TTTTCTTTCAAATAAAAAAAATTAATATACTTAAATATTATCCCAATTCATTCTTATCTTCTGA
Found at i:37678658 original size:2 final size:2
Alignment explanation
Indices: 37678651--37678675 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37678641 TTAAATCTGC
37678651 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 A
37678676 AAGGGACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37687729 original size:35 final size:36
Alignment explanation
Indices: 37687693--37687765 Score: 101
Period size: 39 Copynumber: 1.9 Consensus size: 36
37687683 CAATAATTTG
*
37687693 CTCAATTATCAATATCATACAAAAATACTTACTTGCTAA
1 CTCAATTATCAATACCATACAAAAATACTTACTTG---A
*
37687732 CTCAATTATCAATACCATACACAAATACTTACTT
1 CTCAATTATCAATACCATACAAAAATACTTACTT
37687766 TTTAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.33
Consensus pattern (36 bp):
CTCAATTATCAATACCATACAAAAATACTTACTTGA
Found at i:37689229 original size:3 final size:3
Alignment explanation
Indices: 37689221--37689246 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37689211 CCAAGGGGAG
37689221 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
37689247 GGAGGAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:37703019 original size:3 final size:3
Alignment explanation
Indices: 37703011--37703044 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
37703001 TTGGATTTCC
37703011 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
37703045 TCCCCTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:37713006 original size:21 final size:21
Alignment explanation
Indices: 37712982--37713050 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
37712972 AAATTTAATT
37712982 AATAATTTAATTTAAAATAAA
1 AATAATTTAATTTAAAATAAA
*
37713003 AATAA-TTATTTTTAAAATAAA
1 AATAATTTA-ATTTAAAATAAA
* *
37713024 ATTAAATTTTAATATAAAATTAAA
1 AAT-AA-TTTAATTTAAAA-TAAA
37713048 AAT
1 AAT
37713051 TGACAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.08
21 18 0.47
22 2 0.05
23 6 0.16
24 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTTAATTTAAAATAAA
Found at i:37713035 original size:18 final size:19
Alignment explanation
Indices: 37712992--37713047 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
37712982 AATAATTTAA
*
37712992 TTTAAAATAAAAATAATTATT
1 TTTAAAATAAAATTAA--ATT
37713013 TTTAAAATAAAATTAAA-T
1 TTTAAAATAAAATTAAATT
*
37713031 TTTAATATAAAATTAAA
1 TTTAAAATAAAATTAAA
37713048 AATTGACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 17 0.52
19 1 0.03
21 15 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAAAATAAAATTAAATT
Found at i:37715692 original size:19 final size:18
Alignment explanation
Indices: 37715655--37715715 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
37715645 ATCATATAAA
* *
37715655 TAAAAAAAATT-ATATTT
1 TAAATAAAATTAAAATTT
37715672 TAAATAATAATTAAAATTT
1 TAAATAA-AATTAAAATTT
* *
37715691 T-ATTAAAATTAAAACTT
1 TAAATAAAATTAAAATTT
*
37715708 TATATAAA
1 TAAATAAA
37715716 TATAATTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 17 0.49
18 12 0.34
19 6 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATAAAATTAAAATTT
Found at i:37715702 original size:17 final size:18
Alignment explanation
Indices: 37715670--37715715 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
37715660 AAAATTATAT
* *
37715670 TTTAAATAATAATTAAAAT
1 TTTATATAA-AATTAAAAC
37715689 TTTAT-TAAAATTAAAAC
1 TTTATATAAAATTAAAAC
37715706 TTTATATAAA
1 TTTATATAAA
37715716 TATAATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 13 0.54
18 7 0.29
19 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTATATAAAATTAAAAC
Found at i:37731686 original size:12 final size:12
Alignment explanation
Indices: 37731661--37731700 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
37731651 GGTTAATTAC
**
37731661 ATATATATAAAT
1 ATATATATTTAT
37731673 ATATATATTTAT
