Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 39 of 131
Found at i:12779931 original size:17 final size:19
Alignment explanation
Indices: 12779897--12779933 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12779887 TAAAATGGCC
12779897 CATAATATATATTATTTTA
1 CATAATATATATTATTTTA
12779916 CATAATATA-ATT-TTTTA
1 CATAATATATATTATTTTA
12779933 C
1 C
12779934 TTCTAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (19 bp):
CATAATATATATTATTTTA
Found at i:12784028 original size:20 final size:18
Alignment explanation
Indices: 12783986--12784029 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
12783976 CCAGAAACAG
*
12783986 AAGAGGAAAAGATATTGA
1 AAGAAGAAAAGATATTGA
*
12784004 AAGAAGAAATAGATAATTTA
1 AAGAAGAAA-AGAT-ATTGA
12784024 AAGAAG
1 AAGAAG
12784030 GAGCTTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 4 0.18
20 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.18
Consensus pattern (18 bp):
AAGAAGAAAAGATATTGA
Found at i:12786139 original size:32 final size:32
Alignment explanation
Indices: 12786098--12786172 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
12786088 ATCTTGAAAG
12786098 TATATCAAACACCAATACAACAATTAACAAAT
1 TATATCAAACACCAATACAACAATTAACAAAT
12786130 TATATCAAACACCAATACAACAATTAACAAAT
1 TATATCAAACACCAATACAACAATTAACAAAT
* *
12786162 TAGATAAAACA
1 TATATCAAACA
12786173 AGAACCAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.57, C:0.20, G:0.01, T:0.21
Consensus pattern (32 bp):
TATATCAAACACCAATACAACAATTAACAAAT
Found at i:12786819 original size:10 final size:10
Alignment explanation
Indices: 12786784--12786827 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
12786774 TTCACATCCT
12786784 TCTCTC-AAC
1 TCTCTCAAAC
12786793 TCTCTCAAAC
1 TCTCTCAAAC
*
12786803 TCCCTCAAAC
1 TCTCTCAAAC
*
12786813 TTTCTC-AAC
1 TCTCTCAAAC
12786822 TCTCTC
1 TCTCTC
12786828 GTTTTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (10 bp):
TCTCTCAAAC
Found at i:12799138 original size:267 final size:266
Alignment explanation
Indices: 12798648--12799186 Score: 970
Period size: 267 Copynumber: 2.0 Consensus size: 266
12798638 GAGTACTTTG
* * *
12798648 AGGATCGTACCCAAGGGATACGAGTACTAGGTTGATTCTAAACCTAAGCACAAATAGATCTAATT
1 AGGATCGAACCCAAGGGATACGAGTACTAGGTTAATTCCAAACCTAAGCACAAATAGATCTAATT
12798713 AGTACTTTAGATAGATTATATTATGATGAAATATTAAGAAAGGTTTTTGGGATTTTTAATAATAA
66 AGTACTTTAGATAGATTATATTATGATGAAATATTAAGAAAGGTTTTTGGGATTTTTAATAATAA
*
12798778 AAAGAAAAGAATAAGTAACGAGAAATTAAATAATAGAATTTGTAAAATTTGAGCATGGGTGATTA
131 AAAGAAAAGAATAAGTAACGAGAAATTAAATAATAGAATTTGTAAAATTTGAGCAAGGGTGATTA
*
12798843 GCTCGCTTCGGTAATCATAACAAACTGTCACTTTAGGTTTTCTTATTCAATCAACTAGTCGATAC
196 GCTCGCTTCGGTAATCATAACAAACTGTCACTTTAGGGTTTCTTATTCAATCAACTAGTCGATAC
*
12798908 CCTAGA
261 CCCAGA
*
12798914 AGGATCGAAACCCAAGGGATGCGAGTACTAGGTTAATTCCAAACCTAAGCACAAATAGATCTAAT
1 AGGATCG-AACCCAAGGGATACGAGTACTAGGTTAATTCCAAACCTAAGCACAAATAGATCTAAT
12798979 TAGTACTTTAGATAGATTATATTATGATGAAATATTAAGAAAGGTTTTTGGGATTTTTAATAATA
65 TAGTACTTTAGATAGATTATATTATGATGAAATATTAAGAAAGGTTTTTGGGATTTTTAATAATA
*
12799044 AAAATAAAAGAATAAGTAACGAGAAATTAAATAATAGAATTTGTAAAATTTGAGCAAGGGTGATT
130 AAAAGAAAAGAATAAGTAACGAGAAATTAAATAATAGAATTTGTAAAATTTGAGCAAGGGTGATT
* * *
12799109 AGCTCGCTTTGGTAATCATAACCAACTGTCACTTTAGGGTTTCTTATTCAATCAGCTAGTCGATA
195 AGCTCGCTTCGGTAATCATAACAAACTGTCACTTTAGGGTTTCTTATTCAATCAACTAGTCGATA
12799174 CCCCAGA
260 CCCCAGA
12799181 AGGATC
1 AGGATC
12799187 TTTCGATCTT
Statistics
Matches: 261, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
266 7 0.03
267 254 0.97
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (266 bp):
AGGATCGAACCCAAGGGATACGAGTACTAGGTTAATTCCAAACCTAAGCACAAATAGATCTAATT
AGTACTTTAGATAGATTATATTATGATGAAATATTAAGAAAGGTTTTTGGGATTTTTAATAATAA
AAAGAAAAGAATAAGTAACGAGAAATTAAATAATAGAATTTGTAAAATTTGAGCAAGGGTGATTA
GCTCGCTTCGGTAATCATAACAAACTGTCACTTTAGGGTTTCTTATTCAATCAACTAGTCGATAC
CCCAGA
Found at i:12815558 original size:99 final size:100
Alignment explanation
Indices: 12815386--12815584 Score: 373
Period size: 99 Copynumber: 2.0 Consensus size: 100
12815376 TCATATGCAT
12815386 TAAAGACTATCAAAAAAGAGCCTAATTGATTAAAATTATTTTAGCTAATATGGAAACCAACCAAC
1 TAAAGACTATCAAAAAAGAGCCTAATTGATTAAAATTATTTTAGCTAATATGGAAACCAACCAAC
12815451 CAACCAAACACCCTTACGGCACCCGTGCAAAGTCA
66 CAACCAAACACCCTTACGGCACCCGTGCAAAGTCA
12815486 TAAAGACTAT-AAAAAAGAGCCTAATTGATTAAAATTATTTTAGCTAATATGGAAACCAACCAAC
1 TAAAGACTATCAAAAAAGAGCCTAATTGATTAAAATTATTTTAGCTAATATGGAAACCAACCAAC
* *
12815550 CAACCAAACACCCTTACGGCACCCGTTCCAAGTCA
66 CAACCAAACACCCTTACGGCACCCGTGCAAAGTCA
12815585 AGAAACATGG
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
99 87 0.90
100 10 0.10
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.22
Consensus pattern (100 bp):
TAAAGACTATCAAAAAAGAGCCTAATTGATTAAAATTATTTTAGCTAATATGGAAACCAACCAAC
CAACCAAACACCCTTACGGCACCCGTGCAAAGTCA
Found at i:12824616 original size:15 final size:15
Alignment explanation
Indices: 12824587--12824629 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
12824577 ACTTTGAGTC
*
12824587 GAAAAAATGATGAAAAT
1 GAAAAAATG--GAAAAA
12824604 GAAAAAATGGAAAAA
1 GAAAAAATGGAAAAA
*
12824619 GTAAAAATGGA
1 GAAAAAATGGA
12824630 GAGGCTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.62
17 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (15 bp):
GAAAAAATGGAAAAA
Found at i:12825961 original size:44 final size:44
Alignment explanation
Indices: 12825890--12826475 Score: 709
Period size: 44 Copynumber: 13.6 Consensus size: 44
12825880 GGTAAAACTA
*
12825890 TAAGTCATATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * *
12825934 TAAGTCCTATCTCCCTGAGCAGTAGTGGAATAGGTGGAAGACTA
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
*
12825978 TAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTGGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* *
12826022 CAAGTCCTATCTCCCTGAACTA-CAGTGGAATAGATGGAAGATTG
1 TAAGTCCTATCTCCCTGAAC-AGCAGTGGAATAGGTGGAAGATTG
* *
12826066 TAAGTCCTATCTCCCTAAACAGCAGTAGAATAGGTGG-A-A--G
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* *
12826106 ---G---TATCTCCCTGAATAGTAGTGGAATAGGTGGAATG-TTG
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAA-GATTG
* *
12826144 TAAGTCCTATCTCCCTGAACAACAATGGAATAGGTGGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * * * *
12826188 TAAGTCCTATCTCTCTGAACAACAGTGGAATAAGTGGAAAACTA
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * *
12826232 TAAGTTCTATCTCTCTGAACAGCAGTGGAATAGGTGGATTG-TTC
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGA-AGATTG
* * * *
12826276 TAAGTCCTATCACCCTGAACAACAGTGGAGTAGGTGGAAGATTA
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* **
12826320 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTGGAAGGCTG
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
12826364 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * *
12826408 TAAGTCCTATATCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
*
12826452 T-AGATCCTGTCTCCCT-AA-AGCAGT
1 TAAG-TCCTATCTCCCTGAACAGCAGT
12826476 AGTGAACAAA
Statistics
Matches: 464, Mismatches: 61, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
34 26 0.06
35 1 0.00
37 1 0.00
38 1 0.00
40 1 0.00
41 1 0.00
42 7 0.02
43 7 0.02
44 418 0.90
45 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
Found at i:12826131 original size:34 final size:34
Alignment explanation
Indices: 12826073--12826138 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
12826063 TTGTAAGTCC
12826073 TATCTCCCTAAACAGCAGTAGAATAGGTGGAAGG
1 TATCTCCCTAAACAGCAGTAGAATAGGTGGAAGG
* * * *
12826107 TATCTCCCTGAATAGTAGTGGAATAGGTGGAA
1 TATCTCCCTAAACAGCAGTAGAATAGGTGGAA
12826139 TGTTGTAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (34 bp):
TATCTCCCTAAACAGCAGTAGAATAGGTGGAAGG
Found at i:12826158 original size:78 final size:78
Alignment explanation
Indices: 12826029--12826183 Score: 224
Period size: 78 Copynumber: 2.0 Consensus size: 78
12826019 TTGCAAGTCC
* *
12826029 TATCTCCCTGAACTACAGTGGAATAGATGGAAGATTGTAAGTCCTATCTCCCTAAACAGCAGTAG
1 TATCTCCCTGAACTACAGTGGAATAGATGGAAGATTGTAAGTCCTATCTCCCTAAACAACAATAG
12826094 AATAGGTGGAAGG
66 AATAGGTGGAAGG
* * *
12826107 TATCTCCCTGAA-TAGTAGTGGAATAGGTGGAATG-TTGTAAGTCCTATCTCCCTGAACAACAAT
1 TATCTCCCTGAACTA-CAGTGGAATAGATGGAA-GATTGTAAGTCCTATCTCCCTAAACAACAAT
*
12826170 GGAATAGGTGGAAG
64 AGAATAGGTGGAAG
12826184 ATTGTAAGTC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 2 0.03
78 66 0.96
79 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (78 bp):
TATCTCCCTGAACTACAGTGGAATAGATGGAAGATTGTAAGTCCTATCTCCCTAAACAACAATAG
AATAGGTGGAAGG
Found at i:12828030 original size:14 final size:14
Alignment explanation
Indices: 12828013--12828043 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12828003 TTTCGTTCCA
12828013 TTATTTATTTTATT
1 TTATTTATTTTATT
*
12828027 TTATTTATTTTCTT
1 TTATTTATTTTATT
12828041 TTA
1 TTA
12828044 AATTTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTATTTTATT
Found at i:12837164 original size:16 final size:16
Alignment explanation
Indices: 12837145--12837175 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12837135 ATCAATGAAA
12837145 TGAAAATTCAAAATTT
1 TGAAAATTCAAAATTT
12837161 TGAAAATTCAAAATT
1 TGAAAATTCAAAATT
12837176 CAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (16 bp):
TGAAAATTCAAAATTT
Found at i:12839784 original size:24 final size:22
Alignment explanation
Indices: 12839745--12839801 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
12839735 CGAGGATATA
12839745 CAATCTT--AGATATGATATATG
1 CAATCTTAAAGATATGAT-TATG
*
12839766 CAATCTTAGAAGATATGATTTTG
1 CAATCTTA-AAGATATGATTATG
*
12839789 TAATCTTAAAGAT
1 CAATCTTAAAGAT
12839802 TTAATTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 7 0.23
22 5 0.16
23 10 0.32
24 9 0.29
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
CAATCTTAAAGATATGATTATG
Found at i:12839811 original size:21 final size:23
