Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 32 of 128
Found at i:9890324 original size:14 final size:14
Alignment explanation
Indices: 9890259--9890324 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
9890249 TTGACCAAGT
* *
9890259 ATAAATTATTAATA
1 ATAAATAATTTATA
9890273 ATAAAT-ATTATATA
1 ATAAATAATT-TATA
9890287 ATTAAATTAACTTTA-A
1 A-TAAA-TAA-TTTATA
9890303 TATAAATAATTTATA
1 -ATAAATAATTTATA
9890318 ATAAATA
1 ATAAATA
9890325 CTATATATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
13 3 0.07
14 21 0.48
15 8 0.18
16 6 0.14
17 4 0.09
18 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATAATTTATA
Found at i:9893890 original size:12 final size:12
Alignment explanation
Indices: 9893875--9893907 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
9893865 AACTGAGCCG
9893875 TAAATATTTTTA
1 TAAATATTTTTA
9893887 TAAATATTTTTA
1 TAAATATTTTTA
9893899 TAAATATTT
1 TAAATATTT
9893908 ACGGAGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:9896082 original size:50 final size:51
Alignment explanation
Indices: 9895926--9896103 Score: 306
Period size: 51 Copynumber: 3.5 Consensus size: 51
9895916 ATCAGTGGCA
*
9895926 AGTGACAAGTGACAAGTGATAAGTGGTAGCATT-AGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGATAGC-TTCAGCTACACTTATCTGATC
*
9895977 AGTGACAAGTAACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATC
9896028 AGTGACAAGTGACAAGTGATAAGTGATAG-TTCAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATC
*
9896078 AGTGACAAGTGACAAGTGACAAGTGA
1 AGTGACAAGTGACAAGTGATAAGTGA
9896104 CAAGTGATAA
Statistics
Matches: 122, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
50 48 0.39
51 74 0.61
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATC
Found at i:9896090 original size:7 final size:7
Alignment explanation
Indices: 9896078--9896116 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
9896068 TTATCTGATC
9896078 AGTGACA
1 AGTGACA
9896085 AGTGACA
1 AGTGACA
9896092 AGTGACA
1 AGTGACA
9896099 AGTGACA
1 AGTGACA
*
9896106 AGTGATA
1 AGTGACA
9896113 AGTG
1 AGTG
9896117 GTAGCATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.31, T:0.18
Consensus pattern (7 bp):
AGTGACA
Found at i:9896144 original size:115 final size:114
Alignment explanation
Indices: 9895875--9896211 Score: 386
Period size: 115 Copynumber: 3.0 Consensus size: 114
9895865 ACTTCTAATC
* * *
9895875 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGGCAAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
* * * *
9895940 AGTGATAAG-T-GGTAGCA-TTAGCT-A-CACTTATC---TGATC-AGTGACA
66 AGTGAT-AGTTAGCTA-CACTTATCTGATCAGTGA-CAAGTGA-CAAGTGACA
* * *
9895984 AGTAACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
9896049 AGTGATAGTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACA
66 AGTGATAGTT-AGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACA
* * * * * *
9896099 AGTGACAAGTGATAAGTGGTAGCATTAGCTACACTTATCTAATCAGTGATAAGCGGCAAGAGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
* * *
9896164 AGTGGTAGCTTAGCTACACTTATCTGATCAGGGACAAGTGATAAGTGA
66 AGTGATAG-TTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGA
9896212 TCATACGTTA
Statistics
Matches: 195, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
108 2 0.01
109 66 0.34
110 2 0.01
111 8 0.04
112 2 0.01
113 4 0.02
114 1 0.01
115 108 0.55
116 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (114 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
AGTGATAGTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACA
Found at i:9896167 original size:65 final size:64
Alignment explanation
Indices: 9896031--9896167 Score: 186
Period size: 65 Copynumber: 2.1 Consensus size: 64
9896021 TCTGATCAGT
* * *
9896031 GACAAGTGACAAGTGATAAGTGATAGTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
1 GACAAGTGACAAGTGATAAGTGATAGTTCAGCTACACTTATCTAATCAGTGACAAGCGACAAGA
* * *
9896095 GACAAGTGACAAGTGATAAGTGGTAGCATT-AGCTACACTTATCTAATCAGTGATAAGCGGCAAG
1 GACAAGTGACAAGTGATAAGTGATAG--TTCAGCTACACTTATCTAATCAGTGACAAGCGACAAG
9896159 A
64 A
*
9896160 GATAAGTG
1 GACAAGTG
9896168 GTAGCTTAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
64 25 0.39
65 37 0.58
66 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (64 bp):
GACAAGTGACAAGTGATAAGTGATAGTTCAGCTACACTTATCTAATCAGTGACAAGCGACAAGA
Found at i:9898214 original size:23 final size:22
Alignment explanation
Indices: 9898184--9898335 Score: 133
Period size: 23 Copynumber: 6.6 Consensus size: 22
9898174 TGATGCTTAA
*
9898184 ATGCTGCCCAATTCGTTGTATTT
1 ATGCTGCCCAATT-GTTGTATAT
*
9898207 ATGCTGCCCAATTCGTTGTATTT
1 ATGCTGCCCAATT-GTTGTATAT
*
9898230 ATGCTGCCTAAATTGTTGTATAT
1 ATGCTGCC-CAATTGTTGTATAT
* * * * *
9898253 ATACTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA--TTGTTGTATAT
* * *
9898277 ATGTTGCTCAATTTGTTATATAT
1 ATGCTGCCCAA-TTGTTGTATAT
9898300 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCC-AATTGTTGTATAT
*
9898323 ATGCTGTCCAATT
1 ATGCTGCCCAATT
9898336 TTTGGTGTGA
Statistics
Matches: 105, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
22 6 0.06
23 78 0.74
24 21 0.20
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (22 bp):
ATGCTGCCCAATTGTTGTATAT
Found at i:9905194 original size:153 final size:153
Alignment explanation
Indices: 9904916--9905224 Score: 546
Period size: 153 Copynumber: 2.0 Consensus size: 153
9904906 CATATAATAT
* *
9904916 ATTAGTTTAAAGAACGTACCCGACAATACGATTACTAAAATAATTTAACTAGAAAAGTAAACATC
1 ATTAGTTTAAAAAACGTACCCGACAATACGATTACTAAAATAATTTAACCAGAAAAGTAAACATC
*
9904981 CTAAACAATTTATCTAATTACTCTAGCATTTCATATTTGTTGAGTTAGTTACTCTTTAACATCAA
66 CTAAACAATTTATCTAATCACTCTAGCATTTCATATTTGTTGAGTTAGTTACTCTTTAACATCAA
*
9905046 ACATATAATTATTGTTATTGCTG
131 ACATATAATTATTGTTATTGCCG
**
9905069 ATTAGTTTAAAAAACGTACTTGACAATACGATTACTAAAATAATTTAACCAGAAAAGTAAACATC
1 ATTAGTTTAAAAAACGTACCCGACAATACGATTACTAAAATAATTTAACCAGAAAAGTAAACATC
* *
9905134 CTAAGCAATTTATCTAATCACTCTAGCATTTCATATTTGTTGAGTTAGTTACTTTTTAACATCAA
66 CTAAACAATTTATCTAATCACTCTAGCATTTCATATTTGTTGAGTTAGTTACTCTTTAACATCAA
9905199 ACATATAATTATTGTTATTGCCG
131 ACATATAATTATTGTTATTGCCG
9905222 ATT
1 ATT
9905225 GATTCTTGAC
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 148 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (153 bp):
ATTAGTTTAAAAAACGTACCCGACAATACGATTACTAAAATAATTTAACCAGAAAAGTAAACATC
CTAAACAATTTATCTAATCACTCTAGCATTTCATATTTGTTGAGTTAGTTACTCTTTAACATCAA
ACATATAATTATTGTTATTGCCG
Found at i:9905305 original size:14 final size:14
Alignment explanation
Indices: 9905240--9905305 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
9905230 TTGACCAAGT
* *
9905240 ATAAATTATTAATA
1 ATAAATAATTTATA
9905254 ATAAAT-ATTATATA
1 ATAAATAATT-TATA
9905268 ATTAAATTAACTTTA-A
1 A-TAAA-TAA-TTTATA
9905284 TATAAATAATTTATA
1 -ATAAATAATTTATA
9905299 ATAAATA
1 ATAAATA
9905306 CTATATATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
13 3 0.07
14 21 0.48
15 8 0.18
16 6 0.14
17 4 0.09
18 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATAATTTATA
Found at i:9911367 original size:27 final size:29
Alignment explanation
Indices: 9911313--9911367 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
9911303 AGAAAAAATT
* *
9911313 TAAATAAATCACTTAAAATATAACAAAAC
1 TAAAAAAATCACTTAAAATATAAAAAAAC
9911342 TAAAAAAATCA-TT-AAATATAAAAAAA
1 TAAAAAAATCACTTAAAATATAAAAAAA
9911368 ATAGAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
28 2 0.08
29 10 0.42
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (29 bp):
TAAAAAAATCACTTAAAATATAAAAAAAC
Found at i:9916305 original size:25 final size:25
Alignment explanation
Indices: 9916224--9916307 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
9916214 CGGATACACC
*
9916224 ACAACTCATATGAGCTTACCGATTT
1 ACAACTCGTATGAGCTTACCGATTT
** *
9916249 GTAGCTCGTGA-GAG-TTACCGATTCT
1 ACAACTCGT-ATGAGCTTACCGATT-T
* *
9916274 -CAGCTCGTATTAGCTTACCGATTT
1 ACAACTCGTATGAGCTTACCGATTT
9916298 ACAACTCGTA
1 ACAACTCGTA
9916308 ATAGCATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 19 0.40
25 26 0.55
26 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (25 bp):
ACAACTCGTATGAGCTTACCGATTT
Found at i:9920320 original size:44 final size:44
Alignment explanation
Indices: 9920215--9920652 Score: 198
Period size: 44 Copynumber: 9.6 Consensus size: 44
9920205 TTCAGTCTAT
** * * *
9920215 TCCACTGTAATCTCAGGGAGATAAGA-CC-CGA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTCAATCTGC
* ** *
9920256 TCTACTGTAA-CTTCATAGAGATAAGATCCTTTATTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTCAATCTGC
* * * *
9920300 TCCACTGTAATCTCAGAGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTCAATCTGC
* * * *
9920344 TCCACTGTAATCTCAGGGAGATAAGTTTCAAGCTTCAATCTGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAG-ATC---CTT-TAT-T--T-CAATCTGC
* * * * *
9920397 TCTACTGTAA-CTTTAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTCAATCTGC
* * *
9920441 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTCAATCTGC
* * * *
9920485 TCCACTGTAATCTCAGGGAGATAAGTTTCAAGCTTCAATCTGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAG-ATC---CTT-TAT-T--T-CAATCTGC
* ** * *
