Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 351 of 425
Found at i:108565770 original size:20 final size:20
Alignment explanation
Indices: 108565747--108565794 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
108565737 AAATTATTAT
108565747 TATAATTTA-AAAATTTAAGA
1 TATAATTTATAAAATTT-AGA
* * *
108565767 TATAATATATAAACTTTATA
1 TATAATTTATAAAATTTAGA
108565787 TATAATTT
1 TATAATTT
108565795 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TATAATTTATAAAATTTAGA
Found at i:108565900 original size:43 final size:44
Alignment explanation
Indices: 108565853--108565948 Score: 142
Period size: 42 Copynumber: 2.2 Consensus size: 44
108565843 TTAATAAATT
*
108565853 ATAAAACTTACTTAATATTTCTAAAAA-AAATGTAAAATGTG-AA
1 ATAAAA-TTACTTAATATTTCTAAAAATAAATGTAAAATCTGAAA
**
108565896 ATAAAATTACTTAATATTTCTAAAAATATGTGTAAAATCTGAAA
1 ATAAAATTACTTAATATTTCTAAAAATAAATGTAAAATCTGAAA
108565940 ATAAAATTA
1 ATAAAATTA
108565949 TAAAATTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
42 20 0.42
43 17 0.35
44 11 0.23
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (44 bp):
ATAAAATTACTTAATATTTCTAAAAATAAATGTAAAATCTGAAA
Found at i:108566531 original size:7 final size:7
Alignment explanation
Indices: 108566519--108566545 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
108566509 TGCGATTGAT
108566519 TTTCGAC
1 TTTCGAC
108566526 TTTCGAC
1 TTTCGAC
108566533 TTTCGAC
1 TTTCGAC
108566540 TTTCGA
1 TTTCGA
108566546 AAACTCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (7 bp):
TTTCGAC
Found at i:108567579 original size:2 final size:2
Alignment explanation
Indices: 108567572--108567604 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
108567562 AAATAATCAA
108567572 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 A
108567605 AATAACAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108567698 original size:2 final size:2
Alignment explanation
Indices: 108567691--108567722 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
108567681 ATCATGAATC
108567691 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108567723 AAAAAAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:108569185 original size:19 final size:19
Alignment explanation
Indices: 108569163--108569205 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
108569153 TATTATTGGA
108569163 TTTTTATTTTGTTATTTTG
1 TTTTTATTTTGTTATTTTG
* * *
108569182 TTTTTCTTTTTTTCTTTTG
1 TTTTTATTTTGTTATTTTG
*
108569201 GTTTT
1 TTTTT
108569206 GGTATGGGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.81
Consensus pattern (19 bp):
TTTTTATTTTGTTATTTTG
Found at i:108571919 original size:54 final size:55
Alignment explanation
Indices: 108571860--108571965 Score: 187
Period size: 54 Copynumber: 1.9 Consensus size: 55
108571850 AAATTTCTTC
* *
108571860 TATTTTATCGTGATAATTACAAAACAAAGCTAATGAA-ATATACACACAACTAAT
1 TATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAAT
108571914 TATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACT
1 TATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACT
108571966 GACTACCTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 35 0.71
55 14 0.29
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (55 bp):
TATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAAT
Found at i:108581130 original size:2 final size:2
Alignment explanation
Indices: 108581123--108581151 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
108581113 ATCATTTATT
108581123 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108581152 ATAAACAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108590114 original size:19 final size:19
Alignment explanation
Indices: 108590090--108590127 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
108590080 CTCTGATAAT
* *
108590090 CTCAAAATGTTGAAACTGA
1 CTCAAAACGATGAAACTGA
108590109 CTCAAAACGATGAAACTGA
1 CTCAAAACGATGAAACTGA
108590128 GTCTAGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (19 bp):
CTCAAAACGATGAAACTGA
Found at i:108594470 original size:14 final size:14
Alignment explanation
Indices: 108594432--108594470 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
108594422 ATATTTAACT
*
108594432 TGTTCTTAATCATG
1 TGTTCTTAATTATG
108594446 TGTTCTTAATTATG
1 TGTTCTTAATTATG
108594460 TGTTCTTAATT
1 TGTTCTTAATT
108594471 CTTGTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:108598198 original size:53 final size:53
Alignment explanation
Indices: 108598042--108598207 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
108598032 TGACGAAAAT
* **
108598042 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
108598094 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
108598147 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
108598201 TATGTGA
1 -ATGTGA
108598208 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:108605632 original size:53 final size:53
Alignment explanation
Indices: 108605551--108605705 Score: 210
Period size: 53 Copynumber: 3.0 Consensus size: 53
108605541 TGACGAAAAT
* *
108605551 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
*
108605603 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
108605656 ATGTGATAATGTGATTCCGTATAAGA-CAT-GTCTGGGATATGGCTTCGGTA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
108605706 TGATATGTGA
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
51 5 0.05
52 30 0.32
53 59 0.63
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:108615236 original size:99 final size:99
Alignment explanation
Indices: 108615049--108615223 Score: 263
Period size: 99 Copynumber: 1.8 Consensus size: 99
108615039 GGGTAAGTTA
* **
108615049 CCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCGAGGCCGATGCTATGTCCCA
108615114 GACATGATCTTACACTAGCTCTCGCATATCCGTG
66 GACATGATCTTACACTAGCTCTCGCATATCCGTG
*
108615148 CCGATGCCATGTCCCAGACATGGTCTTACACTAAC-A-CATC-TCGTA-GTCGATGC-ATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG-AGGCCGATGCTATGTCCC
108615208 AGACATG-TCTTACACT
65 AGACATGATCTTACACT
108615224 GGCTTACGTC
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
94 9 0.13
95 14 0.20
96 10 0.14
97 5 0.07
98 1 0.01
99 32 0.45
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (99 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCGAGGCCGATGCTATGTCCCA
GACATGATCTTACACTAGCTCTCGCATATCCGTG
Found at i:108615251 original size:46 final size:45
Alignment explanation
Indices: 108615049--108615366 Score: 225
Period size: 46 Copynumber: 6.7 Consensus size: 45
108615039 GGGTAAGTTA
* *
108615049 CCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTA-CATC-TCGAGG
* * *
108615098 CCGATGCTATGTCCCAGACATGATCTTACACTAGCTCTCGCATATCCG-TG
1 CCGATGC-ATGTCCCAGACATG-TCTTACACTAG--CT-ACATCT-CGAGG
*
108615148 CCGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACATCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTACATCTCG-AGG
* * *
108615194 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-TACATCTCGAGG
* * ** *
108615240 CTGATGCATGTCCCAGACATGTCTTACACTAGC-ACTTGTCTTAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTAC--ATCTCGAGG
* * * * *
108615286 CCGATACCATGTCCC-GAACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGAT-GCATGTCCCAG-ACAT-GTCTTACACTAGCT-ACAT-CTCGAGG
*
108615334 CTGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
108615367 CCACAATAAC
Statistics
Matches: 217, Mismatches: 30, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
44 13 0.06
45 17 0.08
46 71 0.33
47 24 0.11
48 22 0.10
49 29 0.13
50 32 0.15
51 9 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTACATCTCGAGG
Found at i:108615313 original size:94 final size:90
Alignment explanation
Indices: 108615051--108615366 Score: 273
Period size: 94 Copynumber: 3.3 Consensus size: 90
108615041 GTAAGTTACC
* * *
108615051 GATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCG-AGGCCGATGCTATGTCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-A-CATC-TCGTA-GCCGAT-CCATGTCCCAG
* ** *
108615115 ACATGATCTTACACTAGCTCTCGCAT-ATCCGTGCC
59 ACATG-TCTTACACTGGCTCT--CATAATGAG-GCT
* * *
108615150 GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGTCGATGCATGTCCCAGACATG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCTCGTAGCCGATCCATGTCCCAGACATG
* *
108615215 TCTTACACTGGCT-TACGT-CTCGAGGCT
64 TCTTACACTGGCTCT-CATAAT-GAGGCT
* * *
108615242 GATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTTAATGCCGATACCATGTCCC-GAACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGT-A-GCCGAT-CCATGTCCCAG-ACA
*
108615306 TGGTCTTACACTGGCTCTCATAATGTGGCT
62 T-GTCTTACACTGGCTCTCATAATGAGGCT
108615336 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
108615367 CCACAATAAC
Statistics
Matches: 186, Mismatches: 22, Indels: 23