Alignment explanation
Indices: 12839752--12839811 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
12839742 ATACAATCTT
* *
12839752 AGATATGATATATGCAATCTTAGA
1 AGATATGA-ATTTGTAATCTTAGA
*
12839776 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
12839798 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
12839812 GATACCCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 10 0.32
24 8 0.26
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:12845560 original size:8 final size:8
Alignment explanation
Indices: 12845538--12845580 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
12845528 TTGAGTCAAA
12845538 AAAAAATG
1 AAAAAATG
**
12845546 ACGAAATG
1 AAAAAATG
12845554 AAAAAATG
1 AAAAAATG
12845562 -AAAAATG
1 AAAAAATG
12845569 -AAAAATG
1 AAAAAATG
12845576 AAAAA
1 AAAAA
12845581 GTAAAATGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 14 0.47
8 16 0.53
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:12845572 original size:6 final size:7
Alignment explanation
Indices: 12845539--12845580 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
12845529 TGAGTCAAAA
12845539 AAAAATG
1 AAAAATG
*
12845546 ACGAAATG
1 A-AAAATG
12845554 AAAAAATG
1 -AAAAATG
12845562 AAAAATG
1 AAAAATG
12845569 AAAAATG
1 AAAAATG
12845576 AAAAA
1 AAAAA
12845581 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 20 0.65
8 10 0.32
9 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:12847129 original size:132 final size:132
Alignment explanation
Indices: 12846849--12847195 Score: 423
Period size: 132 Copynumber: 2.6 Consensus size: 132
12846839 GTCAAACACT
* * * * *
12846849 AAGCCTTGTCTCCCTGAGTAACAGCAGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGCCTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * * *
12846914 TAGTAGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTAGGAAGTAGATTTAAGCCA
66 TAGTGGAGTAGATTGAAGACAGCAAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAACCA
12846979 CC
131 CC
*
12846981 AAGCCTTGCCTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAACCAG
1 AAGCCTTGCCTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
12847046 TAGTGGAGAAGATTGAAGACAGCAAATCTTATCTTTCCAAGATAGT-GAGAAGCAGATTTAAACC
66 TAGTGGAGTAGATTGAAGACAGCAAATCTTATCTTTCCAAGATAGTAG-GAAGCAGATTTAAACC
12847110 ACC
130 ACC
* * * * * * * *
12847113 AAGCCTTATCCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTT-AAG-TCTTATCTCCCTGAAG
1 AAGCCTT-GCCTCCCTG-AGTAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT-AAG
**
12847175 TTGTAGTGGAGTAGATTGAAG
63 CAGTAGTGGAGTAGATTGAAG
12847196 CACGAATTCC
Statistics
Matches: 186, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
131 13 0.07
132 150 0.81
133 23 0.12
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
AAGCCTTGCCTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGTAGATTGAAGACAGCAAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAACCA
CC
Found at i:12847147 original size:45 final size:44
Alignment explanation
Indices: 12847096--12847191 Score: 106
Period size: 43 Copynumber: 2.2 Consensus size: 44
12847086 GATAGTGAGA
12847096 AGCAGATTTAAACCACCAAGCCTTATC-CTCCTGAAGTTGCAGTGG
1 AGCAGATTTAAACC-CCAAGCCTTATCTC-CCTGAAGTTGCAGTGG
* ** * *
12847141 AGCAGA-TTAAAGCTTAAGTCTTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTTAAACCCCAAGCCTTATCTCCCTGAAGTTGCAGTGG
*
12847184 AGTAGATT
1 AGCAGATT
12847192 GAAGCACGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 29 0.67
44 8 0.19
45 6 0.14
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
AGCAGATTTAAACCCCAAGCCTTATCTCCCTGAAGTTGCAGTGG
Found at i:12847427 original size:19 final size:19
Alignment explanation
Indices: 12847399--12847462 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
12847389 AATTTTCGAG
* *
12847399 GATATACAATCATAGATAT
1 GATATGCAATCTTAGATAT
12847418 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12847437 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
12847458 GATAT
1 GATAT
12847463 ATACAATCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12847481 original size:19 final size:21
Alignment explanation
Indices: 12847400--12847475 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
12847390 ATTTTCGAGG
*
12847400 ATATACAATCATAGATATG--
1 ATATACAATCTTAGATATGAT
*
12847419 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
12847440 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
12847461 ATATACAATCTTAGA
1 ATATACAATCTTAGA
12847476 AGATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 17 0.33
21 35 0.67
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:12847511 original size:21 final size:23
Alignment explanation
Indices: 12847467--12847511 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
12847457 TGATATATAC
*
12847467 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
12847490 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
12847511 A
1 A
12847512 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:12848263 original size:98 final size:97
Alignment explanation
Indices: 12848161--12848403 Score: 242
Period size: 98 Copynumber: 2.5 Consensus size: 97
12848151 TTTATTTATT
* * * *
12848161 TATTTAAAACAAATATTTT-TATATGTACGTATATTTAT-T-TTTTAATATTTTAAT-TAGGATA
1 TATTTAAAACAAATATTTTATA-ATCTACATATATTTATCTATTTT--TATATCAATAT-GGATA
12848222 TTTATTCTTTTTTTAAAAAAAGGGGCTCAAATATATA
62 TTTATTCTTTTTTT-AAAAAAGGGGCTCAAATATATA
* * ** * * *
12848259 TATTTTTAAATACCTATTTTATAATCTATATATGTTTATCTATTTTTATATCCATATGGATATTT
1 TA-TTTAAAACAAATATTTTATAATCTACATATATTTATCTATTTTTATATCAATATGGATATTT
12848324 ATTCTTTTTTTAAAAAAGGGGCTCAAATATATA
65 ATTCTTTTTTTAAAAAAGGGGCTCAAATATATA
* * ** * *
12848357 TATTTTTAAATACCTATTTTATAATCTATATATGTTTATCTATTTTT
1 TA-TTTAAAACAAATATTTTATAATCTACATATATTTATCTATTTTT
12848404 CTTTATATTC
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
98 71 0.55
99 50 0.39
100 4 0.03
101 4 0.03
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (97 bp):
TATTTAAAACAAATATTTTATAATCTACATATATTTATCTATTTTTATATCAATATGGATATTTA
TTCTTTTTTTAAAAAAGGGGCTCAAATATATA
Found at i:12848322 original size:99 final size:98
Alignment explanation
Indices: 12848217--12848403 Score: 365
Period size: 98 Copynumber: 1.9 Consensus size: 98
12848207 ATTTTAATTA
12848217 GGATATTTATTCTTTTTTTAAAAAAAGGGGCTCAAATATATATATTTTTAAATACCTATTTTATA
1 GGATATTTATTCTTTTTTT-AAAAAAGGGGCTCAAATATATATATTTTTAAATACCTATTTTATA
12848282 ATCTATATATGTTTATCTATTTTTATATCCATAT
65 ATCTATATATGTTTATCTATTTTTATATCCATAT
12848316 GGATATTTATTCTTTTTTTAAAAAAGGGGCTCAAATATATATATTTTTAAATACCTATTTTATAA
1 GGATATTTATTCTTTTTTTAAAAAAGGGGCTCAAATATATATATTTTTAAATACCTATTTTATAA
12848381 TCTATATATGTTTATCTATTTTT
66 TCTATATATGTTTATCTATTTTT
12848404 CTTTATATTC
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 69 0.78
99 19 0.22
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (98 bp):
GGATATTTATTCTTTTTTTAAAAAAGGGGCTCAAATATATATATTTTTAAATACCTATTTTATAA
TCTATATATGTTTATCTATTTTTATATCCATAT
Found at i:12853620 original size:11 final size:11
Alignment explanation
Indices: 12853604--12853633 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
12853594 ATCTATTTTT
12853604 TTCTTGATTTA
1 TTCTTGATTTA
12853615 TTCTTGATTTA
1 TTCTTGATTTA
12853626 TTCTTGAT
1 TTCTTGAT
12853634 AATTTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63
Consensus pattern (11 bp):
TTCTTGATTTA
Found at i:12860790 original size:27 final size:27
Alignment explanation
Indices: 12860768--12860844 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
12860758 TCTCTTTTAG
*
12860768 AGTTCGCCATAAAGACTATTCTTTCAA
1 AGTTCGCCACAAAGACTATTCTTTCAA
* *
12860795 AGTTCGCCACAAAGGCTATTCTTTCAG
1 AGTTCGCCACAAAGACTATTCTTTCAA
* ** *
12860822 ATTTTTCCACAAAGGCTATTCTT
1 AGTTCGCCACAAAGACTATTCTT
12860845 AATTGTCGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (27 bp):
AGTTCGCCACAAAGACTATTCTTTCAA
Found at i:12879709 original size:148 final size:147
Alignment explanation
Indices: 12879417--12879696 Score: 341
Period size: 148 Copynumber: 1.9 Consensus size: 147
12879407 ACCCCGTCTA
* * *
12879417 GCAACACAACTTTCAATGAATCTGGTGATCCCCTTACTGCATCTTTCAGCGCACACTGTATTGCT
1 GCAACACAACTTTCAATGAATCTGGTGACCCCCTTACTACATCTTTCAGCGCACACTATATTGCT
* * * * * * *
12879482 AAATTTTTTGCGAACTCCTTACTGATTTTCCTCTTTCGACGAACCCTTATTGGCGAGGCCAAAAC
66 AAATCTCTGGCGAACTCCTTACTGATTTTCCTCTTTCGACGAACCCCTACTAGCGAGGCAAAAAC
12879547 TTCCAGGCCTTATCTTG
131 TTCCAGGCCTTATCTTG
* * *
12879564 GCAACATAACTTTCAATGAATCTGGTGAACCCCCTTACTACATCTTTC-GACGTAGACTATATT-
1 GCAACACAACTTTCAATGAATCTGGTG-ACCCCCTTACTACATCTTTCAG-CGCACACTATATTG
* * * * *
12879627 ATCGAATCTCTGGCGAACTCCTTATTGATTTTCCTCTATT-GATGAACCCCTACTAGTGAGGCAA
64 CT-AAATCTCTGGCGAACTCCTTACTGATTTTCCTCT-TTCGACGAACCCCTACTAGCGAGGCAA
12879691 AAACTT
127 AAACTT
12879697 TTAGGCTTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
147 28 0.25
148 81 0.73
149 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (147 bp):
GCAACACAACTTTCAATGAATCTGGTGACCCCCTTACTACATCTTTCAGCGCACACTATATTGCT
AAATCTCTGGCGAACTCCTTACTGATTTTCCTCTTTCGACGAACCCCTACTAGCGAGGCAAAAAC
TTCCAGGCCTTATCTTG
Found at i:12883672 original size:36 final size:35
Alignment explanation
Indices: 12883632--12883703 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
12883622 TGATGACCAT
* * * *
12883632 TGTGAAAGTGAATATGAGGGTATGTTTTTCATGCCA
1 TGTGAAAGTAAATAAGAGGATATG-TTATCATGCCA
* *
12883668 TGTGACAGTAAATAAGCGGATATGTTATCATGCCA
1 TGTGAAAGTAAATAAGAGGATATGTTATCATGCCA
12883703 T
1 T
12883704 ATATTGTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 11 0.37
36 19 0.63
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAAGTAAATAAGAGGATATGTTATCATGCCA
Found at i:12912501 original size:31 final size:29
Alignment explanation
Indices: 12912422--12912501 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
12912412 GTACATGGTA
*
12912422 CCTAATAAATATAACACCGACACATAGTG
