Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004315.1 Kokia drynarioides strain JFW-HI SEQ_117630, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 134219
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 187 characters in sequence are not A, C, G, or T
Found at i:4046 original size:19 final size:19
Alignment explanation
Indices: 4024--4062 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4014 CAAACAACTA
*
4024 TCAAGTCAACGGTCAATGG
1 TCAAGTCAACGATCAATGG
* *
4043 TCAATTCAATGATCAATGG
1 TCAAGTCAACGATCAATGG
4062 T
1 T
4063 TAACGATCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (19 bp):
TCAAGTCAACGATCAATGG
Found at i:10320 original size:33 final size:33
Alignment explanation
Indices: 10277--10351 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
10267 CATGTTAAGA
*
10277 AATAATCATATACTAAATATATAATACTACCCG
1 AATAAACATATACTAAATATATAATACTACCCG
10310 AATAAACATATACTAAATATATAATACTACCCG
1 AATAAACATATACTAAATATATAATACTACCCG
10343 AATAAACAT
1 AATAAACAT
10352 TAAAATAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (33 bp):
AATAAACATATACTAAATATATAATACTACCCG
Found at i:10324 original size:19 final size:19
Alignment explanation
Indices: 10300--10351 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 19
10290 TAAATATATA
10300 ATACTACCCGAATAAACAT
1 ATACTACCCGAATAAACAT
* *
10319 ATACTA----AATATATA-
1 ATACTACCCGAATAAACAT
10333 ATACTACCCGAATAAACAT
1 ATACTACCCGAATAAACAT
10352 TAAAATAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 10
0.63 0.11 0.26
Matches are distributed among these distances:
14 6 0.25
15 6 0.25
18 6 0.25
19 6 0.25
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (19 bp):
ATACTACCCGAATAAACAT
Found at i:10439 original size:22 final size:24
Alignment explanation
Indices: 10412--10457 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
10402 ATACAATTAT
10412 TAAATA-TTAAAATAAT-ATAATA
1 TAAATATTTAAAATAATAATAATA
10434 TAAATATTTAAAATAATAATAATA
1 TAAATATTTAAAATAATAATAATA
10458 ATATGGGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 10 0.45
24 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAATATTTAAAATAATAATAATA
Found at i:15567 original size:124 final size:124
Alignment explanation
Indices: 15347--15588 Score: 439
Period size: 124 Copynumber: 2.0 Consensus size: 124
15337 AAACATAAAA
** *
15347 AACATCAAAAATGCGTTAGTGCACAGCTGTACTGTAACTAACATTGACAGTTGCAAAATTTAGAT
1 AACATCAAAAACACGTTAGTGCACAGCTGTACTGTAACTAACATTGACAGCTGCAAAATTTAGAT
15412 ATGGATCTGAGAATAGAGGAGGATGAAACCTGCAACTTTTGAAGGCTATAAATCTGAAG
66 ATGGATCTGAGAATAGAGGAGGATGAAACCTGCAACTTTTGAAGGCTATAAATCTGAAG
15471 AACATCAAAAACACGTTAGTGCACAGCTGTACTGTAACTAACATTGACAGCTGCAAAATTTAGAT
1 AACATCAAAAACACGTTAGTGCACAGCTGTACTGTAACTAACATTGACAGCTGCAAAATTTAGAT
* *
15536 ATGGATTTGAGAATAGAGGAGGATGAAACCTGTAACTTTTGAAGGCTATAAAT
66 ATGGATCTGAGAATAGAGGAGGATGAAACCTGCAACTTTTGAAGGCTATAAAT
15589 AGAGGAAAGA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 113 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (124 bp):
AACATCAAAAACACGTTAGTGCACAGCTGTACTGTAACTAACATTGACAGCTGCAAAATTTAGAT
ATGGATCTGAGAATAGAGGAGGATGAAACCTGCAACTTTTGAAGGCTATAAATCTGAAG
Found at i:22217 original size:23 final size:22
Alignment explanation
Indices: 22170--22217 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
22160 AATAAATAAT
* *
22170 ATTGTCAATGCAATCAAAGTTA
1 ATTGTCAAAGCAATCAAAGTAA
*
22192 ATTGTCAAAGCAACTGAAAGTAA
1 ATTGTCAAAGCAA-TCAAAGTAA
22215 ATT
1 ATT
22218 AAAGTGTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (22 bp):
ATTGTCAAAGCAATCAAAGTAA
Found at i:33136 original size:25 final size:24
Alignment explanation
Indices: 33111--33183 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
33101 AAAAATATTA
33111 AAATACATTAATATTATTGTTTTT
1 AAATACATTAATATTATTGTTTTT
* *
33135 -AATA-AGTGTAATTTTGTAAT-TTTTT
1 AAATACA-T-TAA-TAT-TATTGTTTTT
33160 AAATACATTAATATTATTGTTTTT
1 AAATACATTAATATTATTGTTTTT
33184 GTTATATCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
22 1 0.03
23 8 0.21
24 10 0.26
25 10 0.26
26 8 0.21
27 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.55
Consensus pattern (24 bp):
AAATACATTAATATTATTGTTTTT
Found at i:34719 original size:40 final size:41
Alignment explanation
Indices: 34654--34748 Score: 147
Period size: 40 Copynumber: 2.3 Consensus size: 41
34644 TAGAAAAATA
*
34654 AAACTTTGAAGCTTGGTGAAAAATTCATATGAAATTTAGGC
1 AAACCTTGAAGCTTGGTGAAAAATTCATATGAAATTTAGGC
* *
34695 -AACCTTGAAGCTTGGTGAAGAATTCATTTGAAATTTAGGC
1 AAACCTTGAAGCTTGGTGAAAAATTCATATGAAATTTAGGC
*
34735 AAACTTTGAAGCTT
1 AAACCTTGAAGCTT
34749 CAATGTTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 37 0.76
41 12 0.24
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (41 bp):
AAACCTTGAAGCTTGGTGAAAAATTCATATGAAATTTAGGC
Found at i:37536 original size:22 final size:22
Alignment explanation
Indices: 37494--37538 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
37484 TTACAATATT
* *
37494 AATAAATTTTTCATATATTTTC
1 AATAAATTGTTCAGATATTTTC
37516 AATAAATTGTTCTAGAT-TTTTC
1 AATAAATTGTTC-AGATATTTTC
37538 A
1 A
37539 TTGCCGGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (22 bp):
AATAAATTGTTCAGATATTTTC
Found at i:39818 original size:165 final size:165
Alignment explanation
Indices: 39529--40006 Score: 522
Period size: 165 Copynumber: 2.9 Consensus size: 165
39519 AATTACAATA
* * * * * * *
39529 CATTTAGTATTGTTTATTTGATGCATTTATATGTTT-AAATTT-TGTTTTACTCATAAGTTAATC
1 CATTTAATATTATTTATATGATGTATTTATGTGTTTAAAATTTAT-TTTTATTCATAATTTAAT-
* * ** **
39592 TATTTTTTTTTAATTTTAATACCGTTTATATTTCATGTGTTATTATAATTACTTAGTTTCAACCC
64 T-TATTTTTAT-A-TTTAATATAGTACATATTTCATGTGTTATTATAATTACTTAGTTTCAACCC
*
39657 TTACGTTTCATTTTTATTGTGTATTTAAAAATAATTGTAGTG
126 TTACGTTTCATTTTTATTGTG--TTTAAAAATAATTATAGTG
* * *
39699 TC-TTTAATATTATTTATTTGATGTATTTTTGTGTTT-AAATTTCATTTTTCTT-ATAATTTAAT
1 -CATTTAATATTATTTATATGATGTATTTATGTGTTTAAAATTT-ATTTTTATTCATAATTTAAT
*
39761 TTATTTTTA-ATTTAATATCA-TACATATTTCATGTGTTATTATAATTACTTGGTTTCAACCCTT
64 TTATTTTTATATTTAATAT-AGTACATATTTCATGTGTTATTATAATTACTTAGTTTCAACCCTT
*
39824 ACGTTTCTTTTTTATTGTGTTTAAAAATAATTATAGTG
128 ACGTTTCATTTTTATTGTGTTTAAAAATAATTATAGTG
*
39862 CATTTAATATTGTTTATATGATGTATTTATGTGTTTAAAATTTATTTTTATTCATAATTTAATTT
1 CATTTAATATTATTTATATGATGTATTTATGTGTTTAAAATTTATTTTTATTCATAATTTAATTT
* * ** * * * * * **
39927 TTTTTTATTTTTAATATAGTATGT-TTTCATGTATTACTATGATTACTTAATTTTAAGACTTACG
66 ATTTTTATATTTAATATAGTACATATTTCATGTGTTATTATAATTACTTAGTTTCAACCCTTACG
39991 TTTCATTATTTATTGT
131 TTTCATT-TTTATTGT
40007 ATGATATTTT
Statistics
Matches: 264, Mismatches: 34, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
162 1 0.00
163 57 0.22
164 63 0.24
165 84 0.32
166 1 0.00
168 6 0.02
169 1 0.00
170 44 0.17
171 6 0.02
172 1 0.00
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.56
Consensus pattern (165 bp):
CATTTAATATTATTTATATGATGTATTTATGTGTTTAAAATTTATTTTTATTCATAATTTAATTT
ATTTTTATATTTAATATAGTACATATTTCATGTGTTATTATAATTACTTAGTTTCAACCCTTACG
TTTCATTTTTATTGTGTTTAAAAATAATTATAGTG
Found at i:52159 original size:30 final size:30
Alignment explanation
Indices: 52125--52380 Score: 233
Period size: 29 Copynumber: 8.7 Consensus size: 30
52115 AAGGTCCCTG
52125 AACTTCTCAAAAATTACATTTTAACCCTTA
1 AACTTCTCAAAAATTACATTTTAACCCTTA
* * *
52155 AACTTTTCAAAAATTACATTTTGACCCCTCA
1 AACTTCTCAAAAATTACATTTT-AACCCTTA
* * *
52186 AACTTC-AAAAAATT-CAATTTTTACCCCTA
1 AACTTCTCAAAAATTAC-ATTTTAACCCTTA
* * * * *
52215 AACTTTTTAAAAATCACATTTTTACCTTTA
1 AACTTCTCAAAAATTACATTTTAACCCTTA
* *
52245 AACTT-TCTAAAATTACATTTTGACCC-TA
1 AACTTCTCAAAAATTACATTTTAACCCTTA
* *
52273 AACTTCT-AAAATTTACATTTTAACCCCTA
1 AACTTCTCAAAAATTACATTTTAACCCTTA
* *
52302 AACTTC-CAAAATTTACATTTTAA-CCTCA
1 AACTTCTCAAAAATTACATTTTAACCCTTA
* * **
52330 AACTT-TCTAAAAATCACATTTTTACCCTCG
1 AACTTCTC-AAAAATTACATTTTAACCCTTA
52360 AACTTC-CAAAAATTACATTTT
1 AACTTCTCAAAAATTACATTTT
52381 TGACAGCAAA
Statistics
Matches: 186, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
28 32 0.17
29 77 0.41
30 65 0.35
31 12 0.06
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (30 bp):
AACTTCTCAAAAATTACATTTTAACCCTTA
Found at i:52193 original size:29 final size:27
Alignment explanation
Indices: 52131--52525 Score: 208
Period size: 29 Copynumber: 13.6 Consensus size: 27
52121 CCTGAACTTC
*
52131 TCAAAAATTACATTTTAACCCTTAAACTTT
1 TCAAAAATTACATTTTGACCC-TAAAC--T
52161 TCAAAAATTACATTTTGACCCCTCAAACT
1 TCAAAAATTACATTTTGA-CCCT-AAACT
*
52190 TCAAAAAATT-CAATTTTTACCCCTAAACTTT
1 TC-AAAAATTAC-ATTTTGA-CCCTAAAC--T
* * * *
52221 TTAAAAATCACATTTTTACCTTTAAACTT
1 TCAAAAATTACATTTTGACC-CTAAAC-T
*
52250 TCTAAAATTACATTTTGACCCTAAACT
1 TCAAAAATTACATTTTGACCCTAAACT
* *
52277 TCTAAAATTTACATTTTAACCCCTAAACT
1 TC-AAAAATTACATTTTGA-CCCTAAACT
* *
52306 TCCAAAATTTACATTTT-AACCTCAAACTT
1 T-CAAAAATTACATTTTGACCCT-AAAC-T
* * *
52335 TCTAAAAATCACATTTTTACCCTCGAACT
1 TC-AAAAATTACATTTTGACCCT-AAACT
* * *
52364 TCCAAAAATTACATTTTTGACAGCAAAATTT
1 T-CAAAAATTACA-TTTTGAC-CCTAAA-CT
*
52395 TCAAAAATTGCCATTTT-ACCCCTAAACT
1 TCAAAAATT-ACATTTTGA-CCCTAAACT
* *
52423 TCCAAAA-TACCATTTTTGACCCTATA-T
1 TCAAAAATTA-CA-TTTTGACCCTAAACT
* *
52450 TCCAAAATTACCATTTT-ACCCTCAAATTT
1 TCAAAAATTA-CATTTTGACCCT-AAA-CT
* * ** *
52479 TTAAAAATTCCATTTTTGACCCCGAACC
1 TCAAAAATTACA-TTTTGACCCTAAACT
52507 TCTAAAAATTACTATTTTG
1 TC-AAAAATTAC-ATTTTG
52526 CCCCCGAAGT
Statistics
Matches: 292, Mismatches: 41, Indels: 65
0.73 0.10 0.16
Matches are distributed among these distances:
26 5 0.02
27 23 0.08
28 49 0.17
29 110 0.38
30 90 0.31
31 15 0.05
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (27 bp):
TCAAAAATTACATTTTGACCCTAAACT
Found at i:52364 original size:58 final size:59
Alignment explanation
Indices: 52125--52380 Score: 265
Period size: 58 Copynumber: 4.4 Consensus size: 59
52115 AAGGTCCCTG
* *
52125 AACTTCTCAAAAATTACATTTTAACC-CTTAAACTTT-TCAAAAATTACATTTTGACCCCTCA