9920538 TCTACTGTAA-CTTCATAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTCAATCTGC
* * *
9920582 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTCAATCTGC
* *
9920626 TCCGCTGTAATCTCAGGGAGATGAGAT
1 TCCACTGTAATCTCAGGGAGATAAGAT
9920653 TTCTGGCTTC
Statistics
Matches: 293, Mismatches: 67, Indels: 71
0.68 0.16 0.16
Matches are distributed among these distances:
40 1 0.00
41 21 0.07
42 5 0.02
43 7 0.02
44 174 0.59
45 7 0.02
47 2 0.01
48 4 0.01
49 6 0.02
50 6 0.02
52 8 0.03
53 52 0.18
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTCAATCTGC
Found at i:9920498 original size:141 final size:141
Alignment explanation
Indices: 9920244--9920665 Score: 763
Period size: 141 Copynumber: 3.0 Consensus size: 141
9920234 GATAAGACCC
*
9920244 GATGCGATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTA
1 GATGCGATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
*
9920309 ATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGTTTCA
66 ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGTTTCA
9920374 AGCTTCAATCT
131 AGCTTCAATCT
* *
9920385 GATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
1 GATGCGATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
9920450 ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGTTTCA
66 ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGTTTCA
9920515 AGCTTCAATCT
131 AGCTTCAATCT
9920526 GATGCGATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
1 GATGCGATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
* *
9920591 ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATGAGATTTC
66 ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAG-TTTC
**
9920656 TGGCTTCAAT
130 AAGCTTCAAT
9920666 TTGCTTTACT
Statistics
Matches: 270, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
141 258 0.96
142 12 0.04
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (141 bp):
GATGCGATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
ATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGTTTCA
AGCTTCAATCT
Found at i:9920545 original size:97 final size:97
Alignment explanation
Indices: 9920444--9920624 Score: 215
Period size: 97 Copynumber: 1.9 Consensus size: 97
9920434 AATCCGCTCC
* * *
9920444 ACTGTAA-TCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGAT
1 ACTGTAACT-TCAGAGAGATAAGATCT-CTA-CTTCAATCCGCTCCACTGTAATCTCAGGGAGAT
*
9920507 AAG-TTTCAAGCTTCAATCTGATGCGATCTACTCT
63 AAGATTACAAGCTTCAATCTGATGCGATCTACTCT
* * * * *
9920541 ACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
1 ACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCCGCTCCACTGTAATCTCAGGGAGATAA
*
9920606 GATTACTAGCTTCAATCTG
65 GATTACAAGCTTCAATCTG
9920625 CTCCGCTGTA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
97 51 0.73
98 18 0.26
99 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (97 bp):
ACTGTAACTTCAGAGAGATAAGATCTCTACTTCAATCCGCTCCACTGTAATCTCAGGGAGATAAG
ATTACAAGCTTCAATCTGATGCGATCTACTCT
Found at i:9920662 original size:44 final size:44
Alignment explanation
Indices: 9920575--9920697 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 44
9920565 CCTTTATTTT
*
9920575 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * *
9920619 AATCTGCTCCGCTGTAATCTCAGGGAGAT-GAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAG-GATTACTAGCTTC
* ** * *
9920663 AATTTGCTTTACTGTAA-CATCAAGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAGGATT
9920698 CACCATTTCC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
43 2 0.03
44 64 0.97
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
Found at i:9920962 original size:126 final size:126
Alignment explanation
Indices: 9920740--9921118 Score: 482
Period size: 131 Copynumber: 3.0 Consensus size: 126
9920730 TCCACTGTAA
* * * * * * * **
9920740 TCTCAGGGAGATAAGACCTGTGGCTTAAATCTGCTTCCTTACACTTA---AAGATAAGATTTACC
1 TCTCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCC
* * ** * *
9920802 GTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAGATCTGTT-C
66 GTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCCA-ACCTATTCC
9920863 TCTCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCC
1 TCTCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCC
* *
9920928 ATCTTCGATCTGATCTGCTACTGCTTAGGGAGACAAGATCTCCAATTT-CCAACCTATTCCAC
66 GTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCCAACCTATT-C-C
* *
9920990 TGCTGGTCAGGGACATAGGACGTATGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATT
1 T-C---TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATT
9921055 CGCCGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTCCAATTT-CCAACCTATTCC
62 CGCCGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCCAACCTATTCC
9921119 ACTACTGGCC
Statistics
Matches: 225, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
123 40 0.18
124 5 0.02
125 3 0.01
126 55 0.24
127 2 0.01
128 1 0.00
129 1 0.00
130 1 0.00
131 117 0.52
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (126 bp):
TCTCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCC
GTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCCAACCTATTCC
Found at i:9921032 original size:131 final size:131
Alignment explanation
Indices: 9920865--9921141 Score: 500
Period size: 131 Copynumber: 2.1 Consensus size: 131
9920855 ATCTGTTCTC
*
9920865 TCAGGGACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCAT
1 TCAGGGACATAGGACGTATGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCAT
*
9920930 CTTCGATCTGATCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCAACCTATTCCACTGCTG
66 CTTCGATCTGATCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCAACCTATTCCACTACTG
9920995 G
131 G
* *
9920996 TCAGGGACATAGGACGTATGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGT
1 TCAGGGACATAGGACGTATGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCAT
*
9921061 CTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCAACCTATTCCACTACTG
66 CTTCGATCTGATCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCAACCTATTCCACTACTG
9921126 G
131 G
*
9921127 CCAGGGACATAGGAC
1 TCAGGGACATAGGAC
9921142 TTGTGATTTC
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 140 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (131 bp):
TCAGGGACATAGGACGTATGGCTTAAATCTGTTTCCCTACTCCTAGGGAAGATAAGATTCGCCAT
CTTCGATCTGATCTGCTACTGCTTAGGGAGACAAGATCTCCAATTTCCAACCTATTCCACTACTG
G
Found at i:9922024 original size:25 final size:25
Alignment explanation
Indices: 9921943--9922026 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
9921933 CGGATACACC
*
9921943 ACAACTCATATGAGCTTACCGATTT
1 ACAACTCGTATGAGCTTACCGATTT
** *
9921968 GTAGCTCGTGA-GAG-TTACCGATTCT
1 ACAACTCGT-ATGAGCTTACCGATT-T
* *
9921993 -CAGCTCGTATTAGCTTACCGATTT
1 ACAACTCGTATGAGCTTACCGATTT
9922017 ACAACTCGTA
1 ACAACTCGTA
9922027 ATAGCATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 19 0.40
25 26 0.55
26 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (25 bp):
ACAACTCGTATGAGCTTACCGATTT
Found at i:9926806 original size:22 final size:24
Alignment explanation
Indices: 9926776--9926819 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
9926766 GCAATGGTGA
*
9926776 AAGGCTAGTC-CTTGAG-TAAATG
1 AAGGATAGTCTCTTGAGCTAAATG
9926798 AAGGATAGTCTCTTGAGCTAAA
1 AAGGATAGTCTCTTGAGCTAAA
9926820 GAGGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (24 bp):
AAGGATAGTCTCTTGAGCTAAATG
Found at i:9927209 original size:16 final size:16
Alignment explanation
Indices: 9927188--9927219 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9927178 ATTGGGGCCT
9927188 TGTTTTCGTAATTTAA
1 TGTTTTCGTAATTTAA
9927204 TGTTTTCGTAATTTAA
1 TGTTTTCGTAATTTAA
9927220 GGCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (16 bp):
TGTTTTCGTAATTTAA
Found at i:9944499 original size:22 final size:22
Alignment explanation
Indices: 9944427--9944501 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
9944417 TGTTACTATT
*
9944427 TTACTGTCATTTCACTATTATA
1 TTACTATCATTTCACTATTATA
* * ** * *
9944449 TTGCTGTTACTATTTCGTTACTATT
1 TTACT-AT-C-ATTTCACTATTATA
9944474 TTACTATCATTTCACTATTATA
1 TTACTATCATTTCACTATTATA
9944496 TTACTA
1 TTACTA
9944502 CTATTTTTTG
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 20 0.53
23 2 0.05
24 2 0.05
25 14 0.37
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.52
Consensus pattern (22 bp):
TTACTATCATTTCACTATTATA
Found at i:9949741 original size:20 final size:21
Alignment explanation
Indices: 9949711--9949752 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
9949701 CATGGAAAAG
9949711 TTTTAATTTAAATAAATTTAA
1 TTTTAATTTAAATAAATTTAA
* *
9949732 TTTT-ATTTAATTAATTTTAA
1 TTTTAATTTAAATAAATTTAA
9949752 T
1 T
9949753 CTAAAAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAATTTAAATAAATTTAA
Found at i:9953393 original size:26 final size:26
Alignment explanation
Indices: 9953357--9953410 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
9953347 AATTTTTAAC
9953357 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
9953383 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
9953409 AT
1 AT
9953411 CATTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (26 bp):
ATAGTTTTCATCTCAATGAACTGAAA
Found at i:9961080 original size:12 final size:12
