Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 23 of 105
Found at i:4703433 original size:306 final size:304
Alignment explanation
Indices: 4702560--4703442 Score: 774
Period size: 302 Copynumber: 2.9 Consensus size: 304
4702550 GCCTTAAATC
* ** * * * ** *
4702560 ATCCCTAACAAAATGTTATTGAAAGCGTTTTTAACTAAAACTGCCTTCAATAATCCTACCTAAAA
1 ATCCCTAACAAAATGTTATTGAAGGTATTTTTGACCAAAAATATCTTCAATAATCCCACCTAAAA
* * * ** * * * *
4702625 ATATATTGTGT-GAAATATTAAAGGCGTCTTGAGAAAAAAATGCCTTCAAGAATCCATTCCAAAT
66 ATTTATTGTGTAG-AATATTAAAAGCGTTTTGAGCCAAAAATGCCTTTAAAAATCCATTCTAACT
* *** * * ** *
4702689 ATTT-TGTATGGATTATTGAAGGTATTTTTGACAAAAATCACCTTCAATAAT-CTCTATTAAAAA
130 -TTTGTGTATAGATTATTGAAAACATTTTT-AAAAAAATCACTTTCAATAATAC-AAACTAAAAA
* * * * * * * *
4702752 TTTATTGATTGAATTATTAAAGGC-ACTTTC-ACTCAAAAACACCTTCAAGAATCTATTCCATAT
192 TTAATTGAATGGATTATTGAAGGCGA-GTTCAAC-AAAAAACACCTTCAAGAATCAATTACATAT
* * * * *
4702815 TTTTCCTAT-G--GATTAAGG--GTATATTT-AG-TAAGAAAATGCCTTGAATA
255 TTTTCCTATAGATTATTAAGGACGT-T-TTTCTGCT--GGAAACGCATTGAATA
* * *
4702862 ATCTCTAACAAAATGTTATTGAAGGTATTTTTTACCAAAACTATCTTCAATAATCCCACCTAAAA
1 ATCCCTAACAAAATGTTATTGAAGGTATTTTTGACCAAAAATATCTTCAATAATCCCACCTAAAA
* **
4702927 ATTTATTGTGTAGAATATTAAAAGCGTTTTGAGCTAAAAATGTTTTTAAAAATCCATTCTAACTT
66 ATTTATTGTGTAGAATATTAAAAGCGTTTTGAGCCAAAAATGCCTTTAAAAATCCATTCTAACTT
* * *
4702992 TTTTGTATGGATTATTGAAAACATTTTTAAAAAAATCACTTTCAATAATACTAACTAAAAATTAA
131 TTGTGTATAGATTATTGAAAACATTTTTAAAAAAATCACTTTCAATAATACAAACTAAAAATTAA
** * ** *
4703057 TTGAATGGATTATTGAAGGCGTTTTCAACCAAAAACACCTTCAAGAATCCGTTCCATATTTTTCC
196 TTGAATGGATTATTGAAGGCGAGTTCAACAAAAAACACCTTCAAGAATCAATTACATATTTTTCC
4703122 TATAGATTATTAAGGACGTTTTTCTGCTGGAAACGCATTGAATA
261 TATAGATTATTAAGGACGTTTTTCTGCTGGAAACGCATTGAATA
* * *
4703166 ATCCCTAACAAAATGTTATTGAAGGTATTTTTGA-TAAAAAT-TGCTTTCAATAATCCGACCATT
1 ATCCCTAACAAAATGTTATTGAAGGTATTTTTGACCAAAAATAT-C-TTCAATAATCCCACC-TA
* * * * * * *
4703229 CAAATTTATTGTGT-GGATGATTAAAGGTGTTTTGAGCCAAAAATGCCTTTAAGAATTCGTT-TC
63 AAAATTTATTGTGTAGAAT-ATTAAAAGCGTTTTGAGCCAAAAATGCCTTTAAAAATCCATTCT-
* * * *
4703292 AACTTTTGTGTATAGATTATTGAAAGCGTTTTTGATAAAAATCACCTTT-AATAATCCAAACTAA
126 AACTTTTGTGTATAGATTATTGAAAACATTTTT-AAAAAAATCA-CTTTCAATAATACAAACTAA
* * * *** ** * *
4703356 AAATTTATTGATTGGATTATTGAAGGTGAGTTCGGTAAAAAATGCCTTCAATAATCAATTATATA
189 AAATTAATTGAATGGATTATTGAAGGCGAGTTCAACAAAAAACACCTTCAAGAATCAATTACATA
*
4703421 TTTTTTCTATAGATTATTAAGG
254 TTTTTCCTATAGATTATTAAGG
4703443 GCATTTCTCT
Statistics
Matches: 482, Mismatches: 80, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
301 90 0.19
302 134 0.28
303 7 0.01
304 73 0.15
305 79 0.16
306 95 0.20
307 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (304 bp):
ATCCCTAACAAAATGTTATTGAAGGTATTTTTGACCAAAAATATCTTCAATAATCCCACCTAAAA
ATTTATTGTGTAGAATATTAAAAGCGTTTTGAGCCAAAAATGCCTTTAAAAATCCATTCTAACTT
TTGTGTATAGATTATTGAAAACATTTTTAAAAAAATCACTTTCAATAATACAAACTAAAAATTAA
TTGAATGGATTATTGAAGGCGAGTTCAACAAAAAACACCTTCAAGAATCAATTACATATTTTTCC
TATAGATTATTAAGGACGTTTTTCTGCTGGAAACGCATTGAATA
Found at i:4709009 original size:17 final size:18
Alignment explanation
Indices: 4708958--4709009 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
4708948 TTTAAGGTTA
*
4708958 AAAAGAGATAATATAAAAT
1 AAAAGATATAATA-AAAAT
* *
4708977 AAAAGATAT-TTTAAAAT
1 AAAAGATATAATAAAAAT
4708994 AAAA-ATATAATAAAAA
1 AAAAGATATAATAAAAA
4709010 AATTATTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.15
17 14 0.52
18 1 0.04
19 8 0.30
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
AAAAGATATAATAAAAAT
Found at i:4710157 original size:22 final size:23
Alignment explanation
Indices: 4710132--4710197 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
4710122 AATTCATATA
4710132 TATAAAAATTAAAAATTAA-AAT
1 TATAAAAATTAAAAATTAAGAAT
*
4710154 TATATATATATTAAAAA-TAAGAAT
1 TATA-A-AAATTAAAAATTAAGAAT
* *
4710178 TATATAAAGTAAAAATTAAG
1 TATAAAAATTAAAAATTAAG
4710198 TTTAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
22 12 0.33
23 8 0.22
24 16 0.44
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAAAAATTAAAAATTAAGAAT
Found at i:4710157 original size:24 final size:24
Alignment explanation
Indices: 4710130--4710185 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
4710120 GTAATTCATA
4710130 TATATAAAAATTAAAAATTAA-AAT
1 TATATAAAAATTAAAAA-TAAGAAT
* *
4710154 TATATATATATTAAAAATAAGAAT
1 TATATAAAAATTAAAAATAAGAAT
4710178 TATATAAA
1 TATATAAA
4710186 GTAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TATATAAAAATTAAAAATAAGAAT
Found at i:4710522 original size:2 final size:2
Alignment explanation
Indices: 4710511--4710541 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4710501 TTTTGTATGC
4710511 AT AT -T 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
4710542 TACAACTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4720446 original size:33 final size:33
Alignment explanation
Indices: 4720399--4720465 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
4720389 GAAATATGTG
*
4720399 TAGCCATAAGGAGAAATATTATTATACATTAAA
1 TAGCCATAAAGAGAAATATTATTATACATTAAA
* *
4720432 TAGCCTTAAAGAGAAATATTATTTTACATTAAA
1 TAGCCATAAAGAGAAATATTATTATACATTAAA
4720465 T
1 T
4720466 TTAAAACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.34
Consensus pattern (33 bp):
TAGCCATAAAGAGAAATATTATTATACATTAAA
Found at i:4722278 original size:24 final size:24
Alignment explanation
Indices: 4722208--4722272 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
4722198 ACATGTTTAA
*** *
4722208 ATATGGTTAACTTGTTTAGACACG
1 ATATGGTTAACCCATTTATACACG
4722232 ATATGGTTAACCCATTTATACACG
1 ATATGGTTAACCCATTTATACACG
4722256 ATATGGTTAACCCATTT
1 ATATGGTTAACCCATTT
4722273 CAACACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (24 bp):
ATATGGTTAACCCATTTATACACG
Found at i:4723227 original size:5 final size:5
Alignment explanation
Indices: 4723217--4723242 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4723207 AATATAGGTG
4723217 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
4723243 TTTTTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4724259 original size:10 final size:10
Alignment explanation
Indices: 4724244--4724273 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4724234 ATCGAGCTTT
4724244 TATATTTTAA
1 TATATTTTAA
4724254 TATATTTTAA
1 TATATTTTAA
4724264 T-TATTTTAA
1 TATATTTTAA
4724273 T
1 T
4724274 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:4730099 original size:4 final size:4
Alignment explanation
Indices: 4730090--4730116 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4730080 AAACACAATC
4730090 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
4730117 TATTTGCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:4731416 original size:22 final size:21
Alignment explanation
Indices: 4731375--4731415 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4731365 AAGTTTAGGG
4731375 TTTATATCTAAATTCTAAAAT
1 TTTATATCTAAATTCTAAAAT
*
4731396 TTTATATTTTAAATT-TAAAA
1 TTTATA-TCTAAATTCTAAAA
4731416 AAAAAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATCTAAATTCTAAAAT
Found at i:4731527 original size:20 final size:21
Alignment explanation
Indices: 4731491--4731529 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4731481 TTTTAATATA
*
4731491 TTAAAATTTTTTGTTTTTATG
1 TTAAAATTTTATGTTTTTATG
4731512 TTAAAATTTTAT-TTTTTA
1 TTAAAATTTTATGTTTTTA
4731530 AAAATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTAAAATTTTATGTTTTTATG
Found at i:4731889 original size:5 final size:5
Alignment explanation
Indices: 4731879--4731904 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4731869 AGTTAATTAA
4731879 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
4731905 TCATTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:4732864 original size:23 final size:23