1 ATATATATTTAT
*
37731685 ATTTATATTTAT
1 ATATATATTTAT
37731697 ATAT
1 ATAT
37731701 TAAAGATGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATATATTTAT
Found at i:37735902 original size:2 final size:2
Alignment explanation
Indices: 37735895--37735964 Score: 76
Period size: 2 Copynumber: 35.5 Consensus size: 2
37735885 ATGGGCAATC
37735895 TA TA TA TA -A TA TA TA TA TA TA TA TA TA T- TA CTA -A TA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
*
37735936 TA -A TA TA TA TA TA TA TA TGC TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA T
37735965 GTGTGTGTGA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
1 4 0.07
2 50 0.85
3 5 0.08
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:37739621 original size:2 final size:2
Alignment explanation
Indices: 37739614--37739648 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37739604 TTACACCTTT
37739614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37739649 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37740439 original size:2 final size:2
Alignment explanation
Indices: 37740432--37740488 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
37740422 NNNNNNNNNN
37740432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37740474 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
37740489 TATTTGTTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37743923 original size:79 final size:79
Alignment explanation
Indices: 37743792--37744021 Score: 442
Period size: 79 Copynumber: 2.9 Consensus size: 79
37743782 TTTTAGCACA
37743792 TTTCTGCTGGTCTTAATGAACTATGCCTTAGTTTTTGTTTTTCCATTTTCGCAGCATCTGTTTTC
1 TTTCTGCTGGTCTTAATGAACTATGCCTTAGTTTTTGTTTTTCCATTTTCGCAGCATCTGTTTTC
37743857 CCACTTTATCCCAT
66 CCACTTTATCCCAT
*
37743871 TTTCTGCTGGTCTTAATAAACTATGCCTTAGTTTTTGTTTTTCCATTTTCGCAGCATCTGTTTTC
1 TTTCTGCTGGTCTTAATGAACTATGCCTTAGTTTTTGTTTTTCCATTTTCGCAGCATCTGTTTTC
37743936 CCACTTTATCCCAT
66 CCACTTTATCCCAT
*
37743950 TTTCTGCTGGTCTTAATGAACTATGCCTTAGTTTTTGTTTTTCTATTTTCGCAGCATCTGTTTTC
1 TTTCTGCTGGTCTTAATGAACTATGCCTTAGTTTTTGTTTTTCCATTTTCGCAGCATCTGTTTTC
37744015 CCACTTT
66 CCACTTT
37744022 CTCCTGTAGT
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 148 1.00
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.49
Consensus pattern (79 bp):
TTTCTGCTGGTCTTAATGAACTATGCCTTAGTTTTTGTTTTTCCATTTTCGCAGCATCTGTTTTC
CCACTTTATCCCAT
Found at i:37751526 original size:2 final size:2
Alignment explanation
Indices: 37751521--37751547 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37751511 GTGTGTGTGT
37751521 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
37751548 GAGGCTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37759751 original size:25 final size:25
Alignment explanation
Indices: 37759713--37759761 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
37759703 ATCTTCATTG
*
37759713 CCTTCCTTCGATCTTCATAATCTTA
1 CCTTCCTTCAATCTTCATAATCTTA
37759738 CCTTCCTTCAATCTTCATAATCTT
1 CCTTCCTTCAATCTTCATAATCTT
37759762 GTCTCGAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.33, G:0.02, T:0.45
Consensus pattern (25 bp):
CCTTCCTTCAATCTTCATAATCTTA
Found at i:37762227 original size:24 final size:24
Alignment explanation
Indices: 37762199--37762249 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
37762189 TTGACTATAC
* *
37762199 AAAAATTATTAAATACAATAATAAT
1 AAAAA-TATAAAATACAAAAATAAT
*
37762224 AAAAATATAAAATATAAAAATAAT
1 AAAAATATAAAATACAAAAATAAT
37762248 AA
1 AA
37762250 TAAAATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAATATAAAATACAAAAATAAT
Found at i:37763456 original size:79 final size:80
Alignment explanation
Indices: 37763307--37763495 Score: 206
Period size: 79 Copynumber: 2.4 Consensus size: 80
37763297 AAATTAGATT
* * * *
37763307 ATCAAATTTGAATTTTATCTCTATATTATCTTGATTTATTTAGAGATAAATTAGATAACCAATAA