1 AACTTC-CAAAAATTACATTTTAACCTC-TAAACTTTCT-AAAAATCACATTTTTA-CCCTCA
* * * * * *
52186 AACTTCAAAAAATT-CAATTTTTACCCCTAAACTTTTTAAAAATCACATTTTTACCTTTA
1 AACTTCCAAAAATTAC-ATTTTAACCTCTAAACTTTCTAAAAATCACATTTTTACCCTCA
* * * * * *
52245 AACTTTCTAAAATTACATTTTGACC-CTAAAC-TTCTAAAATTTACATTTTAACCC-CTA
1 AACTTCCAAAAATTACATTTTAACCTCTAAACTTTCTAAAAATCACATTTTTACCCTC-A
* *
52302 AACTTCCAAAATTTACATTTTAACCTC-AAACTTTCTAAAAATCACATTTTTACCCTCG
1 AACTTCCAAAAATTACATTTTAACCTCTAAACTTTCTAAAAATCACATTTTTACCCTCA
52360 AACTTCCAAAAATTACATTTT
1 AACTTCCAAAAATTACATTTT
52381 TGACAGCAAA
Statistics
Matches: 162, Mismatches: 25, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
57 44 0.27
58 47 0.29
59 25 0.15
60 38 0.23
61 8 0.05
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (59 bp):
AACTTCCAAAAATTACATTTTAACCTCTAAACTTTCTAAAAATCACATTTTTACCCTCA
Found at i:52401 original size:59 final size:57
Alignment explanation
Indices: 52125--52429 Score: 219
Period size: 59 Copynumber: 5.2 Consensus size: 57
52115 AAGGTCCCTG
* * * *
52125 AACTTCTCAAAAATTACATTTTAACCCTTAAACTTTTCAAAAATTACATTTTGACCCCTCA
1 AACTTC-CAAAAATTACATTTTGACCC--AAAATTTTCAAAAATCACATTTTTA-CCCTCA
* * * * * *
52186 AACTTCAAAAAATT-CAATTTTTACCCCTAAACTTTTTAAAAATCACATTTTTACCTTTA
1 AACTTCCAAAAATTAC-ATTTTGA-CCC-AAAATTTTCAAAAATCACATTTTTACCCTCA
* * * * * * *
52245 AACTTTCTAAAATTACATTTTGACCCTAAA-CTTCTAAAATTTACATTTTAACCC-CTA
1 AACTTCCAAAAATTACATTTTGACCCAAAATTTTC-AAAAATCACATTTTTACCCTC-A
* * * *
52302 AACTTCCAAAATTTACATTTTAACCTC-AAACTTTCTAAAAATCACATTTTTACCCTCG
1 AACTTCCAAAAATTACATTTTGACC-CAAAATTTTC-AAAAATCACATTTTTACCCTCA
*
52360 AACTTCCAAAAATTACATTTTTGACAGCAAAATTTTCAAAAATTGC-CA-TTTTACCC-CTA
1 AACTTCCAAAAATTACA-TTTTGAC-CCAAAATTTTCAAAAA-T-CACATTTTTACCCTC-A
52419 AACTTCCAAAA
1 AACTTCCAAAA
52430 TACCATTTTT
Statistics
Matches: 196, Mismatches: 34, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
56 2 0.01
57 42 0.21
58 41 0.21
59 54 0.28
60 47 0.24
61 10 0.05
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.36
Consensus pattern (57 bp):
AACTTCCAAAAATTACATTTTGACCCAAAATTTTCAAAAATCACATTTTTACCCTCA
Found at i:52436 original size:27 final size:27
Alignment explanation
Indices: 52398--52470 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
52388 AAAATTTTCA
*
52398 AAAATTGCCATTTTACCCCTAAACTTCC
1 AAAATTACCATTTTACCCCTAAA-TTCC
*
52426 AAAA-TACCATTTTTGA-CCCTATATTCC
1 AAAATTACCA-TTTT-ACCCCTAAATTCC
52453 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
52471 TCAAATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 1 0.03
27 18 0.46
28 19 0.49
29 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATTACCATTTTACCCCTAAATTCC
Found at i:54292 original size:67 final size:67
Alignment explanation
Indices: 54184--54312 Score: 240
Period size: 67 Copynumber: 1.9 Consensus size: 67
54174 TTGCTTGCAT
*
54184 AATGCATCATTATACAAGAAAAGGTGTTGATTTAAATTCGGTTACCAAATAGGCAATTTCATTAT
1 AATGCATCATCATACAAGAAAAGGTGTTGATTTAAATTCGGTTACCAAATAGGCAATTTCATTAT
54249 GA
66 GA
*
54251 AATGCATCATCATACAAGAAAAGGTGTTGATTTAAATTCGGTTACCAAATAGGCAGTTTCAT
1 AATGCATCATCATACAAGAAAAGGTGTTGATTTAAATTCGGTTACCAAATAGGCAATTTCAT
54313 CATGGAGGAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (67 bp):
AATGCATCATCATACAAGAAAAGGTGTTGATTTAAATTCGGTTACCAAATAGGCAATTTCATTAT
GA
Found at i:61536 original size:209 final size:209
Alignment explanation
Indices: 61164--61732 Score: 834
Period size: 209 Copynumber: 2.7 Consensus size: 209
61154 CAAAGAGCTT
* * * * * * * * *
61164 GTCATCCTCCTGATGAGATAC-AGAGAAGTATACCAACTCGATGAAATCAGGCTCAAAGTGAGCA
1 GTCATCTTCCTGATGAGATACTA-AGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCG
* ** * * * * * * *
61228 AATCTTCGAACCCCAACTTCCTGATAAGGTAATGAGAAGCAGGTCGAAGCGATAAAATGGTTAGC
65 AATCTTTGAACTTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGC
* * * *
61293 TTCCTGATAAGATAATGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGAAGCGGATT
130 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
61358 GAAACAAGTGATGCA
195 GAAACAAGTGATGCA
*
61373 GTCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGA
1 GTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGA
* *
61438 ATCTTTGAACTTCAGCTTTCTGATGAGATACTAAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCT
66 ATCTTTGAACTTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCT
*
61503 TCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTG
131 TCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTG
**
61568 AAACAAGTGATGTG
196 AAACAAGTGATGCA
* *
61582 GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCGA
1 GTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGA
*
61647 GTCTTTGAACTTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCT
66 ATCTTTGAACTTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCT
61712 TCCTGATGAGATACTGAGAAG
131 TCCTGATGAGATACTGAGAAG
61733 CAAGTCGAAG
Statistics
Matches: 323, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
209 322 1.00
210 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (209 bp):
GTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGA
ATCTTTGAACTTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCT
TCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTG
AAACAAGTGATGCA
Found at i:61731 original size:48 final size:48
Alignment explanation
Indices: 61660--61780 Score: 233
Period size: 48 Copynumber: 2.5 Consensus size: 48
61650 TTTGAACTTC
61660 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
1 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
*
61708 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAGTGGTT
1 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
61756 AGCTTCCTGATGAGATACTGAGAAG
1 AGCTTCCTGATGAGATACTGAGAAG
61781 TAGACCAAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (48 bp):
AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
Found at i:61913 original size:257 final size:257
Alignment explanation
Indices: 61451--61989 Score: 979
Period size: 257 Copynumber: 2.1 Consensus size: 257
61441 TTTGAACTTC
* *
61451 AGCTTTCTGATGAGATACTAAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
1 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
*
61516 CTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
66 CTAAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
*
61581 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCG
131 AGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCG
* *
61646 AGTCTTTGAACTTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
196 AATCTTTGAACTTCAGCTTCCTAATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
*
61708 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAGTGGTTAGCTTCCTGATGAGATA
1 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
* * *
61773 CTGAGAAGTAGACCAAATTCGTTTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
66 CTAAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
61838 AGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCG
131 AGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCG
*
61903 AATCTTTGAACTTCAGCTTCCTAATGAGATATTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
196 AATCTTTGAACTTCAGCTTCCTAATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
61965 AGCTTCCTGATGAGATACTGAGAAG
1 AGCTTCCTGATGAGATACTGAGAAG
61990 TGGATCAAAT
Statistics
Matches: 271, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
257 271 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (257 bp):
AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
CTAAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
AGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCG
AATCTTTGAACTTCAGCTTCCTAATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTT
Found at i:61923 original size:209 final size:209
Alignment explanation
Indices: 61708--62294 Score: 922
Period size: 209 Copynumber: 2.8 Consensus size: 209
61698 TAAAGTGGTT
*
61708 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAGTGGTTAGCTTCCTGATGAGATA
1 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
* * *
61773 CTGAGAAGTAGACCAAATTCGTTTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
66 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
* *
61838 AGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCG
131 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCG
* * *
61903 AATCTTTGAACTTC
196 AAACATCGAACTTC
* *
61917 AGCTTCCTAATGAGATATTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
1 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
* *
61982 CTGAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGC
66 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
* * ** * *
62047 GGTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAAACGAAGCTTAATGTGAGTG
131 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCG
62112 AAACATCGAACTTC
196 AAACATCGAACTTC
* * *
62126 AGCGTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCTTGATGATATA
1 AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
**
62191 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGTGATGT
66 CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
* * * *
62256 GGTTAGCTTCCTGATAAGATACTGAGAAGTAGACCAAAT
131 GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAAT
62295 TCGTCTTCCT
Statistics
Matches: 345, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
209 345 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (209 bp):
AGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATA
CTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGT
GGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCG
AAACATCGAACTTC
Found at i:62125 original size:466 final size:466
Alignment explanation
Indices: 61244--62198 Score: 1577
Period size: 466 Copynumber: 2.0 Consensus size: 466
61234 CGAACCCCAA
* * * * *
61244 CTTCCTGATAAGGTAATGAGAAGCAGGTCGAAGCGATAAAATGGTTAGCTTCCTGATAAGATAAT
1 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTTAGCTTCCTGATAAGATAAT
* *
61309 GAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGAAGCGGATTGAAACAAGTGATGCAG
66 GAGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCAG
61374 TCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGAA
131 TCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGAA
* *
61439 TCTTTGAACTTCAGCTTTCTGATGAGATACTAAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTT
196 TCTTTGAACTTCAGCTTCCTAATGAGATACTAAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTT
61504 CCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGA
261 CCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGA
* * *
61569 AACAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGC
326 AACAAGTGATGCGGTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAAACCAAGC
** * * *
61634 CCAAAGTGAGCGAGTCTTTGAACTTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAAT
391 CCAAAGTGAGCGAAACATCGAACTTCAGCGTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAAT
61699 AAAGTGGTTAG
456 AAAGTGGTTAG
* * * *
61710 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAGTGGTTAGCTTCCTGATGAGATACT
1 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTTAGCTTCCTGATAAGATAAT
* *
61775 GAGAAGTAGACCAAATTCGTTTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGTAG
66 GAGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCAG
* * *
61840 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCCCAAAGTGAGCGAA
131 TCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGAA
* *
61905 TCTTTGAACTTCAGCTTCCTAATGAGATATTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTT
196 TCTTTGAACTTCAGCTTCCTAATGAGATACTAAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTT
* *
61970 CCTGATGAGATACTGAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGA
261 CCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGA
*
62035 AACAAGTGATGCGGTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAAACGAAGC
326 AACAAGTGATGCGGTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAAACCAAGC
** * *
62100 TTAATGTGAGTGAAACATCGAACTTCAGCGTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAAT
391 CCAAAGTGAGCGAAACATCGAACTTCAGCGTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAAT
62165 AAAGTGGTTAG
456 AAAGTGGTTAG
* *
62176 CTTCTTGATGATATACTGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
62199 TGGACCAAAT
Statistics
Matches: 452, Mismatches: 37, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
466 452 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (466 bp):
CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTTAGCTTCCTGATAAGATAAT
GAGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCAG
TCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAATGAAACCAAGCCCAAAGTGAGCGAA
TCTTTGAACTTCAGCTTCCTAATGAGATACTAAGAAGCAAGTCGAAGCAATAAAGTGGTTAGCTT
CCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGA
AACAAGTGATGCGGTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAAACCAAGC
CCAAAGTGAGCGAAACATCGAACTTCAGCGTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAAT
AAAGTGGTTAG
Found at i:62234 original size:37 final size:37
Alignment explanation
Indices: 62176--62321 Score: 112
Period size: 37 Copynumber: 3.6 Consensus size: 37
62166 AAGTGGTTAG
* * *
62176 CTTCTTGATGATATACTGAGAAGTGGACCAAATTCGT
1 CTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGT
* *
62213 CTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGTGATGTGGTT
1 CTTCCTGATGAGATACAGAGAAGT-G---G-ACCAA---AT-TCG-T
* * *
62260 AGCTTCCTGATAAGATACTGAGAAGTAGACCAAATTCGT
1 --CTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGT
62299 CTTCCTGATGAGATACAGAGAAG
1 CTTCCTGATGAGATACAGAGAAG
62322 CAGATTGAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
37 42 0.49
38 1 0.01
39 1 0.01
40 2 0.02
41 3 0.04
42 4 0.05
44 4 0.05
45 3 0.04
46 2 0.02
47 1 0.01
49 22 0.26
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (37 bp):
CTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGT
Found at i:62270 original size:49 final size:47
Alignment explanation
Indices: 62213--62370 Score: 138
Period size: 49 Copynumber: 3.5 Consensus size: 47
62203 CCAAATTCGT
62213 CTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGTGATGTGGTTA
1 CTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGT-ATGTGGTTA
* * * *
62261 GCTTCCTGATAAGATACTGAGAAGT--A--G-ACCAA--AT-TCG-T-
1 -CTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGTATGTGGTTA
* * *
62299 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGCGGTCA
1 CTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGT-ATGTGGTTA
*
62347 TCTTCCTGATGAGATACTGAGAAG
1 -CTTCCTGATGAGATACAGAGAAG
62371 AGGACCAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
37 21 0.25
39 2 0.02
40 2 0.02
41 3 0.04
42 4 0.05
44 4 0.05
45 3 0.04
46 1 0.01
47 1 0.01
49 44 0.52
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (47 bp):
CTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGTATGTGGTTA
Found at i:62281 original size:86 final size:86
Alignment explanation
Indices: 62130--62380 Score: 353
Period size: 86 Copynumber: 2.9 Consensus size: 86
62120 AACTTCAGCG
* * * * * *
62130 TCCTGATGAGATACTGAGAAGCA-AGTCGAAGCAA-TAAAGTGGTTAGCTTCTTGATGATATACT
1 TCCTGATGAGATACAGAGAAGCAGA-TTGAAACAAGTAATGTGGTTAGCTTCCTGATGAGATACT
62193 GAGAAGTGGACCAAATTCGTCT
65 GAGAAGTGGACCAAATTCGTCT
* * *
62215 TCCTGATGAGATACAGAGAAGTAGATTGAAACAAGTGATGTGGTTAGCTTCCTGATAAGATACTG
1 TCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGTGGTTAGCTTCCTGATGAGATACTG
*
62280 AGAAGTAGACCAAATTCGTCT
66 AGAAGTGGACCAAATTCGTCT
* * *
62301 TCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGCGGTCATCTTCCTGATGAGATACTG
1 TCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGTGGTTAGCTTCCTGATGAGATACTG
*
62366 AGAAGAGGACCAAAT
66 AGAAGTGGACCAAAT
62381 CAATGAGGCT
Statistics
Matches: 146, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
85 28 0.19
86 118 0.81
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (86 bp):
TCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGTGGTTAGCTTCCTGATGAGATACTG
AGAAGTGGACCAAATTCGTCT
Found at i:62296 original size:295 final size:290
Alignment explanation
Indices: 61919--62584 Score: 924
Period size: 290 Copynumber: 2.3 Consensus size: 290
61909 TGAACTTCAG
** * * * *
61919 CTTCCTAATGAGATATTGAGAAGCA-AGTCGAAGCAA-TAAAGTGGTTAGCTTCCTGATGAGATA
1 CTTCCTAATGAGATACAGAGAAGCAGA-TTGAAACAAGTGATGTGGTTAGCTTCCTGATGAGATA
* * * *
61982 CTGAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGC
65 CTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGC
* *
62047 GGTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAAACGAAGCTTAATGTGAGTG
130 GGTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATG--A-G--GCTCAATGTGAGCG
* * * * *
62112 AAACATCGAACTTCAGCGTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTAGC
190 AAACATCGAACTTCAGCGTCCTAATAAGATAATGAGAAACAAGTCGAAGCAATAAAATGGTTAGC
* *
62177 TTCTTGATGATATACTGAGAAGTGGACCAAATTCGT
255 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGT
* * *
62213 CTTCCTGATGAGATACAGAGAAGTAGATTGAAACAAGTGATGTGGTTAGCTTCCTGATAAGATAC
1 CTTCCTAATGAGATACAGAGAAGCAGATTGAAACAAGTGATGTGGTTAGCTTCCTGATGAGATAC
62278 TGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGCG
66 TGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGCG
* * * * *
62343 GTCATCTTCCTGATGAGATACTGAGAAGAGGACCAAATCAATGAGGCTCGATGTGAGCGAACCTT
131 GTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAGGCTCAATGTGAGCGAAACAT
* * * * *
62408 TGAACTTTAGCTTCCTAATAAGATAATGAGAAACAGGTCGAAGTAATAAAATGGTTAGCTTCCTG
196 CGAACTTCAGCGTCCTAATAAGATAATGAGAAACAAGTCGAAGCAATAAAATGGTTAGCTTCCTG
62473 ATGAGATACTGAGAAGTGGACCAAATTCGT
261 ATGAGATACTGAGAAGTGGACCAAATTCGT
* * * *
62503 CTTCCTAATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCACCTTCCTGATGAGATAC
1 CTTCCTAATGAGATACAGAGAAGCAGATTGAAACAAGTGATGTGGTTAGCTTCCTGATGAGATAC
62568 TGAGAAG-ATGACCAAAT
66 TGAGAAGTA-GACCAAAT
62585 CAATGAAACA
Statistics
Matches: 330, Mismatches: 39, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
289 1 0.00
290 171 0.52
292 1 0.00
293 1 0.00
294 28 0.08
295 128 0.39
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (290 bp):
CTTCCTAATGAGATACAGAGAAGCAGATTGAAACAAGTGATGTGGTTAGCTTCCTGATGAGATAC
TGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAATGCG
GTCATCTTCCTGATGAGATACCGAGAAGAAGACCAAATCAATGAGGCTCAATGTGAGCGAAACAT
CGAACTTCAGCGTCCTAATAAGATAATGAGAAACAAGTCGAAGCAATAAAATGGTTAGCTTCCTG
ATGAGATACTGAGAAGTGGACCAAATTCGT
Found at i:62837 original size:30 final size:29
Alignment explanation
Indices: 62796--63194 Score: 262
Period size: 30 Copynumber: 13.5 Consensus size: 29
62786 TAAACATCTT
*
62796 AAAAATTACATTTTAACCTCCAAACTTTCC
1 AAAAATTACATTTTAACC-CTAAACTTTCC
* *
62826 AAAAATCACATTTTAACCTTACGAACTTTCC
1 AAAAATTACATTTTAACCCTA--AACTTTCC
* * *
62857 AAAAATTACATTTTAACCTATAAAATTTTC
1 AAAAATTACATTTTAACC-CTAAACTTTCC
* * *
62887 AAAAATCACATTTTTACCCTTAAAATTT-C
1 AAAAATTACATTTTAACCC-TAAACTTTCC
* * *
62916 TAAAATTACATTTT-GCCCTAAACTTTCT
1 AAAAATTACATTTTAACCCTAAACTTTCC
*
62944 AAAAAATACATTTTAACCCTTAAAC-TTCC
1 AAAAATTACATTTTAACCC-TAAACTTTCC
* *
62973 AAAAATTATATTTTTGACCCTAAACTTTCC
1 AAAAATTACA-TTTTAACCCTAAACTTTCC
* * *
63003 AAAAATCACATTTTTACCCCTGAAC-TTCC
1 AAAAATTACA-TTTTAACCCTAAACTTTCC
* * * * *
63032 AAAAGTTACTTTTTTGACGCC-GAACTTTTC
1 AAAAATTAC-ATTTTAAC-CCTAAACTTTCC
*
63062 AAAAATTATCATTTTACCCCTAAAC-TTCC
1 AAAAATTA-CATTTTAACCCTAAACTTTCC
* * *
63091 AAAAA-TACCATTTTTGACTCGTATA--TTCC
1 AAAAATTA-CA-TTTTAAC-CCTAAACTTTCC
* *
63120 AAAAATTACAATTTT-ACCCTCGAA-TTTCT
1 AAAAATTAC-ATTTTAACCCT-AAACTTTCC
* * **
63149 AAAAATTCCATTTTTGACCCCGAACTTTCC
1 AAAAATTACA-TTTTAACCCTAAACTTTCC
63179 AAAAATTACCATTTTA
1 AAAAATTA-CATTTTA
63195 CCCCCGAATA
Statistics
Matches: 292, Mismatches: 53, Indels: 48
0.74 0.13 0.12
Matches are distributed among these distances:
27 9 0.03
28 23 0.08
29 100 0.34
30 130 0.45