1 CCTAATAAATATAACACCGAAACATAGTG
**
12912451 CCCGATAAATATAACACCGAAACATAGTG
1 CCTAATAAATATAACACCGAAACATAGTG
*
12912480 CCTAATACAACATGAACACCGA
1 CCTAATA-AATAT-AACACCGA
12912502 TACAAATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 31 0.72
30 4 0.09
31 8 0.19
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.17
Consensus pattern (29 bp):
CCTAATAAATATAACACCGAAACATAGTG
Found at i:12926916 original size:35 final size:35
Alignment explanation
Indices: 12926877--12926944 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
12926867 TTAATGGACT
*
12926877 GCTTTGGTAAGAGGATACTCGCCAAATCGAAAACC
1 GCTTTGGTAACAGGATACTCGCCAAATCGAAAACC
12926912 GCTTTGGTAACAGGATACTCGCCAAATCGAAAA
1 GCTTTGGTAACAGGATACTCGCCAAATCGAAAA
12926945 GTTAATCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (35 bp):
GCTTTGGTAACAGGATACTCGCCAAATCGAAAACC
Found at i:12931666 original size:30 final size:30
Alignment explanation
Indices: 12931625--12931683 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
12931615 ATAAATTGGG
* * *
12931625 AGAGTTTTAGTTGAGCCACAAAAACTAGGA
1 AGAGTTCTAGTTAACCCACAAAAACTAGGA
*
12931655 AGAGTTCTAGTTAACCCATAAAAACTAGG
1 AGAGTTCTAGTTAACCCACAAAAACTAGG
12931684 GGATGGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (30 bp):
AGAGTTCTAGTTAACCCACAAAAACTAGGA
Found at i:12931784 original size:39 final size:40
Alignment explanation
Indices: 12931690--12931773 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
12931680 TAGGGGATGG
* * * *
12931690 TTATATGTTAGTCTTGTGAAAAAGATAAGGATTGTAAATG
1 TTATATCTTAGCCTTGTGAAAAAAATAAGGATTGTAAATA
*
12931730 TTATATCTTAGCCTTGTGAAAAAAATGA-GATTGTAAATA
1 TTATATCTTAGCCTTGTGAAAAAAATAAGGATTGTAAATA
12931769 TTATA
1 TTATA
12931774 CTTTTTCCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 15 0.38
40 24 0.62
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (40 bp):
TTATATCTTAGCCTTGTGAAAAAAATAAGGATTGTAAATA
Found at i:12937365 original size:28 final size:28
Alignment explanation
Indices: 12937333--12937399 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
12937323 TTTTTATTCA
12937333 AGTTTTTATTTAACTTTATCTTCAATTT
1 AGTTTTTATTTAACTTTATCTTCAATTT
* * * *
12937361 AGTTTTTCA-TTAAGTTTTTCTTTAGTTT
1 AGTTTTT-ATTTAACTTTATCTTCAATTT
12937389 AGTTTTTATTT
1 AGTTTTTATTT
12937400 TATTTTGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 31 0.94
29 1 0.03
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (28 bp):
AGTTTTTATTTAACTTTATCTTCAATTT
Found at i:12942526 original size:22 final size:22
Alignment explanation
Indices: 12942498--12942558 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
12942488 TAGCAAAACA
* *
12942498 GAAAAAGGAAAGAAGAGCAATC
1 GAAAAAGGAAAAAAGAACAATC
* * *
12942520 GGAAAAGAAAAAAAAAACAATC
1 GAAAAAGGAAAAAAGAACAATC
12942542 GAAAAAGGAAAAAAGAA
1 GAAAAAGGAAAAAAGAA
12942559 AACCTTTTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (22 bp):
GAAAAAGGAAAAAAGAACAATC
Found at i:12954885 original size:17 final size:17
Alignment explanation
Indices: 12954863--12954896 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12954853 ACTCTTTCTT
12954863 GGCATCCTACAGATGAA
1 GGCATCCTACAGATGAA
12954880 GGCATCCTACAGATGAA
1 GGCATCCTACAGATGAA
12954897 TGAACCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
GGCATCCTACAGATGAA
Found at i:12963631 original size:46 final size:46
Alignment explanation
Indices: 12963543--12963632 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
12963533 CTACTTAACT
* **
12963543 CTTGTCTAGTAAAGACAGTAGTAGTAATCACTTCCAGGACAAAAAA
1 CTTGTCCAGTAAAGACAGTAGTAGTAATCACTTCCAAAACAAAAAA
* * * *
12963589 CTTGTCCAGTAAAGAGAGTTGTAGTGATCACTTTCAAAACAAAA
1 CTTGTCCAGTAAAGACAGTAGTAGTAATCACTTCCAAAACAAAA
12963633 CAAAACAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (46 bp):
CTTGTCCAGTAAAGACAGTAGTAGTAATCACTTCCAAAACAAAAAA
Found at i:12964161 original size:131 final size:131
Alignment explanation
Indices: 12963927--12964188 Score: 506
Period size: 131 Copynumber: 2.0 Consensus size: 131
12963917 TATCTACTCT
12963927 CTTCACAATTGCACAAAATGAACCTACTCAATCACACCCCATGATAATTTCCCTCACATTTGTAC
1 CTTCACAATTGCACAAAATGAACCTACTCAATCACACCCCATGATAATTTCCCTCACATTTGTAC
* *
12963992 TTTGAAAACTCGATACTCTCACCACTAAATTCATCCCTTTGTGAATTTAACAAGTAAAGCAACAA
66 TTTGAAAACTCAATACTCTCACCACTAAATTCATCCCTTTGTGAATTCAACAAGTAAAGCAACAA
12964057 C
131 C
12964058 CTTCACAATTGCACAAAATGAACCTACTCAATCACACCCCATGATAATTTCCCTCACATTTGTAC
1 CTTCACAATTGCACAAAATGAACCTACTCAATCACACCCCATGATAATTTCCCTCACATTTGTAC
12964123 TTTGAAAACTCAATACTCTCACCACTAAATTCATCCCTTTGTGAATTCAACAAGTAAAGCAACAA
66 TTTGAAAACTCAATACTCTCACCACTAAATTCATCCCTTTGTGAATTCAACAAGTAAAGCAACAA
12964188 C
131 C
12964189 ACAAGGTTTT
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.28
Consensus pattern (131 bp):
CTTCACAATTGCACAAAATGAACCTACTCAATCACACCCCATGATAATTTCCCTCACATTTGTAC
TTTGAAAACTCAATACTCTCACCACTAAATTCATCCCTTTGTGAATTCAACAAGTAAAGCAACAA
C
Found at i:12967295 original size:48 final size:48
Alignment explanation
Indices: 12967225--12967333 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 48
12967215 TTTAAGTTGT
* ** * *
12967225 ATAACGGGAAGCTCTTGCGAGCCAATTATTGAGAAGCTCATACGAGCC-
1 ATAACGAGAAGCTCAAGAGAGCCAAAT-TTGAGAAGCTCATACGAGCCA
* *
12967273 ATAACGAGAAGCTCAAGAGAGCCAAATTTGGGAAGCTCATGCGAGCCA
1 ATAACGAGAAGCTCAAGAGAGCCAAATTTGAGAAGCTCATACGAGCCA
*
12967321 ATATCGAGAAGCT
1 ATAACGAGAAGCT
12967334 TTGGAGAACC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 18 0.35
48 34 0.65
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (48 bp):
ATAACGAGAAGCTCAAGAGAGCCAAATTTGAGAAGCTCATACGAGCCA
Found at i:12967331 original size:24 final size:24
Alignment explanation
Indices: 12967232--12967333 Score: 100
Period size: 24 Copynumber: 4.2 Consensus size: 24
12967222 TGTATAACGG
* *
12967232 GAAGCTCTTGCGAGCCAATTATTGA
1 GAAGCTCATGCGAGCCAA-TATCGA
* *
12967257 GAAGCTCATACGAGCC-ATAACGA
1 GAAGCTCATGCGAGCCAATATCGA
* * * *
12967280 GAAGCTCAAGAGAGCCAA-ATTTGG
1 GAAGCTCATGCGAGCCAATA-TCGA
12967304 GAAGCTCATGCGAGCCAATATCGA
1 GAAGCTCATGCGAGCCAATATCGA
12967328 GAAGCT
1 GAAGCT
12967334 TTGGAGAACC
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
23 18 0.30
24 27 0.45
25 15 0.25
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (24 bp):
GAAGCTCATGCGAGCCAATATCGA
Found at i:12967359 original size:49 final size:47
Alignment explanation
Indices: 12967252--12967376 Score: 126
Period size: 49 Copynumber: 2.6 Consensus size: 47
12967242 CGAGCCAATT
* * *
12967252 ATTGAGAAGCTCATACGAGCC-ATAACGAGAAGCTCAAGAGAGCCAA
1 ATTGGGAAGCTCATGCGAGCCAATAACGAGAAGCTCAAGAGAACCAA
* ***
12967298 ATTTGGGAAGCTCATGCGAGCCAATATCGAGAAGCTTTGGAGAACCATTA
1 A-TTGGGAAGCTCATGCGAGCCAATAACGAGAAGCTCAAGAGAACCA--A
* *
12967348 ATTGGGAAGCTCGTGAGAGCCAATTAACG
1 ATTGGGAAGCTCATGCGAGCCAA-TAACG
12967377 GGATGCTTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
46 1 0.02
47 18 0.28
48 19 0.30
49 20 0.31
50 6 0.09
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (47 bp):
ATTGGGAAGCTCATGCGAGCCAATAACGAGAAGCTCAAGAGAACCAA
Found at i:12967379 original size:25 final size:25
Alignment explanation
Indices: 12967226--12967379 Score: 81
Period size: 25 Copynumber: 6.3 Consensus size: 25
12967216 TTAAGTTGTA
* *
12967226 TAACGGGAAGCTCTTGCGAGCCAAT
1 TAACGGGAAGCTCATGAGAGCCAAT
** *
12967251 TATTGAGAAGCTCAT-ACGAGCC-A-
1 TAACGGGAAGCTCATGA-GAGCCAAT
* *
12967274 TAACGAGAAGCTCAAGAGAGCCAAAT
1 TAACGGGAAGCTCATGAGAGCC-AAT
* *
12967300 T--TGGGAAGCTCATGCGAGCCAA-
1 TAACGGGAAGCTCATGAGAGCCAAT
* * * *
12967322 TATCGAGAAGCT-TTGGAGAACC-AT
1 TAACGGGAAGCTCAT-GAGAGCCAAT
* *
12967346 TAATTGGGAAGCTCGTGAGAGCCAAT
1 TAA-CGGGAAGCTCATGAGAGCCAAT
12967372 TAACGGGA
1 TAACGGGA
12967380 TGCTTATAAG
Statistics
Matches: 94, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
22 1 0.01
23 21 0.22
24 31 0.33
25 34 0.36
26 7 0.07
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
TAACGGGAAGCTCATGAGAGCCAAT
Found at i:12971389 original size:18 final size:18
Alignment explanation
Indices: 12971362--12971396 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12971352 TTTGCTGTTG
12971362 CTGTTATTGTTGTTGCTA
1 CTGTTATTGTTGTTGCTA
*
12971380 CTGTTGTTGTTGTTGCT
1 CTGTTATTGTTGTTGCT
12971397 GTTGCTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.11, G:0.26, T:0.57
Consensus pattern (18 bp):
CTGTTATTGTTGTTGCTA
Found at i:12971400 original size:15 final size:15
Alignment explanation
Indices: 12971357--12971400 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
12971347 TTGCATTTGC
*
12971357 TGTTGCTGTTATTGT
1 TGTTGCTGTTGTTGT
12971372 TGTTGCTACTGTTGTTGT
1 TGTTG---CTGTTGTTGT
12971390 TGTTGCTGTTG
1 TGTTGCTGTTG
12971401 CTGTCAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.44
18 14 0.56
ACGTcount: A:0.05, C:0.09, G:0.30, T:0.57
Consensus pattern (15 bp):
TGTTGCTGTTGTTGT
Found at i:12974091 original size:21 final size:19
Alignment explanation
Indices: 12974059--12974097 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
12974049 TCATTTAATT
12974059 AAAGTAAATATAATAAATA
1 AAAGTAAATATAATAAATA
*
12974078 AAAGTCAAGATATATTAAAT
1 AAAGT-AA-ATATAATAAAT
12974098 GTGTACTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (19 bp):
AAAGTAAATATAATAAATA
Found at i:12974925 original size:59 final size:59
Alignment explanation
Indices: 12974833--12974955 Score: 246
Period size: 59 Copynumber: 2.1 Consensus size: 59
12974823 AAAGAATCGG
12974833 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
1 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
12974892 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
1 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
12974951 TTCAA
1 TTCAA
12974956 TCTAATCAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (59 bp):
TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
Found at i:12975046 original size:29 final size:30
Alignment explanation