Alignment explanation
Indices: 9961065--9961113 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
9961055 TTCCTTGCTA
*
9961065 TTTTTTACTGTT
1 TTTTTTACTATT
9961077 TTTTTTACTA-T
1 TTTTTTACTATT
* *
9961088 TTTCTTATTATT
1 TTTTTTACTATT
*
9961100 TTTTTCACTATT
1 TTTTTTACTATT
9961112 TT
1 TT
9961114 GCTATTATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTTTACTATT
Found at i:9961101 original size:23 final size:23
Alignment explanation
Indices: 9961062--9961123 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
9961052 CTTTTCCTTG
* * *
9961062 CTATTTT-TTACTGTTTTTTTTA
1 CTATTTTCTTATTATTTTTTTCA
9961084 CTATTTTCTTATTATTTTTTTCA
1 CTATTTTCTTATTATTTTTTTCA
9961107 CTATTTTGC-TATTATTT
1 CTATTTT-CTTATTATTT
9961124 CAATAATATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.20
23 27 0.77
24 1 0.03
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.69
Consensus pattern (23 bp):
CTATTTTCTTATTATTTTTTTCA
Found at i:9961571 original size:19 final size:16
Alignment explanation
Indices: 9961536--9961567 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9961526 AAATTAACTG
9961536 AAAATTAATATTTTTA
1 AAAATTAATATTTTTA
9961552 ATAAATTAATATTTTT
1 A-AAATTAATATTTTT
9961568 TTAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATTAATATTTTTA
Found at i:9966174 original size:21 final size:21
Alignment explanation
Indices: 9966148--9966190 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9966138 TTTGGGTGGA
*
9966148 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
9966169 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
9966190 T
1 T
9966191 GGCGTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:9970086 original size:20 final size:20
Alignment explanation
Indices: 9970061--9970100 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9970051 TGGAAAACGA
*
9970061 TTTCTGGAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
9970081 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
9970101 GGAAATATTT
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:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:9971524 original size:32 final size:32
Alignment explanation
Indices: 9971478--9971538 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
9971468 TGCCAATTAT
9971478 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
9971510 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
9971539 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:9971545 original size:27 final size:30
Alignment explanation
Indices: 9971478--9971551 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
9971468 TGCCAATTAT
*
9971478 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
9971510 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
9971538 -TCAATATCTAACAA
1 TTCAATATCTAACAA
9971552 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 14 0.34
28 2 0.05
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:9971562 original size:27 final size:27
Alignment explanation
Indices: 9971479--9971565 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 27
9971469 GCCAATTATT
* *
9971479 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
*
9971510 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
9971538 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
9971565 T
1 T
9971566 AATTTCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 23 0.45
28 2 0.04
29 2 0.04
32 22 0.43
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:9973020 original size:27 final size:27
Alignment explanation
Indices: 9972960--9973020 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
9972950 ATACCACACA
* **
9972960 AATATTTGATCACTATAAAAAAGATTT
1 AATATTTGATCAATATAAAAAAGATAC
* * *
9972987 AAAATTTGATCAATATAAAATATATAC
1 AATATTTGATCAATATAAAAAAGATAC
9973014 AATATTT
1 AATATTT
9973021 TAGATCGATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.38
Consensus pattern (27 bp):
AATATTTGATCAATATAAAAAAGATAC
Found at i:9974960 original size:18 final size:18
Alignment explanation
Indices: 9974937--9974975 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9974927 TTTGGCTGAG
9974937 AAAGAATGAAGGAAA-GAA
1 AAAGAATGAA-GAAAGGAA
9974955 AAAGAATGAAGAAAGGAA
1 AAAGAATGAAGAAAGGAA
9974973 AAA
1 AAA
9974976 AGGGATCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (18 bp):
AAAGAATGAAGAAAGGAA
Found at i:9976667 original size:29 final size:29
Alignment explanation
Indices: 9976625--9976682 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
9976615 AATATTAATG
9976625 ATAATATCATTATTGCTCAAGAGATTACT
1 ATAATATCATTATTGCTCAAGAGATTACT
* *
9976654 ATAATATCATTATTGCTCGAGAGGTTACT
1 ATAATATCATTATTGCTCAAGAGATTACT
9976683 CACTCCGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (29 bp):
ATAATATCATTATTGCTCAAGAGATTACT
Found at i:9977442 original size:22 final size:23
Alignment explanation
Indices: 9977409--9977455 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
9977399 CCATTTGAGG
9977409 TTAATTTTCTCCTAA-GTGCCAAT
1 TTAATTTTCTCC-AAGGTGCCAAT
*
9977432 TTAA-TTTCTCCAAGGTTCCAAT
1 TTAATTTTCTCCAAGGTGCCAAT
9977454 TT
1 TT
9977456 CAAATTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 2 0.09
22 16 0.73
23 4 0.18
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (23 bp):
TTAATTTTCTCCAAGGTGCCAAT
Found at i:9977994 original size:14 final size:14
Alignment explanation
Indices: 9977977--9978004 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9977967 TTGGCTTTGT
9977977 TAATTCCATTTATC
1 TAATTCCATTTATC
9977991 TAATTCCATTTATC
1 TAATTCCATTTATC
9978005 ATATACTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTCCATTTATC
Found at i:9981708 original size:18 final size:18
Alignment explanation
Indices: 9981662--9981712 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
9981652 AGCTCTCAGG
9981662 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* * ***
9981680 TAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
9981698 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
9981713 CTTCATTCCT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.41, G:0.04, T:0.41
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:9984923 original size:14 final size:15
Alignment explanation
Indices: 9984901--9984977 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
9984891 CAATCAAACA
9984901 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
9984915 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
9984930 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
9984950 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
9984964 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
9984978 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:9984942 original size:20 final size:20
Alignment explanation
Indices: 9984917--9984956 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9984907 AATATTTTCC
*
9984917 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
9984937 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
9984957 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:9984962 original size:34 final size:35
Alignment explanation
Indices: 9984905--9984971 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
9984895 CAAACACCAG
*
9984905 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
9984940 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
9984972 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:9984978 original size:14 final size:14
Alignment explanation
Indices: 9984940--9984979 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9984930 ACAGAAAAGT
*
9984940 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
9984954 AAATCATTTTACGG
1 AAAACATTTTACAG
9984968 AAAACATTTTAC
1 AAAACATTTTAC
9984980 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:9986645 original size:18 final size:18
Alignment explanation
Indices: 9986622--9986673 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
9986612 ACAATGCGAG
*
9986622 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
9986640 AAATGATGCTCACATTTC
1 AAATGATGTTCACATTTC
9986658 AAATGATGTTCACATT
1 AAATGATGTTCACATT
9986674 GATGGAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:9990201 original size:26 final size:26
Alignment explanation
Indices: 9990136--9990202 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
9990126 ATAATTGTAC
9990136 TCAATACTTATATTTACCAAAAAAATT
1 TCAATACTTA-ATTTACCAAAAAAATT
* *
9990163 TCTAATA-TAAATTTAGCAGAAAAAA-T
1 TC-AATACTTAATTTACCA-AAAAAATT
9990189 TCAATACTTAATTT
1 TCAATACTTAATTT
9990203 TTCAGCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.12
26 16 0.47
27 10 0.29
28 4 0.12
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (26 bp):
TCAATACTTAATTTACCAAAAAAATT
Found at i:9991225 original size:159 final size:160
Alignment explanation
Indices: 9990978--9991297 Score: 633
Period size: 159 Copynumber: 2.0 Consensus size: 160
9990968 AAATAAGCAA
9990978 AAAAAATTTCTCCTCTTTGCTAAAAATAAGTTATAGGAGTGGCTAAATATTACCAATTGAATTAG
1 AAAAAATTTCTCCTCTTTGCTAAAAATAAGTTATAGGAGTGGCTAAATATTACCAATTGAATTAG
9991043 TTTATTGCTAACTCATATACTAAAACATATGTAAAAATAATAATATCCTTATAAAAAAATAGAAT