31 28 0.10
32 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCTAAACTTTCC
Found at i:62915 original size:29 final size:29
Alignment explanation
Indices: 62817--63105 Score: 175
Period size: 29 Copynumber: 9.8 Consensus size: 29
62807 TTTAACCTCC
*
62817 AAACTTTCCAAAAATCACA-TTTTAACCTT
1 AAACTTT-CAAAAATCACATTTTTACCCTT
* *
62846 ACGAACTTTCCAAAAATTACA-TTTTAACCTAT
1 A--AACTTT-CAAAAATCACATTTTTACCCT-T
*
62878 AAAATTTTCAAAAATCACATTTTTACCCTT
1 -AAACTTTCAAAAATCACATTTTTACCCTT
* * * *
62908 AAAATTTCTAAAATTACA-TTTTGCCC-T
1 AAACTTTCAAAAATCACATTTTTACCCTT
*
62935 AAACTTTCTAAAAAAT-ACATTTTAACCCTT
1 AAACTTTC--AAAAATCACATTTTTACCCTT
* * *
62965 AAACTTCCAAAAATTATATTTTTGACCC-T
1 AAACTTTCAAAAATCACATTTTT-ACCCTT
*
62994 AAACTTTCCAAAAATCACATTTTTACCCCT
1 AAACTTT-CAAAAATCACATTTTTACCCTT
* * * * *
63024 GAACTTCCAAAAGTTACTTTTTTGACGCC--
1 AAACTTTCAAAAATCACATTTTT-AC-CCTT
* * *
63053 GAACTTTTCAAAAATTATCA-TTTTACCCCT
1 AAAC-TTTCAAAAATCA-CATTTTTACCCTT
*
63083 AAACTTCCAAAAAT-ACCATTTTT
1 AAACTTTCAAAAATCA-CATTTTT
63106 GACTCGTATA
Statistics
Matches: 211, Mismatches: 29, Indels: 40
0.75 0.10 0.14
Matches are distributed among these distances:
27 8 0.04
28 21 0.10
29 76 0.36
30 62 0.29
31 42 0.20
32 1 0.00
33 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (29 bp):
AAACTTTCAAAAATCACATTTTTACCCTT
Found at i:62993 original size:87 final size:87
Alignment explanation
Indices: 62796--63016 Score: 223
Period size: 87 Copynumber: 2.5 Consensus size: 87
62786 TAAACATCTT
* * * * * *
62796 AAAAATTACATTTTAACCTCCAAACTTTCCAAAAATCACATTTTAACCTTACGAACTTTCCAAAA
1 AAAAATCACATTTTTACC-CTAAAATTTCCAAAAATCACATTTT-GCCCTA--AACTTTCCAAAA
* * *
62861 ATTACATTTTAACCTATAAAATTTTC
62 AATACATTTTAACCTATAAAACTTCC
* * *
62887 AAAAATCACATTTTTACCCTTAAAATTT-CTAAAATTACATTTTGCCCTAAACTTTCTAAAAAAT
1 AAAAATCACATTTTTACCC-TAAAATTTCCAAAAATCACATTTTGCCCTAAACTTTCCAAAAAAT
62951 ACATTTTAACCCT-T-AAACTTCC
65 ACATTTTAA-CCTATAAAACTTCC
* * *
62973 AAAAATTATATTTTTGACCCTAAACTTTCCAAAAATCACATTTT
1 AAAAATCACATTTTT-ACCCTAAAATTTCCAAAAATCACATTTT
63017 TACCCCTGAA
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
86 26 0.24
87 40 0.37
88 3 0.03
89 4 0.04
90 14 0.13
91 22 0.20
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (87 bp):
AAAAATCACATTTTTACCCTAAAATTTCCAAAAATCACATTTTGCCCTAAACTTTCCAAAAAATA
CATTTTAACCTATAAAACTTCC
Found at i:63014 original size:59 final size:59
Alignment explanation
Indices: 62796--63194 Score: 318
Period size: 59 Copynumber: 6.8 Consensus size: 59
62786 TAAACATCTT
* *
62796 AAAAATTACA-TTTTAACCTCCAAACTTTCCAAAAATCACATTTTAA-CCTTACGAACTTTCC
1 AAAAATTACATTTTTGACC-CTAAACTTTCCAAAAATCACATTTTAACCCTTA--AAC-TTCC
* * * * * * *
62857 AAAAATTACA-TTTTAACCTATAAAATTTTCAAAAATCACATTTTTACCCTTAAAATTTC
1 AAAAATTACATTTTTGACC-CTAAACTTTCCAAAAATCACATTTTAACCCTTAAACTTCC
* *
62916 TAAAATTACA-TTTTG-CCCTAAACTTTCTAAAAAAT-ACATTTTAACCCTTAAACTTCC
1 AAAAATTACATTTTTGACCCTAAACTTTC-CAAAAATCACATTTTAACCCTTAAACTTCC
* * * *
62973 AAAAATTATATTTTTGACCCTAAACTTTCCAAAAATCACATTTTTACCCCTGAACTTCC
1 AAAAATTACATTTTTGACCCTAAACTTTCCAAAAATCACATTTTAACCCTTAAACTTCC
* * * * * *
63032 AAAAGTTACTTTTTTGACGCC-GAACTTTTCAAAAATTATCATTTT-ACCCCTAAACTTCC
1 AAAAATTACATTTTTGAC-CCTAAACTTTCCAAAAATCA-CATTTTAACCCTTAAACTTCC
* * * ** * *
63091 AAAAA-TACCATTTTTGACTCGTATA--TTCCAAAAATTACAATTTT-ACCCTCGAATTTCT
1 AAAAATTA-CATTTTTGAC-CCTAAACTTTCCAAAAATCAC-ATTTTAACCCTTAAACTTCC
* ** *
63149 AAAAATTCCATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTA
1 AAAAATTACATTTTTGACCCTAAACTTTCCAAAAATCA-CATTTTA
63195 CCCCCGAATA
Statistics
Matches: 277, Mismatches: 46, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
57 37 0.13
58 61 0.22
59 121 0.44
60 12 0.04
61 41 0.15
62 5 0.02
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAAATTACATTTTTGACCCTAAACTTTCCAAAAATCACATTTTAACCCTTAAACTTCC
Found at i:63119 original size:29 final size:28
Alignment explanation
Indices: 62969--63226 Score: 118
Period size: 29 Copynumber: 8.8 Consensus size: 28
62959 ACCCTTAAAC
* *
62969 TTCCAAAAATTA-TATTTTTGACCCTAAACT
1 TTCCAAAAA-TACCATTTTTGACCC-GAA-T
*
62999 TTCCAAAAAT-CACATTTTT-ACCCCTGAAC
1 TTCCAAAAATAC-CATTTTTGA-CCC-GAAT
* *
63028 TTCCAAAAGTTA-CTTTTTTGACGCCGAACT
1 TTCCAAAA-ATACCATTTTTGAC-CCGAA-T
* * * *
63058 TTTCAAAAATTATCA-TTTT-ACCCCTAAAC
1 TTCCAAAAA-TACCATTTTTGA-CCC-GAAT
* *
63087 TTCCAAAAATACCATTTTTGACTCGTAT
1 TTCCAAAAATACCATTTTTGACCCGAAT
*
63115 ATTCCAAAAATTA-CAATTTT-ACCCTCGAAT
1 -TTCCAAAAA-TACCATTTTTGA-CC-CGAAT
* *
63145 TTCTAAAAATTCCATTTTTGACCCCGAACT
1 TTCCAAAAATACCATTTTTGA-CCCGAA-T
***
63175 TTCCAAAAATTACCATTTTACCCCCGAAT
1 TTCCAAAAA-TACCATTTTTGACCCGAAT
* *
63204 ATCCAATAATACCATTTTTGACC
1 TTCCAAAAATACCATTTTTGACC
63227 TTGAACCTTT
Statistics
Matches: 173, Mismatches: 33, Indels: 46
0.69 0.13 0.18
Matches are distributed among these distances:
28 18 0.10
29 79 0.46
30 67 0.39
31 9 0.05
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (28 bp):
TTCCAAAAATACCATTTTTGACCCGAAT
Found at i:63182 original size:117 final size:116
Alignment explanation
Indices: 62795--63259 Score: 371
Period size: 117 Copynumber: 4.0 Consensus size: 116
62785 CTAAACATCT
* * * * *
62795 TAAAAATTACA-TTTTAACCTCCAAACTTTCCAAAAATCACATTTTAACCTTACGAACTTTCCAA
1 TAAAAATTACATTTTTGACC-CCGAACTTTCCAAAAATTACATTTTACCCCTA--AAC-TTCCAA
* * * * **
62859 AAATTA-CA-TTTTAACCTATAAAATTTTCAAAAATCACATTTTTACCCTTAAAATTTC
62 AAA-TACCATTTTTGACC-CT-AAACTTCCAAAAATCACATTTTTACCC-TCGAATTTC
** * * *
62916 T-AAAATTACA-TTTTG-CCCTAAACTTTCTAAAAAATACATTTTAACCCTTAAACTTCCAAAAA
1 TAAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACATTTT-ACCCCTAAACTTCCAAAAA
* *
62978 TTA-TATTTTTGACCCTAAACTTTCCAAAAATCACATTTTTACCC-CTGAACTTC
65 -TACCATTTTTGACCCTAAAC-TTCCAAAAATCACATTTTTACCCTC-GAATTTC
* * * * *
63031 CAAAAGTTACTTTTTTGACGCCGAACTTTTCAAAAATTATCATTTTACCCCTAAACTTCCAAAAA
1 TAAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTA-CATTTTACCCCTAAACTTCCAAAAA
* * * *
63096 TACCATTTTTGACTCGTATA-TTCCAAAAATTACAATTTTACCCTCGAATTTC
65 TACCATTTTTGAC-CCTAAACTTCCAAAAATCACATTTTTACCCTCGAATTTC
* ** *
63148 TAAAAATTCCATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCCCGAA-TATCCAATA
1 TAAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTA-CATTTTACCCCTAAACT-TCCAAAA
* * *
63212 ATACCATTTTTGACCTTGAACCTT-TAAAAAT-AC-TATTTTACCCTCGAA
64 ATACCATTTTTGACCCT-AAACTTCCAAAAATCACAT-TTTTACCCTCGAA
63260 GTATCCAAAA
Statistics
Matches: 284, Mismatches: 45, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
115 8 0.03
116 61 0.21
117 117 0.41
118 66 0.23
119 18 0.06
120 13 0.05
121 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (116 bp):
TAAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACATTTTACCCCTAAACTTCCAAAAAT
ACCATTTTTGACCCTAAACTTCCAAAAATCACATTTTTACCCTCGAATTTC
Found at i:63196 original size:59 final size:59
Alignment explanation
Indices: 62796--63279 Score: 286
Period size: 59 Copynumber: 8.2 Consensus size: 59
62786 TAAACATCTT
* * * *
62796 AAAAATTACA-TTTTAACCTCCAAACTTTCCAAAAATCA-CATTTTAACCTTACGAACTTTCC
1 AAAAATTACATTTTTGACC-CCGAACTTTCCAAAAATTACCATTTT-ACCCT-CGAAC-TTCC
* *** * * * ** * *
62857 AAAAATTACA-TTTTAACCTATAAAATTTTCAAAAATCA-CATTTTTACCCTTAAAATTTC
1 AAAAATTACATTTTTGACC-CCGAACTTTCCAAAAATTACCA-TTTTACCCTCGAACTTCC
* ** * * **
62916 TAAAATTACA-TTTTG-CCCTAAACTTTCTAAAAAATA-CATTTTAACCCTTAAACTTCC
1 AAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACCATTTT-ACCCTCGAACTTCC
* ** *
62973 AAAAATTATATTTTTGACCCTAAACTTTCCAAAAATCA-CATTTTTACCC-CTGAACTTCC
1 AAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACCA-TTTTACCCTC-GAACTTCC
* * * * * *
63032 AAAAGTTACTTTTTTGACGCCGAACTTTTCAAAAATTATCATTTTACCC-CTAAACTTCC
1 AAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCTC-GAACTTCC
* * * * *
63091 AAAAA-TACCATTTTTGA-CTCGTA-TATTCCAAAAATTACAATTTTACCCTCGAATTTCT
1 AAAAATTA-CATTTTTGACCCCGAACT-TTCCAAAAATTACCATTTTACCCTCGAACTTCC
* *
63149 AAAAATTCCATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCCCGAA-TATCC
1 AAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCTCGAACT-TCC
* ** * *
63208 AATAA-TACCATTTTTGACCTTGAACCTTT--AAAAA-TACTATTTTACCCTCGAAGTATCC
1 AAAAATTA-CATTTTTGACCCCGAA-CTTTCCAAAAATTACCATTTTACCCTCGAACT-TCC
63266 -AAAATTACCATTTT
1 AAAAATTA-CATTTT
63280 GCCCCCGGCA
Statistics
Matches: 346, Mismatches: 59, Indels: 39
0.78 0.13 0.09
Matches are distributed among these distances:
56 4 0.01
57 55 0.16
58 72 0.21
59 158 0.46
60 13 0.04
61 40 0.12
62 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCTCGAACTTCC
Found at i:63269 original size:29 final size:28
Alignment explanation
Indices: 63088--63279 Score: 127
Period size: 29 Copynumber: 6.6 Consensus size: 28
63078 CCCCTAAACT
*** *
63088 TCCAAAAATACCATTTTTGACTCGTATA
1 TCCAAAAATACCATTTTACCCTCGAATA
* *
63116 TTCCAAAAATTACAATTTTACCCTCGAATT
1 -TCCAAAAA-TACCATTTTACCCTCGAATA
* * *
63146 TCTAAAAATTCCATTTTTGACCC-CGAACTT
1 TCCAAAAATACCA-TTTT-ACCCTCGAA-TA
*
63176 TCCAAAAATTACCATTTTACCCCCGAATA
1 TCCAAAAA-TACCATTTTACCCTCGAATA
* * **
63205 TCCAATAATACCATTTTTGA-CCTTGAACC
1 TCCAAAAATACCA-TTTT-ACCCTCGAATA
** *
63234 TTTAAAAATACTATTTTACCCTCGAAGTA
1 TCCAAAAATACCATTTTACCCTCGAA-TA
*
63263 TCCAAAATTACCATTTT
1 TCCAAAAATACCATTTT
63280 GCCCCCGGCA
Statistics
Matches: 125, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
27 1 0.01
28 18 0.14
29 66 0.53
30 36 0.29
31 4 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (28 bp):
TCCAAAAATACCATTTTACCCTCGAATA
Found at i:63487 original size:20 final size:20
Alignment explanation
Indices: 63464--63501 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63454 ATTAATTGCT
63464 TATTCATATTT-AAAATTACA
1 TATTCAT-TTTCAAAATTACA
*
63484 TATTCGTTTTCAAAATTA
1 TATTCATTTTCAAAATTA
63502 TTTTCATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (20 bp):
TATTCATTTTCAAAATTACA
Found at i:65653 original size:16 final size:16
Alignment explanation
Indices: 65606--65663 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