Indices: 12975006--12975073 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
12974996 TTTAAGATTT
12975006 TTTTTATAATTTTATATCA-AA-TTTAATA-A
1 TTTTTATAATTTT-TAT-AGAATTTTAATACA
*
12975035 TTTTTATGATTTTTATAGAATTTTAATACA
1 TTTTTATAATTTTTATAGAATTTTAATACA
12975065 TTTTTATAA
1 TTTTTATAA
12975074 AATTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 5 0.15
29 19 0.56
30 9 0.26
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (30 bp):
TTTTTATAATTTTTATAGAATTTTAATACA
Found at i:12975939 original size:59 final size:59
Alignment explanation
Indices: 12975847--12976087 Score: 482
Period size: 59 Copynumber: 4.1 Consensus size: 59
12975837 AAAGAATCGG
12975847 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
1 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
12975906 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
1 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
12975965 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
1 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
12976024 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
1 TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
12976083 TTCAA
1 TTCAA
12976088 TCTAATCAGT
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 182 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (59 bp):
TTCAACCATCCTAGGTCAACCGATTTAATGGCTTTCTTTGGACTAATACCCTTGTTGAT
Found at i:12976178 original size:29 final size:30
Alignment explanation
Indices: 12976138--12976205 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
12976128 TTTAAGATTT
12976138 TTTTTATAATTTTATATCA-AA-TTTAATA-A
1 TTTTTATAATTTT-TAT-AGAATTTTAATACA
*
12976167 TTTTTATGATTTTTATAGAATTTTAATACA
1 TTTTTATAATTTTTATAGAATTTTAATACA
12976197 TTTTTATAA
1 TTTTTATAA
12976206 AATTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 5 0.15
29 19 0.56
30 9 0.26
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (30 bp):
TTTTTATAATTTTTATAGAATTTTAATACA
Found at i:12984525 original size:6 final size:6
Alignment explanation
Indices: 12984514--12984542 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12984504 GTAGATCGAA
12984514 GATGAG GATGAG GATGAG GATGAG GATGA
1 GATGAG GATGAG GATGAG GATGAG GATGA
12984543 TAGATTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.48, T:0.17
Consensus pattern (6 bp):
GATGAG
Found at i:12984610 original size:20 final size:19
Alignment explanation
Indices: 12984572--12984610 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12984562 AAGATAAAAG
* *
12984572 ATGTTGACGAGAATGATAA
1 ATGTTGAAGAGAATAATAA
12984591 ATGTTGAAGAAGAATAATAA
1 ATGTTGAAG-AGAATAATAA
12984611 TATAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.23, T:0.26
Consensus pattern (19 bp):
ATGTTGAAGAGAATAATAA
Found at i:12989267 original size:22 final size:22
Alignment explanation
Indices: 12989242--12989291 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
12989232 TGCAGAGGTA
12989242 ATTTCTACTTCTTCTTCCATCG
1 ATTTCTACTTCTTCTTCCATCG
*
12989264 ATTTTTACTTCTTCTTCCATCG
1 ATTTCTACTTCTTCTTCCATCG
*
12989286 TTTTCT
1 ATTTCT
12989292 TATTTAGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.28, G:0.04, T:0.56
Consensus pattern (22 bp):
ATTTCTACTTCTTCTTCCATCG
Found at i:13011668 original size:24 final size:24
Alignment explanation
Indices: 13011636--13011684 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13011626 TAAAGTGTAA
13011636 ACATGATAAGTGAATTGAAAATAT
1 ACATGATAAGTGAATTGAAAATAT
13011660 ACATGATAAGTGAATTGAAAATAT
1 ACATGATAAGTGAATTGAAAATAT
13011684 A
1 A
13011685 AAATTTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (24 bp):
ACATGATAAGTGAATTGAAAATAT
Found at i:13014554 original size:21 final size:21
Alignment explanation
Indices: 13014532--13014654 Score: 146
Period size: 21 Copynumber: 6.0 Consensus size: 21
13014522 TTTTCAGTTT
*
13014532 AGCTCTTTCGAGCTTCTGTTT
1 AGCTCTTTCGAGCTTCTGTTC
13014553 AGCTCTTTCGAGCTTCTGTTC
1 AGCTCTTTCGAGCTTCTGTTC
*
13014574 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTTCGAGCTTCTGTTC
* * * *
13014595 AACTCTTAT-GAGTTTTTGTTT
1 AGCTCTT-TCGAGCTTCTGTTC
13014616 AGCTCTTAT-GAGCTTCTGTTC
1 AGCTCTT-TCGAGCTTCTGTTC
13014637 A--TCTTTCGAGCTTCTGTT
1 AGCTCTTTCGAGCTTCTGTT
13014655 GGCGTATCTG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
18 1 0.01
19 15 0.17
21 73 0.82
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (21 bp):
AGCTCTTTCGAGCTTCTGTTC
Found at i:13014900 original size:10 final size:8
Alignment explanation
Indices: 13014885--13014911 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13014875 TGATGGCACA
13014885 TGATATAT
1 TGATATAT
13014893 TGATATAT
1 TGATATAT
13014901 TGATATAT
1 TGATATAT
13014909 TGA
1 TGA
13014912 AATGGATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (8 bp):
TGATATAT
Found at i:13020086 original size:24 final size:23
Alignment explanation
Indices: 13020050--13020099 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
13020040 TTAATTCCAA
*
13020050 TTATTTTAATATT-TTATTTTATT
1 TTATTTTAATATTCCTA-TTTATT
*
13020073 TTATTTTACTTATTCCTATTTATT
1 TTATTTTA-ATATTCCTATTTATT
13020097 TTA
1 TTA
13020100 ACAATCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 13 0.57
25 2 0.09
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTTAATATTCCTATTTATT
Found at i:13029661 original size:24 final size:25
Alignment explanation
Indices: 13029632--13029697 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
13029622 TGTTTTAAAC
13029632 CAAATTAGACTGGGCTTTGAGAA-A
1 CAAATTAGACTGGGCTTTGAGAAGA
* *
13029656 CAAATTA-ATTTGGACTTTGAGAAGA
1 CAAATTAGA-CTGGGCTTTGAGAAGA
* *
13029681 -AAAATAGACTGTGCTTT
1 CAAATTAGACTGGGCTTT
13029698 TGAAAATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 1 0.03
24 30 0.91
25 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (25 bp):
CAAATTAGACTGGGCTTTGAGAAGA
Found at i:13032186 original size:27 final size:29
Alignment explanation
Indices: 13032133--13032188 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
13032123 GACAGGAAGA
*
13032133 TAGTTTTTATTTTTATTTTTTTACTTTGT
1 TAGTTTGTATTTTTATTTTTTTACTTTGT
13032162 TAGTTTGTA-TTTT-TTTTTTTACTTTGT
1 TAGTTTGTATTTTTATTTTTTTACTTTGT
13032189 GCTCTCAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.54
28 4 0.15
29 8 0.31
ACGTcount: A:0.12, C:0.04, G:0.09, T:0.75
Consensus pattern (29 bp):
TAGTTTGTATTTTTATTTTTTTACTTTGT
Found at i:13038959 original size:50 final size:50
Alignment explanation
Indices: 13038895--13039023 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
13038885 TGAGGTTATA
* * *
13038895 AGAGGTCCAACGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATAGGCACCGAGATG
* * *
13038945 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATAGGCACCGAGATG
** *
13038995 AGAACTCCCATGTAAGACCA-GATCTGGGA
1 AGAGGTCCCACGTAAGACCATG-TCTGGGA
13039024 TATGACATTG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 67 0.99
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATAGGCACCGAGATG
Found at i:13039070 original size:49 final size:49
Alignment explanation
Indices: 13038906--13039076 Score: 143
Period size: 50 Copynumber: 3.4 Consensus size: 49
13038896 GAGGTCCAAC
* * * * ** *
13038906 GTAAGACCATGTCTGGGACAT-AGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGA-CATAGGCA-CGATAGGAGAACTCCCCT
* * *
13038956 GTAAGACCATGTCTGGGACATGGCATAGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGACATAGGCA-CGATAGGAGAACTCCCCT
* * *
13039006 GTAAGACCA-GATCTGGGATATGACATTGGTA-GTATAGGA-AACATCCCCT
1 GTAAGACCATG-TCTGGGACATGACATAGGCACG-ATAGGAGAAC-TCCCCT
13039055 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
13039077 GCTTTGGCAT
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
48 4 0.04
49 30 0.30
50 67 0.66
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGACATAGGCACGATAGGAGAACTCCCCT
Found at i:13039313 original size:20 final size:20
Alignment explanation
Indices: 13039288--13039336 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13039278 TGAGTTATTT
13039288 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
13039308 AAGTAA-AAGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
13039328 AAG-AAGCAA
1 AAGTAAGCAA
13039337 AGACCATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:13043628 original size:23 final size:23
Alignment explanation
Indices: 13043581--13043631 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13043571 ACCTAGTTTC
* *
13043581 TTACTGTAGTAATTTTCTAGGTA
1 TTACAGTAGTAATTTTCTAGATA
13043604 TTACAGTAGTAATTTT-TAGAATA
1 TTACAGTAGTAATTTTCTAG-ATA
13043627 TTACA
1 TTACA
13043632 TTGTGTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCTAGATA
Found at i:13047196 original size:14 final size:14
Alignment explanation
Indices: 13047179--13047216 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
13047169 ACATCTTTTG
*
13047179 TTCTCTTTTCCTAT
1 TTCTCTTTTCCTAC
*
13047193 TTCTTTTTTCCTAC
1 TTCTCTTTTCCTAC
13047207 TTCTCTTTTC
1 TTCTCTTTTC
13047217 TTTCATCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (14 bp):
TTCTCTTTTCCTAC
Found at i:13057912 original size:42 final size:43
Alignment explanation
Indices: 13057774--13057912 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 43
13057764 TTATGTGGAA
* *
13057774 AAATGCCACTATAGAACATGACCTTTAGCAGCG-TTTCTCACAA
1 AAATGCCACTATAGAACATGACCTTTAGCGGCGCTTTCTC-CAC
* * * * *
13057817 AAATACCGCTATAGAACATGACATTTAACGACGCTTT-TCCCAC
1 AAATGCCACTATAGAACATGACCTTTAGCGGCGCTTTCT-CCAC
* * *
13057860 AAACGGCACTAAAGAA-ATGACCTTTAGCGGCGCTTTCTCCAC
1 AAATGCCACTATAGAACATGACCTTTAGCGGCGCTTTCTCCAC
13057902 AAATGCCACTA
1 AAATGCCACTA
13057913 GCTTTAGCAG
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 30 0.39
43 42 0.55
44 4 0.05
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (43 bp):
AAATGCCACTATAGAACATGACCTTTAGCGGCGCTTTCTCCAC
Found at i:13062089 original size:818 final size:818
Alignment explanation
