Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 128 of 133
Found at i:24880020 original size:16 final size:18
Alignment explanation
Indices: 24879989--24880024 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
24879979 GATAATTTGA
24879989 AATATGACACAATGATAC
1 AATATGACACAATGATAC
24880007 AATATGA-A-AATGATAC
1 AATATGACACAATGATAC
24880023 AA
1 AA
24880025 ATAGAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (18 bp):
AATATGACACAATGATAC
Found at i:24881123 original size:21 final size:21
Alignment explanation
Indices: 24881086--24881131 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
24881076 AATTAAAAAA
*
24881086 ATAA-TAAAAATTATTATAATT
1 ATAATTAAAAAATATTAT-ATT
24881107 ATAATTAAAAAAT-TTATATT
1 ATAATTAAAAAATATTATATT
24881127 A-AATT
1 ATAATT
24881132 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 8 0.35
22 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTAAAAAATATTATATT
Found at i:24881772 original size:24 final size:24
Alignment explanation
Indices: 24881722--24881772 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
24881712 TTTCAACTAA
* *
24881722 AAATACTATATAATAATATAATAT
1 AAATACAATATAATAATATAACAT
*
24881746 AAATACAATATTAA-AATATAACGT
1 AAATACAATA-TAATAATATAACAT
24881770 AAA
1 AAA
24881773 AGTTATACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATACAATATAATAATATAACAT
Found at i:24883058 original size:19 final size:22
Alignment explanation
Indices: 24883034--24883075 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
24883024 TAAATCTCAA
24883034 TATTTTTA-AT-AT-ATTTTTT
1 TATTTTTAGATCATAATTTTTT
24883053 TATTTTTAGATCATAATTTTTT
1 TATTTTTAGATCATAATTTTTT
24883075 T
1 T
24883076 TTTAGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
21 2 0.10
22 8 0.40
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTTTTAGATCATAATTTTTT
Found at i:24883090 original size:19 final size:20
Alignment explanation
Indices: 24883049--24883086 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24883039 TTAATATATT
*
24883049 TTTTTATTTTTAGATCATAA
1 TTTTTATTTTTAGATCAAAA
24883069 TTTTT-TTTTTAGA-CAAAA
1 TTTTTATTTTTAGATCAAAA
24883087 ATTTCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTTATTTTTAGATCAAAA
Found at i:24885883 original size:46 final size:46
Alignment explanation
Indices: 24885830--24885921 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
24885820 AATTTTAAGG
* *
24885830 TCTTAACTTTGTCAGATTCCTTATATATACTACAGTATTCAGCACC
1 TCTTAACTCTGTCAGATTCATTATATATACTACAGTATTCAGCACC
*
24885876 TCTTAACTCTGTCAGATTCATTATATATACTACATTATTCAGCACC
1 TCTTAACTCTGTCAGATTCATTATATATACTACAGTATTCAGCACC
24885922 CCTATCATCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (46 bp):
TCTTAACTCTGTCAGATTCATTATATATACTACAGTATTCAGCACC
Found at i:24887784 original size:21 final size:23
Alignment explanation
Indices: 24887754--24887796 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
24887744 AGATATATTG
24887754 TTCATTAATTTGATC-CAAAAAT
1 TTCATTAATTTGATCTCAAAAAT
*
24887776 TTCA-TAATTTTATCTCAAAAA
1 TTCATTAATTTGATCTCAAAAA
24887797 ATATTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (23 bp):
TTCATTAATTTGATCTCAAAAAT
Found at i:24892004 original size:20 final size:19
Alignment explanation
Indices: 24891979--24892016 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24891969 TAATCAGATC
*
24891979 TAAAATTTTAAAATATATAT
1 TAAAATATTAAAA-ATATAT
24891999 TAAAATATTAAAAATATA
1 TAAAATATTAAAAATATA
24892017 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATATTAAAAATATAT
Found at i:24893921 original size:118 final size:118
Alignment explanation
Indices: 24893712--24893943 Score: 410
Period size: 118 Copynumber: 2.0 Consensus size: 118
24893702 TGCTGCTCAT
* * *
24893712 TGATGCTTAAAGTCAAGCTATTGCATGTTTTAGCTTAGCATCATACTCGAAACTCTAACTGAGAG
1 TGATGCTTAAAGTCAAGCGATTGCAGGCTTTAGCTTAGCATCATACTCGAAACTCTAACTGAGAG
**
24893777 CAACAAATTCTAGCTATTCCTGATGAAGCAGTCCAGGCAAACGAATTTCCCAC
66 CAACAAATTCTAGCTATTCCCAATGAAGCAGTCCAGGCAAACGAATTTCCCAC
*
24893830 TGATGTTTAAAGTCAAGCGATTGCAGGCTTTAGCTTAGCATCATACTCGAAACTCTAACTGAGAG
1 TGATGCTTAAAGTCAAGCGATTGCAGGCTTTAGCTTAGCATCATACTCGAAACTCTAACTGAGAG
24893895 CAACAAATTCTAGCTATTCCCAATGAAGCAGTCCAGGCAAACGAATTTC
66 CAACAAATTCTAGCTATTCCCAATGAAGCAGTCCAGGCAAACGAATTTC
24893944 TCGTCACCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 108 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (118 bp):
TGATGCTTAAAGTCAAGCGATTGCAGGCTTTAGCTTAGCATCATACTCGAAACTCTAACTGAGAG
CAACAAATTCTAGCTATTCCCAATGAAGCAGTCCAGGCAAACGAATTTCCCAC
Found at i:24896852 original size:79 final size:79
Alignment explanation
Indices: 24896790--24896968 Score: 263
Period size: 79 Copynumber: 2.3 Consensus size: 79
24896780 ATTAATTTTA
* *
24896790 AATCGAATCAAATCT-AATATAATATTATATAATATCGGATTAAATCAAATTTAAATATAAAAAA
1 AATCGAATCAAAT-TAAATATAATATTATATAATATCGAATTAAATCAAATTCAAATATAAAAAA
24896854 ATATAAAAAATATTT
65 ATATAAAAAATATTT
* * *
24896869 ATTCGAATCAAATTAAATATAATATTATATAATATCGAATTAAGTCGAATTCAAATATAAAAAAA
1 AATCGAATCAAATTAAATATAATATTATATAATATCGAATTAAATCAAATTCAAATATAAAAAAA
24896934 TATAAAAAATA-TT
66 TATAAAAAATATTT
*
24896947 AATTCGAATTAAATTCAAATAT
1 AA-TCGAATCAAATT-AAATAT
24896969 TACAAATATA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 4 0.04
79 80 0.89
80 6 0.07
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (79 bp):
AATCGAATCAAATTAAATATAATATTATATAATATCGAATTAAATCAAATTCAAATATAAAAAAA
TATAAAAAATATTT
Found at i:24896945 original size:42 final size:41
Alignment explanation
Indices: 24896787--24896945 Score: 116
Period size: 42 Copynumber: 3.9 Consensus size: 41
24896777 TTTATTAATT
* * * * *
24896787 TTAAATCGAA-TCAAATCTAATATAATATTATATAATATCGGA
1 TTAAATCGAATTCAAATATAAAAAAATA-TAAAAAATATC-GA
* *
24896829 TTAAATCAAATTTAAATATAAAAAAATATAAAAAATAT---
1 TTAAATCGAATTCAAATATAAAAAAATATAAAAAATATCGA
* * * *
24896867 TT-ATTCGAA-TCAAAT-TAAATATAATATTATATAATATCGAA
1 TTAAATCGAATTCAAATATAAA-AAAATA-TAAAAAATATCG-A
*
24896908 TTAAGTCGAATTCAAATATAAAAAAATATAAAAAATAT
1 TTAAATCGAATTCAAATATAAAAAAATATAAAAAATAT
24896946 TAATTCGAAT
Statistics
Matches: 90, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
35 4 0.04
36 10 0.11
37 13 0.14
38 2 0.02
41 2 0.02
42 31 0.34
43 24 0.27
44 4 0.04
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (41 bp):
TTAAATCGAATTCAAATATAAAAAAATATAAAAAATATCGA
Found at i:24896967 original size:32 final size:31
Alignment explanation
Indices: 24896931--24896992 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
24896921 AAATATAAAA
* *
24896931 AAATATAAAAAATATTAATTCGAATTAAATTC
1 AAATATAAAAAATATAAATTAG-ATTAAATTC
* *
24896963 AAATATTACAAATATAAATTAGATTAAATT
1 AAATATAAAAAATATAAATTAGATTAAATT
24896993 TGAAACGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.35
Consensus pattern (31 bp):
AAATATAAAAAATATAAATTAGATTAAATTC
Found at i:24897879 original size:7 final size:7
Alignment explanation
Indices: 24897867--24897892 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24897857 ACATCATCAT
24897867 AATTGAA
1 AATTGAA
24897874 AATTGAA
1 AATTGAA
24897881 AATTGAA
1 AATTGAA
24897888 AATTG
1 AATTG
24897893 GCTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (7 bp):
AATTGAA
Found at i:24903882 original size:15 final size:15
Alignment explanation
Indices: 24903862--24903890 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24903852 TATTAAAAAT
24903862 AATTTTAAAAATTTA
1 AATTTTAAAAATTTA
24903877 AATTTTAAAAATTT
1 AATTTTAAAAATTT
24903891 TAAAACCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTTAAAAATTTA
Found at i:24912038 original size:18 final size:19
Alignment explanation
Indices: 24912015--24912056 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24912005 TTCAAAATTA
24912015 ATAAAATATT-TTTTAAAT
1 ATAAAATATTATTTTAAAT
*
24912033 ATAAAATATTATTTTTAAT
1 ATAAAATATTATTTTAAAT
24912052 ATAAA
1 ATAAA
24912057 TATAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAAATATTATTTTAAAT
Found at i:24912057 original size:18 final size:17
Alignment explanation
Indices: 24912012--24912059 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
24912002 CGATTCAAAA
24912012 TTAATA-AAATATTTTT
1 TTAATATAAATATTTTT
*
24912028 TAAATATAAAATATTATTT
1 TTAATAT-AAATATT-TTT
24912047 TTAATATAAATAT
1 TTAATATAAATAT
24912060 AAAATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
18 13 0.48
19 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATATAAATATTTTT
Found at i:24912073 original size:16 final size:17
Alignment explanation
Indices: 24912047--24912079 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
24912037 AATATTATTT
24912047 TTAATATAAATATAAAA
1 TTAATATAAATATAAAA
24912064 TTAA-ATAAATATAAAA
1 TTAATATAAATATAAAA
24912080 ATATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAATATAAATATAAAA
Found at i:24920508 original size:2 final size:2
Alignment explanation
Indices: 24920501--24920525 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24920491 TGCTAAAGGT
24920501 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 T
24920526 CTTATGGAGT
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24920606 original size:263 final size:255
Alignment explanation
Indices: 24920140--24920658 Score: 896
Period size: 263 Copynumber: 2.0 Consensus size: 255
24920130 TGATGTGGTA
*
24920140 TGCATTGTTTTTTAAGCTGATTTGATCATTGTTGATATGCATTGCTTGAGAAACATTTGATAATC
1 TGCATTGTTTTTGAAGCTGATTTGATCATTGTTGATATGCATTGCTTGAGAAACATTTGATAATC
24920205 TTTTTGTATCACCTATTCATACCTTTTTGCTAAAGGTTATATATATATATATATATATCTTATGG
66 TTTTTGTATCACCTATTCATACCTTTTTGCTAAAGGTTATATATATATATATATATATCTTATGG
*
24920270 AGTTTGATAATTGAAGAATGGAAATCTTGCAAATGAATCTAATTTTTGCCTTCAAGAAACTTGTT
131 AGTTTGATAATTGAAGAATGGAAATCCTGCAAATGAATCTAATTTTTGCCTTCAAGAAACTTGTT
*
24920335 TACCATATTTTCATTTAATTTTTTAACACACTGGTCATTGGCTATCTTGGTTTTCGGGTT
196 TACCATATTTTCATTTAATTTTTTAACAAACTGGTCATTGGCTATCTTGGTTTTCGGGTT
24920395 TGCATTGTTTTTGAAGCTGATTTGATCATTGTTGATATGCATTGCTTGCTTGAGAAACATTTGAT
1 TGCATTGTTTTTGAAGCTGATTTGATCATTGTTGATATGCA----TTGCTTGAGAAACATTTGAT
*
24920460 AATCTTTTTGTATCACCTATTCTTACCTTTTTGCTAAAGGTTATATATATATATATATATATATA
62 AATCTTTTTGTATCACCTATTCATACCTTTTTGCTAAAGG---T-TATATATATATATATATATA
24920525 TCTTATGGAGTTTGATAATTGAAGAATGGAAATCCTGCAAATGAATCTAATTTTTGCCTTC-AGT
123 TCTTATGGAGTTTGATAATTGAAGAATGGAAATCCTGCAAATGAATCTAATTTTTGCCTTCAAG-
* *
24920589 AAACTTGTTTGCCATATTTTCATTTAATTTTTTAACAAACTGGTCATTGGCTATCTTGGTTTTCT
187 AAACTTGTTTACCATATTTTCATTTAATTTTTTAACAAACTGGTCATTGGCTATCTTGGTTTTCG
24920654 GGTT
252 GGTT
24920658 T
1 T
24920659 CTGGGCCATT
Statistics
Matches: 249, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
255 40 0.16
259 59 0.24
262 3 0.01
263 147 0.59
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (255 bp):
TGCATTGTTTTTGAAGCTGATTTGATCATTGTTGATATGCATTGCTTGAGAAACATTTGATAATC
TTTTTGTATCACCTATTCATACCTTTTTGCTAAAGGTTATATATATATATATATATATCTTATGG
AGTTTGATAATTGAAGAATGGAAATCCTGCAAATGAATCTAATTTTTGCCTTCAAGAAACTTGTT
TACCATATTTTCATTTAATTTTTTAACAAACTGGTCATTGGCTATCTTGGTTTTCGGGTT
Found at i:24929691 original size:2 final size:2
Alignment explanation
Indices: 24929684--24929710 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24929674 TTGTTGGGTA
24929684 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
24929711 TTCATGCCAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24932989 original size:29 final size:30
Alignment explanation
Indices: 24932928--24932991 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
24932918 ATTTTAAAAC
*
24932928 TTTAATTAATTCAAAATAAAATTTTAAATA
1 TTTAATTAATTCAAAATAAAATATTAAATA
**
24932958 TTTAATTAATT-GTAATAAAATATTATAA-A
1 TTTAATTAATTCAAAATAAAATATTA-AATA
24932987 TTTAA
1 TTTAA
24932992 ATTATTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
TTTAATTAATTCAAAATAAAATATTAAATA
Found at i:24937880 original size:19 final size:19
Alignment explanation
Indices: 24937858--24937896 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24937848 ATTTTTTTGA
24937858 AATTACAAATAAAA-ATTAT
1 AATTA-AAATAAAATATTAT
*
24937877 AATTATAATAAAATATTAT
1 AATTAAAATAAAATATTAT
24937896 A
1 A
24937897 TTCAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTAAAATAAAATATTAT
Found at i:24938835 original size:144 final size:145
Alignment explanation
Indices: 24938458--24938865 Score: 694
Period size: 146 Copynumber: 2.8 Consensus size: 145
24938448 CCTGGGTAAA
* *
24938458 TTTCTTTTCTTTTTTCTGTTTGTTTCCTTAGAAAGTGCTGGAAAGTGAACGAAAGTCTTTAGATT
1 TTTCTTTTCTTTTTTCTGTTTGTTTCCTTAGAAAGTGCGGGAAAGTGAAGGAAAGTCTTTAGATT
*
24938523 TTCGATTACCCATTACTTAATGACATGTTAAAAATTAAATTAACTGAAAACTAGCAAGGGTTGTT
66 TTCGATTACCCATTACTTAATGACATGTAAAAAATTAAATTAACTGAAAACTAGCAAGGGTTGTT
*
24938588 TTTTATGTTTCCTTC
131 TTTTATATTTCCTTC
*
24938603 TTTCTTTTCCTTTTTTCTGTTTGTTTCCTTAGAAAGTGCGGGAAAGTGAAGGAAAGTCTTTACAT
1 TTTCTTTT-CTTTTTTCTGTTTGTTTCCTTAGAAAGTGCGGGAAAGTGAAGGAAAGTCTTTAGAT
* *
24938668 TTTCGATTATCCATTACTTAATGACACGTAAAAAATTAAATTAACTGAAAACTAGCAAGGGTTGT
65 TTTCGATTACCCATTACTTAATGACATGTAAAAAATTAAATTAACTGAAAACTAGCAAGGGTTGT
*
24938733 TTTTTATATTTCCTTT
130 TTTTTATATTTCCTTC
*
24938749 TTTCTTTTC-TTTTTCTGTTTGTTTCCTTAGAAAGTGCGGGAAAGTAAAGGAAAGTCTTTAGATT
1 TTTCTTTTCTTTTTTCTGTTTGTTTCCTTAGAAAGTGCGGGAAAGTGAAGGAAAGTCTTTAGATT
* *
24938813 TTCGATTACCCATTGCTTAATGACGTGTAAAAAATTAAATTAACTG-AAACTAG
66 TTCGATTACCCATTACTTAATGACATGTAAAAAATTAAATTAACTGAAAACTAG
24938866 AAACTAGAAA
Statistics
Matches: 248, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
143 7 0.03
144 95 0.38
145 9 0.04
146 137 0.55
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (145 bp):
TTTCTTTTCTTTTTTCTGTTTGTTTCCTTAGAAAGTGCGGGAAAGTGAAGGAAAGTCTTTAGATT
TTCGATTACCCATTACTTAATGACATGTAAAAAATTAAATTAACTGAAAACTAGCAAGGGTTGTT
TTTTATATTTCCTTC
Found at i:24938890 original size:2 final size:2
Alignment explanation
Indices: 24938883--24938919 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
24938873 AAAGGGTTGT
*
24938883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24938920 TACATTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24941139 original size:12 final size:12
Alignment explanation
Indices: 24941124--24941156 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
24941114 ACACTGGCCT
24941124 TGGAGGTGGCTA
1 TGGAGGTGGCTA
*
24941136 TGGAAGTGGCTA
1 TGGAGGTGGCTA
24941148 TGGAGGTGG
1 TGGAGGTGG
24941157 TGCTGGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.52, T:0.24
Consensus pattern (12 bp):
TGGAGGTGGCTA
Found at i:24941736 original size:22 final size:22
Alignment explanation
Indices: 24941711--24941757 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24941701 TAAAAATATA
*
24941711 AAATATATTTTTTAA-TTTTATT
1 AAATATA-TTTATAATTTTTATT
*
24941733 AAATTTATTTATAATTTTTATT
1 AAATATATTTATAATTTTTATT
24941755 AAA
1 AAA
24941758 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATATATTTATAATTTTTATT
Found at i:24943546 original size:135 final size:135
Alignment explanation
Indices: 24943293--24943539 Score: 379
Period size: 135 Copynumber: 1.8 Consensus size: 135
24943283 TAGTTTACGT
* * *