65596 TTAATCACTT
65606 TAATATTAAATT-AATA
1 TAATATT-AATTAAATA
*
65622 TAATACTTAATAAAATA
1 TAATA-TTAATTAAATA
*
65639 -AATATTAGATTAAATT
1 TAATATTA-ATTAAATA
65655 TAATATTAA
1 TAATATTAA
65664 ATTTTATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.09
16 19 0.54
17 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
TAATATTAATTAAATA
Found at i:65738 original size:31 final size:33
Alignment explanation
Indices: 65667--65743 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 33
65657 ATATTAAATT
*
65667 TTATTAAATTAATAGAATATTATCTACAAGATAA
1 TTATTAAATTAATAAAATATTATCTA-AAGATAA
**
65701 ACATTAAATTAATAAAATATTAT-T-AAGATAA
1 TTATTAAATTAATAAAATATTATCTAAAGATAA
65732 TTATTAAATTAA
1 TTATTAAATTAA
65744 ATTTTTATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 17 0.45
33 1 0.03
34 20 0.53
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (33 bp):
TTATTAAATTAATAAAATATTATCTAAAGATAA
Found at i:68352 original size:17 final size:17
Alignment explanation
Indices: 68332--68462 Score: 136
Period size: 17 Copynumber: 7.4 Consensus size: 17
68322 AAAAAACTTT
*
68332 AATTTATTTTAAGTTTA
1 AATTTATTTTAAATTTA
*
68349 AATTTATTTTAATTTTAAA
1 AATTTATTTTAAATTT--A
68368 CTTAATTTATTTTAAATTTA
1 ---AATTTATTTTAAATTTA
* * * *
68388 AACTTACTTTGAGTTTA
1 AATTTATTTTAAATTTA
68405 AATTTATTTTGAAATTTA
1 AATTTATTTT-AAATTTA
*
68423 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
*
68440 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
68457 AATTTA
1 AATTTA
68463 ATTAAAAATG
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
17 65 0.67
18 15 0.15
19 1 0.01
20 1 0.01
22 15 0.15
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:68354 original size:6 final size:6
Alignment explanation
Indices: 68339--68463 Score: 66
Period size: 6 Copynumber: 21.8 Consensus size: 6
68329 TTTAATTTAT
* * * * *
68339 TTTAAG TTTAAA TTT-AT TTTAAT TTTAAA CTT-AA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
68384 TTTAAA CTT-AC TTTGAG TTTAAA TTT-AT TTTGAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* * *
68430 TTTAAA TTAAAA TTT-AT TTTAAA TTAAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
68464 TTAAAAATGT
Statistics
Matches: 89, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
5 27 0.30
6 58 0.65
7 4 0.04
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:68354 original size:22 final size:22
Alignment explanation
Indices: 68339--68465 Score: 87
Period size: 22 Copynumber: 5.6 Consensus size: 22
68329 TTTAATTTAT
* *
68339 TTTAAGTTTAAATTTATTTTAAT
1 TTTAAATTT-AATTTATTTTAAA
*
68362 TTTAAACTTAATTTATTTTAAA
1 TTTAAATTTAATTTATTTTAAA
* * *
68384 TTTAAACTTACTTTGAGTTTAAA
1 TTTAAATTTAATTT-ATTTTAAA
* * *
68407 TTT-ATTTTGAAATTTAAATTT-AT
1 TTTAAATTT--AATTT-ATTTTAAA
*
68430 TTTAAATTAAAATTTATTTTAAA
1 TTTAAATT-TAATTTATTTTAAA
*
68453 TTAAAATTTAATT
1 TTTAAATTTAATT
68466 AAAAATGTCC
Statistics
Matches: 81, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
22 36 0.44
23 34 0.42
24 11 0.14
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTAAATTTAATTTATTTTAAA
Found at i:68405 original size:39 final size:40
Alignment explanation
Indices: 68325--68428 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 40
68315 TTTTTAAAAA
* * * *
68325 AAACTTTAATTTATTTTAAGTTTAAATTTATTTTAATTTT
1 AAACTTTAATTTATTTTAAATTTAAACTTACTTTAAGTTT
*
68365 AAAC-TTAATTTATTTTAAATTTAAACTTACTTTGAGTTT
1 AAACTTTAATTTATTTTAAATTTAAACTTACTTTAAGTTT
* *
68404 AAA-TTTATTTTGAAATTTAAATTTA
1 AAACTTTAATTT--ATTTTAAATTTA
68429 TTTTAAATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
39 39 0.72
40 4 0.07
41 11 0.20
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (40 bp):
AAACTTTAATTTATTTTAAATTTAAACTTACTTTAAGTTT
Found at i:68460 original size:34 final size:34
Alignment explanation
Indices: 68332--68462 Score: 136
Period size: 35 Copynumber: 3.7 Consensus size: 34
68322 AAAAAACTTT
* *
68332 AATTTATTTTAAGTTTAAATTTATTTTAATTTTAAA
1 AATTTATTTTAAATTTAAATTTATTTTAA-ATT-AA
* * * * *
68368 CTTAATTTATTTTAAATTTAAACTTACTTTGAGTTTA
1 ---AATTTATTTTAAATTTAAATTTATTTTAAATTAA
68405 AATTTATTTTGAAATTTAAATTTATTTTAAATTAA
1 AATTTATTTT-AAATTTAAATTTATTTTAAATTAA
*
68440 AATTTATTTTAAATTAAAATTTA
1 AATTTATTTTAAATTTAAATTTA
68463 ATTAAAAATG
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
34 22 0.28
35 29 0.37
37 1 0.01
38 2 0.03
39 25 0.32
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (34 bp):
AATTTATTTTAAATTTAAATTTATTTTAAATTAA
Found at i:69174 original size:21 final size:19
Alignment explanation
Indices: 69123--69176 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
69113 GGTATTAATA
69123 ATAATTAATAAT-ATTTTT
1 ATAATTAATAATAATTTTT
* * *
69141 AAAAATAACAATAATTATTT
1 ATAATTAATAATAATT-TTT
69161 GATAATTAATAATAAT
1 -ATAATTAATAATAAT
69177 AATAACAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 9 0.33
19 3 0.11
20 3 0.11
21 12 0.44
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAATTAATAATAATTTTT
Found at i:70332 original size:30 final size:29
Alignment explanation
Indices: 70306--70514 Score: 91
Period size: 29 Copynumber: 7.2 Consensus size: 29
70296 CAAAAATCAT
70306 ATTTTAACCCCCAAACTTTTCCAAAATTCC
1 ATTTTAA-CCCCAAACTTTTCCAAAATTCC
* * *
70336 ATTTTAACCCTAAAC-TTTCTAAAAATTAC
1 ATTTTAACCCCAAACTTTTC-CAAAATTCC
* * *
70365 ATTTTTACCCCTGAAC-TTTCCAAAATTCT
1 ATTTTAACCCC-AAACTTTTCCAAAATTCC
* * * *
70394 ATTTTTGA-CACTAATTTTTCCAAAAATTACC
1 A-TTTTAACCCCAAACTTTTCC-AAAATT-CC
70425 A-TTT-ACCCCTAAAC--TTCCAAAAATTCC
1 ATTTTAACCCC-AAACTTTTCC-AAAATTCC
* * * *
70452 ATTTTTGACCTC-GATTTTTCCAAAAATTACC
1 A-TTTTAACCCCAAACTTTTCC-AAAATT-CC
70483 A-TTT-ACCCCTAAAC--TTCCAAAAATTCC
1 ATTTTAACCCC-AAACTTTTCC-AAAATTCC
70510 ATTTT
1 ATTTT
70515 TGACCCCGAT
Statistics
Matches: 139, Mismatches: 23, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
27 6 0.04
28 37 0.27
29 48 0.35
30 43 0.31
31 5 0.04
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTAACCCCAAACTTTTCCAAAATTCC
Found at i:70382 original size:59 final size:58
Alignment explanation
Indices: 70284--70514 Score: 197
Period size: 58 Copynumber: 4.0 Consensus size: 58
70274 TCTTGGAGGT
* * * * *
70284 CCCTAAACTATCCAAAAATCATATTTTAACCCCCAAACTTTTCCAAAATTCCATTTTAA
1 CCCTAAACTTTCCAAAAATTACATTTTTACCCCTAAAC-TTTCCAAAATTCCATTTTAA
* * * *
70343 CCCTAAACTTTCTAAAAATTACATTTTTACCCCTGAACTTTCCAAAATTCTATTTTTGA
1 CCCTAAACTTTCCAAAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAA
* ** *
70402 CACTAATTTTTCCAAAAATTACCA--TTTACCCCTAAAC-TTCCAAAAATTCCATTTTTGA
1 CCCTAAACTTTCCAAAAATTA-CATTTTTACCCCTAAACTTTCC-AAAATTCCA-TTTTAA
* **
70460 -CCTCGATTTTTCCAAAAATTACCA--TTTACCCCTAAAC-TTCCAAAAATTCCATTTT
1 CCCT-AAACTTTCCAAAAATTA-CATTTTTACCCCTAAACTTTCC-AAAATTCCATTTT
70515 TGACCCCGAT
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
57 10 0.07
58 86 0.57
59 53 0.35
60 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (58 bp):
CCCTAAACTTTCCAAAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCATTTTAA
Found at i:70430 original size:58 final size:58
Alignment explanation
Indices: 70324--70667 Score: 278
Period size: 58 Copynumber: 5.9 Consensus size: 58
70314 CCCCAAACTT
* ** * *
70324 TTCC-AAAATTCCA-TTTTAACCCTAAACTTTCTAAAAATTA-CATTTTTACCCCTGAAC
1 TTCCAAAAATTCCATTTTTGACCCTAATTTTTCCAAAAATTACCA--TTTACCCCTAAAC
* *
70381 TTTCC-AAAATTCTATTTTTGACACTAATTTTTCCAAAAATTACCATTTACCCCTAAAC
1 -TTCCAAAAATTCCATTTTTGACCCTAATTTTTCCAAAAATTACCATTTACCCCTAAAC
*
70439 TTCCAAAAATTCCATTTTTGA-CCTCGATTTTTCCAAAAATTACCATTTACCCCTAAAC
1 TTCCAAAAATTCCATTTTTGACCCT-AATTTTTCCAAAAATTACCATTTACCCCTAAAC
* * * *
70497 TTCCAAAAATTCCATTTTTGACCCCGATTTTTTCCAAAAA-TACCATTTA-CTCTCGAA-
1 TTCCAAAAATTCCATTTTTGA-CCCTAATTTTTCCAAAAATTACCATTTACCCCT-AAAC
* * ** * *
70554 TGTCTAAAAATTCCA-TTTTGAACCTTAAACTTTCC-AAAATTACCATTTTACCCCCAGA-
1 T-TCCAAAAATTCCATTTTTG-ACCCTAATTTTTCCAAAAATTACCA-TTTACCCCTAAAC
* * * * ** *
70612 TGTCTAAAAATTCTATCTTTGACCTCGAAACTTTCCCAAAATTACCATTTTACCCC
1 T-TCCAAAAATTCCATTTTTGACC-CTAATTTTTCCAAAAATTACCA-TTTACCCC
70668 GAGTGTCTAA
Statistics
Matches: 242, Mismatches: 29, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
56 4 0.02
57 28 0.12
58 138 0.57
59 49 0.20
60 23 0.10
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (58 bp):
TTCCAAAAATTCCATTTTTGACCCTAATTTTTCCAAAAATTACCATTTACCCCTAAAC
Found at i:70447 original size:28 final size:27
Alignment explanation
Indices: 70284--70513 Score: 117
Period size: 30 Copynumber: 7.9 Consensus size: 27
70274 TCTTGGAGGT
*
70284 CCCTAAACTATCCAAAAA-TCATATTTTAAC
1 CCCTAAACT-TCCAAAAATTC-CA-TTT-AC
* *
70314 CCCCAAACTTTTCC-AAAATTCCATTTTAA
1 CCCTAAAC--TTCCAAAAATTCCA-TTTAC
* *
70343 CCCTAAACTTTCTAAAAATTACATTTTTAC
1 CCCTAAAC-TTCCAAAAATTCCA--TTTAC
* *
70373 CCCTGAACTTTCC-AAAATTCTATTTTTGA-
1 CCCTAAAC-TTCCAAAAATTCCA--TTT-AC
* **
70402 CACTAATTTTTCCAAAAATTACCATTTAC
1 CCCTAA-ACTTCCAAAAATT-CCATTTAC
70431 CCCTAAACTTCCAAAAATTCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTCCA--TTT-AC
* * ***
70461 CTCGATTTTTCCAAAAATTACCATTTAC
1 CCCTAAACTTCCAAAAATT-CCATTTAC
70489 CCCTAAACTTCCAAAAATTCCATTT
1 CCCTAAACTTCCAAAAATTCCATTT
70514 TTGACCCCGA
Statistics
Matches: 157, Mismatches: 29, Indels: 31
0.72 0.13 0.14
Matches are distributed among these distances:
27 9 0.06
28 32 0.20
29 50 0.32
30 55 0.35
31 10 0.06
32 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (27 bp):
CCCTAAACTTCCAAAAATTCCATTTAC
Found at i:70680 original size:58 final size:57
Alignment explanation
Indices: 70527--70689 Score: 197
Period size: 58 Copynumber: 2.8 Consensus size: 57
70517 ACCCCGATTT
* * * *
70527 TTTCCAAAAATACCA-TTTACTCTCGAATGTCTAAAAATTCCATTTTGAACCTTAAAC
1 TTTCCAAAATTACCATTTTAC-CCCGAGTGTCTAAAAATTCCATTTTGAACCTGAAAC
* *
70584 TTTCCAAAATTACCATTTTACCCCCAGATGTCTAAAAATTCTATCTTTG-ACCTCGAAAC
1 TTTCCAAAATTACCATTTTACCCCGAG-TGTCTAAAAATTCCAT-TTTGAACCT-GAAAC
70643 TTTCCCAAAATTACCATTTTACCCCGAGTGTCT-AAAATTACCATTTT