1 ATCAAATTTAAATATTATCTCTAAATTATCTTCATTTATTTAGAGATAAATTAGATAACCAATAA
37763372 GTGAATTTTAATT-G
66 GTGAATTTTAATTGG
* * * * * * **
37763386 ATCAAATTTAAATATTATCTCTAAATTGTTTTCATTTATTTAGTGATAACTTGGATGATTAAT-A
1 ATCAAATTTAAATATTATCTCTAAATTATCTTCATTTATTTAGAGATAAATTAGATAACCAATAA
*
37763450 GCTGAATTTTTATTGG
66 G-TGAATTTTAATTGG
*
37763466 TTC-AA-TTAATATATTATCTCTAAATTATCT
1 ATCAAATTTAA-ATATTATCTCTAAATTATCT
37763496 CAAAAGATAA
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
78 6 0.07
79 82 0.90
80 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (80 bp):
ATCAAATTTAAATATTATCTCTAAATTATCTTCATTTATTTAGAGATAAATTAGATAACCAATAA
GTGAATTTTAATTGG
Found at i:37766568 original size:106 final size:107
Alignment explanation
Indices: 37766421--37766616 Score: 263
Period size: 106 Copynumber: 1.8 Consensus size: 107
37766411 ATAATTGGCT
* * * **
37766421 CTTTTGTACTTTGATTGCTAATGAAGAATACACTTGCATCTGCACTGAAATTTTGGTT-TCTCTC
1 CTTTTGTACCTTGATTGCTAATCAAGAATACACTCGCATCTGCACTGAAAACTTGGTTCTCTCTC
37766485 AGA-AAAAATGGGAGGATGAG-TCTTCCTGAATACGAATTCGG
66 A-ATAAAAATGGGAGGATGAGATCTTCCTGAATACGAATTCGG
* * * * *
37766526 CTTTCTGTACCTTGATTGCTACTCTAGAATAGACTCGTATCTGCATTGAAAACTTGGTTCTCTCT
1 CTTT-TGTACCTTGATTGCTAATCAAGAATACACTCGCATCTGCACTGAAAACTTGGTTCTCTCT
37766591 CAATAAAAATGGGAGGATGAGATCTT
65 CAATAAAAATGGGAGGATGAGATCTT
37766617 GTTGATGATT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
105 4 0.05
106 45 0.58
107 24 0.31
108 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (107 bp):
CTTTTGTACCTTGATTGCTAATCAAGAATACACTCGCATCTGCACTGAAAACTTGGTTCTCTCTC
AATAAAAATGGGAGGATGAGATCTTCCTGAATACGAATTCGG
Found at i:37767443 original size:37 final size:37
Alignment explanation
Indices: 37767378--37767465 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
37767368 AGAAGTTTTA
*
37767378 TTAAAGTCAGTTTACTTATCACGTTTAAGTTAGTAGAG
1 TTAAGGTCAGTTTA-TTATCACGTTTAAGTTAGTAGAG
* *
37767416 TTAAGGTCAGTTTATTATTACGTTTAAGTTAGTAGGG
1 TTAAGGTCAGTTTATTATCACGTTTAAGTTAGTAGAG
37767453 TT-AGGT-AGTTTAT
1 TTAAGGTCAGTTTAT
37767466 AAGTTTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 7 0.15
36 4 0.09
37 23 0.49
38 13 0.28
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (37 bp):
TTAAGGTCAGTTTATTATCACGTTTAAGTTAGTAGAG
Found at i:37768337 original size:80 final size:79
Alignment explanation
Indices: 37768244--37768397 Score: 299
Period size: 80 Copynumber: 1.9 Consensus size: 79
37768234 CTTTTATATT
37768244 TTTTTTTTCAATTTTAATTAATATATGATAAATTCTGTTGAAAACTTAAAAAAATACTGGATATG
1 TTTTTTTTCAATTTTAATTAATATATGATAAATTCTGTTGAAAACTTAAAAAAATACTGGATATG
37768309 TGATTTCTACTATA
66 TGATTTCTACTATA
37768323 TNTTTTTTTCAATTTTAATTAATATATGATAAATTCTGTTGAAAACTTAAAAAAATACTGGATAT
1 T-TTTTTTTCAATTTTAATTAATATATGATAAATTCTGTTGAAAACTTAAAAAAATACTGGATAT
37768388 GTGATTTCTA
65 GTGATTTCTA
37768398 TATCTAAAAG
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 1 0.01
80 73 0.99
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.45
Consensus pattern (79 bp):
TTTTTTTTCAATTTTAATTAATATATGATAAATTCTGTTGAAAACTTAAAAAAATACTGGATATG
TGATTTCTACTATA
Found at i:37784461 original size:14 final size:14
Alignment explanation
Indices: 37784442--37784474 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37784432 ATTCTTTGCT
37784442 TTTTAAATTT-TACC
1 TTTTAAATTTGTA-C
37784456 TTTTAAATTTGTAC
1 TTTTAAATTTGTAC
37784470 TTTTA
1 TTTTA
37784475 GCTTTGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTAAATTTGTAC
Found at i:37785948 original size:18 final size:20
Alignment explanation
Indices: 37785920--37785963 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37785910 ACAAGTCAAT
37785920 AAATATT-TTATATATATTAA
1 AAATATTATTA-ATATATTAA
*
37785940 AAATATTATTAATATTTTAA
1 AAATATTATTAATATATTAA
37785960 AAAT
1 AAAT