24943293 AAGTGAAATTTTGATTAAGGGTTGGCGAGTTTATGCAATGGCAAGCGTATGAAAGCTGTTTCACA
1 AAGTGAAATTTTGATTAAGGGTTGCCAAGTTTATGCAATGGCAAGCATATGAAAGCTGTTTCACA
* * *
24943358 GATGTATAGTTTATGAAATCAGATTGAAGAAGTGGTTCTCCCATTTTCAGCTTTTGATTGTAGGT
66 GATGTATAGTTTAAGAAATCAGATTGAAGAAGTGGTTATCACATTTTCAGCTTTTGATTGTAGGT
24943423 TATGG
131 TATGG
* * *
24943428 AAGTGAAATTTTGATTAATGGTTGCCAAGTTTATGCAATGGCAAGCATATGAAAGCTTTTTGACA
1 AAGTGAAATTTTGATTAAGGGTTGCCAAGTTTATGCAATGGCAAGCATATGAAAGCTGTTTCACA
* *
24943493 GATGTATAGTTTACAG-AATCAGATTGAAGGAGTGGTTATCAGATTTT
66 GATGTATAGTTTA-AGAAATCAGATTGAAGAAGTGGTTATCACATTTT
24943540 TGGCTTTGGA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
135 99 0.99
136 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (135 bp):
AAGTGAAATTTTGATTAAGGGTTGCCAAGTTTATGCAATGGCAAGCATATGAAAGCTGTTTCACA
GATGTATAGTTTAAGAAATCAGATTGAAGAAGTGGTTATCACATTTTCAGCTTTTGATTGTAGGT
TATGG
Found at i:24944854 original size:2 final size:2
Alignment explanation
Indices: 24944847--24944878 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24944837 TATCCTGCTT
24944847 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
24944879 ATTAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24946935 original size:17 final size:19
Alignment explanation
Indices: 24946915--24946951 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
24946905 TTAAAAGCTA
24946915 TTTTATT-ATAT-TGTAAT
1 TTTTATTAATATGTGTAAT
24946932 TTTTATTAATATGTGTAAT
1 TTTTATTAATATGTGTAAT
24946951 T
1 T
24946952 AAAAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTATTAATATGTGTAAT
Found at i:24947404 original size:18 final size:18
Alignment explanation
Indices: 24947383--24947427 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24947373 TGATATGAAT
* * *
24947383 TATAATATATAATTTTTA
1 TATAAAATAAAATTTATA
24947401 TATAAAATAAAATTTATA
1 TATAAAATAAAATTTATA
24947419 TATATAAAT
1 TATA-AAAT
24947428 TTTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAAAATAAAATTTATA
Found at i:24947435 original size:16 final size:15
Alignment explanation
Indices: 24947382--24947435 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
24947372 TTGATATGAA
*
24947382 TTATAATATATAATTT
1 TTAT-ATATATAAATT
* *
24947398 TTATATAAAATAAAAT
1 TTATAT-ATATAAATT
24947414 TTATATATATAAATT
1 TTATATATATAAATT
24947429 TTA-ATAT
1 TTATATAT
24947436 TTTATATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 4 0.12
15 12 0.38
16 16 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATATATATAAATT
Found at i:24951550 original size:20 final size:22
Alignment explanation
Indices: 24951525--24951570 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
24951515 AAAATGTATA
24951525 AAATTT-AAAATA-ATTTTAAT
1 AAATTTGAAAATATATTTTAAT
* *
24951545 AAATTTGAATATATATTTTTAT
1 AAATTTGAAAATATATTTTAAT
24951567 AAAT
1 AAAT
24951571 ATTTTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 5 0.23
22 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATTTGAAAATATATTTTAAT
Found at i:24951734 original size:20 final size:20
Alignment explanation
Indices: 24951709--24951748 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24951699 TTACCGTATA
24951709 TATAAAAATAATAATAAAAT
1 TATAAAAATAATAATAAAAT
** *
24951729 TATAAATTTAATTATAAAAT
1 TATAAAAATAATAATAAAAT
24951749 AAATTGAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAATAATAATAAAAT
Found at i:24952753 original size:28 final size:28
Alignment explanation
Indices: 24952721--24952778 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
24952711 TAAATATCAT
** * *
24952721 TTTTAAAGGTAATTATATATAAATTAAG
1 TTTTAAAAATAATTATAAACAAATTAAG
*
24952749 TTTTAAAAATAATTGTAAACAAATTAAG
1 TTTTAAAAATAATTATAAACAAATTAAG
24952777 TT
1 TT
24952779 AAATCTAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (28 bp):
TTTTAAAAATAATTATAAACAAATTAAG
Found at i:24959605 original size:15 final size:15
Alignment explanation
Indices: 24959585--24959614 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24959575 TTTTTAATAA
24959585 TATTTTTATAATTTT
1 TATTTTTATAATTTT
24959600 TATTTTTATAATTTT
1 TATTTTTATAATTTT
24959615 GGAATGGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATAATTTT
Found at i:24961277 original size:16 final size:16
Alignment explanation
Indices: 24961258--24961300 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
24961248 ACCATAATTT
*
24961258 TAATTAAAATATAACA
1 TAATTAAAATATAAAA
*
24961274 TAATTCAAATATAAAA
1 TAATTAAAATATAAAA
24961290 TAA--AAAATATA
1 TAATTAAAATATA
24961301 TGAATTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.29
16 17 0.71
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATTAAAATATAAAA
Found at i:24966177 original size:16 final size:16
Alignment explanation
Indices: 24966156--24966192 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
24966146 CACGCCCCGA
24966156 GATCAAGACGTAACAC
1 GATCAAGACGTAACAC
24966172 GATCAAGACGTAACAC
1 GATCAAGACGTAACAC
24966188 GATCA
1 GATCA
24966193 TATTACCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (16 bp):
GATCAAGACGTAACAC
Found at i:24966754 original size:16 final size:16
Alignment explanation
Indices: 24966733--24966765 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24966723 AAAATGATCG
24966733 TAAATCATCATTATCA
1 TAAATCATCATTATCA
24966749 TAAATCATCATTATCA
1 TAAATCATCATTATCA
24966765 T
1 T
24966766 TCAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:24969148 original size:71 final size:71
Alignment explanation
Indices: 24969032--24969174 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
24969022 CGCATCACAC
* *
24969032 TTCAGCTCCAACTGCTCATTCTTCTATTTTCAATATGAGAAATTATTCCTATCAATCTCTTATGA
1 TTCAGCTCCAACTGCTCATTCTTCTATTTTCAATATAAAAAATTATTCCTATCAATCTCTTATGA
24969097 TGTCAA
66 TGTCAA
* * *
24969103 TTCAGCTCCAACTGCTCATTCTTTTATTTTCAATATAAAAAATTATTTCTATCAATCTCTTATGC
1 TTCAGCTCCAACTGCTCATTCTTCTATTTTCAATATAAAAAATTATTCCTATCAATCTCTTATGA
24969168 TGTCAA
66 TGTCAA
24969174 T
1 T
24969175 AGATTACGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.43
Consensus pattern (71 bp):
TTCAGCTCCAACTGCTCATTCTTCTATTTTCAATATAAAAAATTATTCCTATCAATCTCTTATGA
TGTCAA
Found at i:24975762 original size:20 final size:20
Alignment explanation
Indices: 24975734--24975773 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24975724 ATTTTCGATC
24975734 ATGGATTTTCAAAAAATCAT
1 ATGGATTTTCAAAAAATCAT
* *
24975754 ATGGCTTTTCAAAAATTCAT
1 ATGGATTTTCAAAAAATCAT
24975774 TTCCAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGGATTTTCAAAAAATCAT
Found at i:24978195 original size:40 final size:39
Alignment explanation
Indices: 24978125--24978209 Score: 91
Period size: 40 Copynumber: 2.2 Consensus size: 39
24978115 ATAATTCGAT
*
24978125 ATTATAATATAAATATAATATAAAAATAATAAGATTTAAA
1 ATTATAATATAAATATAATATAAAAATAATAA-ATTAAAA
* * **
24978165 ATTATAATA-ATATTTATATATAAATTTAATAAATTAAAA
1 ATTATAATATAAATATA-ATATAAAAATAATAAATTAAAA
*
24978204 AATATA
1 ATTATA
24978210 TATTTTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.42
40 22 0.58
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (39 bp):
ATTATAATATAAATATAATATAAAAATAATAAATTAAAA
Found at i:24978199 original size:32 final size:32
Alignment explanation
Indices: 24978163--24978308 Score: 90
Period size: 30 Copynumber: 4.7 Consensus size: 32
24978153 ATAAGATTTA
*
24978163 AAATTATAATAATATTTATATATAAATTTAAT
1 AAATTATAATAATATATATATATAAATTTAAT
* * * *
24978195 AAATTA-AAAAATATATAT-TTTATATTT-TT
1 AAATTATAATAATATATATATATAAATTTAAT
* * * *
24978224 ATATTAATAAAAAT-TTTATATATAATTTTTATAT
1 AAATT-ATAATAATATATATATATAA-ATTTA-AT