Alignment explanation
Indices: 4732815--4732865 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4732805 TAAAATATTT
* ** *
4732815 TTATCTTTTTAATTAATTTTTAC
1 TTATTTTTTTAATTAATTTAAAA
*
4732838 TTATTTTTTTATTTAATTTAAAA
1 TTATTTTTTTAATTAATTTAAAA
4732861 TTATT
1 TTATT
4732866 AATTTGCAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATTTTTTTAATTAATTTAAAA
Found at i:4734377 original size:58 final size:57
Alignment explanation
Indices: 4734194--4734528 Score: 534
Period size: 58 Copynumber: 5.8 Consensus size: 57
4734184 TTTTTTGTAG
4734194 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTC-AA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGGAAATTT--ATTTCTAA
4734253 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTT-GAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGGAAATTTATTTCTAA
*
4734309 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTTTTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAA
* *
4734367 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAATTTATTTCTAA
4734425 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
4734481 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCC--AAAA-ATATTTTTTTGGAA
4734529 TTTTTTATTT
Statistics
Matches: 260, Mismatches: 6, Indels: 19
0.91 0.02 0.07
Matches are distributed among these distances:
55 11 0.04
56 76 0.29
57 21 0.08
58 102 0.39
59 40 0.15
60 10 0.04
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:4734399 original size:114 final size:114
Alignment explanation
Indices: 4734194--4734523 Score: 551
Period size: 114 Copynumber: 2.9 Consensus size: 114
4734184 TTTTTTGTAG
4734194 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTC-AAGGAAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGGAAATTT--ATTTCTAAGGAAA
4734258 ATTGATACTTTCAACTTTT-CCTCAAAAA-ATTTTTTTGAAATTTATTTCTAA
63 ATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGAAATTTATTTCTAA
*
4734309 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTTTTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAAGGAAAAT
*
4734374 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGA
65 TGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGAAATTTATTTCTAA
4734425 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATT
4734489 GATACTTTCAACTTTTCCCTAAAAATATATTTTTT
66 GATACTTTCAACTTTTCCCTAAAAATAT-TTTTTT
4734524 TGGAATTTTT
Statistics
Matches: 206, Mismatches: 3, Indels: 13
0.93 0.01 0.06
Matches are distributed among these distances:
113 5 0.02
114 103 0.50
115 43 0.21
116 55 0.27
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (114 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:4734486 original size:172 final size:173
Alignment explanation
Indices: 4734183--4734534 Score: 586
Period size: 172 Copynumber: 2.0 Consensus size: 173
4734173 AAAGAATGAT
* *
4734183 TTTTTTTGTAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGAT
1 TTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTC-AT
*
4734248 TTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAATTTATTTCTAAGGAA
65 TTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTGGAAATTTATTTCTAAGGAA
4734313 AATTGATACTTTCAACTTTTCCC-AAAAATAT-TTTTTTTGGAAA
130 AATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGG-AA
* *
4734356 TTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTT-ATT
1 TTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCATT
*
4734420 TCTGAGGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGGAAATTTATTTCTAAGGA
66 TC-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTGGAAATTTATTTCTAAGGA
4734484 AAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA
129 AAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA
4734529 TTTTTT
1 TTTTTT
4734535 ATTTTTATTT
Statistics
Matches: 169, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
171 11 0.07
172 76 0.45
173 73 0.43
174 9 0.05
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (173 bp):
TTTTTTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCATT
TCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTGGAAATTTATTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA
Found at i:4734634 original size:24 final size:24
Alignment explanation
Indices: 4734600--4734646 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4734590 AACCTAATCT
* * *
4734600 AATAAATAAAAAATAAAATAAACA
1 AATAAACAAAAAAAAAAAAAAACA
4734624 AATAAACAAAAAAAAAAAAAAAC
1 AATAAACAAAAAAAAAAAAAAAC
4734647 CTGGAGCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (24 bp):
AATAAACAAAAAAAAAAAAAAACA
Found at i:4734993 original size:20 final size:20
Alignment explanation
Indices: 4734968--4735005 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4734958 GAACACCGGT
*
4734968 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
4734988 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
4735006 CACCGGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:4735011 original size:19 final size:20
Alignment explanation
Indices: 4734969--4735013 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4734959 AACACCGGTG
* *
4734969 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
4734989 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
4735008 CCGGAA
1 CCGGAA
4735014 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:4735104 original size:31 final size:31
Alignment explanation
Indices: 4735066--4735136 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
4735056 ACTGGGCAGG
* ** *
4735066 TCGCCGGAAACTTCAATGTTGGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
4735097 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
4735128 TCGCCGGAA
1 TCGCCGGAA
4735137 TCTGGAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAACTTCGCCGGAATTT
Found at i:4735916 original size:1 final size:1
Alignment explanation
Indices: 4735910--4735999 Score: 90
Period size: 1 Copynumber: 90.0 Consensus size: 1
4735900 CAACTCAACA
** ** * * * *
4735910 TTTTTTTTGGTTTTTTTTTTAATTTTTGTTTTTTGTTTTTTTTTTTGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
4735975 GTTTTTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4736000 ACCGAAGCTC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:4735937 original size:19 final size:18
Alignment explanation
Indices: 4735910--4735999 Score: 119
Period size: 19 Copynumber: 4.9 Consensus size: 18
4735900 CAACTCAACA
*
4735910 TTTTTTTTGGTTTTTTTT
1 TTTTTTTTTGTTTTTTTT
**
4735928 TTAATTTTTGTTTTTTGTT
1 TTTTTTTTTGTTTTTT-TT
4735947 TTTTTTTTTGTTTTTTTT
1 TTTTTTTTTGTTTTTTTT
4735965 GTTTTTTTTTGTTTTTTTGT
1 -TTTTTTTTTGTTTTTTT-T
4735985 TTTTTTTTT-TTTTTT
1 TTTTTTTTTGTTTTTT
4736000 ACCGAAGCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
18 21 0.33
19 42 0.66
20 1 0.02
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTTTT
Found at i:4735962 original size:38 final size:39
Alignment explanation
Indices: 4735910--4735999 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
4735900 CAACTCAACA
* *
4735910 TTTTTTTTGGTTTTTTTT-TTAATTTTTG-TTTTTTGTT
1 TTTTTTTTTGTTTTTTTTGTTTATTTTTGTTTTTTTGTT
*
4735947 TTTTTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTGTT
1 TTTTTTTTTGTTTTTTTTGTTTATTTTTGTTTTTTTGTT
4735986 TTTTTTTTT-TTTTT
1 TTTTTTTTTGTTTTT
4736000 ACCGAAGCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
37 17 0.35
38 13 0.27
39 18 0.38
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (39 bp):
TTTTTTTTTGTTTTTTTTGTTTATTTTTGTTTTTTTGTT
Found at i:4736069 original size:41 final size:42
Alignment explanation
Indices: 4736006--4736410 Score: 648
Period size: 41 Copynumber: 9.8 Consensus size: 42
4735996 TTTTACCGAA
4736006 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
* *
4736048 GCTCCTCT-AACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
*