37785964 TAAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATATTATTAATATATTAA
Found at i:37785971 original size:21 final size:21
Alignment explanation
Indices: 37785947--37785987 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37785937 TAAAAATATT
*
37785947 ATTAATATTTTAAAAATTAAA
1 ATTAAAATTTTAAAAATTAAA
37785968 ATTAAAATTTTAAAAATTAA
1 ATTAAAATTTTAAAAATTAA
37785988 CCGAATCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAAAATTTTAAAAATTAAA
Found at i:37797962 original size:3 final size:3
Alignment explanation
Indices: 37797956--37797992 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
37797946 TTTTGTTAAG
37797956 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37797993 GTAAGAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:37798347 original size:15 final size:15
Alignment explanation
Indices: 37798291--37798344 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
37798281 TTCTCTCTAC
37798291 CCCTCTCTCTCCTC-
1 CCCTCTCTCTCCTCT
* *
37798305 CCC-CACGC-CCTCT
1 CCCTCTCTCTCCTCT
37798318 CCCTCTCTCTCCTCT
1 CCCTCTCTCTCCTCT
37798333 CCCTCTTCTCTC
1 CCCTC-TCTCTC
37798345 TCTTCGTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 4 0.12
13 6 0.19
14 6 0.19
15 10 0.31
16 6 0.19
ACGTcount: A:0.02, C:0.63, G:0.02, T:0.33
Consensus pattern (15 bp):
CCCTCTCTCTCCTCT
Found at i:37820698 original size:2 final size:2
Alignment explanation
Indices: 37820691--37820720 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
37820681 ACATAATTAA
*
37820691 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37820721 TGCTTTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37820985 original size:9 final size:9
Alignment explanation
Indices: 37820954--37820992 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
37820944 AGTTGCAATA
37820954 TTCTTTCATT
1 TTCTTTC-TT
37820964 TTCTTTC-T
1 TTCTTTCTT
37820972 TTCTTTCTT
1 TTCTTTCTT
*
37820981 TTCTTTATT
1 TTCTTTCTT
37820990 TTC
1 TTC
37820993 CCCTTATACC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 8 0.30
9 12 0.44
10 7 0.26
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:37823796 original size:21 final size:21
Alignment explanation
Indices: 37823770--37823810 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37823760 CATACCCGTA
37823770 TCCAGGATAACC-GGCCATGTG
1 TCCAGGATAACCAGG-CATGTG
*
37823791 TCCAGGGTAACCAGGCATGT
1 TCCAGGATAACCAGGCATGT
37823811 ATCCCGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (21 bp):
TCCAGGATAACCAGGCATGTG
Found at i:37825252 original size:3 final size:3
Alignment explanation
Indices: 37825244--37825295 Score: 59
Period size: 3 Copynumber: 16.0 Consensus size: 3
37825234 GCTGATGCTT
*
37825244 ATG ATG ATG ATAG ATG GTGG ATG ATGG ATG ATGG ATG ATG ATG ATG ATG
1 ATG ATG ATG AT-G ATG AT-G ATG AT-G ATG AT-G ATG ATG ATG ATG ATG
37825293 ATG
1 ATG
37825296 TATGGGATGC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 32 0.74
4 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:37825266 original size:7 final size:7
Alignment explanation
Indices: 37825244--37825295 Score: 65
Period size: 7 Copynumber: 7.9 Consensus size: 7
37825234 GCTGATGCTT
37825244 ATGAT-G
1 ATGATGG
*
37825250 ATGATAG
1 ATGATGG
*
37825257 ATGGTGG
1 ATGATGG
37825264 ATGATGG
1 ATGATGG
37825271 ATGATGG
1 ATGATGG
37825278 ATGAT-G
1 ATGATGG
37825284 ATGAT-G
1 ATGATGG
37825290 ATGATG
1 ATGATG
37825296 TATGGGATGC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
6 17 0.41
7 24 0.59
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (7 bp):
ATGATGG
Found at i:37825268 original size:17 final size:16
Alignment explanation
Indices: 37825244--37825292 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
37825234 GCTGATGCTT
37825244 ATGATGATGATAGATGG
1 ATGATGATGAT-GATGG
37825261 -TGGATGATGGATGATGG
1 AT-GATGAT-GATGATGG
37825278 ATGATGATGATGATG