* *
24978258 AAAATATAAT-ATAAATATATA-AAATTTAAT
1 AAATTATAATAATATATATATATAAATTTAAT
** *
24978288 ATTTTAT-ATAATATAAATATA
1 AAATTATAATAATATATATATA
24978309 CGACTCATTA
Statistics
Matches: 84, Mismatches: 22, Indels: 18
0.68 0.18 0.15
Matches are distributed among these distances:
29 7 0.08
30 27 0.32
31 23 0.27
32 13 0.15
33 10 0.12
34 4 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATTATAATAATATATATATATAAATTTAAT
Found at i:24978706 original size:22 final size:22
Alignment explanation
Indices: 24978662--24978703 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24978652 TATGATTTAA
* *
24978662 AATTTTATTAAAAATTATAAAT
1 AATTTTAATAAAAATTAAAAAT
24978684 AATTTTAAT-AAAATTAAAAA
1 AATTTTAATAAAAATTAAAAA
24978704 ATATAATACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTTAATAAAAATTAAAAAT
Found at i:24987131 original size:17 final size:17
Alignment explanation
Indices: 24987109--24987141 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24987099 ATAAATTATA
*
24987109 ACTAAACGAATTTAAAC
1 ACTAAACGAATATAAAC
24987126 ACTAAACGAATATAAA
1 ACTAAACGAATATAAA
24987142 TGAATTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (17 bp):
ACTAAACGAATATAAAC
Found at i:24996720 original size:32 final size:32
Alignment explanation
Indices: 24996684--24996750 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
24996674 TATAATACGT
*
24996684 AATTTTTATATAAAATATAATATAAATATATA
1 AATTTTAATATAAAATATAATATAAATATATA
***
24996716 AATTTTAATATTTTATATAATATAAATATATA
1 AATTTTAATATAAAATATAATATAAATATATA
24996748 AAT
1 AAT
24996751 CGTCAAGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTTTAATATAAAATATAATATAAATATATA
Found at i:25001246 original size:13 final size:13
Alignment explanation
Indices: 25001228--25001262 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
25001218 TTTGAGAAAA
25001228 TATTTTTTATTTT
1 TATTTTTTATTTT
25001241 TATTTTTTATTTT
1 TATTTTTTATTTT
*
25001254 CATTTTTTA
1 TATTTTTTA
25001263 GAAAATAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:25001972 original size:3 final size:3
Alignment explanation
Indices: 25001966--25001998 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
25001956 ATTTTTTTTT
*
25001966 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25001999 AGAAGGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25004810 original size:3 final size:3
Alignment explanation
Indices: 25004802--25004844 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
25004792 AGGCTGATAG
* *
25004802 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGG TGA TGG TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
25004845 TCTGATGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:25007452 original size:22 final size:23
Alignment explanation
Indices: 25007406--25007473 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 23
25007396 ATGATAAAAA
* *
25007406 AAAAATAATAATAATATAAT-T-T
1 AAAATTAATAAAAATA-AATATAT
* *
25007428 AAAATTAATCAAAAT-TATATAT
1 AAAATTAATAAAAATAAATATAT
*
25007450 AAATTTAATAAAAATAAATATAT
1 AAAATTAATAAAAATAAATATAT
25007473 A
1 A
25007474 TTTAATGTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 26 0.72
23 7 0.19
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATTAATAAAAATAAATATAT
Found at i:25007462 original size:21 final size:22
Alignment explanation
Indices: 25007418--25007479 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
25007408 AAATAATAAT
* *
25007418 AATATAATTTAAAATTAATCAAA
1 AATA-AATATAAATTTAATCAAA
* *
25007441 ATTATATATAAATTTAAT-AAA
1 AATAAATATAAATTTAATCAAA
*
25007462 AATAAATATATATTTAAT
1 AATAAATATAAATTTAAT
25007480 GTTTTAACAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 18 0.56
22 11 0.34
23 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAAATATAAATTTAATCAAA
Found at i:25012313 original size:12 final size:12
Alignment explanation
Indices: 25012296--25012328 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
25012286 GTTTAGTGGG
25012296 TTTGTTTTTTAT
1 TTTGTTTTTTAT
25012308 TTTGTTTTTT-T
1 TTTGTTTTTTAT
25012319 TTT-TTTTTTA
1 TTTGTTTTTTA
25012329 AGAATGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.30
11 4 0.20
12 10 0.50
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (12 bp):
TTTGTTTTTTAT
Found at i:25014152 original size:26 final size:26
Alignment explanation
Indices: 25014118--25014181 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
25014108 ATTAAACATG
*
25014118 ATAAT-TAAAAAT-ATGATATATTAAT
1 ATAATATAAAAATAAT-ATATATAAAT
*
25014143 ATAATATAAATATAATATATATAAAT
1 ATAATATAAAAATAATATATATAAAT
*
25014169 AAAATATAAAAAT
1 ATAATATAAAAAT
25014182 GATACGATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.15
26 26 0.79
27 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
ATAATATAAAAATAATATATATAAAT
Found at i:25014154 original size:11 final size:11
Alignment explanation
Indices: 25014135--25014177 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
25014125 AAAATATGAT
*
25014135 ATATTAATATA
1 ATATAAATATA
25014146 ATATAAATATA
1 ATATAAATATA
*
25014157 ATATATATA-A
1 ATATAAATATA
25014167 ATA-AAATATA
1 ATATAAATATA
25014177 A
1 A
25014178 AAATGATACG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 4 0.14
10 6 0.21
11 18 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATAAATATA
Found at i:25014166 original size:15 final size:15
Alignment explanation
Indices: 25014139--25014176 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25014129 TATGATATAT
25014139 TAATATAATATAAATA
1 TAATAT-ATATAAATA
25014155 TAATATATATAAATA
1 TAATATATATAAATA
*
25014170 AAATATA
1 TAATATA
25014177 AAAATGATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATATATATAAATA
Found at i:25014216 original size:22 final size:21
Alignment explanation
Indices: 25014191--25014231 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
25014181 TGATACGATT
*
25014191 TATAATTTTAATAATAATTATA
1 TATAAATTTAATAA-AATTATA
25014213 TATAAATTTAATAAAATTA
1 TATAAATTTAATAAAATTA
25014232 AAAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATAAATTTAATAAAATTATA
Found at i:25016049 original size:165 final size:168
Alignment explanation
Indices: 25015734--25016211 Score: 637
Period size: 165 Copynumber: 2.8 Consensus size: 168
25015724 GAACCTTACA
* * * * *
25015734 TATTTAAGTAATTTAAACTTAAATATCCGATAAATTCAAGATTTCAAAATCGAGTCAAAATATAT
1 TATTTAAATAATTTTAACTTAAATATCCAATAAATTCAAGATTTCAAAATCAAGTCAAGA-ATAT
** * ** * *
25015799 GAGAAGTATACATTTTTATTACGTAAATTAACTAAAATCTCATCGA-GCTAT-CTTTTTCTTTTC
65 GAGAA--ATACACGTATATTAC--AAAAAAACTAAAATCCCATTGATG-TATACTTTTTCTTTTC
25015862 ATGTATTCATGCACAAAGTTTGCATCATTTATTTCAACATCACG
125 ATGTATTCATGCACAAAGTTTGCATCATTTATTTCAACATCACG
*
25015906 TATTTAAAAAATTTTAACTTAAATATCCAATAAATTCAAGATTTCAAAATCAAGTCAAGAATATG
1 TATTTAAATAATTTTAACTTAAATATCCAATAAATTCAAGATTTCAAAATCAAGTCAAGAATATG
*
25015971 AGAAATACACGTAT-TTA-AAAAAAACTAAAATCCCATTGATGTTTAC-TTTTCTTTTCATGTAT
66 AGAAATACACGTATATTACAAAAAAACTAAAATCCCATTGATGTATACTTTTTCTTTTCATGTAT
* *
25016033 TCATGCTCAAAGTTTGCATCATTTATTTCAACATCATG
131 TCATGCACAAAGTTTGCATCATTTATTTCAACATCACG
* *
25016071 CATTTAAATAATTTTAACTTAAATATCCAATAAATTCAAGATTTCAAAATCAAGTCAAGAATAAG
1 TATTTAAATAATTTTAACTTAAATATCCAATAAATTCAAGATTTCAAAATCAAGTCAAGAATATG
25016136 AGAAATTA-ACGTATTTATTACGTAAAAAAACTAAAATCCCATTGATGTAT-CTTTTTCTTTTTC
66 AGAAA-TACACGTA--TATTAC--AAAAAAACTAAAATCCCATTGATGTATACTTTTTC-TTTTC
25016199 ATGTATTCATGCA
125 ATGTATTCATGCA
25016212 GAAACCTTGG
Statistics