66 TTTATTGCTAACTCATATACTAAAACATATGTAAAAATAATAATATCCTTATAAAAAAATAGAAT
9991108 TTATATTACATGCACCAACA-TGGATATAT
131 TTATATTACATGCACCAACATTGGATATAT
9991137 AAAAAATTTCTCCTCTTTGCTAAAAATAAGTTATAGGAGTGGCTAAATATTACCAATTGAATTAG
1 AAAAAATTTCTCCTCTTTGCTAAAAATAAGTTATAGGAGTGGCTAAATATTACCAATTGAATTAG
9991202 TTTATTGCTAACTCATATACTAAAACATATGTAAAAATAATAATATCCTTATAAAAAAATAGAAT
66 TTTATTGCTAACTCATATACTAAAACATATGTAAAAATAATAATATCCTTATAAAAAAATAGAAT
9991267 TTATATTACATGCACCAACATTGGATATAT
131 TTATATTACATGCACCAACATTGGATATAT
9991297 A
1 A
9991298 TATATATATA
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 150 0.94
160 10 0.06
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (160 bp):
AAAAAATTTCTCCTCTTTGCTAAAAATAAGTTATAGGAGTGGCTAAATATTACCAATTGAATTAG
TTTATTGCTAACTCATATACTAAAACATATGTAAAAATAATAATATCCTTATAAAAAAATAGAAT
TTATATTACATGCACCAACATTGGATATAT
Found at i:9995019 original size:30 final size:27
Alignment explanation
Indices: 9994984--9995045 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
9994974 ATTTTATATC
*
9994984 TTTTAAAAAAATTAAATTAATAATTATTAA
1 TTTTAAAAAAATTAAAGT-ATAATT-TT-A
*
9995014 TTTTAAAGAAATTAAAGTATAATTTTA
1 TTTTAAAAAAATTAAAGTATAATTTTA
9995041 TTTTA
1 TTTTA
9995046 TATTAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
28 2 0.07
29 6 0.20
30 16 0.53
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
TTTTAAAAAAATTAAAGTATAATTTTA
Found at i:9998849 original size:22 final size:20
Alignment explanation
Indices: 9998824--9998871 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
9998814 TTAATAGCAT
9998824 TAATTAGTATATTTAGAGATTA
1 TAATTAGT-T-TTTAGAGATTA
* *
9998846 TAATTGGTTTTTAGAGATTC
1 TAATTAGTTTTTAGAGATTA
9998866 TAATTA
1 TAATTA
9998872 AGAGATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 15 0.65
21 1 0.04
22 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (20 bp):
TAATTAGTTTTTAGAGATTA
Found at i:9999030 original size:21 final size:23
Alignment explanation
Indices: 9999006--9999047 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9998996 TCATGTTATC
9999006 AGATTT-TTTATT-TGATTTTTG
1 AGATTTCTTTATTCTGATTTTTG
*
9999027 AGATTTCTTTCTTCTGATTTT
1 AGATTTCTTTATTCTGATTTT
9999048 CAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.64
Consensus pattern (23 bp):
AGATTTCTTTATTCTGATTTTTG
Found at i:10006565 original size:28 final size:28
Alignment explanation
Indices: 10006501--10006565 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
10006491 TATGAAAATA
* * *
10006501 TAAAAAACATATAAGTATGTGTATATATT
1 TAAAAAA-ATAAAAATATGTATATATATT
* **
10006530 CATGAAAATAAAAATATGTATATATATT
1 TAAAAAAATAAAAATATGTATATATATT
10006558 TAAAAAAA
1 TAAAAAAA
10006566 ATTATACAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (28 bp):
TAAAAAAATAAAAATATGTATATATATT
Found at i:10006718 original size:3 final size:3
Alignment explanation
Indices: 10006710--10006787 Score: 81
Period size: 3 Copynumber: 27.0 Consensus size: 3
10006700 TAAATATTTG
* *
10006710 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ACA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
10006757 GTA ATA ATA CT- ATT TTA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10006788 GCAAAAATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:10006796 original size:18 final size:18
Alignment explanation
Indices: 10006773--10006835 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
10006763 ATACTATTTT
10006773 AAAATAATAATAATAGCA
1 AAAATAATAATAATAGCA
* * *
10006791 AAAATAATGAT-ATTGTTA
1 AAAATAATAATAATAG-CA
*
10006809 AAATTAATTAATTAATAGCA
1 AAAATAA-TAA-TAATAGCA
10006829 AAAATAA
1 AAAATAA
10006836 CAAAAAGGGA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 3 0.09
18 17 0.52
19 2 0.06
20 8 0.24
21 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.30
Consensus pattern (18 bp):
AAAATAATAATAATAGCA
Found at i:10006829 original size:38 final size:34
Alignment explanation
Indices: 10006759--10006835 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 34
10006749 CAATATTAGT
10006759 AATAATACTATTTTAAAATAATAATAATAGCAAA
1 AATAATACTATTTTAAAATAATAATAATAGCAAA
10006793 AATAATGA-TATTGTTAAAATTAATTAATTAATAGCAAA
1 AATAAT-ACTATT-TTAAAA-TAA-TAA-TAATAGCAAA
10006831 AATAA
1 AATAA
10006836 CAAAAAGGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
34 10 0.26
35 7 0.18
36 3 0.08
37 3 0.08
38 15 0.39
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (34 bp):
AATAATACTATTTTAAAATAATAATAATAGCAAA
Found at i:10007973 original size:30 final size:30
Alignment explanation
Indices: 10007939--10008003 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
10007929 TGGGATTTTG
* *
10007939 TTGGGCATCGGTTTGGGTTTGTAATGGGTT
1 TTGGGCATCGGGTAGGGTTTGTAATGGGTT
* * * *
10007969 TTGGGTATTGGGTAGGTTTTTTAATGGGTT
1 TTGGGCATCGGGTAGGGTTTGTAATGGGTT
10007999 TTGGG
1 TTGGG
10008004 TTGGGCACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.11, C:0.03, G:0.40, T:0.46
Consensus pattern (30 bp):
TTGGGCATCGGGTAGGGTTTGTAATGGGTT
Found at i:10012630 original size:18 final size:18
Alignment explanation
Indices: 10012609--10012643 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10012599 AATATATAAA
10012609 AATTGATGA-ACCTGGAAT
1 AATTGA-GATACCTGGAAT
10012627 AATTGAGATACCTGGAA
1 AATTGAGATACCTGGAA
10012644 CAAATTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (18 bp):
AATTGAGATACCTGGAAT
Found at i:10021875 original size:20 final size:20
Alignment explanation
Indices: 10021847--10021891 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10021837 TAATATGTCT
*
10021847 TGTCCTAACTGAATTAATGG
1 TGTCTTAACTGAATTAATGG
* *
10021867 TGTCTTAACTTAATTAATTG
1 TGTCTTAACTGAATTAATGG
10021887 TGTCT
1 TGTCT
10021892 CGTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTCTTAACTGAATTAATGG
Found at i:10033045 original size:20 final size:20
Alignment explanation
Indices: 10033017--10033061 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10033007 TAATATGTCT
*
10033017 TGTCCTAACTGAATTAATGG
1 TGTCTTAACTGAATTAATGG
* *
10033037 TGTCTTAACTTAATTAATTG
1 TGTCTTAACTGAATTAATGG
10033057 TGTCT
1 TGTCT
10033062 CGTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTCTTAACTGAATTAATGG
Found at i:10034037 original size:45 final size:45
Alignment explanation
Indices: 10033956--10034119 Score: 213
Period size: 45 Copynumber: 3.6 Consensus size: 45
10033946 GACCTTTTTG
* *
10033956 ATCCATTTTCGTACCAAAACTTATACC-TTTTGTACCTACACCAAA
1 ATCCA-TTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
*
10034001 ATCCATGTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * * *
10034046 ATCTATTTTGTACCAAAACCTATATCATTTCGTACCTATACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * * *
10034091 ACCCATTTCCTACCAAAACCGATATCATT
1 ATCCATTTCGTACCAAAACCTATACCATT
10034120 CCATAATTAA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
44 19 0.18
45 86 0.82
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (45 bp):
ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:10034098 original size:23 final size:22
Alignment explanation
Indices: 10033987--10034110 Score: 86
Period size: 23 Copynumber: 5.5 Consensus size: 22
10033977 TATACCTTTT
* *
10033987 GTACCTACACCAAAATCCATGTC
1 GTACCTAAACCAAAA-CCATTTC
* * *
10034010 GTACCAAAACCTATACCATTTC
1 GTACCTAAACCAAAACCATTTC
* * *
10034032 GTACCTACACCAAAATCTATTTT
1 GTACCTAAACCAAAA-CCATTTC
* * * *
10034055 GTACCAAAACCTATATCATTTC
1 GTACCTAAACCAAAACCATTTC
*
10034077 GTACCTATACCAAAACCCATTTC
1 GTACCTAAACCAAAA-CCATTTC
* *
10034100 CTACCAAAACC
1 GTACCTAAACC
10034111 GATATCATTC
Statistics
Matches: 73, Mismatches: 26, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
22 32 0.44
23 41 0.56
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.27
Consensus pattern (22 bp):
GTACCTAAACCAAAACCATTTC
Found at i:10036557 original size:38 final size:41
Alignment explanation
Indices: 10036507--10036591 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 41
10036497 AAAACAAAAG
* **
10036507 AAAAGAGTGAAAA-T-CAAAAGGAAAAT-AAAATTGAG-AAA
1 AAAAGAGGGAAAATTGCAAAA-GAAAATGAAAAGAGAGTAAA
10036545 AAAAGAGGGAAAATTGCAAAAGAAAATGAAAAGAGAGTAAA
1 AAAAGAGGGAAAATTGCAAAAGAAAATGAAAAGAGAGTAAA
10036586 AAAAGA
1 AAAAGA
10036592 AATCAATGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
38 12 0.30
39 7 0.17
40 12 0.30
41 9 0.22
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.11
Consensus pattern (41 bp):
AAAAGAGGGAAAATTGCAAAAGAAAATGAAAAGAGAGTAAA
Found at i:10040866 original size:22 final size:22
Alignment explanation
Indices: 10040792--10040949 Score: 138
Period size: 23 Copynumber: 7.1 Consensus size: 22
10040782 TTTGATCCAT
**
10040792 TTTCGTACCAAAACTTATACC-
1 TTTCGTACCAAAACCAATACCA
* * * *
10040813 TTTCGTACCTACACCAAAATCTA
1 TTTCGTACCAAAACCAATA-CCA
* *
10040836 TTTCATACCAAAACCTATACCA
1 TTTCGTACCAAAACCAATACCA
* * * *
10040858 TTTAGTACCTACACCAAAATCCA
1 TTTCGTACCAAAACCAATA-CCA
*
10040881 TTTCGTACCAAAACCTATACCA
1 TTTCGTACCAAAACCAATACCA
* * *
10040903 TTTCGTACCTATACCAAAACCCA
1 TTTCGTACCAAAACCAATA-CCA
10040926 TTTCGTACCAAAACCAATACCA
1 TTTCGTACCAAAACCAATACCA
10040948 TT
1 TT
10040950 CCATAATTAA
Statistics