1 ATGATGATGATGATG
37825293 ATGTATGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.28
17 17 0.59
18 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.39, T:0.31
Consensus pattern (16 bp):
ATGATGATGATGATGG
Found at i:37826682 original size:17 final size:16
Alignment explanation
Indices: 37826648--37826688 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
37826638 AAGAGGTGAA
*
37826648 TAAAACTTTTATTTTTT
1 TAAAA-TTTTATTATTT
37826665 TAAAATTTTAATTATTT
1 TAAAATTTT-ATTATTT
37826682 TAAAATT
1 TAAAATT
37826689 ATAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TAAAATTTTATTATTT
Found at i:37826695 original size:18 final size:17
Alignment explanation
Indices: 37826662--37826697 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37826652 ACTTTTATTT
*
37826662 TTTTAAAATTTTAATTA
1 TTTTAAAATTTAAATTA
37826679 TTTTAAAATTATAAATTA
1 TTTTAAAATT-TAAATTA
37826697 T
1 T
37826698 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAAATTTAAATTA
Found at i:37842442 original size:2 final size:2
Alignment explanation
Indices: 37842435--37842483 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
37842425 NNNNNNNNNN
37842435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37842477 AT AT AT A
1 AT AT AT A
37842484 AAAAGAAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37850083 original size:12 final size:12
Alignment explanation
Indices: 37850058--37850096 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
37850048 TCTGAATCTC
*
37850058 TCCA-CTATCAA
1 TCCATCTATCCA
37850069 TCCATCTATCCA
1 TCCATCTATCCA
*
37850081 TCCATCCATCCA
1 TCCATCTATCCA
37850093 TCCA
1 TCCA
37850097 CATCCCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (12 bp):
TCCATCTATCCA
Found at i:37850253 original size:3 final size:3
Alignment explanation
Indices: 37850247--37850273 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37850237 CAATGAAGAA
37850247 GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT
37850274 ACAGCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:37855093 original size:21 final size:21
Alignment explanation
Indices: 37855058--37855108 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
37855048 GTTACTTTTT
* *
37855058 ATCAAAAATAAAAAAAATTAA
1 ATCAAATATCAAAAAAATTAA
*
37855079 AT-AAATATCAAAAAAATTCA
1 ATCAAATATCAAAAAAATTAA
37855099 ATCAAATATC
1 ATCAAATATC
37855109 TCATAGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
ATCAAATATCAAAAAAATTAA
Found at i:37857711 original size:23 final size:25
Alignment explanation
Indices: 37857685--37857730 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
37857675 TATCAAAAAT
37857685 AAAAATAATTTT-ATA-AAAAAACC
1 AAAAATAATTTTAATATAAAAAACC
*
37857708 AAAAATATTTTTAATATAAAAAA
1 AAAAATAATTTTAATATAAAAAA
37857731 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 3 0.15
25 6 0.30
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAATAATTTTAATATAAAAAACC
Found at i:37857735 original size:23 final size:21
Alignment explanation
Indices: 37857679--37857741 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
37857669 AGTAATTATC
37857679 AAAAATAAAAATAATTTTATAA
1 AAAAAT-AAAATAATTTTATAA
* *
37857701 AAAAACCAAAAATATTTTTAATATA
1 AAAAA--TAAAATAATTTT-ATA-A
*
37857726 AAAAATAAAAAAATTT
1 AAAAATAAAATAATTT
37857742 AGAAAAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 5 0.16
23 18 0.56
24 3 0.09
25 6 0.19
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAAATAATTTTATAA
Found at i:37857735 original size:24 final size:22
Alignment explanation
Indices: 37857679--37857741 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 22
37857669 AGTAATTATC
*
37857679 AAAAATAAAAATAATTTTATAA
1 AAAAATAAAAATATTTTTATAA
*
37857701 AAAAACCAAAAATATTTTTAATATA
1 AAAAA-TAAAAATATTTTT-ATA-A
*
37857726 AAAAATAAAAAAATTT
1 AAAAATAAAAATATTT