1 TTT-CCAAAATTACCATTTTACCCCGAGTGTCTAAAAATT-CCATTTT
70690 ACCCCTAGGT
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
57 17 0.18
58 33 0.36
59 19 0.21
60 23 0.25
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (57 bp):
TTTCCAAAATTACCATTTTACCCCGAGTGTCTAAAAATTCCATTTTGAACCTGAAAC
Found at i:72764 original size:27 final size:27
Alignment explanation
Indices: 72724--72829 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
72714 GTAAGCAATG
*
72724 AGCGATATTCTGTATCTGACTCGAAAA
1 AGCGATATTCTGTATCTGGCTCGAAAA
* *
72751 AACGATATTTTGTATCTGGCT--AAAA
1 AGCGATATTCTGTATCTGGCTCGAAAA
**
72776 TGAGCGATATTCTGTATCTGGCTCGAATG
1 --AGCGATATTCTGTATCTGGCTCGAAAA
*
72805 AGCGATATTATGTATCTGGCTCGAA
1 AGCGATATTCTGTATCTGGCTCGAA
72830 CAAGTAATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.06
27 61 0.91
29 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (27 bp):
AGCGATATTCTGTATCTGGCTCGAAAA
Found at i:72802 original size:54 final size:54
Alignment explanation
Indices: 72720--72825 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
72710 AAGTGTAAGC
*
72720 AATGAGCGATATTCTGTATCTGACTCGAAAAAACGATATTTTGTATCTGGCTAA
1 AATGAGCGATATTCTGTATCTGACTCGAAAAAACGATATTATGTATCTGGCTAA
* ** *
72774 AATGAGCGATATTCTGTATCTGGCTCGAATGAGCGATATTATGTATCTGGCT
1 AATGAGCGATATTCTGTATCTGACTCGAAAAAACGATATTATGTATCTGGCT
72826 CGAACAAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (54 bp):
AATGAGCGATATTCTGTATCTGACTCGAAAAAACGATATTATGTATCTGGCTAA
Found at i:72840 original size:54 final size:54
Alignment explanation
Indices: 72728--72842 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
72718 GCAATGAGCG
* ** *
72728 ATATTCTGTATCTGACTCGAAAAAACGATATTTTGTATCTGGCTAAAATGAGCG
1 ATATTCTGTATCTGACTCGAAAAAACGATATTATGTATCTGGCTAAAACAAGCA
* ** * ** *
72782 ATATTCTGTATCTGGCTCGAATGAGCGATATTATGTATCTGGCTCGAACAAGTA
1 ATATTCTGTATCTGACTCGAAAAAACGATATTATGTATCTGGCTAAAACAAGCA
72836 ATATTCT
1 ATATTCT
72843 ATTATTGCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (54 bp):
ATATTCTGTATCTGACTCGAAAAAACGATATTATGTATCTGGCTAAAACAAGCA
Found at i:73129 original size:27 final size:27
Alignment explanation
Indices: 73087--73156 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
73077 AAGTCTGAGC
* *
73087 AATGAGCGGT-TTCTGTATTTGGCTCG
1 AATGAGCGATATTCTGTATCTGGCTCG
* *
73113 ATTGAGCGATATTCTGTATCTGGCTTG
1 AATGAGCGATATTCTGTATCTGGCTCG
* *
73140 AACGAGTGATATTCTGT
1 AATGAGCGATATTCTGT
73157 TATTGTTGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 8 0.22
27 28 0.78
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (27 bp):
AATGAGCGATATTCTGTATCTGGCTCG
Found at i:82679 original size:21 final size:22
Alignment explanation
Indices: 82655--82707 Score: 54
Period size: 27 Copynumber: 2.2 Consensus size: 22
82645 GCTCTATGGC
82655 GGAGGA-GGAGATCTCCCTATT
1 GGAGGACGGAGATCTCCCTATT
82676 GGAGGTAGAGCTGGAGATCTCCCTATT
1 GGA-G--GA-C-GGAGATCTCCCTATT
82703 GGAGG
1 GGAGG
82708 TAGAGCTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
21 3 0.12
22 1 0.04
24 3 0.12
26 1 0.04
27 18 0.69
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (22 bp):
GGAGGACGGAGATCTCCCTATT
Found at i:82699 original size:27 final size:27
Alignment explanation
Indices: 82661--82714 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
82651 TGGCGGAGGA
82661 GGAGATCTCCCTATTGGAGGTAGAGCT
1 GGAGATCTCCCTATTGGAGGTAGAGCT
82688 GGAGATCTCCCTATTGGAGGTAGAGCT
1 GGAGATCTCCCTATTGGAGGTAGAGCT
82715 CGTCCAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (27 bp):
GGAGATCTCCCTATTGGAGGTAGAGCT
Found at i:91528 original size:7 final size:7
Alignment explanation
Indices: 91516--91544 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
91506 CAATTTGATC
91516 AATTTAT
1 AATTTAT
91523 AATTTAT
1 AATTTAT
91530 AATTTAT
1 AATTTAT
91537 AATTTAT
1 AATTTAT
91544 A
1 A
91545 TATGCAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AATTTAT
Found at i:96291 original size:120 final size:120
Alignment explanation
Indices: 96078--96314 Score: 456
Period size: 120 Copynumber: 2.0 Consensus size: 120
96068 AAGGAGAATT
96078 CGGCTGAGCTTCCCCCTTTGATTGGATGAGTTTTTGAGTCCCTTTTTCAATGATTTTTACGTATT
1 CGGCTGAGCTTCCCCCTTTGATTGGATGAGTTTTTGAGTCCCTTTTTCAATGATTTTTACGTATT
*
96143 TGAGGTTGTTTTAGCCTAGTTAAGCTAACCTAAGGGTTAATTTGTGAAACCGCTC
66 TGAGGTTGTTTTAGCCTAGTTAAGCTAACCCAAGGGTTAATTTGTGAAACCGCTC
*
96198 CGGCTGAGCTTCCCCCTTTGATTGGGTGAGTTTTTGAGTCCCTTTTTCAATGATTTTTACGTATT
1 CGGCTGAGCTTCCCCCTTTGATTGGATGAGTTTTTGAGTCCCTTTTTCAATGATTTTTACGTATT
96263 TGAGGTTGTTTTAGCCTAGTTAAGCTAACCCAAGGGTTAATTTGTGAAACCG
66 TGAGGTTGTTTTAGCCTAGTTAAGCTAACCCAAGGGTTAATTTGTGAAACCG
96315 TTAAAAGTTC
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (120 bp):
CGGCTGAGCTTCCCCCTTTGATTGGATGAGTTTTTGAGTCCCTTTTTCAATGATTTTTACGTATT
TGAGGTTGTTTTAGCCTAGTTAAGCTAACCCAAGGGTTAATTTGTGAAACCGCTC
Found at i:97292 original size:40 final size:40
Alignment explanation
Indices: 97242--97344 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
97232 ATTTCCGAAT
* *
97242 AAATAAAAAGGTTGAAAAGGATATTAT-TCGGAAGGATAAC
1 AAATGAAAAGGTTGAAAAGGATATTATCT-GAAAGGATAAC
* *
97282 AAATGAAAAGGATGAAAAGGATGTTATCTGAAAGGATAAC
1 AAATGAAAAGGTTGAAAAGGATATTATCTGAAAGGATAAC
*
97322 AAATGAAAAGGTCGAAAAGGATA
1 AAATGAAAAGGTTGAAAAGGATA
97345 GCAACGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.24, T:0.19
Consensus pattern (40 bp):
AAATGAAAAGGTTGAAAAGGATATTATCTGAAAGGATAAC
Found at i:105773 original size:30 final size:30
Alignment explanation
Indices: 105719--105788 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
105709 TTTTTTTTAA
*
105719 AATGTGTACAGTTGAATCAAAATCAAAGTTT
1 AATGTGTACAGTTGAACCAAAATC-AAGTTT
* * *
105750 TATGT-TACATTTGAACCACAATCAAGTTT
1 AATGTGTACAGTTGAACCAAAATCAAGTTT
105779 AATGTGTACA
1 AATGTGTACA
105789 ATTGCATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 19 0.58
31 4 0.12
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (30 bp):
AATGTGTACAGTTGAACCAAAATCAAGTTT
Found at i:109396 original size:30 final size:30
Alignment explanation
Indices: 109362--109424 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
109352 TTGATATCTG
* *
109362 AACTTGACACTTTTTT-TAATTTGGTACTTA
1 AACTTGACA-TTTTTTCTAATCTGGTACCTA
109392 AACTTGACATTTTTTCCTAATCTGGTACCTA
1 AACTTGACATTTTTT-CTAATCTGGTACCTA
109423 AA
1 AA
109425 TTTATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 14 0.48
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (30 bp):
AACTTGACATTTTTTCTAATCTGGTACCTA
Found at i:112935 original size:2 final size:2
Alignment explanation
Indices: 112930--112973 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
112920 AAAAAAAGCA
112930 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
112972 AT
1 AT
112974 TAAAACTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116794 original size:22 final size:21
Alignment explanation
Indices: 116766--116811 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
116756 TTATTACAAA
*
116766 TTTTA-ATCATATTTAT--TT
1 TTTTATATAATATTTATAATT
116784 TTTTATATAATATTTATAATT
1 TTTTATATAATATTTATAATT
116805 TTTTATA
1 TTTTATA
116812 ATTTTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 10 0.42
21 9 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATATAATATTTATAATT
Found at i:119588 original size:17 final size:17
Alignment explanation
Indices: 119530--119595 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
119520 TTTTAGATTT
*
119530 ATTTCTAAATTTAAATTCT
1 ATTT-TAAATTTAAATT-A
* *
119549 TTTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTA
*
119566 ACTTTAAATTTGAAA-TA
1 ATTTTAAATTT-AAATTA
*
119583 ATTTTAAACTTAA
1 ATTTTAAATTTAA
119596 CTTTAAAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 2 0.05
17 20 0.50
18 15 0.38
19 3 0.08
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTTAAATTTAAATTA
Found at i:120348 original size:18 final size:17
Alignment explanation
Indices: 120294--120350 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
120284 GAATATCATT
* *
120294 AATATTAATATTAATTA
1 AATATTAATAATAAATA
120311 TAATATTAATAATATTAATA
1 -AATATTAATAATA--AATA
120331 AATAATTAATAATAAATA
1 AAT-ATTAATAATAAATA
120349 AA
1 AA
120351 AAGGGAAGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 18 0.53
19 3 0.09
20 13 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATTAATAATAAATA
Found at i:121336 original size:29 final size:30
Alignment explanation
Indices: 121285--121395 Score: 111
Period size: 29 Copynumber: 3.8 Consensus size: 30
121275 AAAGGTTCCT
* * *
121285 AAACTATCCAAAAATTACATTTTTACCCCC
1 AAACTTTCCAAAAATTCCATTTTTAACCCC
**
121315 AAACTTTCC-AAAATTCCATTTTTAACCTT
1 AAACTTTCCAAAAATTCCATTTTTAACCCC
* ** *
121344 GATTTTTCCAAAAATTACCA-TTTTAGCCCC
1 AAACTTTCCAAAAATT-CCATTTTTAACCCC
121374 AAAC-TTCCAAAAATTCCATTTT
1 AAACTTTCCAAAAATTCCATTTT
121396 GACGTATTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 7
0.75 0.16 0.08
Matches are distributed among these distances:
28 3 0.05
29 36 0.56
30 22 0.34
31 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (30 bp):
AAACTTTCCAAAAATTCCATTTTTAACCCC
Found at i:121368 original size:59 final size:58
Alignment explanation
Indices: 121291--121489 Score: 188
Period size: 59 Copynumber: 3.4 Consensus size: 58
121281 TCCTAAACTA
121291 TCCAAAAATTA-CATTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTTGATTTT
1 TCCAAAAATTACCA-TTTTACCCCCAAAC-TTCCAAAATTCCATTTTTAACCTTGATTTT
* * * **
121350 TCCAAAAATTACCATTTTAGCCCCAAACTTCCAAAAATTCCA-TTTTGACGTATTTTTTT
1 TCCAAAAATTACCATTTTACCCCCAAACTTCC-AAAATTCCATTTTTAACCT-TGATTTT
* * * * * * * **
121409 TACTAAAATTACTATTTTACCTCCGC-ACCTACAAAAATTCCATTTTTTACCCCGATTTT
1 TCCAAAAATTACCATTTTACC-CC-CAAACTTCCAAAATTCCATTTTTAACCTTGATTTT
*
121468 TCCAAAAAGTACCATTTTACCC
1 TCCAAAAATTACCATTTTACCC
121490 TCGAATGTCT
Statistics
Matches: 112, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
58 12 0.11
59 85 0.76
60 14 0.12
61 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (58 bp):
TCCAAAAATTACCATTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCTTGATTTT
Found at i:121988 original size:97 final size:98
Alignment explanation
Indices: 121800--121978 Score: 265
Period size: 97 Copynumber: 1.8 Consensus size: 98
121790 TTCATATAAA
121800 CTTTAAAATCGAGGCAATATTCTTTTATCTCGAGTTTTGAAAATTTGTACCTTAACTTAATAGGT
1 CTTTAAAATCGAGGCAATATTCTTTTATCTCGAGTTTTGAAAATTTGTACCTTAACTTAATAGGT
*
121865 GCAATTTTTCCTCAAATCAAAATAATCGAATAT
66 GCAACTTTTCCTCAAATCAAAATAATCGAATAT
* * *
121898 CTTT-AAATCGAGGCAATGTT-TCTTTATCTCTGA-TTTTGAAAATTTGTGCCTTAACTTACTAG
1 CTTTAAAATCGAGGCAATATTCT-TTTATCTC-GAGTTTTGAAAATTTGTACCTTAACTTAATAG
* *
121960 GTGCGACTTTTCTTCAAAT
64 GTGCAACTTTTCCTCAAAT
121979 TGAGATAATC
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
96 1 0.01
97 66 0.90
98 6 0.08
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (98 bp):
CTTTAAAATCGAGGCAATATTCTTTTATCTCGAGTTTTGAAAATTTGTACCTTAACTTAATAGGT
GCAACTTTTCCTCAAATCAAAATAATCGAATAT
Found at i:127847 original size:97 final size:97
Alignment explanation
Indices: 127680--128602 Score: 1353
Period size: 97 Copynumber: 9.5 Consensus size: 97
127670 CAGGTTTCAT
* * *
127680 TACCATGAAGACATCAAGGGAAAGGTTTAAGTCGTAATGGC-AGACCTAGTACCTCATAGACATG
1 TACCACGAAGACA-CAAGGGAAAGGTTTAAGTCGCAATGGCGA-ACCTAGTACCTCAGAGACATG
* * * *
127744 AAGGGAAAGATCTAAGCCGTAACGACAGATCTAG
64 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* * * *
127778 TACCACGAAGACACGAGGGAAAGGTTTAAGTCGCAGTGGAGAACCTAGTACCTTAGAGACATGAA
1 TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
* *
127843 GGGAAAGATCTAAGCCACAACGGCAGATCCAG
66 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* *
127875 TACCACGAAGACACGAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATAAA
1 TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
*
127940 GGGAAAGATCTAAGCTGCAACGGCGGATCCAG
66 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* * * *
127972 AACCGCAAAGATACAAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATG
1 TACCACGAAG--ACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATG
*
128037 AAGGGAAAGATCTAAGCCGTAACGGCGGATCCAG
64 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* * *
128071 TACCACGAGGACACAAGGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAAAGACATGAA
1 TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
* *
128136 GGGAAAGATCTAAGCCGCAACAGCGGATCCAA
66 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* * * *
128168 TACCATGAAGACACAAGGGAAAGGTTTAAGCCGCAATGGCGAATCTAGTACCTTAGAGACATGAA
1 TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
*
128233 GGGAAAGATCTAAGCCGCAACAGCGGATCCAG
66 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* * *
128265 TACCACGAAGGCACGAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATAAA
1 TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
* *
128330 GGGAAAAATCTAAGCCGCAACGGCGGATCTAG
66 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* * * *
128362 TACCGCGAATACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGACACATAAA
1 TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
128427 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
66 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* *
128459 TACCACGAAGACACAAAGGAAAGGTTTAAGTCGCAATGGCGAATCTAGTACCTCAGAGACATGAA
1 TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
* * *
128524 GGGAAAGATCTAAGTCGTAACAGCGGATCCAG
66 GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
* * * *
128556 TACCTCGAAGACACAAGAGGAAAGGTTTAACTCACAATAGCGAACCT
1 TACCACGAAGACACAAG-GGAAAGGTTTAAGTCGCAATGGCGAACCT
128603 TATACCCTAG
Statistics
Matches: 745, Mismatches: 76, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
97 619 0.83
98 38 0.05
99 88 0.12
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.15
Consensus pattern (97 bp):
TACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAA
GGGAAAGATCTAAGCCGCAACGGCGGATCCAG
Found at i:127994 original size:50 final size:49
Alignment explanation
Indices: 127832--128555 Score: 260
Period size: 49 Copynumber: 14.9 Consensus size: 49
127822 CTAGTACCTT
* ** * * *
127832 AGAGACATGAAGGGAAAGATCTAAGCCACAACGGCAGATCCAGTACCAC
1 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
** * * * * * *
127881 -GAAGACA-CGAGGGAAAGGTTTAAG-TCGCAATGGC-GAACCTAGTACCTC
1 AG-AGACATAAAGGGAAAGATCTAAGCT-GCAACGGCGGATCC-AGAACCGC
127929 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
1 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
* * * * * * *
127978 AAAGATACA-AAAGGGAAAGGTTTAAG-TCGCAATGGC-GAACCTAGTACCTC
1 --AGAGACATAAAGGGAAAGATCTAAGCT-GCAACGGCGGATCC-AGAACCGC
* * * * *
128028 AGAGACATGAAGGGAAAGATCTAAGCCGTAACGGCGGATCCAGTACCAC
1 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
* * * * * * * *
128077 -GAGGACA-CAAGGGAAAGGTTTAAG-TCGCAATGAC-GAACCTAGTACCTC
1 AGA-GACATAAAGGGAAAGATCTAAGCT-GCAACGGCGGATCC-AGAACCGC
* * * *
128125 AAAGACATGAAGGGAAAGATCTAAGCCGCAACAGCGGATCCA-ATA-C-C
1 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGA-ACCGC
* * * * * * * * **
128172 ATGAAGACA-CAAGGGAAAGGTTTAAGCCGCAATGGCGAATCTAGTACCTT
1 A-G-AGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
* * * * *
128222 AGAGACATGAAGGGAAAGATCTAAGCCGCAACAGCGGATCCAGTACCAC
1 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
* ** * * * * * *
128271 -GAAGGCA-CGAGGGAAAGGTTTAAG-TCGCAATGGC-GAACCTAGTACCTC
1 AG-AGACATAAAGGGAAAGATCTAAGCT-GCAACGGCGGATCC-AGAACCGC
* * * *
128319 AGAGACATAAAGGGAAAAATCTAAGCCGCAACGGCGGATCTAGTACCGC
1 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
* * * * * * * *
128368 -GAATACA-CAAGGGAAAGGTTTAAG-TCGCAATGGC-GAACCTAGTACCTC
1 AG-AGACATAAAGGGAAAGATCTAAGCT-GCAACGGCGGATCC-AGAACCGC
* * * *
128416 AGACACATAAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCAC
1 AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
* * * * * * * *
128465 -GAAGACACAAA-GGAAAGGTTTAAG-TCGCAATGGCGAATCTAGTACCTC
1 AG-AGACATAAAGGGAAAGATCTAAGCT-GCAACGGCGGATCCAGAACCGC
* * *
128513 AGAGACATGAAGGGAAAGATCTAAG-TCGTAACAGCGGATCCAG
1 AGAGACATAAAGGGAAAGATCTAAGCT-GCAACGGCGGATCCAG
128556 TACCTCGAAG
Statistics
Matches: 501, Mismatches: 128, Indels: 92
0.69 0.18 0.13
Matches are distributed among these distances:
47 17 0.03
48 204 0.41
49 225 0.45
50 49 0.10
51 6 0.01
ACGTcount: A:0.38, C:0.21, G:0.27, T:0.14
Consensus pattern (49 bp):
AGAGACATAAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGAACCGC
Found at i:129105 original size:6 final size:6
Alignment explanation
Indices: 129096--129182 Score: 72
Period size: 6 Copynumber: 14.8 Consensus size: 6
129086 GATTTATTTC
** * **
129096 TAAATT TAAATT T-TCTT TAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
** *
129143 TAAATT T-GTTT TAAATT TAAATT T-AGTT TAAATT TGAAAT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT T-AAAT
129183 AATTTTACAC
Statistics
Matches: 61, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
5 10 0.16
6 47 0.77
7 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (6 bp):
TAAATT
Found at i:129141 original size:41 final size:41
Alignment explanation
Indices: 129082--129167 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
129072 TTAGATTGAT
* *
129082 TTTAGATTTATTTCTAAATTTAAATTT-TCTTTAAATTTAAA
1 TTTAAATTCATTTCTAAATTTAAATTTGT-TTTAAATTTAAA
*
129123 TTTAAATTCATTTTTAAATTTAAATTTGTTTTAAATTTAAA
1 TTTAAATTCATTTCTAAATTTAAATTTGTTTTAAATTTAAA
129164 TTTA
1 TTTA
129168 GTTTAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 40 0.98
42 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.57
Consensus pattern (41 bp):
TTTAAATTCATTTCTAAATTTAAATTTGTTTTAAATTTAAA
Found at i:129143 original size:24 final size:23
Alignment explanation
Indices: 129096--129167 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
129086 GATTTATTTC
129096 TAAATTTAAATTTTCTTTAAATT
1 TAAATTTAAATTTTCTTTAAATT
*
129119 TAAATTTAAA--TTCATT---TT
1 TAAATTTAAATTTTCTTTAAATT
129137 TAAATTTAAATTTGT-TTTAAATT
1 TAAATTTAAATTT-TCTTTAAATT
129160 TAAATTTA
1 TAAATTTA
129168 GTTTAAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
18 12 0.29
20 3 0.07
21 6 0.15
23 20 0.49
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (23 bp):
TAAATTTAAATTTTCTTTAAATT
Found at i:129189 original size:17 final size:17
Alignment explanation
Indices: 129060--129189 Score: 82
Period size: 17 Copynumber: 7.5 Consensus size: 17
129050 GGTCAAACTT
* *
129060 TTAATTTTAAGTTTAGA
1 TTAATTTTAAATTTAAA
* * **
129077 TTGATTTTAGATTTATT
1 TTAATTTTAAATTTAAA
* ***
129094 TCTAAATTTAAATTTTCT
1 T-TAATTTTAAATTTAAA
*
129112 TTAAATTTAAATTTAAA
1 TTAATTTTAAATTTAAA
*
129129 TTCATTTTTAAATTTAAA
1 TT-AATTTTAAATTTAAA
**
129147 TTTGTTTTAAATTTAAA
1 TTAATTTTAAATTTAAA
* *
129164 TTTAGTTTAAATTTGAAA
1 TTAATTTTAAATTT-AAA
129182 -TAATTTTA
1 TTAATTTTA
129190 CACTTAACTT
Statistics
Matches: 89, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
17 59 0.66
18 30 0.34
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.55
Consensus pattern (17 bp):
TTAATTTTAAATTTAAA
Found at i:129925 original size:9 final size:9
Alignment explanation
Indices: 129911--129945 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
129901 AATGTTAATT
129911 ATAATATTA
1 ATAATATTA
129920 ATAATATTA
1 ATAATATTA
129929 ATAAATAATTA
1 AT-AAT-ATTA
129940 ATAATA
1 ATAATA
129946 AATAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 12 0.50
10 6 0.25
11 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAATATTA
Found at i:131036 original size:29 final size:28
Alignment explanation
Indices: 130985--131149 Score: 107
Period size: 29 Copynumber: 5.6 Consensus size: 28
130975 AAAGGTCCCT
* *
130985 AAACTATCTAAAAATTACATTTTTACCCCC
1 AAACTTTC-AAAAATTCCATTTTTA-CCCC
* * *
131015 AAACTTTCTAAAATTCCATTTTTGTCTCC
1 AAACTTTCAAAAATTCCATTTTT-ACCCC
* *
131044 AAATTTTTCAAAAAATTACATTTTTACCCTC
1 AAA-CTTTC-AAAAATTCCATTTTTACCC-C
* * * * *
131075 GAACTTTCCAAAATTTCATTTTCGACCCT
1 AAACTTTCAAAAATTCCATTTT-TACCCC