4736089 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
4736131 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
*
4736172 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
*
4736213 GCTCCTCTAAACAGAGGTACCACGACTTT-GAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
*
4736254 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
* *
4736295 GCTCCTCTCAACAGAGGTACCACGACTTTTGG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAAATAAATT
*
4736337 GCTCCTCTAAACAGAGGCACCATGACTTTGG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
4736378 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAA
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAA
4736411 GTAAATACTC
Statistics
Matches: 342, Mismatches: 16, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.01
40 7 0.02
41 228 0.67
42 104 0.30
43 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
Found at i:4736164 original size:83 final size:83
Alignment explanation
Indices: 4736006--4736394 Score: 678
Period size: 83 Copynumber: 4.7 Consensus size: 83
4735996 TTTTACCGAA
*
4736006 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCT-AACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
*
4736070 GACTTTGGAAAAGTAAATT
66 GACTTT-GAAAAATAAATT
*
4736089 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
4736154 GACTTTGAAAAATAAATT
66 GACTTTGAAAAATAAATT
4736172 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
4736236 GACTTTGAAAAATAAATT
66 GACTTTGAAAAATAAATT
*
4736254 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
*
4736318 GACTTTTGGAAAATAAATT
66 GAC-TTTGAAAAATAAATT
*
4736337 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
4736395 CAACGAACTT
Statistics
Matches: 295, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
82 118 0.40
83 153 0.52
84 24 0.08
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
GACTTTGAAAAATAAATT
Found at i:4736228 original size:124 final size:123
Alignment explanation
Indices: 4736006--4736396 Score: 678
Period size: 124 Copynumber: 3.2 Consensus size: 123
4735996 TTTTACCGAA
4736006 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGCTCCTCTAACAGAGGTACCACG
4736071 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
65 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
*
4736131 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCT-AACAGAGGTACCACG
* *
4736196 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATT
65 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
*
4736254 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCT-AACAGAGGTACCACG
*
4736319 ACTTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGAAAATAAATT
65 AC-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
4736378 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
4736397 ACGAACTTTG
Statistics
Matches: 254, Mismatches: 9, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
123 70 0.28
124 131 0.52
125 53 0.21
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAACAGAGGTACCACGA
CTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
Found at i:4737458 original size:7 final size:8
Alignment explanation
Indices: 4737439--4737506 Score: 106
Period size: 8 Copynumber: 8.8 Consensus size: 8
4737429 ACTTTTTCTT
4737439 TTTTTTCCA
1 TTTTTT-CA
4737448 TTTTTTC-
1 TTTTTTCA
4737455 TTTTTTCA
1 TTTTTTCA
4737463 TTTTTTCA
1 TTTTTTCA
4737471 TTTTTTCA
1 TTTTTTCA
4737479 -TTTTTCA
1 TTTTTTCA
4737486 -TTTTTCA
1 TTTTTTCA
4737493 TTTTTTCA
1 TTTTTTCA
4737501 TTTTTT
1 TTTTTT
4737507 TTCAAGCATA
Statistics
Matches: 57, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
7 21 0.37
8 30 0.53
9 6 0.11
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4737464 original size:15 final size:16
Alignment explanation
Indices: 4737439--4737506 Score: 106
Period size: 15 Copynumber: 4.4 Consensus size: 16
4737429 ACTTTTTCTT
4737439 TTTTTTCCATTTTTTC-
1 TTTTTT-CATTTTTTCA
4737455 TTTTTTCATTTTTTCA
1 TTTTTTCATTTTTTCA
4737471 TTTTTTCA-TTTTTCA
1 TTTTTTCATTTTTTCA
4737486 -TTTTTCATTTTTTCA
1 TTTTTTCATTTTTTCA
4737501 TTTTTT
1 TTTTTT
4737507 TTCAAGCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.14
15 23 0.47
16 19 0.39
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTCATTTTTTCA
Found at i:4737504 original size:6 final size:7
Alignment explanation
Indices: 4737449--4737505 Score: 78
Period size: 7 Copynumber: 7.7 Consensus size: 7
4737439 TTTTTTCCAT
*
4737449 TTTTTCT
1 TTTTTCA
4737456 TTTTTCA
1 TTTTTCA
4737463 TTTTTTCA
1 -TTTTTCA
4737471 TTTTTTCA
1 -TTTTTCA
4737479 TTTTTCA
1 TTTTTCA
4737486 TTTTTCA
1 TTTTTCA
4737493 TTTTTTCA
1 -TTTTTCA
4737501 TTTTT
1 TTTTT
4737506 TTTCAAGCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
7 25 0.53
8 22 0.47
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:4744747 original size:15 final size:15
Alignment explanation
Indices: 4744727--4744773 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
4744717 TTGTAAGTGT
4744727 AATGAATGAGAATGC
1 AATGAATGAGAATGC
*
4744742 AATGAATGAGAATGT
1 AATGAATGAGAATGC
4744757 AATGAATGAGAAATGC
1 AATGAATGAG-AATGC
4744773 A
1 A
4744774 TGTATGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.26, T:0.21
Consensus pattern (15 bp):
AATGAATGAGAATGC
Found at i:4748228 original size:57 final size:57
Alignment explanation
Indices: 4747937--4748387 Score: 584
Period size: 57 Copynumber: 7.6 Consensus size: 57
4747927 TTTTTTTTAG
4747937 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTCT-AA
* * *
4747996 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCCTTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-----TATTTTTTGGAAATTTATTTCTAA
*
4748058 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTT--ATTTCT-AA
* * *
4748119 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTCTAA
* *
4748178 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTGGAATTTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
* * * *
4748235 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATGTTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTCTAA
4748295 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
*
4748352 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT
4748388 ATATTTTTTT
Statistics
Matches: 348, Mismatches: 25, Indels: 40
0.84 0.06 0.10
Matches are distributed among these distances:
56 1 0.00
57 108 0.31
59 82 0.24
60 53 0.15
61 51 0.15
62 37 0.11
63 1 0.00
64 15 0.04
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:4748396 original size:117 final size:119
Alignment explanation
Indices: 4747937--4748385 Score: 673
Period size: 117 Copynumber: 3.8 Consensus size: 119
4747927 TTTTTTTTAG
4747937 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTC-ATTTTCAAGGAAAA
*
4748002 TTGATACTTTCAACTTTTCCTCAAAAACCCCCTTTTTTTTGAAAATTTATTTCTAA
65 TTGATACTTTCAACTTTTCCTCAAAAA-TCCCTTTTTTTTGAAAATTTATTTCTAA
* *
4748058 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTCGATTTTCAAGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTC-ATTTTCAAGGAA
4748123 AATTGATACTTTCAACTTTTCCTCAAAAA-CCC-TTTTTTTGAAAATTTATTTCTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTTTGAAAATTTATTTCTAA
* *
4748178 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTGG-AATTTTA-TTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCATTTTC-AAGGAAAA
*** *
4748241 TTGATACTTTCAACTTTTCC-CTAAAAATGTTTTTTTTTTG-AAATTTATTTCTGA
65 TTGATACTTTCAACTTTTCCTC-AAAAATCCCTTTTTTTTGAAAATTTATTTCTAA
4748295 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-A-TTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCATTTTC-AAGGAAAA
4748358 TTGATACTTTCAACTTTTCC-CTAAAAAT
65 TTGATACTTTCAACTTTTCCTC-AAAAAT
4748386 ATATATTTTT
Statistics
Matches: 310, Mismatches: 11, Indels: 18
0.91 0.03 0.05
Matches are distributed among these distances:
115 5 0.02
116 33 0.11
117 102 0.33
118 20 0.06
120 57 0.18
121 37 0.12
123 56 0.18
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTTTGAAAATTTATTTCTAA
Found at i:4748892 original size:20 final size:20
Alignment explanation
Indices: 4748867--4748905 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4748857 GAACACCGGT
*
4748867 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
4748887 GCCGGAATCTGGAAATTTT
1 GCCGGAATCTGGAAATTTT
4748906 ACCGGAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:4748912 original size:19 final size:20
Alignment explanation
Indices: 4748868--4748912 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4748858 AACACCGGTG
* *
4748868 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
4748888 CCGGAATCTGGAAATTTT-A
1 CCGGAATCTGGAAATTTTCA
4748907 CCGGAA
1 CCGGAA
4748913 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:4749083 original size:26 final size:24
Alignment explanation
Indices: 4749044--4749097 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
4749034 AATCTGGAAA
*
4749044 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
4749069 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
4749094 TTTC
1 TTTC
4749098 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:4751851 original size:21 final size:21
Alignment explanation
Indices: 4751812--4751852 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4751802 ATAATATAAA
*
4751812 AAATTAAAATTAATTAAAAAT
1 AAATTAAAATTAATAAAAAAT
4751833 AAATTAAAAATT-ATAAAAAA
1 AAATT-AAAATTAATAAAAAA
4751853 ATATAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATTAAAATTAATAAAAAAT
Found at i:4755991 original size:20 final size:20
Alignment explanation
Indices: 4755966--4756004 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4755956 AAATGTTTAG
*
4755966 AAAATGTTTTAGGCTTACTT
1 AAAATGTTTTAGACTTACTT
4755986 AAAATGTTTTAGACTTACT
1 AAAATGTTTTAGACTTACT
4756005 CAGACAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (20 bp):
AAAATGTTTTAGACTTACTT
Found at i:4761337 original size:63 final size:63
Alignment explanation
Indices: 4761238--4761358 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
4761228 TAGGCAAAAA
*
4761238 AAATTTTGTTCATTAACCACAAGTTACCAATAGCAAATGGGAGATATATATATATATATAAAG
1 AAATTTTGTTCATTAACCACAAGTTACCAATAGCAAAAGGGAGATATATATATATATATAAAG
** * *
4761301 AAATTTTGTTCATTAAGTACAAGTTACTAATAGCAAAAGGGATATATATATATATATA
1 AAATTTTGTTCATTAACCACAAGTTACCAATAGCAAAAGGGAGATATATATATATATA
4761359 AACATAAGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (63 bp):
AAATTTTGTTCATTAACCACAAGTTACCAATAGCAAAAGGGAGATATATATATATATATAAAG
Found at i:4771889 original size:25 final size:27
Alignment explanation
Indices: 4771851--4771902 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
4771841 CATGTTTTTT
4771851 TTTTTTTAACATTTTA-TAT-AATTTA
1 TTTTTTTAACATTTTATTATGAATTTA
*
4771876 TTTTTTTAATATTTTATTATGAATTTA
1 TTTTTTTAACATTTTATTATGAATTTA
4771903 ACATATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 15 0.62
26 3 0.12
27 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTTTAACATTTTATTATGAATTTA
Found at i:4777552 original size:16 final size:16
Alignment explanation
Indices: 4777528--4777566 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
4777518 GTCTTCACCA
4777528 CCTATATGTATTTATAT
1 CCTA-ATGTATTTATAT
4777545 CCTAATGTATTTATAT
1 CCTAATGTATTTATAT
4777561 CCTAAT
1 CCTAAT
4777567 TAATCTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (16 bp):
CCTAATGTATTTATAT
Found at i:4779280 original size:112 final size:109
Alignment explanation
Indices: 4779062--4779269 Score: 235
Period size: 112 Copynumber: 1.9 Consensus size: 109
4779052 CTGAAACAAA
* * *
4779062 TCATTAAACCCTTCAATAGTTTAGTAAGATTTAATTTGAGATTTAAATCTTTCAATAGTTTGGTA
1 TCATTAAACCCTTCAATAATTTAATAAGATTTAATTTGAGATTTAAATCTTTCAATAGTTTGATA
* * *
4779127 GGATTTGTTTCAAAAAATATATTTTTTATTAATTTATTTAAAAAAT
66 GGATATGTTTAAAAAAATATATATTTTATTAA--TATTTAAAAAAT
* * *
4779173 TCATTAAACCTTTCCAATAATTTAATAAGGTTTAATTTGATATTTAAATC-TTCTAATAGTTTGA
1 TCATTAAACCCTT-CAATAATTTAATAAGATTTAATTTGAGATTTAAATCTTTC-AATAGTTTGA
4779237 TA-GA-AT-TTTAAAAACTTAATATACTATTTTATT
64 TAGGATATGTTTAAAAA---AATATA-TATTTTATT
4779270 TAAACTTTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
109 7 0.09
110 1 0.01
111 17 0.21
112 49 0.60
113 8 0.10
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (109 bp):
TCATTAAACCCTTCAATAATTTAATAAGATTTAATTTGAGATTTAAATCTTTCAATAGTTTGATA
GGATATGTTTAAAAAAATATATATTTTATTAATATTTAAAAAAT
Found at i:4781303 original size:22 final size:22
Alignment explanation
Indices: 4781276--4781362 Score: 90
Period size: 22 Copynumber: 4.0 Consensus size: 22
4781266 TAAAAATTTG
4781276 TAACTTAAAATT-AAAGGTTTCC
1 TAACTTAAAATTCAAA-GTTTCC
4781298 TAACTTAAAATTCAAAGTTTCAC
1 TAACTTAAAATTCAAAGTTTC-C
* * *
4781321 -AATTTGAAATTCAAGAATTT-C
1 TAACTTAAAATTCAA-AGTTTCC
*
4781342 TAACTTGAAATTCAAAGTTTC
1 TAACTTAAAATTCAAAGTTTC
4781363 ACATTTTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.09
22 42 0.76
23 8 0.15
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (22 bp):
TAACTTAAAATTCAAAGTTTCC
Found at i:4781374 original size:22 final size:21
Alignment explanation
Indices: 4781305--4781387 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
4781295 TCCTAACTTA
4781305 AAATTCAAAGTTTCACAATTTG
1 AAATTCAAAGTTTCAC-ATTTG
* *
4781327 AAATTCAAGAATTTCTA-ACTTG
1 AAATTCAA-AGTTTC-ACATTTG
*
4781349 AAATTCAAAGTTTCACATTTTT
1 AAATTCAAAGTTTCACA-TTTG
* *
4781371 AAATTCAATGGTTCACA
1 AAATTCAAAGTTTCACA
4781388 AGATTTCAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 1 0.02
21 6 0.12
22 37 0.74
23 5 0.10
24 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (21 bp):
AAATTCAAAGTTTCACATTTG
Found at i:4781435 original size:18 final size:19
Alignment explanation
Indices: 4781409--4781446 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
4781399 ATTCACAATG
4781409 TCTTAAAGAACTCAAAGAT
1 TCTTAAAGAACTCAAAGAT
*
4781428 TCTT-AAGAATTCAAAGAT
1 TCTTAAAGAACTCAAAGAT
4781446 T
1 T
4781447 GACAAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (19 bp):
TCTTAAAGAACTCAAAGAT
Found at i:4781643 original size:19 final size:19
Alignment explanation
Indices: 4781609--4781654 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
4781599 AGATGTTTAG
4781609 ATTTGC-AAGAACTCAAAA
1 ATTTGCAAAGAACTCAAAA
* *
4781627 ATTTGCAAAGAATTCAAAG
1 ATTTGCAAAGAACTCAAAA
*
4781646 GTTTGCAAA
1 ATTTGCAAA
4781655 TTTTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (19 bp):
ATTTGCAAAGAACTCAAAA
Found at i:4781924 original size:42 final size:43
Alignment explanation
Indices: 4781877--4781965 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 43
4781867 TCATATTTGA
* **
4781877 AAAATTTAGAGATTCATA-TC-AAAATTTTCGAGGCTCACATCC
1 AAAATTTAAAGATTCATATTCGAAAATTTTAAAGGCTCACA-CC
*
4781919 AAAATTTAAAGATTCATATTCGAAAATTTTAAAGGTTCACACC
1 AAAATTTAAAGATTCATATTCGAAAATTTTAAAGGCTCACACC
4781962 AAAA
1 AAAA
4781966 ATTCATAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
42 17 0.41
43 8 0.20
44 16 0.39
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (43 bp):
AAAATTTAAAGATTCATATTCGAAAATTTTAAAGGCTCACACC
Found at i:4781952 original size:23 final size:22
Alignment explanation
Indices: 4781861--4781957 Score: 72
Period size: 21 Copynumber: 4.4 Consensus size: 22
4781851 TCCAAAAGTC
* *
4781861 AAAGATTCATATTTGAAAAATTT
1 AAAGATTCATA-TCGAAAATTTT
*
4781884 AGAGATTCATATC-AAAATTTT
1 AAAGATTCATATCGAAAATTTT
** ** * *
4781905 CGAGGCTCACATCCAAAA-TTT
1 AAAGATTCATATCGAAAATTTT
4781926 AAAGATTCATATTCGAAAATTTT
1 AAAGATTCATA-TCGAAAATTTT
*
4781949 AAAGGTTCA
1 AAAGATTCA
4781958 CACCAAAAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
21 25 0.44
22 11 0.19
23 21 0.37
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (22 bp):