37857742 AGAAAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.15
23 11 0.32
24 12 0.35
25 6 0.18
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAATAAAAATATTTTTATAA
Found at i:37858560 original size:22 final size:23
Alignment explanation
Indices: 37858532--37858598 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
37858522 ATATTATTAG
*
37858532 TAATTAAATTATTAATTTTATA-
1 TAATTAAATTATTAATTTTAAAT
*
37858554 TAATTAAATATATAAATTTATAAAT
1 TAATTAAAT-TATTAATTT-TAAAT
*
37858579 TAATTAAAATTACTAATTTT
1 TAATT-AAATTATTAATTTT
37858599 TTGATCATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 9 0.24
23 8 0.22
24 4 0.11
25 12 0.32
26 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTAAATTATTAATTTTAAAT
Found at i:37859128 original size:22 final size:23
Alignment explanation
Indices: 37859103--37859145 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
37859093 TATAAATAAT
37859103 AAAATTTTAATA-TATATTTTTA
1 AAAATTTTAATATTATATTTTTA
*
37859125 AAAATTTTTATATTATATTTT
1 AAAATTTTAATATTATATTTT
37859146 AATAGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
AAAATTTTAATATTATATTTTTA
Found at i:37865011 original size:22 final size:23
Alignment explanation
Indices: 37864986--37865029 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
37864976 TTATAAATAA
37864986 TAAAATTTTAATA-TATATTTTT
1 TAAAATTTTAATATTATATTTTT
*
37865008 TAAAATTTTTATATTATATTTT
1 TAAAATTTTAATATTATATTTT
37865030 AATAGATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAAAATTTTAATATTATATTTTT
Found at i:37868297 original size:56 final size:56
Alignment explanation
Indices: 37868231--37868343 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
37868221 TCAATGGTAG
37868231 TCAAGTCCTTCAGCAAGTTGCATACAATCATAACCAAACTGCCACCATATAGTCTA
1 TCAAGTCCTTCAGCAAGTTGCATACAATCATAACCAAACTGCCACCATATAGTCTA
37868287 TCAAGTCCTTCAGCAAGTTGCATACAATCATAACCAAACTGCCACCATATAGTCTA
1 TCAAGTCCTTCAGCAAGTTGCATACAATCATAACCAAACTGCCACCATATAGTCTA
37868343 T
1 T
37868344 GTAATTTCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (56 bp):
TCAAGTCCTTCAGCAAGTTGCATACAATCATAACCAAACTGCCACCATATAGTCTA
Found at i:37894132 original size:70 final size:70
Alignment explanation
Indices: 37894019--37894160 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
37894009 TAATAAGTAA
37894019 TATGTAAACGGGTGTGTGAGATTATTTAACCCGTTTAAGTAGAATTAGGTATTTTATAAACGGGC
1 TATGTAAACGGGTGTGTGAGATTATTTAACCCGTTTAAGTAGAATTAGGTATTTTATAAACGGGC
37894084 AAGAG
66 AAGAG
*
37894089 TATGTAAACGGGTGTGTGAGATTATTTAACCCGTTTAAGTAGAATTAGGTATTTTATAAACGGGT
1 TATGTAAACGGGTGTGTGAGATTATTTAACCCGTTTAAGTAGAATTAGGTATTTTATAAACGGGC
37894154 AAGAG
66 AAGAG
37894159 TA
1 TA
37894161 ACGTATGGGG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (70 bp):
TATGTAAACGGGTGTGTGAGATTATTTAACCCGTTTAAGTAGAATTAGGTATTTTATAAACGGGC
AAGAG
Found at i:37894326 original size:38 final size:41
Alignment explanation
Indices: 37894250--37894327 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 41
37894240 TTTTCTTGTT
*
37894250 TTTTAATACATATATATCTCTTATAATTAACAATTTATTTG
1 TTTTAATACATATATATATCTTATAATTAACAATTTATTTG
*
37894291 TTTTAATATATA-ATATATC-TA-AATCTAA-AATTTATTT
1 TTTTAATACATATATATATCTTATAAT-TAACAATTTATTT
37894328 TAAATTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 12 0.35
39 5 0.15
40 6 0.18
41 11 0.32
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (41 bp):
TTTTAATACATATATATATCTTATAATTAACAATTTATTTG
Found at i:37898820 original size:16 final size:16
Alignment explanation
Indices: 37898799--37898833 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
37898789 ACCATGACTC
37898799 CATGAGGTGTACAAAG
1 CATGAGGTGTACAAAG
37898815 CATGAGGTGTACAAAG
1 CATGAGGTGTACAAAG
37898831 CAT
1 CAT
37898834 AGATCTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (16 bp):
CATGAGGTGTACAAAG
Done.