Indices: 13060513--13062145 Score: 2890
Period size: 818 Copynumber: 2.0 Consensus size: 818
13060503 AACCTGAATT
* * *
13060513 CATTAATGAGGAAGGCAATATATCTTTTTACTACTTTATTCAGACCTTGGGAAAGCCATTTAACT
1 CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTCAGACCTTGGGAAAACCATTTAACT
* *
13060578 TCGTCATTGACGTCCTTTCCACTCCAAACCTATTGAATCGAAAGTAAATTGATTAATTATAAATG
66 TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCAAAAGTAAATTGATTAATTATAAATG
13060643 TTATACGAAAACATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCCTAACCATTC
131 TTATACGAAAACATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCCTAACCATTC
* * *
13060708 ATGAAAAGATTCTGTCAATAACTTATGAATCTTTCGATGAAGTAATCTTCGGGAGCGTGAATGAG
196 ATGAAAAGATTCTGTCAATAACTTATGAATCTCTCGATGAACTAATATTCGGGAGCGTGAATGAG
13060773 ATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAAA
261 ATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAAA
*
13060838 AAGATGAATATTTATCAAATTCTAAAACTTACTTGCGCAATTGTTCAACTGAATCGTGGTGAAAA
326 AAGATGAATATTTATCAAATTCTAAAACTTACTTGCGCAATAGTTCAACTGAATCGTGGTGAAAA
* * *
13060903 AGAACATATCGATGTGTTTGTACCCAAGATTTATCATTTAAGTGTGCAATTTCAACTTTACCGAT
391 AGAACATATCGATGTGCTTGTACCCAAGATTTATCATGTAAGTGTGAAATTTCAACTTTACCGAT
* *
13060968 TGGTTCTCCATAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCCAGTATTTC
456 TGGTTCTCCACAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCCAGCATTTC
*
13061033 TACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATATACTCC
521 TACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACTCC
* *
13061098 TCTGCCAAGTAACCTTCAGTAATTGATCCTTCTGGATAACACTTATTACAACAATAATAATTCAA
586 TCTGCCAAGTAACCTTCAGCAATTGATCCTTCTGGATAACACTTATTACAACAATAAGAATTCAA
* * *
13061163 TTTGCATAGGAACCTAAACATGATGTACAATATTATCAAAAGTTGTAACTAAAGGTAAATTCATG
651 TTTGCATAGGAACCTAAACATAATATACAACATTATCAAAAGTTGTAACTAAAGGTAAATTCATG
* * *
13061228 AATGAATGGAAACTATACAGATAAATTAGCACCTCGATAGAAAACCGGTCCACCAAGTTTTGCTT
716 AATGAATGAAAACTATACAAATAAATTAGCACATCGATAGAAAACCGGTCCACCAAGTTTTGCTT
13061293 CATGAGGGAGATGGATTAACAAGTACACCATAATAATC
781 CATGAGGGAGATGGATTAACAAGTACACCATAATAATC
**
13061331 CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTTGGACCTTGGGAAAACCATTTAACT
1 CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTCAGACCTTGGGAAAACCATTTAACT
13061396 TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCAAAAGTAAATTGATTAATTATAAATG
66 TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCAAAAGTAAATTGATTAATTATAAATG
13061461 TTATACGAAAACATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTG-CCTTAACCATT
131 TTATACGAAAACATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCC-TAACCATT
*
13061525 CATGAAAAGATTCTGTCAATAACTTATGAATCTCTCGATGTACTAATATTCGGGAGCGTGAATGA
195 CATGAAAAGATTCTGTCAATAACTTATGAATCTCTCGATGAACTAATATTCGGGAGCGTGAATGA
* * *
13061590 GATCTCAAGACTTGTTTGTACTCACTTTAAAATGTGGATTACTTGGTTAGAAGATAAAAAATTAA
260 GATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAA
*
13061655 AAAGATGAATATTTATCAAATTCTAAAACTTACTTGCGTAATAGTTCAACTGAATCGTGGTGAAA
325 AAAGATGAATATTTATCAAATTCTAAAACTTACTTGCGCAATAGTTCAACTGAATCGTGGTGAAA
13061720 AAGAACATATCGATGTGCTTGTACCCAAGATTTATCATGTAAGTGTGAAATTTCAACTTTACCGA
390 AAGAACATATCGATGTGCTTGTACCCAAGATTTATCATGTAAGTGTGAAATTTCAACTTTACCGA
*
13061785 TTGGTTCTCCACAACTTCGAAATAGATAAGTTTTGGCTAAGTTATGATTAGTGAACCCAGCATTT
455 TTGGTTCTCCACAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCCAGCATTT
13061850 CTACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACTC
520 CTACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACTC
*
13061915 CTCTGCCAAGTAACCTTCAGCAATTGATCCTTCTGGATAACTCTTATTACAACAATAAGAATTCA
585 CTCTGCCAAGTAACCTTCAGCAATTGATCCTTCTGGATAACACTTATTACAACAATAAGAATTCA
* *
13061980 ATTTGTATAGGAACCTAAACATAATATACAACATTATCAAAAGTTGTAACTAAAGGTATATTCAT
650 ATTTGCATAGGAACCTAAACATAATATACAACATTATCAAAAGTTGTAACTAAAGGTAAATTCAT
* * * *
13062045 GAATGAATGAAAACTTTACAAATAAATTAGCACATTGGTAGAAAACCGGTCCACCAAGTTTTGTT
715 GAATGAATGAAAACTATACAAATAAATTAGCACATCGATAGAAAACCGGTCCACCAAGTTTTGCT
* *
13062110 TCATGAGGGAGATGGATTAGCAAGTGCACCATAATA
780 TCATGAGGGAGATGGATTAACAAGTACACCATAATA
13062146 GTGAAGAAGG
Statistics
Matches: 774, Mismatches: 40, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
817 2 0.00
818 772 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (818 bp):
CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTCAGACCTTGGGAAAACCATTTAACT
TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCAAAAGTAAATTGATTAATTATAAATG
TTATACGAAAACATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCCTAACCATTC
ATGAAAAGATTCTGTCAATAACTTATGAATCTCTCGATGAACTAATATTCGGGAGCGTGAATGAG
ATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAAA
AAGATGAATATTTATCAAATTCTAAAACTTACTTGCGCAATAGTTCAACTGAATCGTGGTGAAAA
AGAACATATCGATGTGCTTGTACCCAAGATTTATCATGTAAGTGTGAAATTTCAACTTTACCGAT
TGGTTCTCCACAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCCAGCATTTC
TACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACTCC
TCTGCCAAGTAACCTTCAGCAATTGATCCTTCTGGATAACACTTATTACAACAATAAGAATTCAA
TTTGCATAGGAACCTAAACATAATATACAACATTATCAAAAGTTGTAACTAAAGGTAAATTCATG
AATGAATGAAAACTATACAAATAAATTAGCACATCGATAGAAAACCGGTCCACCAAGTTTTGCTT
CATGAGGGAGATGGATTAACAAGTACACCATAATAATC
Found at i:13071359 original size:16 final size:17
Alignment explanation
Indices: 13071338--13071371 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13071328 AGCTAAATTT
13071338 AAAATTAT-AAAATAAA
1 AAAATTATAAAAATAAA
13071354 AAAATTATAAAAATAAA
1 AAAATTATAAAAATAAA
13071371 A
1 A
13071372 TTTAACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATTATAAAAATAAA
Found at i:13071429 original size:16 final size:16
Alignment explanation
Indices: 13071399--13071436 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13071389 TGTTACATTA
*
13071399 ATAAATAATTTAAAATT
1 ATAAA-AATTAAAAATT
13071416 ATAAAAATTAAAAATT
1 ATAAAAATTAAAAATT
13071432 A-AAAA
1 ATAAAA
13071437 TAAAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAATTAAAAATT
Found at i:13071441 original size:20 final size:20
Alignment explanation
Indices: 13071419--13071456 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13071409 TAAAATTATA
13071419 AAAATTAAAAAT-TAAAAAT
1 AAAATTAAAAATATAAAAAT
*
13071438 AAAATTCAAAATATAAAAA
1 AAAATTAAAAATATAAAAA
13071457 GTTCATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATTAAAAATATAAAAAT
Found at i:13071515 original size:16 final size:16
Alignment explanation
Indices: 13071494--13071525 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13071484 AAATTAAAAT
13071494 GCATTCATATCACCAA
1 GCATTCATATCACCAA
13071510 GCATTCATATCACCAA
1 GCATTCATATCACCAA
13071526 TATTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (16 bp):
GCATTCATATCACCAA
Found at i:13073953 original size:18 final size:18
Alignment explanation
Indices: 13073932--13073973 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13073922 CATGCTGAGA
13073932 AAGAAAAGGGAATTAGGG
1 AAGAAAAGGGAATTAGGG
*
13073950 AAGAAAAGGGAATTGGGG
1 AAGAAAAGGGAATTAGGG
*
13073968 GAGAAA
1 AAGAAA
13073974 TAAAACGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.40, T:0.10
Consensus pattern (18 bp):
AAGAAAAGGGAATTAGGG
Found at i:13073999 original size:44 final size:44
Alignment explanation
Indices: 13073950--13074053 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 44
13073940 GGAATTAGGG
* * *
13073950 AAGAAAAGGGAATTGGGGGAGAAATAAAACGGCATCGTTTGCGA
1 AAGAAAAGGGAATCGGGGGAGAAATAAAACGGCATCATTTGAGA
* * **
13073994 AAGAAAAGGGAATCGGGGGAGACATAAAATGTTATCATTTGAGA
1 AAGAAAAGGGAATCGGGGGAGAAATAAAACGGCATCATTTGAGA
*
13074038 AAGAAAATGGAATCGG
1 AAGAAAAGGGAATCGG
13074054 TTTGTATCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.43, C:0.08, G:0.32, T:0.17
Consensus pattern (44 bp):
AAGAAAAGGGAATCGGGGGAGAAATAAAACGGCATCATTTGAGA
Found at i:13074154 original size:41 final size:41
Alignment explanation
Indices: 13074109--13074291 Score: 199
Period size: 41 Copynumber: 4.5 Consensus size: 41
13074099 ACGGCGTTTT
* *
13074109 CCTTACCTTTTATGGCGTTTATGGGAAAAACGTTGCTATTG
1 CCTTACCTTTTACGGCGTTTATGGGAAAAACGTCGCTATTG
* * *
13074150 CCTTACCTTTTACGGTGTTTATGGGGAAAACATCGCTATTG
1 CCTTACCTTTTACGGCGTTTATGGGAAAAACGTCGCTATTG
* * *
13074191 CCTTACCTTTTACAGCGTTTATAGGAAAAACGTCGCTACTG
1 CCTTACCTTTTACGGCGTTTATGGGAAAAACGTCGCTATTG
** * * * *
13074232 CCTTACCTTTTGTGGTGTTTATGTGAGAAA-TTCCGCTATTG
1 CCTTACCTTTTACGGCGTTTATGGGAAAAACGT-CGCTATTG
* *
13074273 CC-TACCTTTTGCCGCGTTT
1 CCTTACCTTTTACGGCGTTT
13074292 TAAAGAAAAA
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
40 15 0.13
41 103 0.87
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (41 bp):
CCTTACCTTTTACGGCGTTTATGGGAAAAACGTCGCTATTG
Found at i:13074269 original size:82 final size:81
Alignment explanation
Indices: 13074109--13074291 Score: 226
Period size: 82 Copynumber: 2.2 Consensus size: 81
13074099 ACGGCGTTTT
** * * *
13074109 CCTTACCTTTTATGGCGTTTATGGGAAAAACGTTGCTATTGCCTTACCTTTTACGGTGTTTATGG
1 CCTTACCTTTTACAGCGTTTATAGGAAAAACGTCGCTACTGCCTTACCTTTTACGGTGTTTATGG
*
13074174 GGAAAACATCGCTATTG
66 AGAAAACA-CGCTATTG
**
13074191 CCTTACCTTTTACAGCGTTTATAGGAAAAACGTCGCTACTGCCTTACCTTTTGTGGTGTTTATGT
1 CCTTACCTTTTACAGCGTTTATAGGAAAAACGTCGCTACTGCCTTACCTTTTACGGTGTTTATG-
*
13074256 GAGAAATTC-CGCTATTG
65 GAGAAA-ACACGCTATTG
* *
13074273 CC-TACCTTTTGCCGCGTTT
1 CCTTACCTTTTACAGCGTTT
13074292 TAAAGAAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
81 15 0.17
82 67 0.76
83 5 0.06
84 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (81 bp):
CCTTACCTTTTACAGCGTTTATAGGAAAAACGTCGCTACTGCCTTACCTTTTACGGTGTTTATGG
AGAAAACACGCTATTG
Found at i:13074546 original size:41 final size:41
Alignment explanation
Indices: 13074445--13074562 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
13074435 GGTTCTAACA
* * *
13074445 TTTATGGGAAAAACACCACTATTGCCTTACCTTTTACGACG
1 TTTATGGGAGAAACACCGCTATTGCCTTACCTTTTGCGACG