AAAGATTCATATCGAAAATTTT
Found at i:4781976 original size:44 final size:43
Alignment explanation
Indices: 4781876--4781968 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 43
4781866 TTCATATTTG
* **
4781876 AAAAATTTAGAGATTCATATCAAAATTTTCGAGGCTCACATCC
1 AAAAATTTAAAGATTCATATCAAAATTTTAAAGGCTCACATCC
*
4781919 -AAAATTTAAAGATTCATATTCGAAAATTTTAAAGGTTCACA-CC
1 AAAAATTTAAAGATTCATA-TC-AAAATTTTAAAGGCTCACATCC
4781962 AAAAATT
1 AAAAATT
4781969 CATAGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 17 0.40
43 4 0.09
44 22 0.51
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (43 bp):
AAAAATTTAAAGATTCATATCAAAATTTTAAAGGCTCACATCC
Found at i:4782067 original size:46 final size:46
Alignment explanation
Indices: 4781911--4782161 Score: 235
Period size: 46 Copynumber: 5.5 Consensus size: 46
4781901 TTTTCGAGGC
* * * *
4781911 TCACATCCAAAATTT-AAAGATTCAT-ATTCG-AAAATTTTAAAGGT
1 TCACATCCAAAATTTCAAAGATTC-TCATTTGAAAAACTTTAGAGAT
* * * * *
4781955 TCACA-CCAAAAATTCATAGATTTTCATTTGAAAACCTTGAGAGATT
1 TCACATCCAAAATTTCAAAGATTCTCATTTGAAAAACTTTAGAGA-T
* * *
4782001 TTACGTCCAAGATTTCAAAGATTCTCATTTGAAAAACTTTAGAGAT
1 TCACATCCAAAATTTCAAAGATTCTCATTTGAAAAACTTTAGAGAT
* * * **
4782047 TTACATTCAAAATTTCAAAGATTCTTA-TCCAAATAACTTTAGAGAT
1 TCACATCCAAAATTTCAAAGATTCTCATTTGAAA-AACTTTAGAGAT
* * ** *
4782093 TCACATCTAAATTTTCAAAGATTCTCATTAAAAAAACTTTAGAAAT
1 TCACATCCAAAATTTCAAAGATTCTCATTTGAAAAACTTTAGAGAT
4782139 TCACATCCAAAATTTCAAA-ATTC
1 TCACATCCAAAATTTCAAAGATTC
4782162 ATATACAAAA
Statistics
Matches: 167, Mismatches: 33, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
43 9 0.05
44 15 0.09
45 16 0.10
46 90 0.54
47 37 0.22
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.34
Consensus pattern (46 bp):
TCACATCCAAAATTTCAAAGATTCTCATTTGAAAAACTTTAGAGAT
Found at i:4782104 original size:24 final size:24
Alignment explanation
Indices: 4782035--4782145 Score: 56
Period size: 24 Copynumber: 4.8 Consensus size: 24
4782025 TCATTTGAAA
* *
4782035 AACTTTAGAGATTTACAT-TCAA-
1 AACTTTAGAGATTCACATCTAAAT
* ** *
4782057 AA-TTTCAAAGATTCTTATCCAAAT
1 AACTTT-AGAGATTCACATCTAAAT
4782081 AACTTTAGAGATTCACATCTAAAT
1 AACTTTAGAGATTCACATCTAAAT
* * *
4782105 ---TTTCAAAGATTCTCAT-TAAAAA
1 AACTTT-AGAGATTCACATCT-AAAT
*
4782127 AACTTTAGAAATTCACATC
1 AACTTTAGAGATTCACATC
4782146 CAAAATTTCA
Statistics
Matches: 63, Mismatches: 16, Indels: 17
0.66 0.17 0.18
Matches are distributed among these distances:
21 7 0.11
22 23 0.37
23 2 0.03
24 25 0.40
25 6 0.10
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (24 bp):
AACTTTAGAGATTCACATCTAAAT
Found at i:4782161 original size:21 final size:21
Alignment explanation
Indices: 4782135--4782174 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4782125 AAAACTTTAG
*
4782135 AAATTCACATCCAAAATTTCA
1 AAATTCACATACAAAATTTCA
*
4782156 AAATTCATATACAAAATTT
1 AAATTCACATACAAAATTT
4782175 AAAGATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTCACATACAAAATTTCA
Found at i:4784139 original size:15 final size:13
Alignment explanation
Indices: 4784106--4784134 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4784096 AACCTAAATT
4784106 TATTATGTTGATA
1 TATTATGTTGATA
4784119 TATTATGTTGATA
1 TATTATGTTGATA
4784132 TAT
1 TAT
4784135 ATTATTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TATTATGTTGATA
Found at i:4784687 original size:26 final size:25
Alignment explanation
Indices: 4784641--4784693 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
4784631 GTATGATAAA
*
4784641 ATAATATTTTAATATTGTAAAAAAT
1 ATAATATTTTAATATTATAAAAAAT
* * *
4784666 ATAATGATTTTATTTTTATAAAGAAT
1 ATAAT-ATTTTAATATTATAAAAAAT
4784692 AT
1 AT
4784694 TATTAGTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
ATAATATTTTAATATTATAAAAAAT
Found at i:4788308 original size:27 final size:30
Alignment explanation
Indices: 4788267--4788326 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
4788257 AAAACAAAAA
* *
4788267 TTTTTGTTTTACCTC-ATTTTT-TTCTTTT
1 TTTTTCTTTTACCTCTATTTTTATTCTCTT
*
4788295 TTTTTCTTTT-CCTCTCTTTTTATTCTCTT
1 TTTTTCTTTTACCTCTATTTTTATTCTCTT
4788324 TTT
1 TTT
4788327 ACAAAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 14 0.52
29 9 0.33
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (30 bp):
TTTTTCTTTTACCTCTATTTTTATTCTCTT
Found at i:4789685 original size:16 final size:17
Alignment explanation
Indices: 4789666--4789706 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4789656 CTAATAAGGG
4789666 TTTCATTTC-AA-TCAT
1 TTTCATTTCAAACTCAT
*
4789681 ATTTCAATTCAAACTCAT
1 -TTTCATTTCAAACTCAT
4789699 TTTCATTT
1 TTTCATTT
4789707 AAGATTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 8 0.38
17 9 0.43
18 4 0.19
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTCATTTCAAACTCAT
Found at i:4791523 original size:2 final size:2
Alignment explanation
Indices: 4791516--4791550 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4791506 AACTAAAACT
*
4791516 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4791551 GTTACAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4791733 original size:32 final size:34
Alignment explanation
Indices: 4791674--4791740 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 34
4791664 AATTAGAGAT
*
4791674 AATTTATTTATTAATAATTTAAATATTTAATAAATA
1 AATTTATTTAATAATAATTT--ATATTTAATAAATA
*
4791710 AATTTATTTAAT-ATAATTT-TATTTTATAAAT
1 AATTTATTTAATAATAATTTATATTTAATAAAT
4791741 TATCAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 11 0.38
35 7 0.24
36 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
AATTTATTTAATAATAATTTATATTTAATAAATA
Found at i:4802839 original size:3 final size:3
Alignment explanation
Indices: 4802828--4802877 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
4802818 TCAGATTTTT
4802828 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCT- TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA
4802873 TTA TT
1 TTA TT
4802878 TTACTCATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.86
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4802880 original size:12 final size:12
Alignment explanation
Indices: 4802833--4802893 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 12
4802823 TTTTTTTATT
4802833 TTATTATTATT-A
1 TTATTATT-TTAA
4802845 TTATTATTATT-A
1 TTATTATT-TTAA
4802857 TTATTATCTTTAA
1 TTATTAT-TTTAA
*
4802870 TTATTATTTTAC
1 TTATTATTTTAA
*
4802882 TCATTATTTTAA
1 TTATTATTTTAA
4802894 ATTGAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 35 0.80
13 9 0.20
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATTTTAA
Found at i:4802896 original size:25 final size:25
Alignment explanation
Indices: 4802844--4802893 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
4802834 TATTATTATT
*
4802844 ATTATTATTATTATTATTATCTTTA
1 ATTATTATTATTATCATTATCTTTA
4802869 ATTATTATT-TTACTCATTAT-TTTA
1 ATTATTATTATTA-TCATTATCTTTA
4802893 A
1 A
4802894 ATTGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTATTATTATTATCATTATCTTTA
Found at i:4803854 original size:16 final size:16
Alignment explanation
Indices: 4803833--4803865 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4803823 GAGCCAACCA
4803833 AGTTTAATCGACCTCT
1 AGTTTAATCGACCTCT
4803849 AGTTTAATCGACCTCT
1 AGTTTAATCGACCTCT
4803865 A
1 A
4803866 ATCCTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (16 bp):
AGTTTAATCGACCTCT
Found at i:4813167 original size:15 final size:15
Alignment explanation
Indices: 4813142--4813198 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
4813132 AAAAAATATG
*
4813142 TTTTTCATCTTTTCA
1 TTTTTTATCTTTTCA
*
4813157 TTTTTTTTCTTTTCCAA
1 TTTTTTATCTTTT-C-A
4813174 TTTTTTATCTTTTCA
1 TTTTTTATCTTTTCA
4813189 TTTTTCTATC
1 TTTTT-TATC
4813199 CATCATACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 17 0.47
16 6 0.17
17 13 0.36