0.81 0.10 0.10
Matches are distributed among these distances:
90 18 0.10
91 15 0.08
92 15 0.08
93 14 0.08
94 64 0.34
95 16 0.09
96 8 0.04
97 5 0.03
98 1 0.01
99 30 0.16
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATCCATGTCCCAGACATGTC
TTACACTGGCTCTCATAATGAGGCT
Found at i:108615354 original size:140 final size:142
Alignment explanation
Indices: 108615050--108615363 Score: 360
Period size: 140 Copynumber: 2.2 Consensus size: 142
108615040 GGTAAGTTAC
*
108615050 CGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCCCAG
* ** *
108615115 ACATGATCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACT
64 ACATGATCTTACACTAGCACTCGCATATCAATGCCGATACCATGTCCCAGACATGGTCTTACACT
*
108615180 AACACATCTCGTAGT
129 -ACACATCTCATAGT
* *
108615195 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTC-TCGAGGCTGATGC-ATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCATCGAGGCCGATGCTATGTCCCAGA
*
108615257 CATG-TCTTACACTAGCACTTGTC-T-T-AATGCCGATACCATGTCCC-GAACATGGTCTTACAC
65 CATGATCTTACACTAGCACTCG-CATATCAATGCCGATACCATGTCCCAG-ACATGGTCTTACAC
**
108615317 T-GGC-TCTCATAATGT
128 TACACATCTCAT-A-GT
108615332 GGCTGATGCATGTCCCAGACATGTCTTACACT
1 --C-GATGCATGTCCCAGACATGTCTTACACT
108615364 AGCCCACAAT
Statistics
Matches: 150, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
135 5 0.03
136 2 0.01
137 3 0.02
138 31 0.21
139 2 0.01
140 44 0.29
141 15 0.10
142 13 0.09
143 17 0.11
144 13 0.09
145 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (142 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCCCAGAC
ATGATCTTACACTAGCACTCGCATATCAATGCCGATACCATGTCCCAGACATGGTCTTACACTAC
ACATCTCATAGT
Found at i:108617236 original size:33 final size:33
Alignment explanation
Indices: 108617190--108617296 Score: 81
Period size: 42 Copynumber: 3.0 Consensus size: 33
108617180 AATAGACTGC
*
108617190 TTCCCCTTA-ATAAAAGTTATTTTCAATCTAAG
1 TTCCCCCTATATAAAAGTTATTTTCAATCTAAG
108617222 TTCCCCCTATATAAAAATCATTTTCGTTATTTTCAATCTAAG
1 TTCCCCCTATAT--AAA--A-----GTTATTTTCAATCTAAG
* * * *
108617264 TTCCCCCTGTATAAAAATCATTTTCAATTTAAG
1 TTCCCCCTATATAAAAGTTATTTTCAATCTAAG
108617297 GCATAAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
32 8 0.13
33 16 0.27
35 3 0.05
37 1 0.02
38 1 0.02
40 3 0.05
42 28 0.47
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.41
Consensus pattern (33 bp):
TTCCCCCTATATAAAAGTTATTTTCAATCTAAG
Found at i:108617264 original size:42 final size:42
Alignment explanation
Indices: 108617205--108617288 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
108617195 CTTAATAAAA
108617205 GTTATTTTCAATCTAAGTTCCCCCTATATAAAAATCATTTTC
1 GTTATTTTCAATCTAAGTTCCCCCTATATAAAAATCATTTTC
*
108617247 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
1 GTTATTTTCAATCTAAGTTCCCCCTATATAAAAATCATTTTC
108617289 AATTTAAGGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (42 bp):
GTTATTTTCAATCTAAGTTCCCCCTATATAAAAATCATTTTC
Found at i:108625355 original size:22 final size:23
Alignment explanation
Indices: 108625330--108625379 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
108625320 AGATTTTTCA
*
108625330 TAAATGTTATCA-TAAATAATTT
1 TAAATATTATCAGTAAATAATTT
* *
108625352 TAAATATTATTAGTATATAATTT
1 TAAATATTATCAGTAAATAATTT
*
108625375 AAAAT
1 TAAAT
108625380 TTAAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAATATTATCAGTAAATAATTT
Found at i:108626345 original size:4 final size:4
Alignment explanation
Indices: 108626336--108626369 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
108626326 TTAACCAAGC
108626336 TATT TATT TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TA
108626370 AATGAGTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:108629840 original size:22 final size:21
Alignment explanation
Indices: 108629815--108629871 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 21
108629805 TACAAAAAAT
*
108629815 AAAATAAAATAAAATATATT-CG
1 AAAATAAAATAAAA-AT-TTAAG
108629837 AAAATACAAA-AATAAATTTAAG
1 AAAATA-AAATAA-AAATTTAAG
108629859 AAAATAAAATAAA
1 AAAATAAAATAAA
108629872 TGGATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAATAAAATAAAAATTTAAG
Found at i:108635257 original size:2 final size:2
Alignment explanation
Indices: 108635250--108635298 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
108635240 CAATTTTGAC
108635250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108635292 AT AT AT A
1 AT AT AT A
108635299 GATAGATAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108635327 original size:12 final size:12
Alignment explanation
Indices: 108635310--108635334 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108635300 ATAGATAGAG
108635310 AGAGAGAGAGAA
1 AGAGAGAGAGAA
108635322 AGAGAGAGAGAA
1 AGAGAGAGAGAA
108635334 A
1 A
108635335 ATATGCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGAA
Found at i:108635562 original size:17 final size:17
Alignment explanation
Indices: 108635540--108635603 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
108635530 ATAACAGATT
108635540 TAAAATATAATATATAA
1 TAAAATATAATATATAA
*
108635557 TAAAATAT-ATTTATAA
1 TAAAATATAATATATAA
* *
108635573 GAATA-ATAAT-TAT-A
1 TAAAATATAATATATAA
*
108635587 TAAAAATATAAAATATA
1 T-AAAATATAATATATA
108635604 TTGGTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
14 1 0.03
15 8 0.22
16 16 0.44
17 11 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAATATAATATATAA
Found at i:108635928 original size:47 final size:46
Alignment explanation
Indices: 108635876--108635988 Score: 117
Period size: 47 Copynumber: 2.5 Consensus size: 46
108635866 ATAAAGGTAT
* *
108635876 AAAATATAAAATAATTATAATTTATAATATGAAAGT-GTATATATGTA
1 AAAATATAAAATAATTATAATTAATAATATGAAA-TAATATAT-TGTA
* *
108635923 AAAATA-ATAAATAATAAATAA-TAATAATATGAAATAATATATTGTT
1 AAAATATA-AAATAAT-TATAATTAATAATATGAAATAATATATTGTA
*
108635969 AAAATGTAAAATAA-TATAAT
1 AAAATATAAAATAATTATAAT
108635989 AGTATAAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
44 4 0.07
46 16 0.29
47 31 0.56
48 4 0.07
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (46 bp):
AAAATATAAAATAATTATAATTAATAATATGAAATAATATATTGTA
Found at i:108642917 original size:28 final size:27
Alignment explanation
Indices: 108642873--108642974 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
108642863 AAGCACGTCA
108642873 ATAAAA-GAATGCCTTTGTGGCAAAATT
1 ATAAAAGGAATGCCTTTGTGGCAAAA-T
* *
108642900 ATAAAAGGAACGCCTTTGTGGCGAAAT
1 ATAAAAGGAATGCCTTTGTGGCAAAAT
* * * * *
108642927 ATGAAAGAAATGCCTCTGTGGTACAAT
1 ATAAAAGGAATGCCTTTGTGGCAAAAT
* *
108642954 ATAAAATGAAAGCCTTTGTGG
1 ATAAAAGGAATGCCTTTGTGG
108642975 TGTAATATGT
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 43 0.72
28 17 0.28
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (27 bp):
ATAAAAGGAATGCCTTTGTGGCAAAAT
Found at i:108642941 original size:27 final size:26
Alignment explanation
Indices: 108642873--108642996 Score: 106
Period size: 27 Copynumber: 4.6 Consensus size: 26
108642863 AAGCACGTCA
*
108642873 ATAAAAGAATGCCTTTGTGGCAAAATT
1 ATAAAAGAATGCCTTTGTGGCGAAA-T
*
108642900 ATAAAAGGAACGCCTTTGTGGCGAAAT
1 ATAAAA-GAATGCCTTTGTGGCGAAAT
* * *
108642927 ATGAAAGAAATGCCTCTGTGG-TACAAT
1 ATAAAAG-AATGCCTTTGTGGCGA-AAT
* * *
108642954 ATAAAATGAAAGCCTTTGTGGTGTAAT
1 ATAAAA-GAATGCCTTTGTGGCGAAAT
**
108642981 ATGTAAGAATGCCTTT
1 ATAAAAGAATGCCTTT
108642997 TTGGAAAACT
Statistics
Matches: 78, Mismatches: 14, Indels: 11
0.76 0.14 0.11
Matches are distributed among these distances:
26 11 0.14
27 49 0.63
28 18 0.23
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (26 bp):
ATAAAAGAATGCCTTTGTGGCGAAAT
Found at i:108642958 original size:54 final size:54
Alignment explanation
Indices: 108642876--108642994 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
108642866 CACGTCAATA
* *
108642876 AAAGAATGCCTTTGTGGCAAAATTATAAAAGGAACGCCTTTGTGGCGAAATATG
1 AAAGAATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCGAAATATG
* * * * *
108642930 AAAGAAATGCCTCTGTGGTACAA-TATAAAATGAAAGCCTTTGTGGTGTAATATG
1 AAAG-AATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCGAAATATG
*
108642984 TAAGAATGCCT
1 AAAGAATGCCT
108642995 TTTTGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 7 0.12
54 34 0.61
55 15 0.27
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (54 bp):
AAAGAATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCGAAATATG
Found at i:108656183 original size:20 final size:20
Alignment explanation
Indices: 108656160--108656223 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
108656150 CTTCCAAAAG
*
108656160 TAAAAAAAAAAATTAAAATA
1 TAAAAAATAAAATTAAAATA
*
108656180 T-AAAAATTAAATTAAAA-A
1 TAAAAAATAAAATTAAAATA
*
108656198 CAAAAATATTAAAATTAAAATA
1 TAAAAA-A-TAAAATTAAAATA
108656220 -AAAA
1 TAAAA