* * * **
13074486 TTTGT-GGAGAAAACACCGCTGTTGCCTTACCTTTTGTGGTG
1 TTTATGGGAG-AAACACCGCTATTGCCTTACCTTTTGCGACG
*
13074527 TTTATGGGAGAAACGCCGCTATTGCC-TACCTTTTGC
1 TTTATGGGAGAAACACCGCTATTGCCTTACCTTTTGC
13074563 CGCGTTTTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
40 12 0.19
41 47 0.75
42 4 0.06
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (41 bp):
TTTATGGGAGAAACACCGCTATTGCCTTACCTTTTGCGACG
Found at i:13074664 original size:278 final size:278
Alignment explanation
Indices: 13074167--13074719 Score: 894
Period size: 278 Copynumber: 2.0 Consensus size: 278
13074157 TTTTACGGTG
* * * **
13074167 TTTATGGGGAAAACATCGCTATTGCCTTACCTTTTACAGCGTTTATAGGAAAAACGTCGCTACTG
1 TTTATGGGAAAAACACCACTATTGCCTTACCTTTTACAGCGTTTATAGGAAAAACACCGCTACTG
* **
13074232 CCTTACCTTTTGTGGTGTTTATGTGAGAAATTCCGCTATTGCCTACCTTTTGCCGCGTTTTAAAG
66 CCTTACCTTTTGTGGTGTTTATGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTAAAG
13074297 AAAAACGCCACTAATGGTATATATTTGCGGCATTTTTGGTCCAAACGCCACTAAAAATGCCGCTA
131 AAAAACGCCACTAATGGTATATATTTGCGGCATTTTTGGTCCAAACGCCACTAAAAATGCCGCTA
* * * * *
13074362 AAAGCTTAATTTGTTGTAGTGAGGCTAGTTGATAGGCAGCACCACTCCTGGTATATTTAGCCGGG
196 AAAGCTTAATTTGTTGGAGTGAGGCTAGTTGATAGGCAGCACCACTCCTAGTATATTCACCCAGG
13074427 CTAAATACGGTTCTAACA
261 CTAAATACGGTTCTAACA
* **
13074445 TTTATGGGAAAAACACCACTATTGCCTTACCTTTTAC-GACGTTTGT-GGAGAAAACACCGCTGT
1 TTTATGGGAAAAACACCACTATTGCCTTACCTTTTACAG-CGTTTATAGGA-AAAACACCGCTAC
*
13074508 TGCCTTACCTTTTGTGGTGTTTATGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTTA
64 TGCCTTACCTTTTGTGGTGTTTATGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTAA
*
13074573 AGAAAAACGCCACTAATGGTATATATTTGCGGCGTTTTTGGTCCAAACGCCACTAAAAATGCCGC
129 AGAAAAACGCCACTAATGGTATATATTTGCGGCATTTTTGGTCCAAACGCCACTAAAAATGCCGC
* *
13074638 TAAAAGCTTAATTTGTTGGAGTGAGGCTAGTTGATAGGCGGCACCACTCTTAGTATATTCACCCA
194 TAAAAGCTTAATTTGTTGGAGTGAGGCTAGTTGATAGGCAGCACCACTCCTAGTATATTCACCCA
13074703 GGCTAAATACGGTTCTA
259 GGCTAAATACGGTTCTA
13074720 GCAGATATGT
Statistics
Matches: 253, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
277 4 0.02
278 249 0.98
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (278 bp):
TTTATGGGAAAAACACCACTATTGCCTTACCTTTTACAGCGTTTATAGGAAAAACACCGCTACTG
CCTTACCTTTTGTGGTGTTTATGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTAAAG
AAAAACGCCACTAATGGTATATATTTGCGGCATTTTTGGTCCAAACGCCACTAAAAATGCCGCTA
AAAGCTTAATTTGTTGGAGTGAGGCTAGTTGATAGGCAGCACCACTCCTAGTATATTCACCCAGG
CTAAATACGGTTCTAACA
Found at i:13081953 original size:23 final size:23
Alignment explanation
Indices: 13081918--13081962 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13081908 TGGAGTATAA
* *
13081918 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
13081941 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
13081963 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:13088974 original size:41 final size:41
Alignment explanation
Indices: 13088929--13089088 Score: 284
Period size: 41 Copynumber: 3.9 Consensus size: 41
13088919 TCAGGTTTAT
13088929 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
*
13088970 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
*
13089011 GCCGGTGAAACATTTCAAACTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
* *
13089052 GCCAGTGAAACATTTCAGACTTTATGTCTAGCAGGCT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCT
13089089 AAGTGCAGTG
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (41 bp):
GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
Found at i:13091631 original size:30 final size:31
Alignment explanation
Indices: 13091575--13091636 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
13091565 GATCCATCCA
*
13091575 TGGAAAATAAAATAAAGAAAAGGATGA-AAT
1 TGGAAAATAAAAAAAAGAAAAGGATGATAAT
* *
13091605 TGGAAAGTGAAAAAAAATAAAA-GATGATAAT
1 TGGAAAAT-AAAAAAAAGAAAAGGATGATAAT
13091636 T
1 T
13091637 AATTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (31 bp):
TGGAAAATAAAAAAAAGAAAAGGATGATAAT
Found at i:13092745 original size:65 final size:65
Alignment explanation
Indices: 13092596--13092745 Score: 255
Period size: 65 Copynumber: 2.3 Consensus size: 65
13092586 GGACTACCGT
* *
13092596 AGCTCTTTGTGAGTGTCCTATTTTATGATCGGTTATGATCCTGCATATATTGCAGACACAAATGC
1 AGCTCTTTGTGAGCGTCCTGTTTTATGATCGGTTATGATCCTGCATATATTGCAGACACAAATGC
* * *
13092661 AACTCTTTGTGAGCGTCCTGTTTTATGATCGGTTGTGATCCTGCATATGTTGCAGACACAAATGC
1 AGCTCTTTGTGAGCGTCCTGTTTTATGATCGGTTATGATCCTGCATATATTGCAGACACAAATGC
13092726 AGCTCTTTGTGAGCGTCCTG
1 AGCTCTTTGTGAGCGTCCTG
13092746 ATATGGCTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (65 bp):
AGCTCTTTGTGAGCGTCCTGTTTTATGATCGGTTATGATCCTGCATATATTGCAGACACAAATGC
Found at i:13092928 original size:26 final size:26
Alignment explanation
Indices: 13092898--13092954 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13092888 CTTCTTGAAA
13092898 GGCTCTTTATGAGCTTTCCTATTA-AT
1 GGCTCTTTATGAGC-TTCCTATTATAT
* *
13092924 GGCTCTTTGTGAGCTTCCTGTTATAT
1 GGCTCTTTATGAGCTTCCTATTATAT
13092950 GGCTC
1 GGCTC
13092955 AAGAGAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (26 bp):
GGCTCTTTATGAGCTTCCTATTATAT
Found at i:13094927 original size:44 final size:44
Alignment explanation
Indices: 13094855--13095047 Score: 226
Period size: 44 Copynumber: 4.4 Consensus size: 44
13094845 GCTAATTTAC
* * * * * *
13094855 TCCAATGTATATAATTTATATTAGAAAGTTTGTTCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGACAAAGTTGGTTCCAAGTTTGT
* * *
13094899 TCCAATGAATCTAATTGAAATGACAAAGTTTGTTTCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGACAAAGTTGGTTCCAAGTTTGT
* * *
13094943 TCTAATTAATCTAATTTAAA-GTACAAAGTTGGTGCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATG-ACAAAGTTGGTTCCAAGTTTGT
* * *
13094987 TACAATGAATCTAATTTAAATTACAAAGTTGGTTCCAAGTTTGG
1 TCCAATGAATCTAATTTAAATGACAAAGTTGGTTCCAAGTTTGT
*
13095031 TGCAATGAATCTAATTT
1 TCCAATGAATCTAATTT
13095048 TTACGGGTAT
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.01
44 126 0.99
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (44 bp):
TCCAATGAATCTAATTTAAATGACAAAGTTGGTTCCAAGTTTGT
Found at i:13097699 original size:43 final size:43
Alignment explanation
Indices: 13097633--13097718 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
13097623 TATATAATTG
13097633 ATATTGAAATGATAAAGACGAGAAATGAATACGAGATGAGAAA
1 ATATTGAAATGATAAAGACGAGAAATGAATACGAGATGAGAAA
* * * *
13097676 ATATTGAAATGGA-AAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAAT-GATAAAGACGAGAAATGAATACGAGATGAGAAA
13097719 TGAAATATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 36 0.95
44 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.23, T:0.22
Consensus pattern (43 bp):
ATATTGAAATGATAAAGACGAGAAATGAATACGAGATGAGAAA
Found at i:13102040 original size:21 final size:21
Alignment explanation
Indices: 13102006--13102046 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13101996 GGCAAAAGGA
*
13102006 AATTTAAAGGCAAAAAGGGTG
1 AATTTAAAGACAAAAAGGGTG
* *
13102027 AATTTGAAGACAAAATGGGT
1 AATTTAAAGACAAAAAGGGT
13102047 CAGCATGCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.22
Consensus pattern (21 bp):
AATTTAAAGACAAAAAGGGTG
Found at i:13107280 original size:108 final size:108
Alignment explanation
Indices: 13107091--13107285 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 108
13107081 AAACAAAAAA
* *
13107091 AAATTAGGAATGTGTTGGGCTGAGTAACCGGGGTAGGGTACTTGGCTATCATCTCTCTTCGCGTC
1 AAATTAGGAATATGTTGGGCTGAGTAACCGAGGTAGGGTACTTGGCTATCATCTCTCTTCGCGTC
13107156 AAAAGGTTCAATATATTCTTAAAAATATATATATAAATATAAT
66 AAAAGGTTCAATATATTCTTAAAAATATATATATAAATATAAT
* * * * * *
13107199 AAATTAGGAGTATGTTGGGCTGAGTAACCGAGTTGGGGTGCTTGGTTGTCATCTCTCTTCGCGTC
1 AAATTAGGAATATGTTGGGCTGAGTAACCGAGGTAGGGTACTTGGCTATCATCTCTCTTCGCGTC
13107264 AAAAGGTTCAATATATTCTTAA
66 AAAAGGTTCAATATATTCTTAA
13107286 GCAAAGAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 79 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (108 bp):
AAATTAGGAATATGTTGGGCTGAGTAACCGAGGTAGGGTACTTGGCTATCATCTCTCTTCGCGTC
AAAAGGTTCAATATATTCTTAAAAATATATATATAAATATAAT
Found at i:13109382 original size:13 final size:13
Alignment explanation
Indices: 13109364--13109391 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13109354 TTTCGATTTG
13109364 AATTATTTTTTAA
1 AATTATTTTTTAA
13109377 AATTATTTTTTAA
1 AATTATTTTTTAA
13109390 AA
1 AA
13109392 CTTTTTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATTTTTTAA
Found at i:13115088 original size:7 final size:6
Alignment explanation
Indices: 13115065--13115094 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
13115055 ATACTATCAG
13115065 TTTAAT TTTAAT TTTAATT TTTAAT TTTAA
1 TTTAAT TTTAAT TTTAA-T TTTAAT TTTAA
13115095 AAGCTCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:13115088 original size:13 final size:12
Alignment explanation
Indices: 13115065--13115094 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
13115055 ATACTATCAG
13115065 TTTAATTTTAAT
1 TTTAATTTTAAT
13115077 TTTAATTTTTAAT
1 TTTAA-TTTTAAT
13115090 TTTAA
1 TTTAA
13115095 AAGCTCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:13118168 original size:21 final size:22
Alignment explanation
Indices: 13118144--13118190 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
13118134 CTCTACTCAA
*
13118144 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
13118165 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
13118187 ACTC
1 ACTC
13118191 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:13145722 original size:15 final size:15
Alignment explanation
Indices: 13145699--13145730 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13145689 TTTCAAATCA
13145699 TTTTAAAAAACCAAT
1 TTTTAAAAAACCAAT
*
13145714 TTTTCAAAAACCAAT
1 TTTTAAAAAACCAAT
13145729 TT
1 TT
13145731 AAAACCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTTAAAAAACCAAT
Found at i:13151114 original size:28 final size:28
Alignment explanation
Indices: 13151056--13151166 Score: 106
Period size: 28 Copynumber: 4.1 Consensus size: 28
13151046 CACATATCAT
*
13151056 ATATCACTAAGCA-CAAAGTGC-AAAT-
1 ATATCAATAAGCACCAAAGTGCAAAATA
13151081 A-A-CAATAAGCACCAAAGTGCAAAATA
1 ATATCAATAAGCACCAAAGTGCAAAATA
* * *
13151107 ATATCAATAAGCACTAAAGTGCAAATTTT
1 ATATCAATAAGCACCAAAGTGCAAA-ATA
* * * *
13151136 ACAACGATAAGCACCAAAGTGCGAAATA
1 ATATCAATAAGCACCAAAGTGCAAAATA
13151164 ATA
1 ATA
13151167 CGATAAACAC
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
23 8 0.12
24 9 0.13
25 5 0.07
26 1 0.01
27 1 0.01
28 23 0.34
29 21 0.31
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.19
Consensus pattern (28 bp):
ATATCAATAAGCACCAAAGTGCAAAATA
Found at i:13152440 original size:60 final size:57
Alignment explanation
Indices: 13152298--13152442 Score: 177
Period size: 60 Copynumber: 2.5 Consensus size: 57
13152288 TTATTAATTC
* *
13152298 ATAT-TTTAATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAA
1 ATATATTTAATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAA
* * * *
13152355 TTGTATTTAACAATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTATTAAA
1 ATATATTTAATAATAATTATATTAAAATATGATTAAATTA--TA-TATTATTTTATTAAA
13152415 ATATATTTAATAATAATCT-TATTAAAAT
1 ATATATTTAATAATAAT-TATATTAAAAT
13152443 TTAATAACGA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
57 15 0.21
58 18 0.25
59 2 0.03
60 37 0.51
61 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (57 bp):
ATATATTTAATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAA
Found at i:13152652 original size:16 final size:16
Alignment explanation
Indices: 13152612--13152652 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
13152602 ATTATAACTT
*
13152612 TATTCAATTACAACCC
1 TATTCCATTACAACCC
*
13152628 TATTCCATTACAGCCC
1 TATTCCATTACAACCC
*
13152644 TATTTCATT
1 TATTCCATT
13152653 CACCCAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.39
Consensus pattern (16 bp):
TATTCCATTACAACCC
Found at i:13154610 original size:16 final size:16
Alignment explanation
Indices: 13154589--13154619 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13154579 AATTTAATTT
13154589 AATTAATTAATTTTCC
1 AATTAATTAATTTTCC
13154605 AATTAATTAATTTTC
1 AATTAATTAATTTTC
13154620 TCAACCCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTAATTTTCC
Found at i:13159453 original size:24 final size:24
Alignment explanation
Indices: 13159419--13159470 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
13159409 TTTCTAGAAG
* **
13159419 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
13159443 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
13159467 ATTT
1 ATTT
13159471 GAATTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:13159481 original size:24 final size:24
Alignment explanation
Indices: 13159436--13159481 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13159426 ATTTATGAGT
*
13159436 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAGAATTTATTAAC
13159460 ATAATATATTT-GAATTTGATTA
1 ATAATATATTTAGAATTT-ATTA
13159482 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAGAATTTATTAAC
Found at i:13167670 original size:57 final size:57
Alignment explanation
Indices: 13167556--13167677 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 57
13167546 GAAAATGGAG
* * ** * * *
13167556 AAATGATTATGGTTTTCTCCAAAATGAAATTGAAAATGGAGAAATGAAATCATTTGA
1 AAATGAATATGGTTTTCTCAAAAATGAAAAAGAAAATAGAAAAATGAAATCACTTGA
* *
13167613 AAATGAATGTGGTTTTCTCAAAAATGAAAAAGAAAA-AGAAAAATGAAAATGACTTGA
1 AAATGAATATGGTTTTCTCAAAAATGAAAAAGAAAATAGAAAAATG-AAATCACTTGA
*
13167670 AAGTGAAT
1 AAATGAAT
13167678 TTATATTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 7 0.13
57 47 0.87
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (57 bp):
AAATGAATATGGTTTTCTCAAAAATGAAAAAGAAAATAGAAAAATGAAATCACTTGA
Found at i:13172334 original size:252 final size:254
Alignment explanation
Indices: 13171840--13172344 Score: 804
Period size: 252 Copynumber: 2.0 Consensus size: 254
13171830 ATTTAGTAAT
13171840 TAATTTTAAAATATTTCATTAATAATTTGGGTTTTTAATTTATTAATTAAATTGGATAAATTTTA
1 TAATTTTAAAATATTTCATTAATAATTTGGGTTTTTAATTTATTAATTAAATTGGATAAATTTTA
*
13171905 TTCTTTGGTCCTTTAAACTTGTTGATTTATTCTGGACAGATCTGATAGCTTTGTTAGATTACAAA
66 TTCTTTGGTCCTTTAAACTTGTTGATTTATTCTGGACAGATCTGATAGCTTTGCTAGATTACAAA
*
13171970 ACCGTCCAAATTAGAGACCAAGTCAACCCCAAAATTTAGCTACACATGGCTATCCATAAACTACT
131 ACCGTCCAAATTAGAGACCAAGTCAACCCCAAAATTTAGCTACACATGGCTATCCATAAACCACT
*
13172035 CTTTGGTTTAATTGCACAAGATCCTTGAAGAGTTGAAAAAATTAGAGATTTACCTGAAA
196 CTTTGGTTTAATTCCACAAGATCCTTGAAGAGTTGAAAAAATTAGAGATTTACCTGAAA
*
13172094 TAATTTATTAAATATTTCATTAATAATTTGGG-TTTTAA-TTATTTAATTAAATTGGATAAATTT
1 TAATTT-TAAAATATTTCATTAATAATTTGGGTTTTTAATTTA-TTAATTAAATTGGATAAATTT
* *
13172157 TATTCTTTGGTCCTTT-AACTTGTTGATTTATTTTGGACAGGTCCT-ATAGCTTTGCTAGATTAC
64 TATTCTTTGGTCCTTTAAACTTGTTGATTTATTCTGGACAGAT-CTGATAGCTTTGCTAGATTAC
* * * * * * *
13172220 AAAACTGTCCAAATTGGAGACCAAGTCCA-CCCAAAATTTGGCTGCACATGGTTGTCCATAAACC
128 AAAACCGTCCAAATTAGAGACCAAGTCAACCCCAAAATTTAGCTACACATGGCTATCCATAAACC
* * *
13172284 ACTCTTTGGTTTAGTTCCACAAGGTCCTTGAAGAGTTGAAGAAATTAGAGATTTACCTGAA
193 ACTCTTTGGTTTAATTCCACAAGATCCTTGAAGAGTTGAAAAAATTAGAGATTTACCTGAA
13172345 GATTTGCACT
Statistics
Matches: 232, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
252 87 0.38
253 70 0.30
254 51 0.22
255 24 0.10
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (254 bp):
TAATTTTAAAATATTTCATTAATAATTTGGGTTTTTAATTTATTAATTAAATTGGATAAATTTTA
TTCTTTGGTCCTTTAAACTTGTTGATTTATTCTGGACAGATCTGATAGCTTTGCTAGATTACAAA
ACCGTCCAAATTAGAGACCAAGTCAACCCCAAAATTTAGCTACACATGGCTATCCATAAACCACT
CTTTGGTTTAATTCCACAAGATCCTTGAAGAGTTGAAAAAATTAGAGATTTACCTGAAA
Found at i:13183081 original size:21 final size:20
Alignment explanation
Indices: 13183036--13183082 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
13183026 TATGCAAACC
* *
13183036 AAATGAAATACATTTTAGTA
1 AAATTAAATACATTTTAGCA
13183056 AAATTAAATACAATTTT-GCA
1 AAATTAAATAC-ATTTTAGCA
13183076 ACAATTA
1 A-AATTA
13183083 TAACATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (20 bp):
AAATTAAATACATTTTAGCA
Found at i:13183813 original size:19 final size:20
Alignment explanation
Indices: 13183789--13183835 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
13183779 GTTGAGAGAG
**
13183789 GAGAGAATGA-TGAATGAGT
1 GAGAGAATGATTGAAAAAGT
13183808 GAGAG-ATGATTGAAAAAGT
1 GAGAGAATGATTGAAAAAGT
13183827 GAGA-AATGA
1 GAGAGAATGA
13183836 GCTCTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (20 bp):
GAGAGAATGATTGAAAAAGT
Found at i:13195884 original size:69 final size:69
Alignment explanation
Indices: 13195764--13195921 Score: 172
Period size: 69 Copynumber: 2.3 Consensus size: 69
13195754 TATGATTTGT
* * * ** * *
13195764 GAACCCCTGCTTTGTAAATAAGCAAACCCCTACTTTACAAACATGTAAACCCTTGTTTTATAAAC
1 GAACCCCTACTTTGTAAACAAGCAAACACCTACTTTACAAACATACAAACCCCTATTTTATAAAC
*
13195829 ATGC
66 ATAC
* * * * * * *
13195833 GAACCCCTACTTTGTAAACAAGCGAACACCTACTTTATAAATATACGAACCCCTATTTTGTAGAT
1 GAACCCCTACTTTGTAAACAAGCAAACACCTACTTTACAAACATACAAACCCCTATTTTATAAAC
13195898 ATAC
66 ATAC
*
13195902 GAACCCCTATTTTGTAAACA
1 GAACCCCTACTTTGTAAACA
13195922 TGTGAACCCC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.29
Consensus pattern (69 bp):
GAACCCCTACTTTGTAAACAAGCAAACACCTACTTTACAAACATACAAACCCCTATTTTATAAAC
ATAC
Found at i:13195937 original size:23 final size:23
Alignment explanation
Indices: 13195764--13195933 Score: 133
Period size: 23 Copynumber: 7.4 Consensus size: 23
13195754 TATGATTTGT
* * *
13195764 GAACCCCTGCTTTGTAAATAAGC
1 GAACCCCTACTTTGTAAACATGC
* ** *
13195787 AAACCCCTACTTTACAAACATGT
1 GAACCCCTACTTTGTAAACATGC
* * ** *
13195810 AAACCCTTGTTTTATAAACATGC
1 GAACCCCTACTTTGTAAACATGC
*
13195833 GAACCCCTACTTTGTAAACAAGC
1 GAACCCCTACTTTGTAAACATGC
* * * *
13195856 GAACACCTACTTTATAAATATAC
1 GAACCCCTACTTTGTAAACATGC
* * * *
13195879 GAACCCCTATTTTGTAGATATAC
1 GAACCCCTACTTTGTAAACATGC
* *
13195902 GAACCCCTATTTTGTAAACATGT
1 GAACCCCTACTTTGTAAACATGC
13195925 GAACCCCTA
1 GAACCCCTA
13195934 TTTTTTTAAT
Statistics
Matches: 116, Mismatches: 31, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 116 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.29
Consensus pattern (23 bp):
GAACCCCTACTTTGTAAACATGC
Found at i:13195947 original size:23 final size:23
Alignment explanation
Indices: 13195879--13195953 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
13195869 ATAAATATAC
* **
13195879 GAACCCCTA-TTTTGTAGATATAC
1 GAACCCCTATTTTTTTA-ATATGT
* * *
13195902 GAACCCCTATTTTGTAAACATGT
1 GAACCCCTATTTTTTTAATATGT
13195925 GAACCCCTATTTTTTTAATATGT
1 GAACCCCTATTTTTTTAATATGT
*
13195948 AAACCC
1 GAACCC
13195954 TATCACATAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 37 0.90
24 4 0.10
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.36
Consensus pattern (23 bp):
GAACCCCTATTTTTTTAATATGT
Found at i:13196035 original size:17 final size:17
Alignment explanation
Indices: 13196009--13196053 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
13195999 TGCCAAGCCA
*
13196009 TGTGCTAACCCTACCAT
1 TGTGCAAACCCTACCAT
13196026 TGTGCAAACCCCTACCAT
1 TGTGCAAA-CCCTACCAT
* *
13196044 AGTGCGAACC
1 TGTGCAAACC
13196054 TTCCCTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.22
Consensus pattern (17 bp):
TGTGCAAACCCTACCAT
Found at i:13196040 original size:18 final size:18
Alignment explanation
Indices: 13196017--13196053 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13196007 CATGTGCTAA
*
13196017 CCCTACCATTGTGCAAAC
1 CCCTACCATAGTGCAAAC
*
13196035 CCCTACCATAGTGCGAAC
1 CCCTACCATAGTGCAAAC
13196053 C
1 C
13196054 TTCCCTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.41, G:0.14, T:0.19
Consensus pattern (18 bp):
CCCTACCATAGTGCAAAC
Found at i:13196189 original size:38 final size:38