Matches: 274, Mismatches: 21, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
165 144 0.53
166 4 0.01
167 1 0.00
168 6 0.02
169 7 0.03
170 1 0.00
171 40 0.15
172 71 0.26
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (168 bp):
TATTTAAATAATTTTAACTTAAATATCCAATAAATTCAAGATTTCAAAATCAAGTCAAGAATATG
AGAAATACACGTATATTACAAAAAAACTAAAATCCCATTGATGTATACTTTTTCTTTTCATGTAT
TCATGCACAAAGTTTGCATCATTTATTTCAACATCACG
Found at i:25027702 original size:23 final size:23
Alignment explanation
Indices: 25027649--25027704 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
25027639 TTACTAAGTA
*
25027649 TTTGATTAAGATCTTCAAAAAAT
1 TTTGATTGAGATCTTCAAAAAAT
25027672 TTTGATTGAGATCTTCAAAAAAT
1 TTTGATTGAGATCTTCAAAAAAT
25027695 TTTGATTGAG
1 TTTGATTGAG
25027705 TTTGGCCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (23 bp):
TTTGATTGAGATCTTCAAAAAAT
Found at i:25029583 original size:31 final size:32
Alignment explanation
Indices: 25029539--25029612 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
25029529 TTTACACAAG
* *
25029539 AATTAAATGTCACAATTTGTC-TTAATAT-AAA
1 AATTAAGTATCACAATTTG-CGTTAATATAAAA
*
25029570 AATTAAGTATCACAATTTGCGTTGATATAAAA
1 AATTAAGTATCACAATTTGCGTTAATATAAAA
25029602 ATATTAAGTAT
1 A-ATTAAGTAT
25029613 ATTATTTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 1 0.03
31 23 0.62
32 4 0.11
33 9 0.24
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (32 bp):
AATTAAGTATCACAATTTGCGTTAATATAAAA
Found at i:25029638 original size:20 final size:22
Alignment explanation
Indices: 25029613--25029654 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25029603 TATTAAGTAT
25029613 ATTATTT-T-GATTTTATTAAA
1 ATTATTTATAGATTTTATTAAA
*
25029633 ATTATTTATAGTTTTTATTAAA
1 ATTATTTATAGATTTTATTAAA
25029655 TTTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
ATTATTTATAGATTTTATTAAA
Found at i:25039974 original size:33 final size:31
Alignment explanation
Indices: 25039935--25040028 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 31
25039925 AATGTCATAA
25039935 ATATTTTCAGAAATAATTTTTCAAAAATATAT
1 ATATTTTCAGAAATAATTTTTCAAAAAT-TAT
*
25039967 ATAATTTTTC-GAAAATAAATTTTTAAAAAATTAT
1 AT-A-TTTTCAG-AAAT-AATTTTTCAAAAATTAT
* *
25040001 ATATCTTTCATAAATAAATTTTCAAAAA
1 ATAT-TTTCAGAAATAATTTTTCAAAAA
25040029 ATTTATTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
32 14 0.27
33 11 0.21
34 14 0.27
35 13 0.25
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (31 bp):
ATATTTTCAGAAATAATTTTTCAAAAATTAT
Found at i:25040029 original size:33 final size:31
Alignment explanation
Indices: 25039935--25040040 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 31
25039925 AATGTCATAA
*
25039935 ATATTTTCAGAAATAATTTTTC-AAAAATATAT
1 ATATTTTCA-AAATAAATTTTCAAAAAAT-TAT
*
25039967 ATAATTTTTCGAAAATAAATTTTTAAAAAATTAT
1 AT-A-TTTTC-AAAATAAATTTTCAAAAAATTAT
25040001 ATATCTTTCATAAATAAATTTTCAAAAAATT-T
1 ATAT-TTTCA-AAATAAATTTTCAAAAAATTAT
25040033 ATTATTTT
1 A-TATTTT
25040041 TTTGAAAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
32 9 0.14
33 28 0.44
34 20 0.31
35 7 0.11
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (31 bp):
ATATTTTCAAAATAAATTTTCAAAAAATTAT
Found at i:25040083 original size:34 final size:34
Alignment explanation
Indices: 25040045--25040124 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
25040035 TATTTTTTTG
25040045 AAAATTTATTTTCAAACA-AGTT-TATAACTTTTAA
1 AAAATTTATTTTCAAA-ATA-TTATATAACTTTTAA
* * * *
25040079 AAAATTCATTTCCAAAATATTATATGACTTTTAG
1 AAAATTTATTTTCAAAATATTATATAACTTTTAA
*
25040113 GAAATTTATTTT
1 AAAATTTATTTT
25040125 TGAAAAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
33 3 0.08
34 34 0.92
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (34 bp):
AAAATTTATTTTCAAAATATTATATAACTTTTAA
Found at i:25040594 original size:2 final size:2
Alignment explanation
Indices: 25040587--25040615 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25040577 AAATAAATAA
25040587 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
25040616 GTTTGCTTAC
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:25041006 original size:3 final size:3
Alignment explanation
Indices: 25040998--25041057 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
25040988 ATTTGTTTCG
*
25040998 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25041046 TAT TAT TAT TAT
1 TAT TAT TAT TAT
25041058 AAATTTTAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25041128 original size:21 final size:21
Alignment explanation
Indices: 25041086--25041130 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25041076 TTATATTTAA
* **
25041086 AATTATCAAAATTTAAGTTTT
1 AATTATCAAAATTAAAAATTT
*
25041107 AATTATTAAAATTAAAAATTT
1 AATTATCAAAATTAAAAATTT
25041128 AAT
1 AAT
25041131 ATTTTATCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTATCAAAATTAAAAATTT
Found at i:25044090 original size:2 final size:2
Alignment explanation
Indices: 25044083--25044117 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25044073 TCTTTGACCA
25044083 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25044118 ATTGAATCTG
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:25047163 original size:2 final size:2
Alignment explanation
Indices: 25047156--25047195 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
25047146 CACCATCTCA
25047156 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
25047196 TCACATTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25051836 original size:2 final size:2
Alignment explanation
Indices: 25051831--25051865 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25051821 AAAATCAGTG
25051831 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 A
25051866 CACACACACA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25052029 original size:2 final size:2
Alignment explanation
Indices: 25052022--25052057 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25052012 AAAGGATCAA
25052022 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
25052058 CATTGTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25060312 original size:28 final size:28
Alignment explanation
Indices: 25060280--25060337 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
25060270 AGCAAACTAG
25060280 CTAGACAGAGTCAATAGCTTATGAGTTT
1 CTAGACAGAGTCAATAGCTTATGAGTTT
25060308 CTAGACAGAGTCAATAGCTTATGAGTTT
1 CTAGACAGAGTCAATAGCTTATGAGTTT
25060336 CT
1 CT
25060338 TTTAAGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (28 bp):
CTAGACAGAGTCAATAGCTTATGAGTTT
Found at i:25062474 original size:122 final size:124
Alignment explanation
Indices: 25062251--25062614 Score: 389
Period size: 122 Copynumber: 2.9 Consensus size: 124
25062241 TTTTTTCTAC
* * * * *
25062251 TTCTAACATAGTGCTTAACTTGCAAATCAAATAACCAAAATCAACAAAAAAAATTTGTATAAACC
1 TTCTAACATAATGC-T-A-TTGTAAATCAAGTAACCAAAATCAATAAGAAAAA-TTGTATAAACC
* * * * * *
25062316 TATGTCAACAAAGATCTTTATGTTCATAAGATTATGAAATTAACTCCAATGGCCATTCAATAT
62 TATATCAATAAAGATCTTTATGTTCATAAGATTATGAAATAAATTCCAATGACCATTCAAAAT
*
25062379 TTCTAACATAATG-T-TTGTAAATCAAGTAACCAAAATCAATAAGAAAAATTGTATAAACCTGTA
1 TTCTAACATAATGCTATTGTAAATCAAGTAACCAAAATCAATAAGAAAAATTGTATAAACCTATA
* * *
25062442 TCAATAAAGATCTTTATGTTTATAAGATTATGAAATAAATTCCAATAACCATTTAAAAT
66 TCAATAAAGATCTTTATGTTCATAAGATTATGAAATAAATTCCAATGACCATTCAAAAT
* * * * * *
25062501 TTCTAACTTAGTGCTGAACTTGTGAATCAAGTAACCAAAATAAATTAG-AAAATTATATAAACCT
1 TTCTAACATAATGCT--A-TTGTAAATCAAGTAACCAAAATCAATAAGAAAAATTGTATAAACCT
* * *
25062565 ATATGACATAGA-AT-TTTATGTTCATAA-ACTTATGAAATCAATTCCAATGA
63 ATATCA-ATAAAGATCTTTATGTTCATAAGA-TTATGAAATAAATTCCAATGA