108656224 CGACTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 1 0.03
19 18 0.50
20 2 0.06
21 14 0.39
22 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAAAATAAAATTAAAATA
Found at i:108656186 original size:14 final size:14
Alignment explanation
Indices: 108656167--108656223 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
108656157 AAGTAAAAAA
108656167 AAAAATTAAAATAT
1 AAAAATTAAAATAT
108656181 AAAAATT-AAAT-T
1 AAAAATTAAAATAT
**
108656193 AAAAACAAAAATAT
1 AAAAATTAAAATAT
*
108656207 TAAAATTAAAATA-
1 AAAAATTAAAATAT
108656220 AAAA
1 AAAA
108656224 CGACTAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 6 0.17
13 11 0.31
14 18 0.51
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAAATTAAAATAT
Found at i:108656235 original size:26 final size:26
Alignment explanation
Indices: 108656174--108656224 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
108656164 AAAAAAAATT
* *
108656174 AAAATATAAAAATTAAATTAAAAACA
1 AAAATATTAAAATTAAAATAAAAACA
108656200 AAAATATTAAAATTAAAATAAAAAC
1 AAAATATTAAAATTAAAATAAAAAC
108656225 GACTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAATATTAAAATTAAAATAAAAACA
Found at i:108659558 original size:8 final size:8
Alignment explanation
Indices: 108659534--108659568 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
108659524 AAAACAGTGT
108659534 GTGACGTC
1 GTGACGTC
*
108659542 ATGACGTC
1 GTGACGTC
108659550 GTGACGTC
1 GTGACGTC
*
108659558 GCGACGTC
1 GTGACGTC
108659566 GTG
1 GTG
108659569 CAGGTGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.14, C:0.26, G:0.37, T:0.23
Consensus pattern (8 bp):
GTGACGTC
Found at i:108661132 original size:43 final size:42
Alignment explanation
Indices: 108661057--108661253 Score: 180
Period size: 43 Copynumber: 4.6 Consensus size: 42
108661047 TGTGAAAAAA
* * * *
108661057 GCCGCTATAGAACATGACCTTTAGCGGCGCTTCTCTTGCAAAC
1 GCCGCTA-AAAACATGACCTTTAGCGACGCTTCTCCTACAAAC
* * *
108661100 GCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCTGA-AAAC
1 GCCGCTAAAA-ACATGACCTTTAGCGACGCTTCTCCT-ACAAAC
* * * *
108661143 GCCGCTAAAAAGCATGACCTTTAGTGACACTTCTCTTACAAAT
1 GCCGCTAAAAA-CATGACCTTTAGCGACGCTTCTCCTACAAAC
* * * * *
108661186 GCCACTAAAAATCATAACATTTAGCGACGCTTCTCCCACAATC
1 GCCGCTAAAAA-CATGACCTTTAGCGACGCTTCTCCTACAAAC
*
108661229 GCCGTTAAATAACATGACCTTTAGC
1 GCCGCTAAA-AACATGACCTTTAGC
108661254 AATTTTTCTC
Statistics
Matches: 121, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
42 4 0.03
43 115 0.95
44 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
GCCGCTAAAAACATGACCTTTAGCGACGCTTCTCCTACAAAC
Found at i:108661209 original size:86 final size:84
Alignment explanation
Indices: 108661052--108661253 Score: 199
Period size: 86 Copynumber: 2.3 Consensus size: 84
108661042 ATTTATGTGA
* * * * * ** *
108661052 AAAAAGCCGCTATAGAACATGACCTTTAGCGGCGCTTCTCTTGCAAACGCCGTTAAAAGACATGA
1 AAAACGCCGCTA-AAAACATGACCTTTAGCGACACTTCTCTTACAAACGCCACTAAAAGACATAA
* * *
108661117 CCTTTAGCAATGCTTCTCCTG
65 CATTTAGCAACGCTTCTCC-C
* *
108661138 AAAACGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTCTTACAAATGCCACTAAAA-ATCATA
1 AAAACGCCGCTAAAAA-CATGACCTTTAGCGACACTTCTCTTACAAACGCCACTAAAAGA-CATA
*
108661202 ACATTTAGCGACGCTTCTCCC
64 ACATTTAGCAACGCTTCTCCC
* *
108661223 ACAATCGCCGTTAAATAACATGACCTTTAGC
1 A-AAACGCCGCTAAA-AACATGACCTTTAGC
108661254 AATTTTTCTC
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
85 5 0.05
86 88 0.93
87 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (84 bp):
AAAACGCCGCTAAAAACATGACCTTTAGCGACACTTCTCTTACAAACGCCACTAAAAGACATAAC
ATTTAGCAACGCTTCTCCC
Found at i:108661313 original size:129 final size:129
Alignment explanation
Indices: 108661076--108661324 Score: 297
Period size: 129 Copynumber: 1.9 Consensus size: 129
108661066 GAACATGACC
* *** **
108661076 TTTAGCGGCGCTTCTCTTGCAAACGCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCTGAAA
1 TTTAGCGACGCTTCTCCCACAAACGCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCCCAAA
* * * * *
108661141 ACGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTCTTACAAATGCCACTAAAAATCATAACA
66 ACACCACTAAAAAGCATAACCTTTAGTGACACTTCTCTCACAAACGCCACTAAAAATCATAACA
* **
108661205 TTTAGCGACGCTTCTCCCACAATCGCCGTTAAATA-ACATGACCTTTAGCAATTTTTCTCCCCAA
1 TTTAGCGACGCTTCTCCCACAAACGCCGTTAAA-AGACATGACCTTTAGCAATGCTTCTCCCCAA
* * *
108661269 AATACCACTAAAGAA-CATAACCTTTAGTGGCACTTCT-TACACAAACGCCGCTAAAA
65 AACACCACTAAA-AAGCATAACCTTTAGTGACACTTCTCT-CACAAACGCCACTAAAA
108661325 GTTATATCTT
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
128 1 0.01
129 96 0.96
130 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (129 bp):
TTTAGCGACGCTTCTCCCACAAACGCCGTTAAAAGACATGACCTTTAGCAATGCTTCTCCCCAAA
ACACCACTAAAAAGCATAACCTTTAGTGACACTTCTCTCACAAACGCCACTAAAAATCATAACA
Found at i:108664152 original size:16 final size:16
Alignment explanation
Indices: 108664131--108664161 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108664121 TGAGATTATC
108664131 ATTTTTTGAAATTTTT
1 ATTTTTTGAAATTTTT
*
108664147 ATTTTTTTAAATTTT
1 ATTTTTTGAAATTTT
108664162 GAATATTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTGAAATTTTT
Found at i:108665313 original size:14 final size:14
Alignment explanation
Indices: 108665284--108665327 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
108665274 ATAAACCCCC
*
108665284 AAACTCCAAACTCT
1 AAACTCAAAACTCT
*
108665298 AAA-TCATAAACCCT
1 AAACTCA-AAACTCT
108665312 AAACTCAAAACTCT
1 AAACTCAAAACTCT
108665326 AA
1 AA
108665328 TCACAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 2 0.08
14 20 0.80
15 3 0.12
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACTCAAAACTCT
Found at i:108665397 original size:21 final size:22
Alignment explanation
Indices: 108665349--108665415 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
108665339 TAAACATTAT
** * *
108665349 ATCATAAACCCTAAAACCCAAA
1 ATCATAAACATTAAATCCTAAA
* * *
108665371 ACCATAGACATTAAA-CCTTAA
1 ATCATAAACATTAAATCCTAAA
*
108665392 ATCATAAACCTTAAATCCTAAA
1 ATCATAAACATTAAATCCTAAA
108665414 AT
1 AT
108665416 AAAATATTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.22
Consensus pattern (22 bp):
ATCATAAACATTAAATCCTAAA
Found at i:108665399 original size:14 final size:14
Alignment explanation
Indices: 108665382--108665413 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
108665372 CCATAGACAT
108665382 TAAACCTTAAATCA
1 TAAACCTTAAATCA
*
108665396 TAAACCTTAAATCC
1 TAAACCTTAAATCA
108665410 TAAA
1 TAAA
108665414 ATAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAATCA
Found at i:108665566 original size:40 final size:40
Alignment explanation
Indices: 108665522--108665636 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 40
108665512 AAAAGCGCAG
*
108665522 CTAATGCTCGATCTTTTGTGGCATTTTTCAAAAAACGACA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
* * * * * * *
108665562 CTAATTCTCGATCTATTGCAGCATTTTCCTAAAAGCGCCA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
* *
108665602 CTAATGCTCAATCTTTAGCGGCATTTTTCAAAAAA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAA
108665637 GTGCCGCTAG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (40 bp):
CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
Found at i:108672006 original size:18 final size:18
Alignment explanation
Indices: 108671980--108672048 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
108671970 CAATCCCAAC
108671980 TACTGTATACATGAACAG
1 TACTGTATACATGAACAG
* * * *
108671998 TACTATATACGTAAATAG
1 TACTGTATACATGAACAG
*
108672016 TACTGTATACATGAATAG
1 TACTGTATACATGAACAG
* *
108672034 TGCCGTATACATGAA
1 TACTGTATACATGAA
108672049 TAGTGCCATA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (18 bp):
TACTGTATACATGAACAG
Found at i:108672043 original size:36 final size:36
Alignment explanation
Indices: 108671980--108672052 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
108671970 CAATCCCAAC
* *
108671980 TACTGTATACATGAACAGTACTATATACGTAAATAG
1 TACTGTATACATGAACAGTACCATATACATAAATAG
* * * *
108672016 TACTGTATACATGAATAGTGCCGTATACATGAATAG
1 TACTGTATACATGAACAGTACCATATACATAAATAG
108672052 T
1 T
108672053 GCCATAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (36 bp):
TACTGTATACATGAACAGTACCATATACATAAATAG
Found at i:108672049 original size:18 final size:18
Alignment explanation
Indices: 108672020--108672055 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
108672010 AAATAGTACT
108672020 GTATACATGAATAGTGCC
1 GTATACATGAATAGTGCC
108672038 GTATACATGAATAGTGCC
1 GTATACATGAATAGTGCC
108672056 ATAAATGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACATGAATAGTGCC
Found at i:108672769 original size:166 final size:165
Alignment explanation
Indices: 108672573--108672903 Score: 626
Period size: 166 Copynumber: 2.0 Consensus size: 165