Alignment explanation
Indices: 13196145--13196237 Score: 125
Period size: 38 Copynumber: 2.5 Consensus size: 38
13196135 CCCTACTCAA
*
13196145 GTGCGAACCCCTACCTATATGTGAACCCTGTATTTGAG
1 GTGCGAACCCCTACCTATATGTGAACCCTGTATGTGAG
* * *
13196183 GTGCGAACCCCTACCTATTTTTGAACCCTGTATGTGAT
1 GTGCGAACCCCTACCTATATGTGAACCCTGTATGTGAG
* *
13196221 GTGTG-AGCCCTACCTAT
1 GTGCGAACCCCTACCTAT
13196238 GTGCAAACCA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
37 11 0.22
38 38 0.78
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (38 bp):
GTGCGAACCCCTACCTATATGTGAACCCTGTATGTGAG
Found at i:13196359 original size:23 final size:23
Alignment explanation
Indices: 13196331--13196374 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13196321 AACCCCTATG
*
13196331 TATGATATGCGAACCCTGTTATT
1 TATGATATGCGAAACCTGTTATT
* *
13196354 TATGATTTGTGAAACCTGTTA
1 TATGATATGCGAAACCTGTTA
13196375 AGAATGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
TATGATATGCGAAACCTGTTATT
Found at i:13196425 original size:22 final size:22
Alignment explanation
Indices: 13196410--13196457 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
13196400 ATGATATGCG
13196410 AACCTACGTTGAATGAGATACA
1 AACCTACGTTGAATGAGATACA
* * *
13196432 AACCTATGTTGATTGACATACA
1 AACCTACGTTGAATGAGATACA
13196454 AACC
1 AACC
13196458 CTGTATGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (22 bp):
AACCTACGTTGAATGAGATACA
Found at i:13197113 original size:18 final size:18
Alignment explanation
Indices: 13197090--13197134 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
13197080 ACTACTATTT
*
13197090 TATGTGAGCTGCTTCTTC
1 TATGTGAACTGCTTCTTC
*
13197108 TATGTGAACTGTTTCTT-
1 TATGTGAACTGCTTCTTC
13197125 TCATGTGAAC
1 T-ATGTGAAC
13197135 CGTTATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (18 bp):
TATGTGAACTGCTTCTTC
Found at i:13197145 original size:17 final size:18
Alignment explanation
Indices: 13197109--13197146 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13197099 TGCTTCTTCT
* *
13197109 ATGTGAACTGTTTCTTTC
1 ATGTGAACCGTTTATTTC
13197127 ATGTGAACCG-TTATTTC
1 ATGTGAACCGTTTATTTC
13197144 ATG
1 ATG
13197147 CAAGCTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (18 bp):
ATGTGAACCGTTTATTTC
Found at i:13197647 original size:48 final size:49
Alignment explanation
Indices: 13197591--13197690 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 49
13197581 GGTCATCGAG
*
13197591 GTAAGACTTAGATGCTTTATGTGTGATTT-GAAAATAATCATGAGTTTA
1 GTAAGACTTAGATGCTTTATATGTGATTTGGAAAATAATCATGAGTTTA
* *
13197639 GTAAGACTTAGATGTTTTATATGTGGTTTGGAAAATAATCATGAGTTTA
1 GTAAGACTTAGATGCTTTATATGTGATTTGGAAAATAATCATGAGTTTA
13197688 GTA
1 GTA
13197691 TGCATGAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 26 0.54
49 22 0.46
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (49 bp):
GTAAGACTTAGATGCTTTATATGTGATTTGGAAAATAATCATGAGTTTA
Found at i:13199820 original size:23 final size:23
Alignment explanation
Indices: 13199779--13199824 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13199769 AAACAAAATA
*
13199779 AAACTATGTTTGATGAATGGGAT
1 AAACTATGTTTAATGAATGGGAT
13199802 AAACTATGTTTTAAT-AATGGGAT
1 AAACTATG-TTTAATGAATGGGAT
13199825 TGATTGATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (23 bp):
AAACTATGTTTAATGAATGGGAT
Found at i:13205143 original size:16 final size:16
Alignment explanation
Indices: 13205124--13205172 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
13205114 TTCGTTGTAT
*
13205124 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
13205140 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
13205156 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
13205172 T
1 T
13205173 AGCAAATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:13218489 original size:26 final size:26
Alignment explanation
Indices: 13218460--13218585 Score: 161
Period size: 26 Copynumber: 4.9 Consensus size: 26
13218450 CAGAAAATGA
13218460 AAGCCTTTGTGGCATATCTAAAATAG
1 AAGCCTTTGTGGCATATCTAAAATAG
*
13218486 AAGCCTTTGTGGCATATCTATAATAG
1 AAGCCTTTGTGGCATATCTAAAATAG
* *
13218512 AAGCCTTTGTGGCGTATCTAAAATGG
1 AAGCCTTTGTGGCATATCTAAAATAG
13218538 AAGCCTTTGTGGC-TAATC-AATAAT-G
1 AAGCCTTTGTGGCAT-ATCTAA-AATAG
*
13218563 AAAGTC-TTGTGGCATATCTAAAA
1 -AAGCCTTTGTGGCATATCTAAAA
13218586 GATCAGCCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
25 16 0.18
26 74 0.82
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (26 bp):
AAGCCTTTGTGGCATATCTAAAATAG
Found at i:13218517 original size:52 final size:52
Alignment explanation
Indices: 13218455--13218585 Score: 187
Period size: 52 Copynumber: 2.5 Consensus size: 52
13218445 CATATCAGAA
*
13218455 AATGAAAGCCTTTGTGGCATATCTAAAATAGAAGCCTTTGTGGC-ATATCTAT
1 AATGAAAGCCTTTGTGGCATATCTAAAATAGAAGCCTTTGTGGCTA-ATCAAT
* *
13218507 AAT-AGAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCTAATCAAT
1 AATGA-AAGCCTTTGTGGCATATCTAAAATAGAAGCCTTTGTGGCTAATCAAT
*
13218559 AATGAAAGTC-TTGTGGCATATCTAAAA
1 AATGAAAGCCTTTGTGGCATATCTAAAA
13218586 GATCAGCCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
51 17 0.24
52 52 0.73
53 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (52 bp):
AATGAAAGCCTTTGTGGCATATCTAAAATAGAAGCCTTTGTGGCTAATCAAT
Found at i:13218599 original size:77 final size:78
Alignment explanation
Indices: 13218453--13218601 Score: 184
Period size: 77 Copynumber: 1.9 Consensus size: 78
13218443 AACATATCAG
*
13218453 AAAATGAAAGCCTTTGTGGCATATCTAAAATAGAAGCCTTTGTGGCATATCTATAATAGAAGCCT
1 AAAATGAAAGCCTTTGTGGCATATCTAAAATAGAAGCCTTTGTGGCATATCTATAATAGAAGCCC
13218518 TTGTGGCGTATCT
66 TTGTGGCGTATCT
* *
13218531 AAAATGGAAGCCTTTGTGGC-TAATC-AATAAT-GAAAGTC-TTGTGGCATATCTA-AA-AGATC
1 AAAATGAAAGCCTTTGTGGCAT-ATCTAA-AATAG-AAGCCTTTGTGGCATATCTATAATAGA--
13218590 AGCCCTTGTGGC
61 AGCCCTTGTGGC
13218602 AACCACCCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
75 3 0.05
76 2 0.03
77 29 0.46
78 29 0.46
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (78 bp):
AAAATGAAAGCCTTTGTGGCATATCTAAAATAGAAGCCTTTGTGGCATATCTATAATAGAAGCCC
TTGTGGCGTATCT
Found at i:13226147 original size:30 final size:31
Alignment explanation
Indices: 13226111--13226169 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
13226101 ATAGTACAGT
* *
13226111 GTGGGCCTAAGCCCAGTACAGT-AACAGTGA
1 GTGGGCCTAAGCCCAATACAATAAACAGTGA
*
13226141 GTGGGCCTTAGCCCAATACAATAAACAGT
1 GTGGGCCTAAGCCCAATACAATAAACAGT
13226170 ACAATGCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (31 bp):
GTGGGCCTAAGCCCAATACAATAAACAGTGA
Found at i:13226545 original size:27 final size:27
Alignment explanation
Indices: 13226515--13226574 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
13226505 CAACTCCTAG
*
13226515 GGGTATAACAGTCATTTTACCCTTCGA
1 GGGTATAACAGTCATTTTACCCATCGA
** * *
13226542 GGGTATTTCGGTCGTTTTACCCATCGA
1 GGGTATAACAGTCATTTTACCCATCGA
13226569 GGGTAT
1 GGGTAT
13226575 TTTGGCTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTACCCATCGA
Found at i:13226575 original size:27 final size:27
Alignment explanation
Indices: 13226525--13226666 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
13226515 GGGTATAACA
*
13226525 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
13226552 GTCGTTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
**
13226579 G-CTATTTTACCCATCGACAGTATTTCG
1 GTC-ATTTTACCCATCGAGGGTATTTCG
* * * *
13226606 ATAATTTTACCCTTC-AGGGTTTTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
13226632 ATCATTTTAACCATCGAGGGTA-TTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
13226658 GTCATTTTA
1 GTCATTTTA
13226667 GGCCCATTAC
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
26 33 0.35
27 61 0.65
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTCG
Found at i:13227814 original size:12 final size:12
Alignment explanation
Indices: 13227774--13227815 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
13227764 TCATCCTCAA
13227774 ACTCCATGATTC
1 ACTCCATGATTC
*
13227786 ACTCCCACT-AATC
1 ACT-CCA-TGATTC
13227799 ACTCCATGATTC
1 ACTCCATGATTC
13227811 ACTCC
1 ACTCC
13227816 TTCATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 1 0.04
12 14 0.56
13 9 0.36
14 1 0.04
ACGTcount: A:0.26, C:0.40, G:0.05, T:0.29
Consensus pattern (12 bp):
ACTCCATGATTC
Found at i:13229081 original size:41 final size:41
Alignment explanation
Indices: 13228979--13229084 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
13228969 TCTATAGTGG
* * *
13228979 CGTTTTTGAAAAGGCGCCGCGAATGCTCGTACCTTTAGCGG
1 CGTTTTTGAAAAAGCGCCGCTAATGCTCGTACCTTTAGCGA
*
13229020 CGTTTTTGAAAAAGCGCCGCTAATGTTCGTACCTTTAGCGA
1 CGTTTTTGAAAAAGCGCCGCTAATGCTCGTACCTTTAGCGA
13229061 CGTTTTTGAAAAAGCGCCGCTAAT
1 CGTTTTTGAAAAAGCGCCGCTAAT
13229085 AATAAAATCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (41 bp):
CGTTTTTGAAAAAGCGCCGCTAATGCTCGTACCTTTAGCGA
Found at i:13230351 original size:20 final size:20
Alignment explanation
Indices: 13230329--13230391 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
13230319 TTCGTGATTT
13230329 AAAATTTTAAAATGAATTTTA
1 AAAATTTTAAAATG-ATTTTA
**
13230350 AAAGATTTT-AAATTTTTTTA
1 AAA-ATTTTAAAATGATTTTA
*
13230370 AAAATTTTAAAAAGATTTTA
1 AAAATTTTAAAATGATTTTA
13230390 AA
1 AA
13230392 CTTTTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 18 0.51
21 7 0.20
22 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATTTTAAAATGATTTTA
Found at i:13230359 original size:10 final size:10
Alignment explanation
Indices: 13230332--13230391 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
13230322 GTGATTTAAA
13230332 ATTTTAAAATG
1 ATTTTAAAA-G
13230343 AATTTTAAAAG
1 -ATTTTAAAAG
**
13230354 ATTTTAAATT
1 ATTTTAAAAG
*
13230364 TTTTTAAAA-
1 ATTTTAAAAG
13230373 ATTTTAAAAAG
1 ATTTT-AAAAG
13230384 ATTTTAAA
1 ATTTTAAA
13230392 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 22 0.54
11 6 0.15
12 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAG
Done.