Matches: 103, Mismatches: 30, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
21 14 0.14
22 39 0.38
23 50 0.49
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (22 bp):
TTTCGTACCAAAACCAATACCA
Found at i:10040876 original size:45 final size:45
Alignment explanation
Indices: 10040786--10040949 Score: 249
Period size: 45 Copynumber: 3.6 Consensus size: 45
10040776 GTCCTTTTTG
*
10040786 ATCCATTTTCGTACCAAAACTTATACC-TTTCGTACCTACACCAAA
1 ATCCA-TTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * *
10040831 ATCTATTTCATACCAAAACCTATACCATTTAGTACCTACACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
*
10040876 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTATACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* *
10040921 ACCCATTTCGTACCAAAACCAATACCATT
1 ATCCATTTCGTACCAAAACCTATACCATT
10040950 CCATAATTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 19 0.18
45 89 0.82
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (45 bp):
ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:10040968 original size:45 final size:44
Alignment explanation
Indices: 10040792--10040981 Score: 143
Period size: 45 Copynumber: 4.3 Consensus size: 44
10040782 TTTGATCCAT
** * * * * *
10040792 TTTCGTACCAAAACTTATACC-TTTCGTACCTACACCAAAATCTA
1 TTTCGTACCAAAACCAATACCATTCCATAACTAAACCAAAA-CCA
* * * * *
10040836 TTTCATACCAAAACCTATACCATT-TAGTACCTACACCAAAATCCA
1 TTTCGTACCAAAACCAATACCATTCCA-TAACTAAACCAAAA-CCA
* * * * *
10040881 TTTCGTACCAAAACCTATACCATTTCGTACCTATACCAAAACCCA
1 TTTCGTACCAAAACCAATACCATTCCATAACTAAACCAAAA-CCA
* *
10040926 TTTCGTACCAAAACCAATACCATTCCATAATTAAACCTAAACCA
1 TTTCGTACCAAAACCAATACCATTCCATAACTAAACCAAAACCA
10040970 TATTCG-ACCAAA
1 T-TTCGTACCAAA
10040982 CTTAGCCTAC
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
44 29 0.23
45 96 0.77
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (44 bp):
TTTCGTACCAAAACCAATACCATTCCATAACTAAACCAAAACCA
Found at i:10044974 original size:36 final size:35
Alignment explanation
Indices: 10044929--10045046 Score: 150
Period size: 34 Copynumber: 3.4 Consensus size: 35
10044919 GTTACACTGT
*
10044929 TCCCGCACATGGAGGAAGGCTTACAGGGGGTCTTGC
1 TCCCACACATGG-GGAAGGCTTACAGGGGGTCTTGC
** * *
10044965 TCCCACACATGGGGGTGGCTTACA-GGAGTCCTGC
1 TCCCACACATGGGGAAGGCTTACAGGGGGTCTTGC
* *
10044999 TCCCACACATGGGGAAGGCTTAC-GAGGGTTTTGC
1 TCCCACACATGGGGAAGGCTTACAGGGGGTCTTGC
10045033 TCCCACACATGGGG
1 TCCCACACATGGGG
10045047 GACACTTATA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
34 49 0.70
35 10 0.14
36 11 0.16
ACGTcount: A:0.19, C:0.27, G:0.33, T:0.20
Consensus pattern (35 bp):
TCCCACACATGGGGAAGGCTTACAGGGGGTCTTGC
Found at i:10048436 original size:20 final size:20
Alignment explanation
Indices: 10048398--10048436 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10048388 ACCTACATGA
* *
10048398 GACACACAGCTGTGTCACAT
1 GACACACAGCTGAGACACAT
*
10048418 GACACACGGCTGAGACACA
1 GACACACAGCTGAGACACA
10048437 CATCTGTGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.13
Consensus pattern (20 bp):
GACACACAGCTGAGACACAT
Found at i:10054459 original size:16 final size:16
Alignment explanation
Indices: 10054427--10054477 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
10054417 TCTATATATA
*
10054427 TTATAATTTACAT-ATT
1 TTATAA-TTAAATAATT
10054443 TTATAATTAAATAATTT
1 TTATAATTAAATAA-TT
10054460 TTATTAA-TAAATAATT
1 TTA-TAATTAAATAATT
10054476 TT
1 TT
10054478 CAAAATACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 12 0.39
18 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATAATTAAATAATT
Found at i:10054463 original size:17 final size:17
Alignment explanation
Indices: 10054441--10054477 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10054431 AATTTACATA
10054441 TTTTA-TAATTAAATAAT
1 TTTTATTAA-TAAATAAT
10054458 TTTTATTAATAAATAAT
1 TTTTATTAATAAATAAT
10054475 TTT
1 TTT
10054478 CAAAATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTATTAATAAATAAT
Found at i:10061378 original size:4 final size:4
Alignment explanation
Indices: 10061369--10061699 Score: 484
Period size: 4 Copynumber: 82.8 Consensus size: 4
10061359 AAGAAGTTTT
*
10061369 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
10061417 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * *
10061465 TATA TGCA TGCA CGTA TGCA CGTA TAG-A TGTA TGTT TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA T-GTA TGTA TGTA TGTA TGTA TGTA
* * * * *
10061513 TGTA TGTA TGCA TGCA TGCA TGTA TGGA TGTA TGTT TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
10061561 TGTA TGTA TGTA TGCA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * **
10061609 TGTA TGTA TTTA TGTA TGTA TGTA TGTA TGCA TACA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
10061657 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
10061700 TGAGTGAAAT
Statistics
Matches: 297, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
3 1 0.00
4 295 0.99
5 1 0.00
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.47
Consensus pattern (4 bp):
TGTA
Found at i:10064753 original size:25 final size:26
Alignment explanation
Indices: 10064725--10064780 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
10064715 GTTTCGAAAA
10064725 CCTTTATAGGGATTTATTT-GAGAAG
1 CCTTTATAGGGATTTATTTGGAGAAG
* *
10064750 CCTTTATAGTGATTTATTTGGGGAAG
1 CCTTTATAGGGATTTATTTGGAGAAG
10064776 CCTTT
1 CCTTT
10064781 GTGGCAAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (26 bp):
CCTTTATAGGGATTTATTTGGAGAAG
Found at i:10064860 original size:25 final size:25
Alignment explanation
Indices: 10064773--10064863 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
10064763 TTATTTGGGG
10064773 AAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCTTTGTGGCAAGTCACCTGTA
* * * * ** **
10064798 AATCCTTTGTGGTAATTTATTTGGGG
1 AAGCCTTTGTGGCAAGTCACCT-GTA
10064824 AAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCTTTGTGGCAAGTCACCTGTA
10064849 CAA-CCTTTGTGGCAA
1 -AAGCCTTTGTGGCAA
10064864 TTTATTCGGG
Statistics
Matches: 48, Mismatches: 16, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
25 29 0.60
26 19 0.40
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (25 bp):
AAGCCTTTGTGGCAAGTCACCTGTA
Found at i:10064880 original size:25 final size:25
Alignment explanation
Indices: 10064801--10064887 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
10064791 ACCTGTAAAT
* *
10064801 CCTTTGTGGTAATTTATTTGGGGAAG
1 CCTTTGTGGCAATTTA-TTCGGGAAG
* * * * * *
10064827 CCTTTGTGGCAAGTCA-CCTGTACAA
1 CCTTTGTGGCAATTTATTCGGGA-AG
10064852 CCTTTGTGGCAATTTATTCGGGAAG
1 CCTTTGTGGCAATTTATTCGGGAAG
10064877 CCTTTGTGGCA
1 CCTTTGTGGCA
10064888 GGTTATCTGT
Statistics
Matches: 45, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
24 2 0.04
25 27 0.60
26 16 0.36
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (25 bp):
CCTTTGTGGCAATTTATTCGGGAAG
Found at i:10064898 original size:50 final size:51
Alignment explanation
Indices: 10064761--10064887 Score: 213
Period size: 51 Copynumber: 2.5 Consensus size: 51
10064751 CTTTATAGTG
*
10064761 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTAAATCCTTTGTGGTA
1 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTAAATCCTTTGTGGCA
10064812 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTACAA-CCTTTGTGGCA
1 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA-AATCCTTTGTGGCA
*
10064863 ATTTA-TTCGGGAAGCCTTTGTGGCA
1 ATTTATTTGGGGAAGCCTTTGTGGCA
10064888 GGTTATCTGT
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
50 19 0.26
51 52 0.71
52 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (51 bp):
ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTAAATCCTTTGTGGCA
Found at i:10064908 original size:50 final size:50
Alignment explanation
Indices: 10064761--10064910 Score: 187
Period size: 51 Copynumber: 3.0 Consensus size: 50
10064751 CTTTATAGTG
* *
10064761 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTAAATCCTTTGTGGTA
1 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTAACT-CTTTGTGGCA
10064812 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTACAAC-CTTTGTGGCA
1 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGT--AACTCTTTGTGGCA
* * * * *
10064863 ATTTA-TTCGGGAAGCCTTTGTGGCAGGTTATCTGTAACGTATTTGTGG
1 ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTAAC-TCTTTGTGG
10064911 TAGGCTACCT
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
48 3 0.03
50 33 0.38
51 50 0.57
53 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (50 bp):
ATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTAACTCTTTGTGGCA
Found at i:10068036 original size:7 final size:7
Alignment explanation
Indices: 10068026--10068069 Score: 70
Period size: 7 Copynumber: 6.1 Consensus size: 7
10068016 ATATTTGAAA
*
10068026 TTTAATC
1 TTTAATT
10068033 TTTAATT
1 TTTAATT
10068040 TTTAAGTT
1 TTTAA-TT
10068048 TTTAATT
1 TTTAATT
10068055 TTTAATT
1 TTTAATT
10068062 TTTAATT
1 TTTAATT
10068069 T
1 T
10068070 AATAATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 28 0.80
8 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (7 bp):
TTTAATT
Found at i:10068075 original size:22 final size:22