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTATCTTTTCA
Found at i:4813193 original size:16 final size:16
Alignment explanation
Indices: 4813142--4813198 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
4813132 AAAAAATATG
*
4813142 TTTTTCATCTTTTCAT
1 TTTTTTATCTTTTCAT
*
4813158 TTTTTT-TCTTTTCCAA
1 TTTTTTATCTTTT-CAT
4813174 TTTTTTATCTTTTCAT
1 TTTTTTATCTTTTCAT
*
4813190 TTTTCTATC
1 TTTTTTATC
4813199 CATCATACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 6 0.17
16 23 0.66
17 6 0.17
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTATCTTTTCAT
Found at i:4813836 original size:11 final size:11
Alignment explanation
Indices: 4813820--4813844 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4813810 TATATTTGGA
4813820 AAAAAGAAAAG
1 AAAAAGAAAAG
4813831 AAAAAGAAAAG
1 AAAAAGAAAAG
4813842 AAA
1 AAA
4813845 TATAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:4814596 original size:17 final size:17
Alignment explanation
Indices: 4814574--4814614 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4814564 AACTTCCAAA
*
4814574 AAAATTTAAAAAATTTT
1 AAAATTTAAAAAATTCT
* *
4814591 AAAATTTAATATATTCT
1 AAAATTTAAAAAATTCT
4814608 AAAATTT
1 AAAATTT
4814615 TTTAAAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTTAAAAAATTCT
Found at i:4814732 original size:21 final size:22
Alignment explanation
Indices: 4814708--4814749 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4814698 AAAAAATTAG
4814708 AAATTATCAAACTTT-CAAAAA
1 AAATTATCAAACTTTACAAAAA
* *
4814729 AAATTGTCAAATTTTACAAAA
1 AAATTATCAAACTTTACAAAA
4814750 TTTTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATTATCAAACTTTACAAAAA
Found at i:4814785 original size:21 final size:23
Alignment explanation
Indices: 4814746--4814790 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
4814736 CAAATTTTAC
4814746 AAAATTTTGAAATAAATTCTAAAA
1 AAAATTTTGAAAT-AATTCTAAAA
4814770 AAAATTTT-AAAT-ATTCTAAAA
1 AAAATTTTGAAATAATTCTAAAA
4814791 TACTTTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATTTTGAAATAATTCTAAAA
Found at i:4814879 original size:40 final size:40
Alignment explanation
Indices: 4814835--4814911 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
4814825 TTTAAAAGTA
*
4814835 TTTAAAAATTCACAAAA-ATTCA-ATAAATTTTTTTTAATTT
1 TTTAAAAATTCA-AAAATATTCATA-AAATCTTTTTTAATTT
*
4814875 TTTAAAAATTTAAAAATATTCATAAAATCTTTTTTAA
1 TTTAAAAATTCAAAAATATTCATAAAATCTTTTTTAA
4814912 AATTCTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 4 0.12
40 28 0.85
41 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (40 bp):
TTTAAAAATTCAAAAATATTCATAAAATCTTTTTTAATTT
Found at i:4814921 original size:40 final size:39
Alignment explanation
Indices: 4814837--4814931 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 39
4814827 TAAAAGTATT
* * ** *
4814837 TAAAAATTCACAAAAATTCAATAAATTTTTTTTAATTTTT
1 TAAAAATTTA-AAAAATTCAATAAATCTTTTTTAAAATTC
4814877 TAAAAATTTAAAAATATTC-ATAAAATCTTTTTTAAAATTC
1 TAAAAATTTAAAAA-ATTCAAT-AAATCTTTTTTAAAATTC
*
4814917 TAAAAAATTTCAAAA
1 T-AAAAATTTAAAAA
4814932 CTTTTCAAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
39 6 0.13
40 28 0.61
41 12 0.26
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (39 bp):
TAAAAATTTAAAAAATTCAATAAATCTTTTTTAAAATTC
Found at i:4815012 original size:33 final size:33
Alignment explanation
Indices: 4814972--4815064 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
4814962 ACAATTCTAC
*
4814972 AAAATTTTAAAATTTATTAAAAATTTTCTAA-TA
1 AAAATTTTAAAATTTATTAAAAATTTTC-AACAA
* * * *
4815005 AAAATTTTAAATTTTTTTTAAAATTTACAACAA
1 AAAATTTTAAAATTTATTAAAAATTTTCAACAA
* *
4815038 AAAACTTTAAAATTCATTAAAAATTTT
1 AAAATTTTAAAATTTATTAAAAATTTT
4815065 AAAAATAATA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
32 2 0.04
33 46 0.96
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (33 bp):
AAAATTTTAAAATTTATTAAAAATTTTCAACAA
Found at i:4815065 original size:19 final size:19
Alignment explanation
Indices: 4815037--4815091 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
4815027 ATTTACAACA
*
4815037 AAAAACTTTAAAATTCATT
1 AAAAATTTTAAAATTCATT
* *
4815056 AAAAATTTTAAAAAT-AAT
1 AAAAATTTTAAAATTCATT
*
4815074 AAAAATTTT-TAATTCATT
1 AAAAATTTTAAAATTCATT
4815092 TCTAAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.10
18 13 0.45
19 13 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTTTAAAATTCATT
Found at i:4815124 original size:20 final size:19
Alignment explanation
Indices: 4815098--4815176 Score: 92
Period size: 20 Copynumber: 4.2 Consensus size: 19
4815088 CATTTCTAAA
*
4815098 AAAATTTCCAAAATATATTT
1 AAAATTTCTAAAA-ATATTT
*
4815118 TAAATTT-TAAAAATATTT
1 AAAATTTCTAAAAATATTT
*
4815136 AAAATCTCTAAAAAATATTT
1 AAAATTTCT-AAAAATATTT
4815156 AAAA-TTCTAAAAA-ATTT
1 AAAATTTCTAAAAATATTT
4815173 AAAA
1 AAAA
4815177 AAATCTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.15
18 16 0.31
19 8 0.15
20 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTTCTAAAAATATTT
Found at i:4815154 original size:38 final size:37
Alignment explanation
Indices: 4815098--4815176 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
4815088 CATTTCTAAA
* * * *
4815098 AAAATTTCCAAAATATATTTTAAATTTTAAAAATATTT
1 AAAATCTCCAAAAAATATTTAAAATTCTAAAAA-ATTT
*
4815136 AAAATCTCTAAAAAATATTTAAAATTCTAAAAAATTT
1 AAAATCTCCAAAAAATATTTAAAATTCTAAAAAATTT
4815173 AAAA
1 AAAA
4815177 AAATCTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 8 0.22
38 28 0.78
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (37 bp):
AAAATCTCCAAAAAATATTTAAAATTCTAAAAAATTT
Found at i:4815183 original size:19 final size:19
Alignment explanation
Indices: 4815126--4815186 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
4815116 TTTAAATTTT
**
4815126 AAAAATATTTAAAATCTCTA
1 AAAAATA-TTAAAAAATCTA
* *
4815146 AAAAATATTTAAAATTCTA
1 AAAAATATTAAAAAATCTA
4815165 AAAAAT-TTAAAAAAATCTA
1 AAAAATATT-AAAAAATCTA
4815184 AAA
1 AAA
4815187 GATGCAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 2 0.06
19 26 0.74
20 7 0.20
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATTAAAAAATCTA
Found at i:4815184 original size:38 final size:38
Alignment explanation
Indices: 4815107--4815186 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
4815097 AAAAATTTCC
* * * **
4815107 AAAATATATTTTAAATTTTAAAAATATTTAAAATCTCT
1 AAAAAATATTTAAAATTCTAAAAATATTTAAAAAATCT
4815145 AAAAAATATTTAAAATTCTAAAAA-ATTTAAAAAAATCT
1 AAAAAATATTTAAAATTCTAAAAATATTT-AAAAAATCT
4815183 AAAA
1 AAAA
4815187 GATGCAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 4 0.11
38 32 0.89
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (38 bp):
AAAAAATATTTAAAATTCTAAAAATATTTAAAAAATCT
Found at i:4815410 original size:17 final size:17
Alignment explanation
Indices: 4815390--4815430 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4815380 TGAAAGCATG
* *
4815390 AAATTTTAAAAAATTTT
1 AAATTTTAAAAAATCTA
*
4815407 AAATTTGAAAAAATCTA
1 AAATTTTAAAAAATCTA
4815424 AAATTTT
1 AAATTTT
4815431 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
AAATTTTAAAAAATCTA
Found at i:4815527 original size:21 final size:21
Alignment explanation
Indices: 4815503--4815549 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
4815493 AAAAATCTAG
* *
4815503 AAAAAACTTAAAACTTT-AAT
1 AAAAAACTGAAAACTTTCAAA
*
4815523 AAAAAACTGAAAATTTTCAAA
1 AAAAAACTGAAAACTTTCAAA
4815544 AAAAAA
1 AAAAAA
4815550 AAAACTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAAACTGAAAACTTTCAAA
Found at i:4815856 original size:9 final size:9
Alignment explanation
Indices: 4815830--4815901 Score: 74
Period size: 9 Copynumber: 7.7 Consensus size: 9
4815820 ATTTTGTGAG
4815830 ATTTTTT-A
1 ATTTTTTAA
4815838 ATTTTCTTAA
1 ATTTT-TTAA
4815848 ATTTTTTAAA
1 ATTTTTT-AA
4815858 ATTTTTTAAA
1 ATTTTTT-AA
*
4815868 ATTTTTTTGA
1 A-TTTTTTAA
*