25062615 TGATTAAAAA
Statistics
Matches: 202, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
122 75 0.37
123 31 0.15
124 1 0.00
125 31 0.15
126 22 0.11
127 30 0.15
128 12 0.06
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (124 bp):
TTCTAACATAATGCTATTGTAAATCAAGTAACCAAAATCAATAAGAAAAATTGTATAAACCTATA
TCAATAAAGATCTTTATGTTCATAAGATTATGAAATAAATTCCAATGACCATTCAAAAT
Found at i:25064577 original size:37 final size:37
Alignment explanation
Indices: 25064536--25064610 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
25064526 ATATGAAATG
*
25064536 ATAATACTATACAAAAATAATATAAAAATAAAATAAA
1 ATAATACGATACAAAAATAATATAAAAATAAAATAAA
** * **
25064573 ATAATACGATTTAAAAATTATATAAAAATTTAATAAA
1 ATAATACGATACAAAAATAATATAAAAATAAAATAAA
25064610 A
1 A
25064611 ATATAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (37 bp):
ATAATACGATACAAAAATAATATAAAAATAAAATAAA
Found at i:25068005 original size:120 final size:120
Alignment explanation
Indices: 25067848--25068066 Score: 368
Period size: 121 Copynumber: 1.8 Consensus size: 120
25067838 AACAAAAGAA
25067848 AAGAACAATCTTAGTGAAATATGGAGCAAAAAAGTAAATATT-TAAAAAAAAAACCCAAAAAAGA
1 AAGAACAATCTTAGTGAAATATGGAGCAAAAAAGTAAATATTATAAAAAAAAAACCCAAAAAAGA
* * *
25067912 ACATTTTCAGCTGATAAAAATGCAATACATACAGAAATTAATAAAAACCCACATT
66 AAAATTTCAGCTCATAAAAATGCAATACATACAGAAATTAATAAAAACCCACATT
* *
25067967 AAGAACAATCTTTAGTGAAATATGGAGCTAAAAAGTAAATATTATGAAAAAAAAACCCAAAAAAG
1 AAGAACAATC-TTAGTGAAATATGGAGCAAAAAAGTAAATATTATAAAAAAAAAACCCAAAAAAG
*
25068032 AAAAATTTCAGCTCATAAAAATGCAATACTTACAG
65 AAAAATTTCAGCTCATAAAAATGCAATACATACAG
25068067 GGATGCTTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
119 10 0.11
120 31 0.34
121 51 0.55
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (120 bp):
AAGAACAATCTTAGTGAAATATGGAGCAAAAAAGTAAATATTATAAAAAAAAAACCCAAAAAAGA
AAAATTTCAGCTCATAAAAATGCAATACATACAGAAATTAATAAAAACCCACATT
Found at i:25073388 original size:76 final size:76
Alignment explanation
Indices: 25073262--25073413 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
25073252 GCAATCAACA
25073262 TGTTTCATGTTAGATATCATCTGTCTTTTGTATGGTATTATCATCATGCTTCAGTTATTAAGGTT
1 TGTTTCATGTTAGATATCATCTGTCTTTTGTATGGTATTATCATCATGCTTCAGTTATTAAGGTT
25073327 TTCTCCTCGTG
66 TTCTCCTCGTG
25073338 TGTTTCATGTTAGATATCATCTGTCTTTTGTATGGTATTATCATCATGCTTCAGTTATTAAGGTT
1 TGTTTCATGTTAGATATCATCTGTCTTTTGTATGGTATTATCATCATGCTTCAGTTATTAAGGTT
25073403 TTCTCCTCGTG
66 TTCTCCTCGTG
25073414 CTTCACTTTC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.18, C:0.16, G:0.17, T:0.49
Consensus pattern (76 bp):
TGTTTCATGTTAGATATCATCTGTCTTTTGTATGGTATTATCATCATGCTTCAGTTATTAAGGTT
TTCTCCTCGTG
Found at i:25073768 original size:51 final size:52
Alignment explanation
Indices: 25073703--25073804 Score: 143
Period size: 51 Copynumber: 1.9 Consensus size: 52
25073693 CTCCTCCTAC
*
25073703 ATATGGTGCAGCATCTTTCAACAGCTCAAAA-TCCCATTCTACCAGTTTCCA
1 ATATGGTGCAGCATCTTTCAACAGCTCAAAACTCCCATCCTACCAGTTTCCA
* * *
25073754 ATATGGTTCTGCATCTTTCAGCAGCTCAAAACCTTCCCATCCTACCAGTTT
1 ATATGGTGCAGCATCTTTCAACAGCTCAAAA-C-TCCCATCCTACCAGTTT
25073805 TGAACCAAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 28 0.64
54 16 0.36
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (52 bp):
ATATGGTGCAGCATCTTTCAACAGCTCAAAACTCCCATCCTACCAGTTTCCA
Found at i:25079660 original size:2 final size:2
Alignment explanation
Indices: 25079653--25079678 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25079643 TTGTACCATC
25079653 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
25079679 AAGTACATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25082592 original size:21 final size:21
Alignment explanation
Indices: 25082568--25082611 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25082558 TGAACAACAA
25082568 GATGAAGGGTAT-CTGAAATCT
1 GATGAAGGGTATGCTGAAA-CT
* *
25082589 GATGATGGGTTTGCTGAAACT
1 GATGAAGGGTATGCTGAAACT
25082610 GA
1 GA
25082612 CAGGGAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.30
Consensus pattern (21 bp):
GATGAAGGGTATGCTGAAACT
Found at i:25088899 original size:16 final size:17
Alignment explanation
Indices: 25088868--25088900 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25088858 TCATATCATC
25088868 ATATTGTATATAATATT
1 ATATTGTATATAATATT
*
25088885 ATATT-TATATTATATT
1 ATATTGTATATAATATT
25088901 TTATATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATATTGTATATAATATT
Found at i:25089528 original size:36 final size:36
Alignment explanation
Indices: 25089477--25089550 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
25089467 AAAGGAAATC
25089477 AAACAACATAACACAGTAACTTGGAACATGATACAT
1 AAACAACATAACACAGTAACTTGGAACATGATACAT
*
25089513 AAACAACATACCACAGTAACTTGGAACATGATACAT
1 AAACAACATAACACAGTAACTTGGAACATGATACAT
25089549 AA
1 AA
25089551 TCTTGTTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.50, C:0.20, G:0.11, T:0.19
Consensus pattern (36 bp):
AAACAACATAACACAGTAACTTGGAACATGATACAT
Found at i:25093508 original size:15 final size:16
Alignment explanation
Indices: 25093480--25093509 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25093470 ACATTAATTC
25093480 AAAAATTTAGTAAAAA
1 AAAAATTTAGTAAAAA
25093496 AAAAATTTA-TAAAA
1 AAAAATTTAGTAAAA
25093510 CTTAAGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAAATTTAGTAAAAA
Found at i:25093753 original size:6 final size:6
Alignment explanation
Indices: 25093744--25093768 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25093734 AAAAAAAGAG
25093744 AGATGA AGATGA AGATGA AGATGA A
1 AGATGA AGATGA AGATGA AGATGA A
25093769 TGCTTGGAGA
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:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AGATGA
Found at i:25093994 original size:16 final size:15
Alignment explanation
Indices: 25093973--25094008 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
25093963 AATACTCTTG
*
25093973 CTTAATTTATGAATA
1 CTTAATTTATAAATA
25093988 TCTTAATTTATAAATA
1 -CTTAATTTATAAATA
25094004 CTTAA
1 CTTAA
25094009 GCACTTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (15 bp):
CTTAATTTATAAATA
Found at i:25121007 original size:2 final size:2
Alignment explanation
Indices: 25121000--25121036 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
25120990 AAGCCAGGTT
25121000 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25121037 TTCCAATCAG
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:25125003 original size:7 final size:7
Alignment explanation
Indices: 25124991--25125019 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25124981 TGATGTATTC
25124991 TGAATTT
1 TGAATTT
25124998 TGAATTT
1 TGAATTT
25125005 TGAATTT
1 TGAATTT
25125012 TGAATTT
1 TGAATTT
25125019 T
1 T
25125020 CAGTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TGAATTT
Found at i:25125026 original size:14 final size:14
Alignment explanation
Indices: 25124993--25125026 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25124983 ATGTATTCTG
*
25124993 AATTTTGAATTTTG
1 AATTTTGAATTTTC
25125007 AATTTTGAATTTTC
1 AATTTTGAATTTTC
*
25125021 AGTTTT
1 AATTTT
25125027 TTATTTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (14 bp):
AATTTTGAATTTTC
Found at i:25126931 original size:3 final size:3
Alignment explanation
Indices: 25126925--25126955 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25126915 TCTTTTCAAT
25126925 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25126956 GGTGTTTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25136280 original size:7 final size:7