108672563 TTGCCAACCA
*
108672573 ATCTTACTTTTACTTTCGGTGCCCACCCTTTTTGACTTTTCAAACAATGGGTAGGTTCCAATAAT
1 ATCTTACTTTTACTTTCGGTGCCCACCCTTTTTGACTTTTCAAACAATGGGTAAGTTCCAATAAT
108672638 TTCCTTCAATCATCAATTGGGGCTATCGCGTTTTTAACATCTTCTTTCTTCAACATGAACCCAGA
66 TTCCTTCAATCATCAATTGGGGCTATCGCGTTTTTAACATCTTCTTTCTTCAACATGAACCCAGA
*
108672703 TTTCTCATCTCCGAACATCGTCGGTTTGTCGATTC
131 TTTCTCATCTCCGAACATCGTCAGTTTGTCGATTC
*
108672738 ATCTTACTTTTTACTTTCGGTGCCTACCCTTTTTGACTTTTCAAACAATGGGTAAGTTCCAATAA
1 ATCTTAC-TTTTACTTTCGGTGCCCACCCTTTTTGACTTTTCAAACAATGGGTAAGTTCCAATAA
108672803 TTTCCTTCAATCATCAATTGGGGCTATCGCGTTTTTAACATCTTCTTTCTTCAACATGAACCCAG
65 TTTCCTTCAATCATCAATTGGGGCTATCGCGTTTTTAACATCTTCTTTCTTCAACATGAACCCAG
108672868 ATTTCTCATCTCCGAACATCGTCAGTTTGTCGATTC
130 ATTTCTCATCTCCGAACATCGTCAGTTTGTCGATTC
108672904 TAATGCTGAT
Statistics
Matches: 162, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
165 7 0.04
166 155 0.96
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (165 bp):
ATCTTACTTTTACTTTCGGTGCCCACCCTTTTTGACTTTTCAAACAATGGGTAAGTTCCAATAAT
TTCCTTCAATCATCAATTGGGGCTATCGCGTTTTTAACATCTTCTTTCTTCAACATGAACCCAGA
TTTCTCATCTCCGAACATCGTCAGTTTGTCGATTC
Found at i:108674699 original size:3 final size:3
Alignment explanation
Indices: 108674691--108674766 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
108674681 TTAGCTCCAA
108674691 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
108674739 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
108674767 CCAGGCAGGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108675016 original size:22 final size:22
Alignment explanation
Indices: 108674991--108675034 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
108674981 TTATAGATTG
108674991 ACATGGAATATGACATTGAAAA
1 ACATGGAATATGACATTGAAAA
*
108675013 ACATGGAATATGACCTTGAAAA
1 ACATGGAATATGACATTGAAAA
108675035 TGGACTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (22 bp):
ACATGGAATATGACATTGAAAA
Found at i:108677216 original size:20 final size:20
Alignment explanation
Indices: 108677191--108677228 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
108677181 GATTTTTGGG
* *
108677191 AAAATTAATTTTGATCAAGT
1 AAAATTAAATTTAATCAAGT
108677211 AAAATTAAATTTAATCAA
1 AAAATTAAATTTAATCAA
108677229 TTTAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATTAAATTTAATCAAGT
Found at i:108677739 original size:31 final size:31
Alignment explanation
Indices: 108677693--108677824 Score: 153
Period size: 31 Copynumber: 4.3 Consensus size: 31
108677683 TTAATAAATT
*
108677693 TAATATTTAATTTAATTTAATATTTATCTAGA
1 TAATATTTTA-TTAATTTAATATTTATCTAGA
* * *
108677725 TAGTATTTTATTAATTTAATATTAATAT-GA
1 TAATATTTTATTAATTTAATATTTATCTAGA
**
108677755 -AATATTAAATTTAATTTAATATTTATCTAGA
1 TAATATTTTA-TTAATTTAATATTTATCTAGA
*
108677786 TAATATTTTATTAATTTAATATTTATGTA-A
1 TAATATTTTATTAATTTAATATTTATCTAGA
108677816 TTAATATTT
1 -TAATATTT
108677825 ATCTAGATAA
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
29 6 0.07
30 19 0.23
31 44 0.52
32 15 0.18
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (31 bp):
TAATATTTTATTAATTTAATATTTATCTAGA
Found at i:108677767 original size:61 final size:61
Alignment explanation
Indices: 108677694--108677808 Score: 212
Period size: 61 Copynumber: 1.9 Consensus size: 61
108677684 TAATAAATTT
* *
108677694 AATATTTAATTTAATTTAATATTTATCTAGATAGTATTTTATTAATTTAATATTAATATGA
1 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGA
108677755 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATT
1 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATT
108677809 TATGTAATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (61 bp):
AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGA
Found at i:108677791 original size:15 final size:15
Alignment explanation
Indices: 108677770--108677839 Score: 74
Period size: 15 Copynumber: 4.6 Consensus size: 15
108677760 TAAATTTAAT
108677770 TTAATATTTATCTAGA
1 TTAATATTTATCTA-A
108677786 -TAATATTTTAT-TAA
1 TTAATA-TTTATCTAA
*
108677800 TTTAATATTTATGTAA
1 -TTAATATTTATCTAA
108677816 TTAATATTTATCTAGA
1 TTAATATTTATCTA-A
108677832 -TAATATTT
1 TTAATATTT
108677840 TATTAATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
14 1 0.02
15 33 0.69
16 14 0.29
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (15 bp):
TTAATATTTATCTAA
Found at i:108690067 original size:18 final size:18
Alignment explanation
Indices: 108690036--108690095 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
108690026 ACAGCAGTCA
*
108690036 TCAGTAATAATCAATAAT
1 TCAGTAACAATCAATAAT
*
108690054 TCAGTAACAGTCAA-ATAT
1 TCAGTAACAATCAATA-AT
* * *
108690072 TCTGTAGCAATCAATTAT
1 TCAGTAACAATCAATAAT
108690090 TCAGTA
1 TCAGTA
108690096 CCTTTATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
TCAGTAACAATCAATAAT
Found at i:108691123 original size:2 final size:2
Alignment explanation
Indices: 108691112--108691148 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
108691102 ATTAAGTTAT
108691112 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108691149 AAGTAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:108693335 original size:46 final size:46
Alignment explanation
Indices: 108693283--108693604 Score: 500
Period size: 46 Copynumber: 7.0 Consensus size: 46
108693273 AGTGTGCTCT
108693283 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
108693329 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
108693375 CTAATATGAAATGTGTAAGACCATGGTTGAAACATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
108693421 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
108693467 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
108693513 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
108693559 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
108693605 ATGACAGAAA
Statistics
Matches: 255, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 255 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:108693532 original size:138 final size:138
Alignment explanation
Indices: 108693284--108693652 Score: 560
Period size: 138 Copynumber: 2.6 Consensus size: 138
108693274 GTGTGCTCTC
** * * * **
108693284 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
108693349 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAACATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAACATACCA
108693414 TGGCAACG
131 TGGCAACG
*
108693422 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
*
108693487 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAACATACCA
108693552 TGGCAACG
131 TGGCAACG
* *
108693560 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A-
* * *
108693624 TAAGACCATAGTTGAAAGACACTATGGCA
61 TAAGACCATGGTTGAAAGATACCATGGCA
108693653 TCATGTCAAA
Statistics
Matches: 212, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
137 5 0.02
138 179 0.84
139 1 0.00
141 1 0.00
142 26 0.12
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAACATACCA
TGGCAACG
Found at i:108693651 original size:50 final size:50
Alignment explanation
Indices: 108693292--108693657 Score: 350
Period size: 46 Copynumber: 7.8 Consensus size: 50
108693282 TCTGATATGA
* * *
108693292 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG---A-
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAG
* * **
108693338 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-A-AT-ATGA-
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAG
* * * *
108693384 AATGTGTAAGACCATGGTTGAAACATACCATGGCAACGTGATATG---A-
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAG
* *
108693430 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAG
* **
108693480 -A--A-TAAGACCATGGTTGAAAGATACCATGGCAACCT-A-AT-ATGA-
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAG
* *
108693522 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAG
108693572 -A--A-TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATG
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G
* * * *
108693618 AATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
108693658 TCAAAGATAA
Statistics
Matches: 278, Mismatches: 19, Indels: 42
0.82 0.06 0.12
Matches are distributed among these distances:
43 3 0.01
44 4 0.01
45 7 0.03
46 220 0.79
47 4 0.01
48 4 0.01
49 6 0.02
50 30 0.11
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (50 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAG
Found at i:108694751 original size:20 final size:21
Alignment explanation
Indices: 108694714--108694752 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
108694704 TTAATTCAAT
**
108694714 ATCAATTTCAATTTATTTATC
1 ATCAATTTCAATAAATTTATC
108694735 ATCAA-TTCAATAAATTTA
1 ATCAATTTCAATAAATTTA
108694753 ACACATTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (21 bp):