4815878 ATTTTTTTA
1 ATTTTTTAA
*
4815887 ATTTTTTGA
1 ATTTTTTAA
4815896 ATTTTT
1 ATTTTT
4815902 AAAAAAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
8 5 0.09
9 25 0.44
10 21 0.37
11 6 0.11
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:4815882 original size:8 final size:9
Alignment explanation
Indices: 4815815--4815901 Score: 68
Period size: 10 Copynumber: 9.1 Consensus size: 9
4815805 GAAAATAATG
4815815 TTGAGATTTT
1 TTGA-ATTTT
*
4815825 GTGAGATTTT
1 TTGA-ATTTT
4815835 TT-AATTTT
1 TTGAATTTT
*
4815843 CTTAAATTTT
1 -TTGAATTTT
*
4815853 TTAAAATTTT
1 TT-GAATTTT
*
4815863 TTAAAATTTTT
1 TT-GAA-TTTT
4815874 TTGAATTTT
1 TTGAATTTT
*
4815883 TTTAATTTT
1 TTGAATTTT
4815892 TTGAATTTT
1 TTGAATTTT
4815901 T
1 T
4815902 AAAAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
8 5 0.07
9 26 0.38
10 31 0.46
11 6 0.09
ACGTcount: A:0.26, C:0.01, G:0.08, T:0.64
Consensus pattern (9 bp):
TTGAATTTT
Found at i:4816244 original size:32 final size:32
Alignment explanation
Indices: 4816206--4816270 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
4816196 TAATTCCTTT
*
4816206 ATTTTTCCTTTCCTTTATCAATGTGTATTCAA
1 ATTTTTCCTTTCCTTTATCAATGTCTATTCAA
4816238 ATTTTTCCTTTCCTTTATCAATGTCTATTCAA
1 ATTTTTCCTTTCCTTTATCAATGTCTATTCAA
4816270 A
1 A
4816271 CATATCGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.52
Consensus pattern (32 bp):
ATTTTTCCTTTCCTTTATCAATGTCTATTCAA
Found at i:4816707 original size:7 final size:7
Alignment explanation
Indices: 4816695--4816746 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
4816685 AATATATTTT
4816695 TTTTTCA
1 TTTTTCA
4816702 TTTTTCA
1 TTTTTCA
* *
4816709 CTTTTCT
1 TTTTTCA
4816716 TTTCTTCTAA
1 TTT-TTC--A
4816726 TTTTTCA
1 TTTTTCA
4816733 TCTTTTCA
1 T-TTTTCA
4816741 TTTTTC
1 TTTTTC
4816747 TATCCACCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 21 0.57
8 10 0.27
9 3 0.08
10 3 0.08
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:4816728 original size:24 final size:24
Alignment explanation
Indices: 4816701--4816748 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
4816691 TTTTTTTTTC
*
4816701 ATTTTTCA-CTTTTCTTTTCTTCTA
1 ATTTTTCATCTTTTCATTT-TTCTA
4816725 ATTTTTCATCTTTTCATTTTTCTA
1 ATTTTTCATCTTTTCATTTTTCTA
4816749 TCCACCTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTTTCATCTTTTCATTTTTCTA
Found at i:4816743 original size:15 final size:14
Alignment explanation
Indices: 4816695--4816746 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
4816685 AATATATTTT
4816695 TTTTTCATTTTTCA
1 TTTTTCATTTTTCA
* *
4816709 CTTTTCTTTTCTTCTAA
1 TTTTTCATTT-TTC--A
4816726 TTTTTCATCTTTTCA
1 TTTTTCAT-TTTTCA
4816741 TTTTTC
1 TTTTTC
4816747 TATCCACCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.27
15 10 0.33
17 10 0.33
18 2 0.07
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:4818049 original size:23 final size:23
Alignment explanation
Indices: 4818023--4818067 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
4818013 TTAATTATAA
4818023 TTATAATTATAAAAAAATTTATT
1 TTATAATTATAAAAAAATTTATT
* * **
4818046 TTATGATTTTAAAGTAATTTAT
1 TTATAATTATAAAAAAATTTAT
4818068 AAACTCCTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TTATAATTATAAAAAAATTTATT
Found at i:4823157 original size:139 final size:137
Alignment explanation
Indices: 4822821--4823294 Score: 508
Period size: 138 Copynumber: 3.4 Consensus size: 137
4822811 GATTACTTTC
* * * *
4822821 TTTCAATTTTGTGCATAGTTGTGATTATGAATTCTTATTGTTATTATGTATTGCATACATGTA-T
1 TTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTGTTACTATGTATTGCATACATGTATT
** * * ** * *
4822885 TGTTTATATATTTTTATCCATGTAAATATTTTTGTATATACATTATTTTTTTTTGTTTTGGGGGC
66 TGAATATATATTTTTAT-AATGTAAATATTTTTGTATGTACATTA-TTTCATTT-ATTT-GAGGC
*
4822950 AATTTTTGCCT
127 AATATTTGCCT
*
4822961 TTTCAATTTTTTACATAGTTGTGAATATGAA-TCTTGTTGTTACTATGTATTGCATACATGTATT
1 TTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTGTTACTATGTATTGCATACATGTATT
4823025 TGAATATATATTTTTATATATGTAAATATTTTTGTATGTACATTATTTCATTTATTTGAAGGCAA
66 TGAATATATATTTTTATA-ATGTAAATATTTTTGTATGTACATTATTTCATTTATTTG-AGGCAA
** *
4823090 CCTTTACCT
129 TATTTGCCT
* * * * * **
4823099 TTTCAGTTTTGTATATAGTTGTGAACATGAATTCTTGTTTTTACTATGCATTATATACATGTATT
1 TTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTGTTACTATGTATTGCATACATGTATT
* * * * * *
4823164 TGCATATACA-TTTCATCAATGTAAACATCTTTGTATGTACATTATTTCATTTGTTTGAGAG-AA
66 TGAATATATATTTTTAT-AATGTAAATATTTTTGTATGTACATTATTTCATTTATTTGAG-GCAA
*
4823227 TATTTGCTCA
129 TATTTGC-CT
* * * *
4823237 TTTCAGTTTTATACATAGTTTTGAATATGAATTCTTGTT-TCTATTATGTATTGCATAC
1 TTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTGT-TACTATGTATTGCATAC
4823295 GTATATATAT
Statistics
Matches: 284, Mismatches: 42, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
137 10 0.04
138 132 0.46
139 73 0.26
140 69 0.24
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.51
Consensus pattern (137 bp):
TTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTGTTACTATGTATTGCATACATGTATT
TGAATATATATTTTTATAATGTAAATATTTTTGTATGTACATTATTTCATTTATTTGAGGCAATA
TTTGCCT
Found at i:4824915 original size:16 final size:16
Alignment explanation
Indices: 4824891--4824921 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4824881 AGTTAAAAAA
4824891 AAGAAAAAAAAAAGAG
1 AAGAAAAAAAAAAGAG
*
4824907 AAGAGAAAAAAAAGA
1 AAGAAAAAAAAAAGA
4824922 TTGAATGAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAAAAGAG
Found at i:4826582 original size:6 final size:6
Alignment explanation
Indices: 4826571--4826672 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
4826561 TAAATTACTC
*
4826571 AATAAA AATAAA AAGGTAGTAA AAT-AA AATAAA ATTAAA AATATAA AATTAAA
1 AATAAA AATAAA AA--TA--AA AATAAA AATAAA AATAAA AATA-AA AA-TAAA
*
4826624 AAT-AA AATTAA AATATAA AAT--A AATAAA AAT-AA AATCAAAA AATAAA
1 AATAAA AATAAA AATA-AA AATAAA AATAAA AATAAA AAT--AAA AATAAA
4826671 AA
1 AA
4826673 AAAGAAAACC
Statistics
Matches: 79, Mismatches: 3, Indels: 28
0.72 0.03 0.25
Matches are distributed among these distances:
4 4 0.05
5 15 0.19
6 33 0.42
7 13 0.16
8 10 0.13
10 4 0.05
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:4826598 original size:5 final size:5
Alignment explanation
Indices: 4826590--4826680 Score: 57
Period size: 5 Copynumber: 18.0 Consensus size: 5
4826580 AAAAAGGTAG
* *
4826590 TAAAA TAAAA TAAAA TTAAA -AATA TAAAA TTAAAAA TAAAA TTAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -T-AAAA TAAAA -TAAAA
* *
4826637 TATAAA -ATAAA TAAAAA TAAAA T-CAA -AAAA TAAAA -AAAA GAAAA
1 TA-AAA TA-AAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
4826681 CCTACGATCG
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
4 10 0.14
5 41 0.59
6 14 0.20
7 5 0.07
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:4826613 original size:12 final size:12
Alignment explanation
Indices: 4826596--4826671 Score: 80
Period size: 13 Copynumber: 5.8 Consensus size: 12
4826586 GTAGTAAAAT
4826596 AAAATAAAATTAA
1 AAAATAAAATT-A
4826609 AAATATAAAATTA
1 AAA-ATAAAATTA
4826622 AAAATAAAATTA
1 AAAATAAAATTA
4826634 AAATATAAAATAAATA
1 AAA-ATAAAAT---TA
*
4826650 AAAATAAAATCAA
1 AAAATAAAAT-TA
4826663 AAAATAAAA
1 AAAATAAAA
4826672 AAAAGAAAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.21
13 24 0.43
14 8 0.14
15 7 0.12
16 5 0.09
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:4827249 original size:12 final size:12
Alignment explanation
Indices: 4827232--4827256 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4827222 GATTCAGACC
4827232 ATGACACCAATT
1 ATGACACCAATT
4827244 ATGACACCAATT
1 ATGACACCAATT
4827256 A
1 A
4827257 AGAATTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGACACCAATT
Found at i:4827420 original size:22 final size:22
Alignment explanation