** *
131104 AATTTTTCCAAAATTACCA-TTTTACCCC
1 AAACTTTCAAAAATT-CCATTTTTACCCC
*
131132 AAACTTCCAAAAATTCCA
1 AAACTTTCAAAAATTCCA
131150 AATTGACCTT
Statistics
Matches: 103, Mismatches: 26, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
27 3 0.03
28 15 0.15
29 46 0.45
30 23 0.22
31 16 0.16
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (28 bp):
AAACTTTCAAAAATTCCATTTTTACCCC
Found at i:131088 original size:60 final size:57
Alignment explanation
Indices: 130994--131360 Score: 200
Period size: 58 Copynumber: 6.3 Consensus size: 57
130984 TAAACTATCT
* * *
130994 AAAAATTACATTTTTACCCCCAAACTTTCTAAAATTCCATTTTTGTCTCCAAATTTTTC
1 AAAAATTACATTTTTA-CCCCAAACTTTCCAAAATTCCATTTTCGAC-CCAAATTTTTC
* * *
131053 AAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTTCATTTTCGACCCTAATTTTTC
1 -AAAAATTACATTTTTACCC-CAAACTTTCCAAAATTCCATTTTCGACCCAAATTTTTC
* ** ***
131112 CAAAATTACCA-TTTTACCCCAAAC-TTCCAAAAATTCCAAATT-GACCTTGATTTTTCC
1 AAAAATTA-CATTTTTACCCCAAACTTTCC-AAAATTCCATTTTCGACCCAAATTTTT-C
** * *
131169 AAAAATTACCA-TTTTACCCTTAACCTTCCAAAAATTCCATTTT-GACCC--CTTTTTC
1 AAAAATTA-CATTTTTACCCCAAACTTTCC-AAAATTCCATTTTCGACCCAAATTTTTC
* * * * * ** * *
131224 CAAAA-T-CATTATTTTACCTCAGAAC-CTCTAAAAATTCCATTTTTGACCCCGATTAGTCC
1 AAAAATTACA-T-TTTTACCCCA-AACTTTC-CAAAATTCCATTTTCGACCCAAATT-TTTC
* * * **
131283 AAAAATTACCA-TTTTACCCTTAAACTCTCCAATATTCCATTTT-GACCCTGATTTTTC
1 AAAAATTA-CATTTTTACCC-CAAACTTTCCAAAATTCCATTTTCGACCCAAATTTTTC
* *
131340 TAAAAAGTACCATTTTAACCC
1 -AAAAATTA-CATTTTTACCC
131361 TAAATGTCTA
Statistics
Matches: 247, Mismatches: 39, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
52 2 0.01
54 1 0.00
55 27 0.11
56 28 0.11
57 38 0.15
58 56 0.23
59 50 0.20
60 43 0.17
62 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (57 bp):
AAAAATTACATTTTTACCCCAAACTTTCCAAAATTCCATTTTCGACCCAAATTTTTC
Found at i:131197 original size:29 final size:28
Alignment explanation
Indices: 131109--131331 Score: 90
Period size: 29 Copynumber: 7.8 Consensus size: 28
131099 ACCCTAATTT
*
131109 TTCC-AAAATTACCATTTTACCC-CAAAC
1 TTCCAAAAATT-CCATTTTACCCTTAAAC
* * ***
131136 TTCCAAAAATTCCAAATTGA-CCTTGATTT
1 TTCCAAAAATTCC-ATTTTACCCTT-AAAC
*
131165 TTCCAAAAATTACCATTTTACCCTTAACC
1 TTCCAAAAATT-CCATTTTACCCTTAAAC
*
131194 TTCCAAAAATTCCATTTTGACCCCTT---T
1 TTCCAAAAATTCCATTTT-A-CCCTTAAAC
*
131221 TTCCAAAATCATT--ATTTTA-CCTCAGAAC
1 TTCCAAAA--ATTCCATTTTACCCTTA-AAC
* * ** *
131249 CTCTAAAAATTCCATTTTTGACCCCGATTA-
1 TTCCAAAAATTCCA-TTTT-ACCCTTA-AAC
*
131279 GTCCAAAAATTACCATTTTACCCTTAAAC
1 TTCCAAAAATT-CCATTTTACCCTTAAAC
*
131308 TCTCC-AATATTCCATTTTGACCCT
1 T-TCCAAAAATTCCATTTT-ACCCT
131332 GATTTTTCTA
Statistics
Matches: 146, Mismatches: 27, Indels: 44
0.67 0.12 0.20
Matches are distributed among these distances:
24 3 0.02
26 4 0.03
27 21 0.14
28 32 0.22
29 51 0.35
30 28 0.19
31 7 0.05
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (28 bp):
TTCCAAAAATTCCATTTTACCCTTAAAC
Found at i:131214 original size:58 final size:58
Alignment explanation
Indices: 131046--131361 Score: 290
Period size: 58 Copynumber: 5.5 Consensus size: 58
131036 TTGTCTCCAA
* * * *
131046 ATTTTTCAAAAAATTA-CATTTTTACCCTCGAACTTTCC-AAAATTTCATTTTCGACCCTA
1 ATTTTTCCAAAAATTACCA-TTTTACCCT-GAACCTTCCAAAAATTCCATTTT-GACCCTG
* * ** *
131105 ATTTTTCC-AAAATTACCATTTTACCC-CAAACTTCCAAAAATTCCAAATTGACCTTG
1 ATTTTTCCAAAAATTACCATTTTACCCTGAACCTTCCAAAAATTCCATTTTGACCCTG
*
131161 ATTTTTCCAAAAATTACCATTTTACCCTTAACCTTCCAAAAATTCCATTTTGACCC--
1 ATTTTTCCAAAAATTACCATTTTACCCTGAACCTTCCAAAAATTCCATTTTGACCCTG
* * ** * * *
131217 CTTTTTCC-AAAATCATTATTTTACCTCAGAACC-TCTAAAAATTCCATTTTTGACCCCG
1 ATTTTTCCAAAAATTACCATTTTACC-CTGAACCTTCCAAAAATTCCA-TTTTGACCCTG
** * * *
131275 ATTAGTCCAAAAATTACCATTTTACCCTTAAACTCTCC-AATATTCCATTTTGACCCTG
1 ATTTTTCCAAAAATTACCATTTTACCCTGAACCT-TCCAAAAATTCCATTTTGACCCTG
* *
131333 ATTTTTCTAAAAAGTACCATTTTAACCCT
1 ATTTTTCCAAAAATTACCATTTT-ACCCT
131362 AAATGTCTAA
Statistics
Matches: 208, Mismatches: 37, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
55 26 0.12
56 40 0.19
57 28 0.13
58 76 0.37
59 36 0.17
60 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (58 bp):
ATTTTTCCAAAAATTACCATTTTACCCTGAACCTTCCAAAAATTCCATTTTGACCCTG
Found at i:131290 original size:114 final size:112
Alignment explanation
Indices: 131054--131344 Score: 307
Period size: 114 Copynumber: 2.5 Consensus size: 112
131044 AAATTTTTCA
* * *
131054 AAAAATTA-CATTTTTACCCTCGAACTTTCCAAAATTTCATTTTCGACCCTAATTTTTCCAAAAT
1 AAAAATTACCA-TTTTACCCT-TAACCTTCCAAAATTCCATTTT-GACCC-AATTTTTCCAAAAT
* * ** **
131118 TACCATTTTACCCCAAACTTCCAAAAATTCCAAATTGACCTTGATTTTTCC
62 CACCATTTTACCCCAAACCTCCAAAAATTCCAAATTGACCCCGATTAGTCC
* *
131169 AAAAATTACCATTTTACCCTTAACCTTCCAAAAATTCCATTTTGACCC-CTTTTTCCAAAATCAT
1 AAAAATTACCATTTTACCCTTAACCTTCC-AAAATTCCATTTTGACCCAATTTTTCCAAAATCAC
* * * **
131233 TATTTTACCTCAGAACCTCTAAAAATTCCATTTTTGACCCCGATTAGTCC
65 CATTTTACCCCA-AACCTCCAAAAATTCCA-AATTGACCCCGATTAGTCC
* * * *
131283 AAAAATTACCATTTTACCCTTAAACTCTCCAATATTCCATTTTGACCCTGATTTTTCTAAAA
1 AAAAATTACCATTTTACCCTTAACCT-TCCAAAATTCCATTTTGACCC-AATTTTTCCAAAA
131345 AGTACCATTT
Statistics
Matches: 149, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
112 23 0.15
113 15 0.10
114 67 0.45
115 32 0.21
116 12 0.08
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (112 bp):
AAAAATTACCATTTTACCCTTAACCTTCCAAAATTCCATTTTGACCCAATTTTTCCAAAATCACC
ATTTTACCCCAAACCTCCAAAAATTCCAAATTGACCCCGATTAGTCC
Found at i:131724 original size:17 final size:17
Alignment explanation
Indices: 131702--131762 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
131692 ATTTGTTTAA
131702 AAATTTAAATTTATCTT
1 AAATTTAAATTTATCTT
**
131719 AAATTTAAATTTAAGTT
1 AAATTTAAATTTATCTT
* *
131736 AAGTTTAAATTTATTTT
1 AAATTTAAATTTATCTT
131753 CAAATTTAAA
1 -AAATTTAAA
131763 ATAAATAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 29 0.78
18 8 0.22
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
AAATTTAAATTTATCTT
Found at i:131774 original size:34 final size:34
Alignment explanation
Indices: 131705--131779 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
131695 TGTTTAAAAA
* * *
131705 TTTAAATTTATCTTAAATTTAAATTTAAGTTAAG
1 TTTAAATTTATCTTAAATTTAAATATAAATAAAG
*
131739 TTTAAATTTATTTTCAAATTTAAA-ATAAATAAAG
1 TTTAAATTTATCTT-AAATTTAAATATAAATAAAG
*
131773 TTCAAAT
1 TTTAAAT
131780 ACAAAATGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 26 0.74
35 9 0.26
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (34 bp):
TTTAAATTTATCTTAAATTTAAATATAAATAAAG
Found at i:132527 original size:25 final size:24
Alignment explanation
Indices: 132482--132530 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
132472 ATAAAGGCAT
*
132482 TAATAATAAATATTTTATTAATAA
1 TAATAATAAATATTTCATTAATAA
*
132506 TAATAATTAATAATTTCATTAATAA
1 TAATAATAAAT-ATTTCATTAATAA
132531 CAAAAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATAATAAATATTTCATTAATAA
Found at i:133572 original size:29 final size:29
Alignment explanation
Indices: 133521--133930 Score: 416
Period size: 30 Copynumber: 13.8 Consensus size: 29
133511 GAGGTCCCTA
* *
133521 AACTATCCAAAAATTCCACTTTTACCCTCG
1 AACT-TCCAAAAATCCCATTTTTACCCTCG
* * *
133551 AACTTCTAATAATCCCATTTTTAACCC-CAA
1 AACTTCCAAAAATCCCATTTTT-ACCCTC-G
* *
133581 AACTTCCAAAAATTCCATTTTTACCCTCA
1 AACTTCCAAAAATCCCATTTTTACCCTCG
* *
133610 AACTTCCAAAAATCCCATTTTGACCC-CAA
1 AACTTCCAAAAATCCCATTTTTACCCTC-G
* * * *
133639 AACTTCTAAAAATTCCATTTTTTTTACCCCCA
1 AACTTCCAAAAATCCCA---TTTTTACCCTCG
*
133671 AACTTCCAAAAATCCCATTTTTGA-CCTCAA
1 AACTTCCAAAAATCCCATTTTT-ACCCTC-G
* *
133701 AACTTCCAAAAATCCCATTTTTAACCTCAA
1 AACTTCCAAAAATCCCATTTTTACCCTC-G
*
133731 AACTTCCAAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATCCCATTTTTACCCTCG
*
133760 ATCTTCCAAAAATCCCATTTTTTACCC-CG
1 AACTTCCAAAAATCCCA-TTTTTACCCTCG
* *
133789 AAACTTCCAAAAATTCCATTTTTACCCCCG
1 -AACTTCCAAAAATCCCATTTTTACCCTCG
*
133819 AACTTCCAAAAATCCCATTTTTGA-CCTTG
1 AACTTCCAAAAATCCCATTTTT-ACCCTCG
* *
133848 AAACTTCCAAAAATTCCATTTTTTACCCCCG
1 -AACTTCCAAAAATCCCA-TTTTTACCCTCG
*
133879 AACTTCCAAAAATCCTATTTTTTACCCTCG
1 AACTTCCAAAAATCCCA-TTTTTACCCTCG
*
133909 AACTTCCAAAAATCCCGTTTTT
1 AACTTCCAAAAATCCCATTTTT
133931 GACTTCCAAA
Statistics
Matches: 328, Mismatches: 34, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.00
29 124 0.38
30 170 0.52
31 8 0.02
32 24 0.07
33 1 0.00
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (29 bp):
AACTTCCAAAAATCCCATTTTTACCCTCG
Found at i:133624 original size:59 final size:58
Alignment explanation
Indices: 133520--133930 Score: 450
Period size: 59 Copynumber: 6.9 Consensus size: 58
133510 GGAGGTCCCT
* * * *
133520 AAACTATCCAAAAATTCCACTTTTACCCTCGAACTTCTAATAATCCCATTTTTAACCCCA
1 AAACT-TCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTT-ACCCCA
*
133580 AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTACCCCA
* * *
133638 AAACTTCTAAAAATTCCATTTTTTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCCA---TTTTTACCCTCAAACTTCCAAAAATCCCATTTTT-ACCCCA
* * *
133700 AAACTTCCAAAAATCCCATTTTTAACCTCAAAACTTCCAAAAATTCCATTTTTACCCTC-
1 AAACTTCCAAAAATTCCATTTTTACCCTC-AAACTTCCAAAAATCCCATTTTTACCC-CA
* * * * *
133759 GATCTTCCAAAAATCCCATTTTTTACCC-CGAAACTTCCAAAAATTCCATTTTTACCCCC
1 AAACTTCCAAAAATTCCA-TTTTTACCCTC-AAACTTCCAAAAATCCCATTTTTACCCCA
* * * * * *
133818 GAACTTCCAAAAATCCCATTTTTGACCTTGAAACTTCCAAAAATTCCATTTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCAAACTTCCAAAAATCCCA-TTTTTACCCCA
* * *
133878 GAACTTCCAAAAA-TCCTATTTTTTACCCTCGAACTTCCAAAAATCCCGTTTTT
1 AAACTTCCAAAAATTCC-A-TTTTTACCCTCAAACTTCCAAAAATCCCATTTTT
133931 GACTTCCAAA
Statistics
Matches: 310, Mismatches: 28, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
58 29 0.09
59 143 0.46
60 80 0.26
61 37 0.12
62 21 0.07
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.33
Consensus pattern (58 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTACCCCA
Done.