ATCAATTTCAATAAATTTATC
Found at i:108695556 original size:19 final size:19
Alignment explanation
Indices: 108695534--108695573 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
108695524 TTTGCTATTC
108695534 TCTTTCTCTCTCTTTTGTT
1 TCTTTCTCTCTCTTTTGTT
*
108695553 TCTTTCTTTCTCTTTTGTT
1 TCTTTCTCTCTCTTTTGTT
108695572 TC
1 TC
108695574 ATTTACTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (19 bp):
TCTTTCTCTCTCTTTTGTT
Found at i:108695616 original size:13 final size:12
Alignment explanation
Indices: 108695584--108695617 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
108695574 ATTTACTATA
108695584 TATATAATAACT
1 TATATAATAACT
108695596 TA-ATAATATACT
1 TATATAATA-ACT
108695608 TATATAATAA
1 TATATAATAA
108695618 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:108696703 original size:33 final size:33
Alignment explanation
Indices: 108696664--108696729 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
108696654 AAATATTAAG
108696664 AAGAATTGTCTCAATTGCATAATCTAAATAGTT
1 AAGAATTGTCTCAATTGCATAATCTAAATAGTT
*
108696697 AAGAATTGTCTCAATTGCATAATCTAAGTAGTT
1 AAGAATTGTCTCAATTGCATAATCTAAATAGTT
108696730 TTATTCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (33 bp):
AAGAATTGTCTCAATTGCATAATCTAAATAGTT
Found at i:108706696 original size:40 final size:37
Alignment explanation
Indices: 108706610--108706741 Score: 157
Period size: 35 Copynumber: 3.6 Consensus size: 37
108706600 TTTTCCTCAT
*
108706610 TGAAATACCATACCTACATTT-TTCAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCTT-AACTCAGTATGGA
*
108706646 -GAAATGCCATACCTACATTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCTTAACTCAGTATGGA
**
108706682 TTTGATAATACCATACCTACATTTCACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCTTAACTCAGTATGGA
108706722 TG--ATACCATACCTACATTTC
1 TGAAATACCATACCTACATTTC
108706742 ACACTTTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 13
0.83 0.05 0.13
Matches are distributed among these distances:
35 48 0.56
36 2 0.02
38 2 0.02
39 2 0.02
40 31 0.36
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCTTAACTCAGTATGGA
Found at i:108714070 original size:35 final size:35
Alignment explanation
Indices: 108714026--108714192 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
108714016 TCCTCATTGA
** *
108714026 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
108714061 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
108714101 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
108714136 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
108714171 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
108714193 CTTTTCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:108714109 original size:75 final size:73
Alignment explanation
Indices: 108714021--108714192 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
108714011 GGTTTTCCTC
** * * **
108714021 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
108714085 TCAGTATGG
65 TCAGTATGG
*
108714094 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
108714159 CTCAGTATGG
64 CTCAGTATGG
108714169 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
108714193 CTTTTCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:108717124 original size:11 final size:11
Alignment explanation
Indices: 108717108--108717137 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
108717098 GCAAAATTGT
108717108 AATTAAAGCAA
1 AATTAAAGCAA
*
108717119 AATTAAAACAA
1 AATTAAAGCAA
108717130 AATTAAAG
1 AATTAAAG
108717138 GAAGAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (11 bp):
AATTAAAGCAA
Found at i:108717994 original size:40 final size:40
Alignment explanation
Indices: 108717892--108718043 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
108717882 ATTGTATGAT
* * *
108717892 TGCAAATACGTGCCTCTATTTGTACTTTGGTACCCCTGAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAA
***
108717932 TGCACATACGTGCTGTTATTTGTACTTTGGTACCCCTAAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAA
* * * * **
108717972 TGCACATAAGTGCCCCTGTTTGTACTTCGATACCTTTGAAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT-AAA
* * *
108718013 -GCACATACGTGCCCCTGTTTATACTCTGGTA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTA
108718044 ACTTTGAATC
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 89 0.97
41 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAAA
Found at i:108718049 original size:40 final size:40
Alignment explanation
Indices: 108717973--108718051 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
108717963 ACCCCTAAAT
* *
108717973 GCACATAAGTGCCCCTGTTTGTACTTCGATACCTTTGAAA
1 GCACATAAGTGCCCCTGTTTATACTTCGATAACTTTGAAA
* *
108718013 GCACATACGTGCCCCTGTTTATAC-TCTGGTAACTTTGAA
1 GCACATAAGTGCCCCTGTTTATACTTC-GATAACTTTGAA
108718052 TCAAATAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (40 bp):
GCACATAAGTGCCCCTGTTTATACTTCGATAACTTTGAAA
Found at i:108728775 original size:19 final size:20
Alignment explanation
Indices: 108728725--108728775 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
108728715 GTTAAGTGAG
108728725 AGGTTAATTAGATCTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
108728746 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
108728765 AGGTTAATTAG
1 AGGTTAATTAG
108728776 GTGTAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.50
20 8 0.31
21 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:108728981 original size:17 final size:18
Alignment explanation
Indices: 108728940--108728982 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
108728930 TGTATTTACT
108728940 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
108728958 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
108728975 TATTATAT
1 TATTATAT
108728983 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:108735865 original size:19 final size:20
Alignment explanation
Indices: 108735815--108735865 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
108735805 GTTAAGTGAG
108735815 AGGTTAATTAGATCTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
108735836 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
108735855 AGGTTAATTAG
1 AGGTTAATTAG
108735866 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.50
20 8 0.31
21 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:108737820 original size:26 final size:26
Alignment explanation
Indices: 108737761--108737895 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
108737751 TGATACAAAT
108737761 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
108737786 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
108737812 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
108737838 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
108737864 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
108737890 TGATAA
1 TGATAA
108737896 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:108743645 original size:26 final size:26
Alignment explanation
Indices: 108743586--108743720 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
108743576 TGATACAAAT
108743586 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
108743611 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
108743637 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
108743663 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
108743689 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
108743715 TGATAA
1 TGATAA
108743721 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:108748316 original size:29 final size:28
Alignment explanation
Indices: 108748251--108748323 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
108748241 ATTGACAGTA
*
108748251 TTAATA-TATTTT-ATTTAGTCATTAATT
1 TTAATAGTTTTTTAATTTAGT-ATTAATT
108748278 TTAATAGTTTTTTAATTTAGT-TTACATT
1 TTAATAGTTTTTTAATTTAGTATTA-ATT
*
108748306 TTATATGGTTTTTTAATT
1 TTA-ATAGTTTTTTAATT
108748324 ATTAATGTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 9 0.22
28 11 0.28
29 20 0.50
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.62
Consensus pattern (28 bp):
TTAATAGTTTTTTAATTTAGTATTAATT
Found at i:108749834 original size:28 final size:29
Alignment explanation
Indices: 108749782--108749851 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 29
108749772 AGGTTCCATG
108749782 TTATTTTGATAAATAATTTATATTTTATA
1 TTATTTTGATAAATAATTTATATTTTATA
*
108749811 TTATTTCTGA-AATTAATTT-TATTTTATA
1 TTATTT-TGATAAATAATTTATATTTTATA
*
108749839 TTATTTTCATAAA
1 TTATTTTGATAAA
108749852 AAAACCTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.06
28 17 0.47
29 14 0.39
30 3 0.08
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTATTTTGATAAATAATTTATATTTTATA
Found at i:108750022 original size:1 final size:1