Alignment explanation
Indices: 10068028--10068076 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
10068018 ATTTGAAATT
* *
10068028 TAATCTTTAATTTTTAAGTTTT
1 TAATTTTTAATTTTTAAGTTTA
10068050 TAATTTTTAATTTTTAA-TTTAA
1 TAATTTTTAATTTTTAAGTTT-A
10068072 TAATT
1 TAATT
10068077 AAAATCTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTTTTAATTTTTAAGTTTA
Found at i:10072468 original size:14 final size:14
Alignment explanation
Indices: 10072446--10072488 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
10072436 ATTGTTGACC
*
10072446 TTGTTAATTTTTTT
1 TTGTCAATTTTTTT
10072460 TTGTCAATTTTGTTT
1 TTGTCAATTTT-TTT
*
10072475 ATGTCACATTTTTT
1 TTGTCA-ATTTTTT
10072489 AATAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.40
15 10 0.40
16 5 0.20
ACGTcount: A:0.16, C:0.07, G:0.09, T:0.67
Consensus pattern (14 bp):
TTGTCAATTTTTTT
Found at i:10072590 original size:16 final size:15
Alignment explanation
Indices: 10072564--10072594 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
10072554 ACAAAATATT
10072564 TTTAAATATGCAAAA
1 TTTAAATATGCAAAA
10072579 TTTAATATATGCAAAA
1 TTTAA-ATATGCAAAA
10072595 ACAATGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
TTTAAATATGCAAAA
Found at i:10082580 original size:16 final size:16
Alignment explanation
Indices: 10082559--10082590 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10082549 AAATCTGACA
10082559 CTGACAATAGGAATAT
1 CTGACAATAGGAATAT
10082575 CTGACAATAGGAATAT
1 CTGACAATAGGAATAT
10082591 AATTACCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
CTGACAATAGGAATAT
Found at i:10083494 original size:22 final size:22
Alignment explanation
Indices: 10083468--10083513 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10083458 GGTTCCGTTT
*
10083468 TTCTTTTCTT-TTTACTGTTTTG
1 TTCTTTT-TTGTTTACTGTCTTG
*
10083490 TTCTTTTTTGTTTTCTGTCTTG
1 TTCTTTTTTGTTTACTGTCTTG
10083512 TT
1 TT
10083514 TTTAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.02, C:0.13, G:0.11, T:0.74
Consensus pattern (22 bp):
TTCTTTTTTGTTTACTGTCTTG
Found at i:10084067 original size:6 final size:7
Alignment explanation
Indices: 10084057--10084099 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 7
10084047 TAGTCAATTT
10084057 TATTAT-
1 TATTATA
10084063 TATTATA
1 TATTATA
10084070 TATATATA
1 TAT-TATA
10084078 TATATATA
1 TAT-TATA
10084086 TATATATA
1 TAT-TATA
10084094 TATTAT
1 TATTAT
10084100 TTTATTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.17
7 6 0.17
8 23 0.66
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTATA
Found at i:10084073 original size:2 final size:2
Alignment explanation
Indices: 10084066--10084096 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10084056 TTATTATTAT
10084066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10084097 TATTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10087590 original size:17 final size:17
Alignment explanation
Indices: 10087568--10087602 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10087558 TTTGACTCGT
10087568 ATGCTTTGATGTAAGTG
1 ATGCTTTGATGTAAGTG
10087585 ATGCTTTGATGTAAGTG
1 ATGCTTTGATGTAAGTG
10087602 A
1 A
10087603 AAGCTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.40
Consensus pattern (17 bp):
ATGCTTTGATGTAAGTG
Found at i:10088439 original size:17 final size:17
Alignment explanation
Indices: 10088419--10088453 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10088409 AATTTGATTG
10088419 AGAAAATTATTTAATTA
1 AGAAAATTATTTAATTA
* *
10088436 AGAAATTTATTTAGTTA
1 AGAAAATTATTTAATTA
10088453 A
1 A
10088454 TTTAATTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
AGAAAATTATTTAATTA
Found at i:10089626 original size:4 final size:4
Alignment explanation
Indices: 10089617--10089646 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
10089607 TACCCAAAAT
10089617 ATTA ATTA ATTA ATTA ATTA ATTA ACTTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA A
10089647 CTAAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:10109361 original size:16 final size:15
Alignment explanation
Indices: 10109322--10109362 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
10109312 AGAATGTGGA
10109322 CTATTAAT--TTTTT
1 CTATTAATCCTTTTT
10109335 CTATTAATCCTTTTT
1 CTATTAATCCTTTTT
10109350 CTATTAATTCCTT
1 CTATTAA-TCCTT
10109363 AATTATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
15 12 0.48
16 5 0.20
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTAATCCTTTTT
Found at i:10110930 original size:117 final size:117
Alignment explanation
Indices: 10110550--10110952 Score: 429
Period size: 117 Copynumber: 3.4 Consensus size: 117
10110540 CTTGTTCTCT
* * ** * *
10110550 AATTTCATTTTCATCGGAACTAAGGCTTCTATACCTTCCACGATGCTCAAAGGGATTGCTTACAG
1 AATTTCATTTTCATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGGGGATTACTTACAG
* * *
10110615 ATCCAGCTCCTAAGAAATGATGCCTGA-GAAGAGGCCAGCC-GAAAGGTTCTTG
66 ATTCAGCTCCCAAGAAATGACGCCTGAGGAA-AGGCCAGCCTG-AAGGTTCTTG
* * * * ** *
10110667 ATTTTCATTTTGACCGGAACTACGGAAGT-TACACCTTTGACGATGCTCAAGGGGATTATTTACA
1 AATTTCATTTTCATCGGAACTATGG-CTTCTACACCTTTGACGATGCTCAAGGGGATTACTTACA
* * * *
10110731 GATTCAGCTCCC-AGAAAATGACGCCTGAGGAAAGGCCGGCCTAAAGATTCGTG
65 GATTCAGCTCCCAAG-AAATGACGCCTGAGGAAAGGCCAGCCTGAAGGTTCTTG
* * * * * * *
10110784 AACTTCATTTCCATTGGAACCATGTCTTCTACACCTTTGACGATGCTCAGGGGGATTACTTATAG
1 AATTTCATTTTCATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGGGGATTACTTACAG
* *
10110849 ATTCTGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAACCTGAAGGTTCTTG
66 ATTCAGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAGCCTGAAGGTTCTTG
** * *
10110901 AATTTCA-TTTCTATCATAACTATGGCTTCTACGCCTTTGACAATGCTCAAGG
1 AATTTCATTTTC-ATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGG
10110953 AAATGAAGCC
Statistics
Matches: 230, Mismatches: 49, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
116 6 0.03
117 218 0.95
118 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (117 bp):
AATTTCATTTTCATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGGGGATTACTTACAG
ATTCAGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAGCCTGAAGGTTCTTG
Found at i:10111234 original size:144 final size:146
Alignment explanation
Indices: 10110968--10111289 Score: 368
Period size: 144 Copynumber: 2.2 Consensus size: 146
10110958 AAGCCTAAAG
* *
10110968 AAAGGCCAACCTAAAGGTTCTTGATTATTAGAACGTTGTACATGTTCTTGTTCTCTAATTTCACT
1 AAAGGCCAACCTAAAGGTTCTTGATTATCAAAACGTTGTACATG----TGTTCTCTAATTTCACT
* * *
10111033 TCCATAGGAACTATGGCTTCTATACCTTCGACGATGCTCAAAGGGATTATTTACAGATTC-GGCT
62 TCCATAGAAACTATGGCTTCTACACCTTCGAAGATGCTCAAAGGGATTATTTACAGATTCAGG-T
* *
10111097 CCCAATAAACGACT-TCTGAGC
126 CCCAATAAACGA-TGCCCGAGC
* **
10111118 AAAGGCCAACCTAAAGGTTCTTGATTATCAAAACGTTGTGCA-G-GTTCTCTAATTTCGTTTCCA
1 AAAGGCCAACCTAAAGGTTCTTGATTATCAAAACGTTGTACATGTGTTCTCTAATTTCACTTCCA
* * * * *
10111181 TCA-AAACTATGGCTTCTACGCCTTTGAAGA-GACTCGAGGGGATTATTTACAGATTCAGGTCCT
66 T-AGAAACTATGGCTTCTACACCTTCGAAGATG-CTCAAAGGGATTATTTACAGATTCAGGTCCC
*
10111244 AGTAAACGATGCCCGAGC
129 AATAAACGATGCCCGAGC
* *
10111262 AAAGGCCAACTTACAGGTTCTTGATTAT
1 AAAGGCCAACCTAAAGGTTCTTGATTAT
10111290 TGGAACAATC
Statistics
Matches: 150, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
143 2 0.01
144 105 0.70
145 3 0.02
149 1 0.01
150 39 0.26
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (146 bp):
AAAGGCCAACCTAAAGGTTCTTGATTATCAAAACGTTGTACATGTGTTCTCTAATTTCACTTCCA
TAGAAACTATGGCTTCTACACCTTCGAAGATGCTCAAAGGGATTATTTACAGATTCAGGTCCCAA
TAAACGATGCCCGAGC
Found at i:10117670 original size:44 final size:43
Alignment explanation
Indices: 10117607--10118004 Score: 411
Period size: 44 Copynumber: 9.7 Consensus size: 43
10117597 CACAAAGCTT
* *
10117607 TATCTCTCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
*
10117651 TATCTCTCTGGTCAGCAGTGGAATA----G--G--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
* * *
10117685 TATCTCCTTGGTCCGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
*
10117729 TATCTCCTTGGTCAGCAGTGGAATA----G--G--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
*
10117763 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
*
10117807 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCA
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
*
10117851 TATCTCACTGGTCAGCAGTGGAATA----G--G--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
* *
10117885 TATCTCCTTGGTCAGCAGTGGAATTGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
10117929 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* *
10117973 TATCTCCCTGAGCCA-CAGTGGAGTAGGTTGAA
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
10118005 AATTACAGAT
Statistics
Matches: 302, Mismatches: 20, Indels: 64
0.78 0.05 0.17
Matches are distributed among these distances:
34 77 0.25
35 4 0.01
36 6 0.02
38 6 0.02
40 6 0.02
42 6 0.02
43 1 0.00
44 193 0.64
45 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
Found at i:10117717 original size:78 final size:77
Alignment explanation
Indices: 10117607--10117979 Score: 388
Period size: 78 Copynumber: 4.7 Consensus size: 77
10117597 CACAAAGCTT
* * *