Alignment explanation
Indices: 25136270--25136316 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
25136260 TTTTTAATAT
25136270 TAAAAAA
1 TAAAAAA
25136277 TAAAAAA
1 TAAAAAA
25136284 TAAAAAA
1 TAAAAAA
**
25136291 T-AATTA
1 TAAAAAA
*
25136297 TAAAATA
1 TAAAAAA
25136304 TAAAAAA
1 TAAAAAA
25136311 TAAAAA
1 TAAAAA
25136317 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 4 0.11
7 31 0.89
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAAAAA
Found at i:25136301 original size:20 final size:20
Alignment explanation
Indices: 25136276--25136313 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25136266 ATATTAAAAA
25136276 ATAAAAAATAAAAAATAATT
1 ATAAAAAATAAAAAATAATT
*
25136296 ATAAAATATAAAAAATAA
1 ATAAAAAATAAAAAATAA
25136314 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAAAAAATAAAAAATAATT
Found at i:25136429 original size:29 final size:28
Alignment explanation
Indices: 25136385--25136440 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
25136375 ACAGAGATAG
*
25136385 TATAATTTATAACTTTAAGCATTTTTTTT
1 TATAATTTATAACTTTAA-CAATTTTTTT
*
25136414 TATAATTTATAGCTTTAACAATTTTTT
1 TATAATTTATAACTTTAACAATTTTTT
25136441 ATGTATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (28 bp):
TATAATTTATAACTTTAACAATTTTTTT
Found at i:25137809 original size:13 final size:13
Alignment explanation
Indices: 25137793--25137836 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
25137783 AAATTATATC
25137793 ATTTTTATATCTT
1 ATTTTTATATCTT
*
25137806 ATTTTTATATCGT
1 ATTTTTATATCTT
* * *
25137819 ATTATCATATTTT
1 ATTTTTATATCTT
25137832 ATTTT
1 ATTTT
25137837 AGATTCTCGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (13 bp):
ATTTTTATATCTT
Found at i:25138913 original size:18 final size:18
Alignment explanation
Indices: 25138887--25138923 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25138877 CAACCGGTGA
25138887 TGCTCCTGCTGATGGCCC
1 TGCTCCTGCTGATGGCCC
*
25138905 TGCTGCTGCTGATGGCCC
1 TGCTCCTGCTGATGGCCC
25138923 T
1 T
25138924 ACAACCGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.35, G:0.30, T:0.30
Consensus pattern (18 bp):
TGCTCCTGCTGATGGCCC
Found at i:25141100 original size:22 final size:22
Alignment explanation
Indices: 25141075--25141120 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
25141065 CAATTGAGTA
25141075 ATTAATTAAAATAAATAATTAC
1 ATTAATTAAAATAAATAATTAC
25141097 ATTAATTAAAATAAATAATTAC
1 ATTAATTAAAATAAATAATTAC
25141119 AT
1 AT
25141121 AAAAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTAATTAAAATAAATAATTAC
Found at i:25141664 original size:2 final size:2
Alignment explanation
Indices: 25141659--25141692 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
25141649 ACATTGCAGG
25141659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25141693 CCTGCCAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25144743 original size:21 final size:21
Alignment explanation
Indices: 25144719--25144761 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25144709 TTCATTACAT
* *
25144719 AAATTAAATGCATAAAATTTG
1 AAATAAAATGAATAAAATTTG
*
25144740 AAATAAAATTAATAAAATTTG
1 AAATAAAATGAATAAAATTTG
25144761 A
1 A
25144762 TATATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (21 bp):
AAATAAAATGAATAAAATTTG
Found at i:25146554 original size:23 final size:24
Alignment explanation
Indices: 25146509--25146554 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
25146499 TTTTTTATAT
*
25146509 AAAAGATCATAAAAAAATTAAATA
1 AAAAGATCATAAAAAAATAAAATA
* *
25146533 AAAAGATTAT-AAATAATAAAAT
1 AAAAGATCATAAAAAAATAAAAT
25146555 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAAGATCATAAAAAAATAAAATA
Found at i:25147376 original size:22 final size:22
Alignment explanation
Indices: 25147351--25147393 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25147341 TTTTTTATAT
*
25147351 AAAATATTGTAAAATAA-AAATA
1 AAAATATTAT-AAATAATAAATA
25147373 AAAATATTATAAATAATAAAT
1 AAAATATTATAAATAATAAAT
25147394 TTTAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATATTATAAATAATAAATA
Found at i:25148006 original size:13 final size:13
Alignment explanation
Indices: 25147984--25148022 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
25147974 CTAGTTTTTA
*
25147984 ATTTTTATATATT
1 ATTTTAATATATT
**
25147997 ATTTTAATATAAA
1 ATTTTAATATATT
25148010 ATTTTAATATATT
1 ATTTTAATATATT
25148023 TAAATAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:25148087 original size:20 final size:20
Alignment explanation
Indices: 25148062--25148101 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
25148052 TTTATTTTAT
*
25148062 AAAAATTTAAAATATATATA
1 AAAAATTAAAAATATATATA
25148082 AAAAATTAAAAATATATATA
1 AAAAATTAAAAATATATATA
25148102 TAATTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTAAAAATATATATA
Found at i:25149537 original size:12 final size:13
Alignment explanation
Indices: 25149520--25149548 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25149510 TTCATTTATT
25149520 AAATTTTAA-TAA
1 AAATTTTAATTAA
25149532 AAATTTTAATTAA
1 AAATTTTAATTAA
25149545 AAAT
1 AAAT
25149549 CTAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTTTAATTAA
Found at i:25150861 original size:14 final size:14
Alignment explanation
Indices: 25150842--25150872 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25150832 GTGTGAGTTG
25150842 ACAATGACAGTTAT
1 ACAATGACAGTTAT
25150856 ACAATGACAGTTAT
1 ACAATGACAGTTAT
25150870 ACA
1 ACA
25150873 TCAACTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (14 bp):
ACAATGACAGTTAT
Found at i:25151118 original size:20 final size:19
Alignment explanation
Indices: 25151093--25151136 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
25151083 TCAAATCAAA
*
25151093 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
25151113 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
25151132 TTATA
1 TTATA
25151137 AATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:25151138 original size:10 final size:10
Alignment explanation
Indices: 25151093--25151139 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
25151083 TCAAATCAAA
*
25151093 TTATATATTT
1 TTATAAATTT
*
25151103 TTATTAATTT
1 TTATAAATTT
*
25151113 TTATATATTT
1 TTATAAATTT
25151123 TT-TAAATTT
1 TTATAAATTT
25151132 TTATAAAT
1 TTATAAAT
25151140 AAAAATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATAAATTT
Found at i:25151217 original size:24 final size:24
Alignment explanation
Indices: 25151190--25151259 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 24
25151180 AAAAAATTTA
25151190 TTAAAATAAATAATAAATTAAATT
1 TTAAAATAAATAATAAATTAAATT
25151214 TT--AA-AAATAATAAATTAAA--
1 TTAAAATAAATAATAAATTAAATT
* *
25151233 TTAAATTGAATCAATAAAATTAAATT
1 TTAAAATAAAT-AAT-AAATTAAATT
25151259 T
1 T
25151260 AAATCAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 2 0.05
21 16 0.43
22 5 0.14
23 3 0.08
24 10 0.27
26 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (24 bp):
TTAAAATAAATAATAAATTAAATT
Found at i:25151278 original size:6 final size:5
Alignment explanation
Indices: 25151224--25151274 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
25151214 TTAAAAATAA
* * * *
25151224 TAAAT TAAAT TAAAT TGAA- TCAAT AAAAT TAAATT TAAAT CAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA-T TAAAT TAAAT TAAAT
25151274 T
1 T
25151275 TAAAAAAATC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (5 bp):
TAAAT
Found at i:25160993 original size:16 final size:16
Alignment explanation