Alignment explanation
Indices: 108750016--108750041 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
108750006 GCTTATGACT
108750016 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
108750042 GCTTAATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:108753641 original size:20 final size:20
Alignment explanation
Indices: 108753616--108753654 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
108753606 AGGGACGAAA
* *
108753616 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
108753636 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
108753655 TATAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:108758952 original size:3 final size:3
Alignment explanation
Indices: 108758944--108758986 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
108758934 AATAAAGGAA
* *
108758944 AAT AAT AAT AAC AAT AAG AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
108758987 AGGGACTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:108759349 original size:40 final size:40
Alignment explanation
Indices: 108759257--108759471 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
108759247 CGGATGATAA
* * *
108759257 CCGGGCTAAGT-CCGAAGGCATTTGCGCTAGTGACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
108759295 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
108759335 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
108759375 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-CTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
108759414 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
108759454 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
108759472 TACCTGGCTT
Statistics
Matches: 160, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.08
39 69 0.43
40 79 0.49
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:108759427 original size:79 final size:80
Alignment explanation
Indices: 108759257--108759471 Score: 296
Period size: 79 Copynumber: 2.7 Consensus size: 80
108759247 CGGATGATAA
* * *
108759257 CCGGGCTAAGT-CCGAAGGCATTTGCGCTAGTGACTAT-TCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
108759320 TGCGAGTTACTATAT
66 TGCGAGTTACTACAT
* *
108759335 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
108759400 TGCGAGTT-CTACAT
66 TGCGAGTTACTACAT
* * * *
108759414 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
108759472 TACCTGGCTT
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
78 26 0.21
79 63 0.51
80 34 0.28
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTACAT
Found at i:108767382 original size:40 final size:40
Alignment explanation
Indices: 108767327--108767544 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
108767317 CGGATGATAA
* * *
108767327 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
108767367 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
108767407 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
108767447 CCGGGCTAAGTCCTGAAGGCATTTGTGAGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
108767487 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
108767527 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
108767545 TACCTGGCTT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 141 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:108772725 original size:26 final size:24
Alignment explanation
Indices: 108772683--108772731 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
108772673 ACACACCTTA
108772683 GCTCTTATGAGCATCCCGATTAAAG
1 GCTCTTATGAGCATCCC-ATTAAAG
**
108772708 GCTCTTCATGAGTTTCCCATTAAA
1 GCTCTT-ATGAGCATCCCATTAAA
108772732 TTGGCTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
GCTCTTATGAGCATCCCATTAAAG
Found at i:108772880 original size:48 final size:48
Alignment explanation
Indices: 108772819--108772945 Score: 191
Period size: 48 Copynumber: 2.6 Consensus size: 48
108772809 CTATGTGAAG
*
108772819 TTCTCGATTATGGCTCTTATGAGTTTCCCATTATATAGCTCGGATAAGC
1 TTCTCGA-AATGGCTCTTATGAGTTTCCCATTATATAGCTCGGATAAGC
* *
108772868 TTCTCGAAATGGCTCTTATGAGTTTCTCGTTATATAGCTCGGATAAGC
1 TTCTCGAAATGGCTCTTATGAGTTTCCCATTATATAGCTCGGATAAGC
* *
108772916 TTCTCGAAATGGCTCTATGTGAGCTTCCCA
1 TTCTCGAAATGGCTCT-TATGAGTTTCCCA
108772946 ATGCAAGGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
48 54 0.77
49 16 0.23
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (48 bp):
TTCTCGAAATGGCTCTTATGAGTTTCCCATTATATAGCTCGGATAAGC
Found at i:108772882 original size:23 final size:23
Alignment explanation
Indices: 108772856--108772930 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
108772846 CCATTATATA
108772856 GCTCGGATAAGCTTCTCGAAATG
1 GCTCGGATAAGCTTCTCGAAATG
** * * * *
108772879 GCTCTTATGAGTTTCTCGTTATATA
1 GCTCGGATAAGCTTCTCG--AAATG
108772904 GCTCGGATAAGCTTCTCGAAATG
1 GCTCGGATAAGCTTCTCGAAATG
108772927 GCTC
1 GCTC
108772931 TATGTGAGCT
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
23 21 0.55
25 17 0.45
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (23 bp):
GCTCGGATAAGCTTCTCGAAATG
Found at i:108773180 original size:23 final size:23
Alignment explanation
Indices: 108773154--108773238 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 23
108773144 TGATGATACA
108773154 TGATATATGAAAGTATGAGATGG
1 TGATATATGAAAGTATGAGATGG
* **
108773177 TGATATATGAACATGGAATGATGATACA
1 TGATATATGAA-A--GTATGA-GAT-GG
*
108773205 TGATATATGGAAGTATGAGATGG
1 TGATATATGAAAGTATGAGATGG
108773228 TGATATATGAA
1 TGATATATGAA
108773239 CATGGAACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
23 21 0.43
24 4 0.08
25 5 0.10
26 5 0.10
27 4 0.08
28 10 0.20
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.31
Consensus pattern (23 bp):
TGATATATGAAAGTATGAGATGG
Found at i:108773203 original size:51 final size:51
Alignment explanation
Indices: 108773143--108773245 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
108773133 ATATATGAGT
108773143 ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
1 ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
*
108773194 ATGATGATACATGATATATGGAAGTATGAGATGGTGATATATGAACATGGA
1 ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
108773245 A
1 A
108773246 CTTGTTTGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.29
Consensus pattern (51 bp):
ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
Found at i:108773918 original size:2 final size:2
Alignment explanation
Indices: 108773911--108773955 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
108773901 CCTATTTCGG
*
108773911 TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108773953 TA T
1 TA T
108773956 GATAAATCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108774767 original size:26 final size:26
Alignment explanation
Indices: 108774738--108774788 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
108774728 GATTTGCGCT
108774738 TCGAGGGCTAATGTAAAGGACTATGC
1 TCGAGGGCTAATGTAAAGGACTATGC
* *
108774764 TCGAGGGCTCATGTAAGGGACTATG
1 TCGAGGGCTAATGTAAAGGACTATG
108774789 TGGTGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (26 bp):
TCGAGGGCTAATGTAAAGGACTATGC
Found at i:108792655 original size:31 final size:31
Alignment explanation
Indices: 108792617--108792680 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
108792607 CCTTTTCATA
108792617 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
** *
108792648 TTTCATATTTCATGTTACTGGGCTGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
108792679 TT
1 TT
108792681 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:108792924 original size:24 final size:24
Alignment explanation
Indices: 108792872--108792991 Score: 188
Period size: 24 Copynumber: 5.0 Consensus size: 24
108792862 GCTTTATCAT
* *
108792872 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
108792897 ATAACTGGGGCAAAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
108792921 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
108792945 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
108792969 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
108792992 TCACTTCCTC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
24 78 0.87
25 12 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:108793067 original size:20 final size:20
Alignment explanation
Indices: 108793042--108793101 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
108793032 TATGATTACC
108793042 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
108793062 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
108793082 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
108793102 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:108793190 original size:25 final size:25
Alignment explanation