10117607 TATCTCTCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCTCTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTC-CTGGTCAGCAGTGG
10117672 AATAGGTGAATCC
65 AATAGGTGAATCC
* *
10117685 TATCTCCTTGGTCCGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCTTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCC-TGGTCAGCAGTGG
10117750 AATAGGTGAATCC
65 AATAGGTGAATCC
10117763 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCT-CCTGGTCAGCAGTGG
*
10117828 AATAGGTTGAAGATTGTAAGTCA
65 AATA----G--G--TG-AA-TCC
*
10117851 TATCTCACTGGTCAGCAGTGGAATAGG-T---GA-----A-TCCTATCTCCTTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCC-TGGTCAGCAGTGG
10117906 AATTGGTTGAAGATTGTGAATCC
65 AA-----T--AG---GTGAATCC
*
10117929 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCC
10117980 CTGAGCCACA
Statistics
Matches: 251, Mismatches: 13, Indels: 52
0.79 0.04 0.16
Matches are distributed among these distances:
77 3 0.01
78 186 0.74
79 6 0.02
80 2 0.01
81 1 0.00
82 4 0.02
83 1 0.00
84 3 0.01
85 1 0.00
86 2 0.01
87 4 0.02
88 38 0.15
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (77 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCTGGTCAGCAGTGGA
ATAGGTGAATCC
Found at i:10117992 original size:122 final size:122
Alignment explanation
Indices: 10117677--10118000 Score: 517
Period size: 122 Copynumber: 2.7 Consensus size: 122
10117667 AGTGGAATAG
* * * *
10117677 GTGAATCCTATCTCCTTGGTCCGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCTTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTC
10117742 AGCAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 AGCAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
* * *
10117799 GTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCATATCTCACTGGT
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGGT
* *
10117863 CAGCAGTGGAATAGGTGAATCCTATCTCCTTGGTCAGCAGTGGAATTGGTTGAAGATT
65 CAGCAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
10117921 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGC
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTG-GT
*
10117986 CA-CAGTGGAGTAGGT
65 CAGCAGTGGAATAGGT
10118001 TGAAAATTAC
Statistics
Matches: 185, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
121 1 0.01
122 179 0.97
123 5 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (122 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTC
AGCAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
Found at i:10118021 original size:44 final size:44
Alignment explanation
Indices: 10117879--10118025 Score: 154
Period size: 44 Copynumber: 3.3 Consensus size: 44
10117869 TGGAATAGGT
* * * * **
10117879 GAATCCTATCTCCTTGGTCAGCAGTGGAATTGGTTGAAGATTGT
1 GAATCCTATCTCCCTGGCCAGCAGTGGAATAGGTTGAAAATTCA
* * **
10117923 GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT
1 GAATCCTATCTCCCTGGCCAGCAGTGGAATAGGTTGAAAATTCA
*
10117967 GAATCCTATCTCCCTGAGCCA-CAGTGGAGTAGGTTGAAAATTACA
1 GAATCCTATCTCCCTG-GCCAGCAGTGGAATAGGTTGAAAATT-CA
*
10118012 G-ATCTTATCTCCCT
1 GAATCCTATCTCCCT
10118026 AAGCAGTAGT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
44 89 0.96
45 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (44 bp):
GAATCCTATCTCCCTGGCCAGCAGTGGAATAGGTTGAAAATTCA
Found at i:10118876 original size:22 final size:22
Alignment explanation
Indices: 10118816--10118873 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
10118806 AATCTTCAAG
10118816 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
10118835 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
10118857 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
10118874 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:10119119 original size:23 final size:23
Alignment explanation
Indices: 10119075--10119119 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10119065 TCTTATTTTG
* *
10119075 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
10119098 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
10119120 CAAATATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:10124411 original size:24 final size:24
Alignment explanation
Indices: 10124379--10124427 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
10124369 ATTTTTATTC
*
10124379 TTCACAATTAACTTTATATTTTCA
1 TTCACAATTAACTCTATATTTTCA
10124403 TTCACAATTAACTCTATATTTTCA
1 TTCACAATTAACTCTATATTTTCA
10124427 T
1 T
10124428 ACTCATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (24 bp):
TTCACAATTAACTCTATATTTTCA
Found at i:10124925 original size:18 final size:18
Alignment explanation
Indices: 10124877--10124930 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
10124867 TTATTAATAT
10124877 TATAACATATATATATACA
1 TATAACATATATATATA-A
* *
10124896 T-T-TCTTAT-TATATAA
1 TATAACATATATATATAA
10124911 TATAACATATATATATAA
1 TATAACATATATATATAA
10124929 TA
1 TA
10124931 AGTTATCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
15 2 0.07
16 7 0.25
17 8 0.29
18 10 0.36
19 1 0.04
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAACATATATATATAA
Found at i:10124956 original size:18 final size:19
Alignment explanation
Indices: 10124919--10124957 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10124909 AATATAACAT
*
10124919 ATATATATAATAAGTTATC
1 ATATATATAATAAGTAATC
*
10124938 ATATATA-AATATGTAATC
1 ATATATATAATAAGTAATC
10124956 AT
1 AT
10124958 CATTAATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
ATATATATAATAAGTAATC
Found at i:10127877 original size:25 final size:25
Alignment explanation
Indices: 10127840--10127922 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
10127830 ACACCATAGT
*
10127840 TCGTATGAGCTTC-CTGATTTACAGC
1 TCGTATGAGCTTCTC-GATTCACAGC
*
10127865 TCGTATGATCTTCTCGATTCACAGC
1 TCGTATGAGCTTCTCGATTCACAGC
* * *
10127890 TCATGA-GAGCATACT-GATTCATAGC
1 TCGT-ATGAGC-TTCTCGATTCACAGC
10127915 TCGTATGA
1 TCGTATGA
10127923 ACATACATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 1 0.02
25 41 0.87
26 5 0.11
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (25 bp):
TCGTATGAGCTTCTCGATTCACAGC
Found at i:10135275 original size:25 final size:25
Alignment explanation
Indices: 10135220--10135279 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
10135210 GCAGGCACAC
* **
10135220 CACAGCTCATATGAGCTTCCTGATT
1 CACAGCTCGTATGAGCTTCCCAATT
** *
10135245 TGCAGCTCGTATGAGTTTCCCAATT
1 CACAGCTCGTATGAGCTTCCCAATT
10135270 CACAGCTCGT
1 CACAGCTCGT
10135280 GAAAGCATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTCCCAATT
Found at i:10140742 original size:30 final size:30
Alignment explanation
Indices: 10140708--10140765 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10140698 TTAACAAGCG
* *
10140708 AATGCTTCTAAAATAATAACAAACTTAACA
1 AATGCCTCTAAAATAATAACAAAATTAACA
*
10140738 AATGCCTCTAAAATAATAATAAAATTAA
1 AATGCCTCTAAAATAATAACAAAATTAA
10140766 TAATAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (30 bp):
AATGCCTCTAAAATAATAACAAAATTAACA
Found at i:10141757 original size:3 final size:3
Alignment explanation
Indices: 10141749--10141778 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10141739 ACATTACATG
*
10141749 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10141779 TATTCTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10143861 original size:19 final size:19
Alignment explanation
Indices: 10143834--10143872 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10143824 CCCTGTTTTA
10143834 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
10143853 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
10143872 C
1 C
10143873 TTCCTTCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:10147566 original size:11 final size:11
Alignment explanation
Indices: 10147546--10147590 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
10147536 TTGTTGTTTC
10147546 GCTATTATTTT
1 GCTATTATTTT
*
10147557 GCTATCATTTT
1 GCTATTATTTT
* *
10147568 GTTATTATATT
1 GCTATTATTTT
*
10147579 GCTATTAATTT
1 GCTATTATTTT
10147590 G
1 G
10147591 TTGTTATTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.58
Consensus pattern (11 bp):
GCTATTATTTT
Found at i:10147573 original size:22 final size:22
Alignment explanation
Indices: 10147548--10147598 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10147538 GTTGTTTCGC
*
10147548 TATTATTTTGCTATCATTTTGT
1 TATTATTTTGCTATCAATTTGT
* *
10147570 TATTATATTGCTATTAATTTGT
1 TATTATTTTGCTATCAATTTGT
*
10147592 TGTTATT
1 TATTATT
10147599 ATTTGAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.06, G:0.10, T:0.63
Consensus pattern (22 bp):
TATTATTTTGCTATCAATTTGT
Found at i:10148629 original size:20 final size:20
Alignment explanation
Indices: 10148606--10148651 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
10148596 TAAAACTGAT
10148606 AAAAATTACAAAA-AATAAAA
1 AAAAATTACAAAATAA-AAAA
*
10148626 AAAAATTATAAAATAAAAAA
1 AAAAATTACAAAATAAAAAA
*
10148646 TAAAAT
1 AAAAAT
10148652 CAACAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAATTACAAAATAAAAAA
Found at i:10153065 original size:28 final size:30
Alignment explanation
Indices: 10153034--10153101 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 30
10153024 GAATTCTTTG