Indices: 25160972--25161008 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
25160962 ATTATTAGTT
25160972 AGAAGAGAAATCAAGA
1 AGAAGAGAAATCAAGA
25160988 AGAAGAGAAATCAAGA
1 AGAAGAGAAATCAAGA
25161004 A-AAGA
1 AGAAGA
25161009 AGTCCCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.65, C:0.05, G:0.24, T:0.05
Consensus pattern (16 bp):
AGAAGAGAAATCAAGA
Found at i:25162616 original size:11 final size:10
Alignment explanation
Indices: 25162591--25162615 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25162581 TAATCAAGTG
25162591 AAAAATAAAA
1 AAAAATAAAA
25162601 AAAAATAAAA
1 AAAAATAAAA
25162611 AAAAA
1 AAAAA
25162616 AACACTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:25164047 original size:10 final size:10
Alignment explanation
Indices: 25164032--25164062 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25164022 AAGGTGATAA
25164032 TGAATTTAAT
1 TGAATTTAAT
*
25164042 TGAATTGAAT
1 TGAATTTAAT
25164052 TGAATTTAAT
1 TGAATTTAAT
25164062 T
1 T
25164063 TTTATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (10 bp):
TGAATTTAAT
Found at i:25165156 original size:33 final size:33
Alignment explanation
Indices: 25165086--25165179 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
25165076 AATTTTTGTA
* * * * **
25165086 ATTTTTATATATTATTTGAATATATATAATTTT
1 ATTTTTATATATAATTTTAATATATTTAAGTAG
25165119 ATTTTTATATATAATTTTAATATATTTAAGTAG
1 ATTTTTATATATAATTTTAATATATTTAAGTAG
* * *
25165152 ATTTTGATATAAAATTATTAATTTATTT
1 ATTTTTATATATAATT-TTAATATATTT
25165180 TATAAAAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
33 41 0.80
34 10 0.20
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (33 bp):
ATTTTTATATATAATTTTAATATATTTAAGTAG
Found at i:25165625 original size:19 final size:20
Alignment explanation
Indices: 25165601--25165643 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
25165591 GATTTTTAAT
*
25165601 TTTTAATTTATAT-ATATTA
1 TTTTAATATATATAATATTA
*
25165620 TTTTAATATATATAATTTTA
1 TTTTAATATATATAATATTA
25165640 TTTT
1 TTTT
25165644 TATGTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTAATATATATAATATTA
Found at i:25165630 original size:15 final size:15
Alignment explanation
Indices: 25165610--25165663 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
25165600 TTTTTAATTT
*
25165610 ATATATATTATTTTA
1 ATATATATAATTTTA
25165625 ATATATATAATTTTA
1 ATATATATAATTTTA
* *
25165640 TTTTTATGTATAATTTTA
1 ---ATATATATAATTTTA
25165658 ATATAT
1 ATATAT
25165664 TTAAATAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 18 0.58
18 13 0.42
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
ATATATATAATTTTA
Found at i:25172449 original size:15 final size:14
Alignment explanation
Indices: 25172433--25172470 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
25172423 TTCGTTTCAT
25172433 TTTCATATTTTTTA
1 TTTCATATTTTTTA
*
25172447 TTT-ATATATTTTA
1 TTTCATATTTTTTA
*
25172460 TATCATATTTT
1 TTTCATATTTT
25172471 AAATTATCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTCATATTTTTTA
Found at i:25189118 original size:21 final size:21
Alignment explanation
Indices: 25189071--25189118 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
25189061 AATAATATTA
*
25189071 TAAATTTTAAAAATTTTGATT
1 TAAATTTGAAAAATTTTGATT
* * **
25189092 TGAATTTGAATAATTTTTTTT
1 TAAATTTGAAAAATTTTGATT
25189113 TAAATT
1 TAAATT
25189119 AATTCGAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TAAATTTGAAAAATTTTGATT
Found at i:25189207 original size:22 final size:22
Alignment explanation
Indices: 25189182--25189224 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25189172 ATTTTTTTGC
* *
25189182 TTTTATATATTATTTTAATAAGT
1 TTTTAAATA-TATTTAAATAAGT
25189205 TTTTAAATATATTTAAATAA
1 TTTTAAATATATTTAAATAA
25189225 ATTTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAAATATATTTAAATAAGT
Found at i:25189219 original size:10 final size:10
Alignment explanation
Indices: 25189206--25189235 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25189196 TTAATAAGTT
25189206 TTTAAATATA
1 TTTAAATATA
*
25189216 TTTAAATAAA
1 TTTAAATATA
25189226 TTTAAATATA
1 TTTAAATATA
25189236 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAAATATA
Found at i:25189357 original size:13 final size:13
Alignment explanation
Indices: 25189337--25189371 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25189327 AATTCAATCA
25189337 AAATTTAATATAT
1 AAATTTAATATAT
* *
25189350 ACATTTAATATCT
1 AAATTTAATATAT
25189363 AAATTTAAT
1 AAATTTAAT
25189372 TTAAATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTAATATAT
Found at i:25190279 original size:18 final size:18
Alignment explanation
Indices: 25190256--25190291 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
25190246 TTGATTATAG
25190256 ATCAA-TTAATTAAATTAA
1 ATCAATTTAATT-AATTAA
25190274 ATCAATTTAATTAATTAA
1 ATCAATTTAATTAATTAA
25190292 TTCGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
ATCAATTTAATTAATTAA
Found at i:25192826 original size:4 final size:4
Alignment explanation
Indices: 25192819--25192910 Score: 98
Period size: 4 Copynumber: 23.2 Consensus size: 4
25192809 TTTGCATATA
* * * * * *
25192819 TATG TATG TATT TGTG TATG TTTG TATTG TATG CACG TGTG TATG --TG
1 TATG TATG TATG TATG TATG TATG TA-TG TATG TATG TATG TATG TATG
*
25192866 TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
25192911 TTGTTTGTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.03
4 66 0.92
5 4 0.06
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:25193006 original size:4 final size:4
Alignment explanation
Indices: 25192999--25193110 Score: 134
Period size: 4 Copynumber: 27.8 Consensus size: 4
25192989 TCTACATATA
* * * * *
25192999 TATG TATG TATG TGTG TATG TTTG TGTTG TATG TATG TGTG TGTG TATG
1 TATG TATG TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG
* * *
25193048 TATG TATG TATG TATG TATG TACG TATG TATG TATG TATG TACG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
25193096 CATG TATG TATG TAT
1 TATG TATG TATG TAT
25193111 TTTTGTGTGT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
4 91 0.96
5 4 0.04
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:25193018 original size:12 final size:12
Alignment explanation
Indices: 25193001--25193157 Score: 125
Period size: 12 Copynumber: 13.0 Consensus size: 12
25192991 TACATATATA
25193001 TGTATGTATGTG
1 TGTATGTATGTG
*
25193013 TGTATGTTTGTG
1 TGTATGTATGTG
25193025 TTGTATGTATGTG
1 -TGTATGTATGTG
* *
25193038 TGTGTGTATGTA
1 TGTATGTATGTG
*
25193050 TGTATGTATGTA
1 TGTATGTATGTG
* *
25193062 TGTATGTACGTA
1 TGTATGTATGTG
*
25193074 TGTATGTATGTA
1 TGTATGTATGTG
* * **
25193086 TGTACGCATGCA
1 TGTATGTATGTG
*
25193098 TGTATGTATGTA
1 TGTATGTATGTG
* * *
25193110 TTTTTGTGTGTG
1 TGTATGTATGTG
* *
25193122 TGTGTGTGTGTG
1 TGTATGTATGTG
* *
25193134 TGTGTGTGTGTG
1 TGTATGTATGTG
*
25193146 TGTGTGTATGTG
1 TGTATGTATGTG
25193158 CATGTGTGTG
Statistics
Matches: 124, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
12 113 0.91
13 11 0.09
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.50
Consensus pattern (12 bp):
TGTATGTATGTG
Found at i:25193121 original size:2 final size:2
Alignment explanation
Indices: 25193114--25193170 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
25193104 TATGTATTTT
*
25193114 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
**
25193156 TG CA TG TG TG TG TG T
1 TG TG TG TG TG TG TG T
25193171 TCCATTGTCG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.04, C:0.02, G:0.46, T:0.49
Consensus pattern (2 bp):
TG
Done.