Indices: 108793144--108793191 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
108793134 ATACATAAAC
* * * *
108793144 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
108793169 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
108793192 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:108796925 original size:46 final size:46
Alignment explanation
Indices: 108796832--108796975 Score: 162
Period size: 46 Copynumber: 3.1 Consensus size: 46
108796822 ATCTCACACT
* * *** *
108796832 GGCCAAATAGAATATGCCACAAAGGCCAAATGGATTACGCCATAAA
1 GGCCAAACAAAATATGCCACAAAGGCCAAACAAATTACGCCACAAA
* * *
108796878 GGCCAAACAAAATATGCCATAAAGGCCAAACAAAATATGCCACAAA
1 GGCCAAACAAAATATGCCACAAAGGCCAAACAAATTACGCCACAAA
** ** *
108796924 GGCCAAACCTAATACACCGCAAAGGCCAAACAAATTACGCCACAAA
1 GGCCAAACAAAATATGCCACAAAGGCCAAACAAATTACGCCACAAA
108796970 GGCCAA
1 GGCCAA
108796976 CCAGAATGCG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.11
Consensus pattern (46 bp):
GGCCAAACAAAATATGCCACAAAGGCCAAACAAATTACGCCACAAA
Found at i:108796930 original size:69 final size:69
Alignment explanation
Indices: 108796832--108796975 Score: 180
Period size: 69 Copynumber: 2.1 Consensus size: 69
108796822 ATCTCACACT
* * ** * * * *
108796832 GGCCAAATAGAATATGCCACAAAGGCCAAATGGATTACGCCATAAAGGCCAAACAAAATATGCCA
1 GGCCAAACAAAATATGCCACAAAGGCCAAACCGAATACACCACAAAGGCCAAACAAAATACGCCA
*
108796897 TAAA
66 CAAA
* * *
108796901 GGCCAAACAAAATATGCCACAAAGGCCAAACCTAATACACCGCAAAGGCCAAACAAATTACGCCA
1 GGCCAAACAAAATATGCCACAAAGGCCAAACCGAATACACCACAAAGGCCAAACAAAATACGCCA
108796966 CAAA
66 CAAA
108796970 GGCCAA
1 GGCCAA
108796976 CCAGAATGCG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.11
Consensus pattern (69 bp):
GGCCAAACAAAATATGCCACAAAGGCCAAACCGAATACACCACAAAGGCCAAACAAAATACGCCA
CAAA
Found at i:108796988 original size:23 final size:23
Alignment explanation
Indices: 108796832--108796975 Score: 144
Period size: 23 Copynumber: 6.3 Consensus size: 23
108796822 ATCTCACACT
* * *
108796832 GGCCAAATAGAATATGCCACAAA
1 GGCCAAACAAAATACGCCACAAA
*** * *
108796855 GGCCAAATGGATTACGCCATAAA
1 GGCCAAACAAAATACGCCACAAA
* *
108796878 GGCCAAACAAAATATGCCATAAA
1 GGCCAAACAAAATACGCCACAAA
*
108796901 GGCCAAACAAAATATGCCACAAA
1 GGCCAAACAAAATACGCCACAAA
** * *
108796924 GGCCAAACCTAATACACCGCAAA
1 GGCCAAACAAAATACGCCACAAA
*
108796947 GGCCAAACAAATTACGCCACAAA
1 GGCCAAACAAAATACGCCACAAA
108796970 GGCCAA
1 GGCCAA
108796976 CCAGAATGCG
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 101 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.11
Consensus pattern (23 bp):
GGCCAAACAAAATACGCCACAAA
Found at i:108798498 original size:26 final size:26
Alignment explanation
Indices: 108798455--108798520 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
108798445 AAAGAAAGGA
* *
108798455 AAAAGAAA-AAAAATGAAAGAGAGA-
1 AAAAGAAAGGAAAATGAAAAAGAGAG
108798479 ATGAAAGAAAGGAAAA-GAAAAAGAGAG
1 A--AAAGAAAGGAAAATGAAAAAGAGAG
108798506 AAAAGAAAGGAAAAT
1 AAAAGAAAGGAAAAT
108798521 TTTCCATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 1 0.03
25 13 0.37
26 16 0.46
27 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (26 bp):
AAAAGAAAGGAAAATGAAAAAGAGAG
Found at i:108798501 original size:16 final size:16
Alignment explanation
Indices: 108798445--108798513 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
108798435 AATAAATGGG
108798445 AAAGAAAGGAAAAAGAA
1 AAAGAAAGG-AAAAGAA
*
108798462 AAA-AAATGAAAGAGAGAA
1 AAAGAAA-GGAA-A-AGAA
108798480 TGAAAGAAAGGAAAAGAA
1 --AAAGAAAGGAAAAGAA
*
108798498 AAAGAGA-GAAAAGAA
1 AAAGAAAGGAAAAGAA
108798513 A
1 A
108798514 GGAAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
15 9 0.21
16 11 0.26
17 5 0.12
18 8 0.19
19 1 0.02
20 6 0.14
21 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (16 bp):
AAAGAAAGGAAAAGAA
Found at i:108804048 original size:35 final size:36
Alignment explanation
Indices: 108804008--108804081 Score: 114
Period size: 39 Copynumber: 2.0 Consensus size: 36
108803998 AATATAATAA
108804008 AACAAAAG-AAAAAATGTTATCACCTATTCACTTAT
1 AACAAAAGAAAAAAATGTTATCACCTATTCACTTAT
108804043 AACAAAAGAACAAAAAAATGTTATCACCTATTCACTTAT
1 AACAAAAG---AAAAAAATGTTATCACCTATTCACTTAT
108804082 CTTCTTCCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 8 0.23
39 27 0.77
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (36 bp):
AACAAAAGAAAAAAATGTTATCACCTATTCACTTAT
Found at i:108808877 original size:98 final size:96
Alignment explanation
Indices: 108808728--108808923 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 96
108808718 ATCACATGGG
*
108808728 GCTCCGATCCGACCCATAAAACACCCCCGTTCTGATATCCAGTTTTCTGCCCCTTCCAGAAATGC
1 GCTCCGATCCGACCCATAAAACACCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAATGC
*
108808793 TTCGCCCAAGTCCTTAACTCTGTTCCGGATA
66 TTCGCCCAAGTCCTTAACTCTGTTCCCGATA
108808824 GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
1 GCTCCG-ATCCGACCCATAAAACA-CCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
108808889 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
64 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
108808922 GC
1 GC
108808924 ATCTGCTGCA
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
96 6 0.06
97 17 0.18
98 73 0.76
ACGTcount: A:0.22, C:0.37, G:0.14, T:0.26
Consensus pattern (96 bp):
GCTCCGATCCGACCCATAAAACACCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAATGC
TTCGCCCAAGTCCTTAACTCTGTTCCCGATA
Found at i:108811465 original size:5 final size:5
Alignment explanation
Indices: 108811449--108811517 Score: 51
Period size: 5 Copynumber: 14.6 Consensus size: 5
108811439 CAAATAAATA
* *
108811449 AAAGG AAA-G AAAGG AAAAG AAA-- AAAGG AAA-G AAA-G AAAGG AAAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG
*
108811494 AACA-G AAAGG AAAAAG AAAGG AAA
1 AA-AGG AAAGG -AAAGG AAAGG AAA
108811518 ATTTTCTCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
3 3 0.06
4 13 0.25
5 32 0.60
6 5 0.09
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:108811475 original size:22 final size:22
Alignment explanation
Indices: 108811448--108811512 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
108811438 ACAAATAAAT
108811448 AAAAGGAAAGAAAGGAAAAGAA
1 AAAAGGAAAGAAAGGAAAAGAA
*
108811470 AAAAGGAAAGAAA-G-AAAG-G
1 AAAAGGAAAGAAAGGAAAAGAA
108811489 AAAA-GAACAGAAAGGAAAAAGAA
1 AAAAGGAA-AGAAAGG-AAAAGAA
108811512 A
1 A
108811513 GGAAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 3 0.08
19 9 0.25
20 5 0.14
21 1 0.03
22 17 0.47
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAAGGAAAGAAAGGAAAAGAA
Found at i:108811483 original size:26 final size:27
Alignment explanation
Indices: 108811453--108811518 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 27
108811443 TAAATAAAAG
108811453 GAAAGAAAGGAAAAGAA-A-AAAGGAAA
1 GAAAGAAAGGAAAAGAACAGAAAGG-AA
108811479 GAAAGAAAGGAAAAGAACAGAAAGGAA
1 GAAAGAAAGGAAAAGAACAGAAAGGAA
108811506 -AAAGAAAGGAAAA
1 GAAAGAAAGGAAAA
108811519 TTTTCTCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 30 0.79
27 3 0.08
28 5 0.13
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (27 bp):
GAAAGAAAGGAAAAGAACAGAAAGGAA
Found at i:108815718 original size:18 final size:18
Alignment explanation
Indices: 108815684--108815729 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
108815674 CTTCTTGTTT
*
108815684 ACGAAGCCTATATTGTAC
1 ACGAACCCTATATTGTAC
*
108815702 ACGAACCCTAT-TATGTAT
1 ACGAACCCTATAT-TGTAC
108815720 ACGAACCCTA
1 ACGAACCCTA
108815730 GATGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (18 bp):
ACGAACCCTATATTGTAC
Found at i:108816324 original size:27 final size:27
Alignment explanation
Indices: 108816261--108816330 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
108816251 TATATGTGTT
* * * *
108816261 TTGGCGAACTATGGTCGCAGTTATGCT
1 TTGGCGAACTAAGTTCGCAGATATGCC
* *
108816288 TTTGCAAACTAAGTTCGCAGATATGCC
1 TTGGCGAACTAAGTTCGCAGATATGCC
*
108816315 TTGGCGAACTACGTTC
1 TTGGCGAACTAAGTTC
108816331 ACAGTTGTGT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (27 bp):
TTGGCGAACTAAGTTCGCAGATATGCC
Found at i:108820188 original size:52 final size:51
Alignment explanation
Indices: 108820124--108820255 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
108820114 ATGAACAAAT
* *
108820124 GAGTTACTTAATGCATAACTTAATTTAATGATGCAAAATTTAACTAACATGA
1 GAGTTACATAATGCATAACTTAATTTAATGATGC-AAACTTAACTAACATGA
* *
108820176 GAGTTACATAATGCATATCATAATTT-ATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATAACTTAATTTAATGATGCAAACTTAACTAACATGA
* * * *
108820226 GAGTTACATGATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATAACTTAATTTAATG
108820256 CAGAATACAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 36 0.52
51 10 0.14
52 23 0.33
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (51 bp):
GAGTTACATAATGCATAACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:108820222 original size:50 final size:52
Alignment explanation
Indices: 108820124--108820241 Score: 177
Period size: 50 Copynumber: 2.3 Consensus size: 52
108820114 ATGAACAAAT
* * *
108820124 GAGTTACTTAATGCATAACTTAATTTAATGATGCAAAATTTAACTAACATGA
1 GAGTTACATAATGCATAACATAATTTAATGATGCAAAACTTAACTAACATGA
*
108820176 GAGTTACATAATGCATATCATAATTT-ATGATGC-AAACTTAACTAACATGA
1 GAGTTACATAATGCATAACATAATTTAATGATGCAAAACTTAACTAACATGA
*
108820226 GAGTTACATGATGCAT
1 GAGTTACATAATGCAT
108820242 GACTTTATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 31 0.51
51 7 0.11
52 23 0.38
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATAACATAATTTAATGATGCAAAACTTAACTAACATGA
Found at i:108821966 original size:31 final size:32
Alignment explanation
Indices: 108821931--108821990 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
108821921 TGATATTTTA
*
108821931 TAATAATTTAATTAGAT-TATTATTATTTATT
1 TAATAATTTAATAAGATATATTATTATTTATT
* *
108821962 TAATATTTTAATAAGATATTTTATTATTT
1 TAATAATTTAATAAGATATATTATTATTT
108821991 TATTATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TAATAATTTAATAAGATATATTATTATTTATT
Found at i:108821989 original size:8 final size:8
Alignment explanation
Indices: 108821978--108822002 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
108821968 TTTAATAAGA
108821978 TATTTTAT
1 TATTTTAT
108821986 TATTTTAT
1 TATTTTAT
108821994 TATTTTAT
1 TATTTTAT
108822002 T
1 T
108822003 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:108823573 original size:40 final size:40
Alignment explanation
Indices: 108823529--108823607 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
108823519 AGGGGTAAAA
108823529 TGATAATTTTGTTTAGAGCATTAATTGAATGTATTAGAAT
1 TGATAATTTTGTTTAGAGCATTAATTGAATGTATTAGAAT
108823569 TGATAATTTTGTTTAGAGCATTAATTGAATGTATTAGAA
1 TGATAATTTTGTTTAGAGCATTAATTGAATGTATTAGAA
108823608 CATGAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (40 bp):
TGATAATTTTGTTTAGAGCATTAATTGAATGTATTAGAAT
Found at i:108823606 original size:21 final size:21
Alignment explanation
Indices: 108823541--108823606 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
108823531 ATAATTTTGT
108823541 TTAGAGCATTAATTGAATGTA
1 TTAGAGCATTAATTGAATGTA
*
108823562 TTAGA--ATTGATAATT--TTGT-
1 TTAGAGCA-T--TAATTGAATGTA
108823581 TTAGAGCATTAATTGAATGTA
1 TTAGAGCATTAATTGAATGTA
108823602 TTAGA
1 TTAGA
108823607 ACATGAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
18 5 0.14
19 6 0.17
20 8 0.23
21 11 0.31
22 5 0.14
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.42
Consensus pattern (21 bp):
TTAGAGCATTAATTGAATGTA
Found at i:108825501 original size:3 final size:3
Alignment explanation
Indices: 108825493--108825537 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
108825483 GGATGTTTTA
108825493 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
108825538 TAGTATATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:108827880 original size:19 final size:19
Alignment explanation
Indices: 108827858--108827902 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
108827848 CTGTTTTGTT
*
108827858 ATGGGCTAACTGTATTGAA
1 ATGGGCCAACTGTATTGAA
* *
108827877 ATGGGCCCAACTGTGTTGAT
1 ATGGG-CCAACTGTATTGAA
108827897 ATGGGC
1 ATGGGC
108827903 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (19 bp):
ATGGGCCAACTGTATTGAA
Found at i:108827890 original size:20 final size:20
Alignment explanation
Indices: 108827865--108827902 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
108827855 GTTATGGGCT
108827865 AACTGTATTGAAATGGGCCC
1 AACTGTATTGAAATGGGCCC
* *
108827885 AACTGTGTTGATATGGGC
1 AACTGTATTGAAATGGGC
108827903 AAGGCCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
AACTGTATTGAAATGGGCCC
Found at i:108832454 original size:28 final size:28
Alignment explanation
Indices: 108832423--108832480 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
108832413 ACATAATAAG
108832423 ATAAAAAGAGAAAATAATATCCAATTTT
1 ATAAAAAGAGAAAATAATATCCAATTTT
*
108832451 ATAAAAAGAGAAAATAATATCTAATTTT
1 ATAAAAAGAGAAAATAATATCCAATTTT
108832479 AT
1 AT
108832481 TCAATCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (28 bp):
ATAAAAAGAGAAAATAATATCCAATTTT
Found at i:108832660 original size:14 final size:14
Alignment explanation
Indices: 108832628--108832660 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
108832618 GTTAAAATTT
*
108832628 TAAAACACAACATG
1 TAAAATACAACATG
108832642 T-AAATACAACATG
1 TAAAATACAACATG
108832655 TAAAAT
1 TAAAAT
108832661 TTTGTGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (14 bp):
TAAAATACAACATG
Found at i:108833240 original size:18 final size:19
Alignment explanation
Indices: 108833209--108833248 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
108833199 GCAAAACGAG
*
108833209 ATTATGTGAAAAGACTTGT
1 ATTATGTGAAAAGACCTGT
*
108833228 ATTA-GTGACAAGACCTGT
1 ATTATGTGAAAAGACCTGT
108833246 ATT
1 ATT
108833249 GAACAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (19 bp):
ATTATGTGAAAAGACCTGT
Found at i:108843798 original size:43 final size:42
Alignment explanation
Indices: 108843751--108843868 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
108843741 AGCATATACA
*
108843751 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAACA-CG
* * *
108843794 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAGATACG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACGTAATCAAACACG
** * *
108843836 ATGCCAATGTCCTAGACATGGTCTTACACGTAA
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAA
108843869 AACAAAAGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
42 29 0.47
43 32 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAACACG
Found at i:108845940 original size:25 final size:25
Alignment explanation
Indices: 108845912--108845963 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
108845902 CGAAAACTTC
108845912 ATCATTCGTAGTAGCCTTAACTCAT
1 ATCATTCGTAGTAGCCTTAACTCAT
108845937 ATCATTCGTAGTAGCCTTAACTCAT
1 ATCATTCGTAGTAGCCTTAACTCAT
108845962 AT
1 AT
108845964 TCTCGATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (25 bp):
ATCATTCGTAGTAGCCTTAACTCAT
Found at i:108853710 original size:46 final size:46
Alignment explanation
Indices: 108853635--108853725 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
108853625 CTCGTTTCTA
* * *
108853635 GTATGGTGCCATAATGTTTTACAAATATGGTCTTATTTATTTTCCG
1 GTATAGTGCCATAATGTTTTACAAATATGGTCTTAATCATTTTCCG
* * *
108853681 GTATAGTGCCATAGTGTCTTT-CAACTATGGTTTTAATCATTTTCC
1 GTATAGTGCCATAATGT-TTTACAAATATGGTCTTAATCATTTTCC
108853726 TTCAAGTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 35 0.92
47 3 0.08
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.45
Consensus pattern (46 bp):
GTATAGTGCCATAATGTTTTACAAATATGGTCTTAATCATTTTCCG
Found at i:108853771 original size:15 final size:16
Alignment explanation
Indices: 108853748--108853777 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108853738 AACTCAATTC
108853748 ATATATAAACAATTAG
1 ATATATAAACAATTAG
108853764 ATAT-TAAACAATTA
1 ATATATAAACAATTA
108853778 AAACAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (16 bp):
ATATATAAACAATTAG
Found at i:108854274 original size:14 final size:14
Alignment explanation
Indices: 108854255--108854292 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
108854245 GTTTGGTAGT
108854255 AAAATG-TTTTCCGG
1 AAAATGATTTT-CGG
*
108854269 AAAATGATTTTTGG
1 AAAATGATTTTCGG
108854283 AAAATGATTT
1 AAAATGATTT
108854293 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTTCGG
Found at i:108854439 original size:35 final size:35
Alignment explanation
Indices: 108854395--108854462 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
108854385 GGAAAAGTTG
108854395 TTTTTACATATATTAATAAATTTATATTTTAAATT
1 TTTTTACATATATTAATAAATTTATATTTTAAATT
*
108854430 TTTTTACATATATTAATAAATTTGTATTTTAAA
1 TTTTTACATATATTAATAAATTTATATTTTAAA
108854463 AGAGGTTATT
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:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (35 bp):
TTTTTACATATATTAATAAATTTATATTTTAAATT
Found at i:108858569 original size:31 final size:31
Alignment explanation
Indices: 108858533--108858595 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
108858523 GGAGATGGAA
* *
108858533 AAAGTTGAAGAATGGAAGAAAAAGAAAGCTT
1 AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
*
108858564 AAAGTTGAAGAAAGGAAGAAAAACAAGGCTT
1 AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
108858595 A
1 A
108858596 CTTGGATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.25, T:0.14
Consensus pattern (31 bp):
AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
Done.