10153034 AAAATAATAAAAATTG-TAAAAAATAAA-A
1 AAAATAATAAAAATTGTTAAAAAATAAATA
* **
10153062 AAAAT-ATTAAAATTGTTATGAAATAAATA
1 AAAATAATAAAAATTGTTAAAAAATAAATA
*
10153091 ATAATAATAAA
1 AAAATAATAAA
10153102 TAGGAGAGCG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 9 0.28
28 14 0.44
29 5 0.16
30 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (30 bp):
AAAATAATAAAAATTGTTAAAAAATAAATA
Found at i:10156717 original size:9 final size:9
Alignment explanation
Indices: 10156681--10156720 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
10156671 TTTAATTGGG
10156681 AAATTAATT
1 AAATTAATT
* *
10156690 TAGTTAATT
1 AAATTAATT
*
10156699 TAATTAATT
1 AAATTAATT
10156708 AAATTAATT
1 AAATTAATT
10156717 AAAT
1 AAAT
10156721 AATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (9 bp):
AAATTAATT
Found at i:10159023 original size:20 final size:20
Alignment explanation
Indices: 10158995--10159035 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10158985 CTTGTACGGG
10158995 TTTGCACTTTGATGCCTCTA
1 TTTGCACTTTGATGCCTCTA
* * *
10159015 TTTGTACTTTGGTGTCTCTA
1 TTTGCACTTTGATGCCTCTA
10159035 T
1 T
10159036 ACAACACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.20, G:0.17, T:0.51
Consensus pattern (20 bp):
TTTGCACTTTGATGCCTCTA
Found at i:10162699 original size:2 final size:2
Alignment explanation
Indices: 10162692--10162717 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10162682 CACAAAATAA
10162692 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
10162718 CAATATAAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10163302 original size:9 final size:9
Alignment explanation
Indices: 10163277--10163414 Score: 68
Period size: 10 Copynumber: 14.9 Consensus size: 9
10163267 CCAATTCAAG
*
10163277 TTTTTATTA
1 TTTTTATAA
10163286 TATTTTATAA
1 T-TTTTATAA
*
10163296 TTTTTATGA
1 TTTTTATAA
10163305 TTTTTATAGAA
1 TTTTTAT--AA
* * *
10163316 TTCTAATACG
1 TTTTTATA-A
10163326 TTTTTATAAA
1 TTTTTAT-AA
* *
10163336 ATTTTAAATA
1 TTTTTATA-A
10163346 TTTTTATTAA
1 TTTTTA-TAA
* *
10163356 CTTATAT-A
1 TTTTTATAA
*
10163364 TATTTATAA
1 TTTTTATAA
10163373 TTTTTTATAA
1 -TTTTTATAA
* *
10163383 TTTAT-TAG
1 TTTTTATAA
10163391 TTTTT-T-A
1 TTTTTATAA
10163398 TTTTTATAA
1 TTTTTATAA
10163407 TTTTTATA
1 TTTTTATA
10163415 TGTTTATTAT
Statistics
Matches: 95, Mismatches: 23, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
7 5 0.05
8 13 0.14
9 32 0.34
10 37 0.39
11 8 0.08
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10163387 original size:17 final size:17
Alignment explanation
Indices: 10163360--10163411 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
10163350 TATTAACTTA
10163360 TATATATTTATAATTTTT
1 TATA-ATTTATAATTTTT
*
10163378 TATAATTTATTAGTTTTT
1 TATAATTTA-TAATTTTT
*
10163396 TAT-TTTTATAATTTTT
1 TATAATTTATAATTTTT
10163412 ATATGTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 7 0.23
17 9 0.30
18 14 0.47
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TATAATTTATAATTTTT
Found at i:10163420 original size:17 final size:16
Alignment explanation
Indices: 10163362--10163421 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
10163352 TTAACTTATA
10163362 TATATTTATAATTTTT
1 TATATTTATAATTTTT
*
10163378 TATAATTTATTAGTTTTT
1 TAT-ATTTA-TAATTTTT
*
10163396 TATTTTTATAATTTTT
1 TATATTTATAATTTTT
*
10163412 ATATGTTTAT
1 -TATATTTAT
10163422 TATAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.27
17 17 0.46
18 10 0.27
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATATTTATAATTTTT
Found at i:10167148 original size:16 final size:17
Alignment explanation
Indices: 10167124--10167162 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
10167114 TTTAATTCTT
10167124 TTTTAAAAATTTC-AAA
1 TTTTAAAAATTTCAAAA
*
10167140 TTTTCAAAATTTCAAAA
1 TTTTAAAAATTTCAAAA
10167157 TTTTAA
1 TTTTAA
10167163 GTTAATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTAAAAATTTCAAAA
Found at i:10170476 original size:28 final size:29
Alignment explanation
Indices: 10170422--10170495 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
10170412 AAAAATAAAA
*
10170422 ATTTACCAAAATGT-TATAACTTTTTTTTT
1 ATTTACCAAAATATATATAAC-TTTTTTTT
10170451 ATTTACCAAAATATATATAA-TTTTTTTT
1 ATTTACCAAAATATATATAACTTTTTTTT
*
10170479 ATTTACTAAAATATATA
1 ATTTACCAAAATATATA
10170496 AAAAAACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
28 24 0.57
29 13 0.31
30 5 0.12
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTTACCAAAATATATATAACTTTTTTTT
Found at i:10170592 original size:27 final size:27
Alignment explanation
Indices: 10170562--10170628 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
10170552 CGCCAATGGT
10170562 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
10170589 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
10170616 ATTGGCGGCACCA
1 ATTGGCGGCACCA
10170629 GTGTATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:10170684 original size:4 final size:4
Alignment explanation
Indices: 10170675--10170871 Score: 394
Period size: 4 Copynumber: 49.2 Consensus size: 4
10170665 GAAGGAGAGG
10170675 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
10170723 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
10170771 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
10170819 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
10170867 GAAA G
1 GAAA G
10170872 NNNNNNNNNN
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 193 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:10181374 original size:17 final size:18
Alignment explanation
Indices: 10181336--10181374 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10181326 TTACTAAGTT
*
10181336 ACATCTTAATACACTAATA
1 ACATCTTAATA-ACTAACA
10181355 ACATCTTAAT-ACTAACA
1 ACATCTTAATAACTAACA
10181372 ACA
1 ACA
10181375 ACAACAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (18 bp):
ACATCTTAATAACTAACA
Found at i:10181482 original size:19 final size:21
Alignment explanation
Indices: 10181458--10181496 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10181448 CTAAAACAAA
*
10181458 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
10181477 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
10181497 ATCAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:10181703 original size:27 final size:26
Alignment explanation
Indices: 10181633--10181708 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
10181623 AATACGAATA
* *
10181633 GTGCCGCCAATCAATATGGCACCATTG
1 GTGCCGCCAATCCAT-TGGCATCATTG
* *
10181660 GTGCCGCCAATGGCATTAGCATCATTG
1 GTGCCGCCAAT-CCATTGGCATCATTG
10181687 GTGCCGCCAATCCCATTGGCAT
1 GTGCCGCCAAT-CCATTGGCAT
10181709 GACCAAGGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (26 bp):
GTGCCGCCAATCCATTGGCATCATTG
Found at i:10181788 original size:27 final size:28
Alignment explanation
Indices: 10181758--10181825 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
10181748 GTTTTTTTTT
10181758 TATATATTTTGGTAAATAAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
10181785 TATATATTTTGGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
10181813 TA-ATATTTTGGTA
1 TATATATTTTGGTA
10181826 TATTTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAGTTA
Found at i:10186093 original size:18 final size:19
Alignment explanation
Indices: 10186053--10186093 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
10186043 TGAATTAAAT
10186053 TATT-ACCAGATGAGATTA
1 TATTCACCAGATGAGATTA
*
10186071 -GTTCACCA-ATGAGATTA
1 TATTCACCAGATGAGATTA
10186088 TATTCA
1 TATTCA
10186094 ATGATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
TATTCACCAGATGAGATTA
Found at i:10190754 original size:37 final size:37
Alignment explanation
Indices: 10190708--10190829 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 37
10190698 GTTTAGGTCG
*
10190708 GACGAGTAACCTGATGCCGTTTTATAGGTTTAGCCTA
1 GACGGGTAACCTGATGCCGTTTTATAGGTTTAGCCTA
* * * *** * *
10190745 TACGGGTAACCT--TACATGTGACATAGGTTTAG-GTCG
1 GACGGGTAACCTGATGC-CGTTTTATAGGTTTAGCCT-A
* *
10190781 GACGAGTAACCTGATGTCGTTTTATAGGTTTAGCCTA
1 GACGGGTAACCTGATGCCGTTTTATAGGTTTAGCCTA
10190818 GACGGGTAACCT
1 GACGGGTAACCT
10190830 TACATGTATA
Statistics
Matches: 60, Mismatches: 20, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
35 3 0.05
36 22 0.37
37 33 0.55
38 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (37 bp):
GACGGGTAACCTGATGCCGTTTTATAGGTTTAGCCTA
Found at i:10190790 original size:36 final size:37
Alignment explanation
Indices: 10190683--10190792 Score: 100
Period size: 36 Copynumber: 3.0 Consensus size: 37
10190673 TGGACTCAAC
10190683 ATACATGTGACATAGGTTTAGGTCGGACGAGTAACCT
1 ATACATGTGACATAGGTTTAGGTCGGACGAGTAACCT
* * *** * ** *
10190720 GATGC-CGTTTTATAGGTTTA-GCCTATACGGGTAACCT
1 -ATACATGTGACATAGGTTTAGGTC-GGACGAGTAACCT
10190757 -TACATGTGACATAGGTTTAGGTCGGACGAGTAACCT
1 ATACATGTGACATAGGTTTAGGTCGGACGAGTAACCT
10190793 GATGTCGTTT
Statistics
Matches: 51, Mismatches: 18, Indels: 8
0.66 0.23 0.10
Matches are distributed among these distances:
35 2 0.04
36 23 0.45
37 23 0.45
38 3 0.06
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (37 bp):
ATACATGTGACATAGGTTTAGGTCGGACGAGTAACCT
Done.