Indices: 4827367--4827436 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
4827357 AATGATCTAA
* *
4827367 AAAACTTCTTGGTATGATTTAT
1 AAAACTTCTAGGTATGATTTCT
* * * *
4827389 AAGACCTCTAGGCATAATTTCT
1 AAAACTTCTAGGTATGATTTCT
4827411 AAAACTTCTAGGTATGATTTCT
1 AAAACTTCTAGGTATGATTTCT
4827433 AAAA
1 AAAA
4827437 TCTCTGAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (22 bp):
AAAACTTCTAGGTATGATTTCT
Found at i:4827517 original size:22 final size:22
Alignment explanation
Indices: 4827493--4827580 Score: 90
Period size: 22 Copynumber: 4.0 Consensus size: 22
4827483 TTCAAACATG
* *
4827493 ATTTGTAAGACCTCTAGGCATG
1 ATTTGTAAGACCTTTAGGCATA
*
4827515 ATTTGTAAGA-CTTTTGAGCATA
1 ATTTGTAAGACCTTTAG-GCATA
* *
4827537 ATCTCTAAGACCTTTAGGCATA
1 ATTTGTAAGACCTTTAGGCATA
* *
4827559 ATTTGTAAAACTTTTA-GCATA
1 ATTTGTAAGACCTTTAGGCATA
4827580 A
1 A
4827581 CCTTCAACAC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
21 10 0.19
22 39 0.72
23 5 0.09
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (22 bp):
ATTTGTAAGACCTTTAGGCATA
Found at i:4827563 original size:44 final size:43
Alignment explanation
Indices: 4827498--4827580 Score: 130
Period size: 44 Copynumber: 1.9 Consensus size: 43
4827488 ACATGATTTG
* *
4827498 TAAGACCTCTAGGCATGATTTGTAAGACTTTTGAGCATAATCTC
1 TAAGACCTCTAGGCATAATTTGTAAAACTTTT-AGCATAATCTC
*
4827542 TAAGACCTTTAGGCATAATTTGTAAAACTTTTAGCATAA
1 TAAGACCTCTAGGCATAATTTGTAAAACTTTTAGCATAA
4827581 CCTTCAACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 7 0.19
44 29 0.81
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (43 bp):
TAAGACCTCTAGGCATAATTTGTAAAACTTTTAGCATAATCTC
Found at i:4827601 original size:43 final size:44
Alignment explanation
Indices: 4827510--4827603 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 44
4827500 AGACCTCTAG
* * * * ** *
4827510 GCATGATTTGTAAGACTTTTGAGCATAATCTCTAAGACCTTTAG
1 GCATAATTTGTAAAACTTTTGAGCATAACCTCTAACACCTCCAA
4827554 GCATAATTTGTAAAACTTTT-AGCATAACCT-TCAACACCTCCAA
1 GCATAATTTGTAAAACTTTTGAGCATAACCTCT-AACACCTCCAA
4827597 GCATAAT
1 GCATAAT
4827604 CTCCATGGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 23 0.55
44 18 0.43
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (44 bp):
GCATAATTTGTAAAACTTTTGAGCATAACCTCTAACACCTCCAA
Found at i:4827637 original size:22 final size:22
Alignment explanation
Indices: 4827612--4827658 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4827602 ATCTCCATGG
* *
4827612 CCTCCAAGCATGATTTGTAATA
1 CCTCCAAACATGATTTGTAAAA
*
4827634 CCTCTAAACATGATTTGTAAAA
1 CCTCCAAACATGATTTGTAAAA
4827656 CCT
1 CCT
4827659 TTGGGTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (22 bp):
CCTCCAAACATGATTTGTAAAA
Found at i:4827714 original size:21 final size:22
Alignment explanation
Indices: 4827665--4827724 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
4827655 ACCTTTGGGT
* *
4827665 ATAATCTATAAGGCCTCTAAGC
1 ATAATTTATAAGACCTCTAAGC
* *
4827687 ATGATTTATAAGACCT-TGAGC
1 ATAATTTATAAGACCTCTAAGC
*
4827708 ATAATTTAAAAGACCTC
1 ATAATTTATAAGACCTC
4827725 ATGACATGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (22 bp):
ATAATTTATAAGACCTCTAAGC
Found at i:4828542 original size:20 final size:20
Alignment explanation
Indices: 4828506--4828543 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4828496 GAAAAAAGAT
*
4828506 TCAATTCCTATATAAAAAGC
1 TCAATTCCAATATAAAAAGC
4828526 TCAATTCTCAATA-AAAAA
1 TCAATTC-CAATATAAAAA
4828544 ATCACCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (20 bp):
TCAATTCCAATATAAAAAGC
Found at i:4828543 original size:21 final size:21
Alignment explanation
Indices: 4828497--4828544 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
4828487 TTTCAAATTG
* *
4828497 AAAAAAGATTCAATTCCTATA
1 AAAAAAGACTCAATTCCAATA
*
4828518 TAAAAAG-CTCAATTCTCAATA
1 AAAAAAGACTCAATTC-CAATA
4828539 AAAAAA
1 AAAAAA
4828545 TCACCAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.56, C:0.15, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAAAGACTCAATTCCAATA
Found at i:4828865 original size:22 final size:23
Alignment explanation
Indices: 4828815--4828866 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
4828805 TTTGTTTTAC
* *
4828815 TATTTTTTTATTTATTTGTTCAT
1 TATTTTATTATTTATTTGTTAAT
4828838 TA-TTTATTATTTA-TT-TTAATT
1 TATTTTATTATTTATTTGTTAA-T
4828859 TATTTTAT
1 TATTTTAT
4828867 ACCTATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 15 0.60
23 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TATTTTATTATTTATTTGTTAAT
Found at i:4829347 original size:14 final size:16
Alignment explanation
Indices: 4829321--4829353 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4829311 ACTTAAAATT
4829321 AACAAATAAGCAA-AA
1 AACAAATAAGCAATAA
4829336 AACAAA-AAGCAATAA
1 AACAAATAAGCAATAA
4829351 AAC
1 AAC
4829354 TTAGGCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.73, C:0.15, G:0.06, T:0.06
Consensus pattern (16 bp):
AACAAATAAGCAATAA
Found at i:4831634 original size:18 final size:16
Alignment explanation
Indices: 4831611--4831650 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4831601 TTGATACCAT
4831611 AATTAAAAATAATTATAA
1 AATTAAAAAT-A-TATAA
*
4831629 AATTAATAATATATAA
1 AATTAAAAATATATAA
4831645 AATTAA
1 AATTAA
4831651 TAAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAAAATATATAA
Found at i:4831643 original size:16 final size:15
Alignment explanation
Indices: 4831618--4831653 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
4831608 CATAATTAAA
4831618 AATAATTATAAAATT
1 AATAATTATAAAATT
4831633 AATAATATATAAAATT
1 AATAAT-TATAAAATT
4831649 AATAA
1 AATAA
4831654 AAAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATTATAAAATT
Found at i:4831658 original size:87 final size:86
Alignment explanation
Indices: 4831567--4831746 Score: 190
Period size: 87 Copynumber: 2.1 Consensus size: 86
4831557 TAAGCAATTT
* *
4831567 AAAAA-AAAATGATCTAACAAAAAAT-ATTTATTAATTGATACCATAATTAAAAATAATT-ATAA
1 AAAAATAAAATG-T-TAA-AAAAAATGATTAATTAATTG--ACCATAATCAAAAATAATTAATAA
*
4831629 AATTAA-TA-ATATATAAAATTAATAA
61 AA-AAAGTATATATATAAAATTAATAA
* * * *
4831654 AAAAATAAATTGTTAATAAAAATGATTAATTATTTGACCATAATCGAAAATAATTAATAAAAAAA
1 AAAAATAAAATGTTAAAAAAAATGATTAATTAATTGACCATAATCAAAAATAATTAATAAAAAAA
*
4831719 TGTATATATGTAAAATTAATAA
66 -GTATATATATAAAATTAATAA
4831741 AAAAAT
1 AAAAAT
4831747 CTACATTTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
84 19 0.24
85 12 0.15
86 15 0.19
87 28 0.35
88 5 0.06
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (86 bp):
AAAAATAAAATGTTAAAAAAAATGATTAATTAATTGACCATAATCAAAAATAATTAATAAAAAAA
GTATATATATAAAATTAATAA
Found at i:4831766 original size:27 final size:27
Alignment explanation
Indices: 4831703--4831773 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
4831693 ATAATCGAAA
* * *
4831703 ATAATTAATAAAAAAATGTATATATGT
1 ATAATTAATAAAAAAATCTACATATAT
* *
4831730 AAAATTAATAAAAAAATCTACATTTAT
1 ATAATTAATAAAAAAATCTACATATAT
* *
4831757 ATAATAAATATAAAAAT
1 ATAATTAATAAAAAAAT
4831774 TATTTTAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
ATAATTAATAAAAAAATCTACATATAT
Found at i:4831968 original size:23 final size:23
Alignment explanation
Indices: 4831942--4832011 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 23
4831932 ACTTATTATT
4831942 TATTATATTTATTAAAATAT-AAA
1 TATTAT-TTTATTAAAATATAAAA
4831965 TATTATTTCTAACTATTAAAATATAAAA
1 TATTA-TT-T---TATTAAAATATAAAA
* *
4831993 TATGATTTTAATAAAATAT
1 TATTATTTTATTAAAATAT
4832012 TAATTACATT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
23 16 0.41
24 2 0.05
26 1 0.03
27 13 0.33
28 7 0.18
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (23 bp):
TATTATTTTATTAAAATATAAAA
Found at i:4832948 original size:47 final size:45
Alignment explanation
Indices: 4832875--4832964 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 45
4832865 CATTAAAATA
4832875 TTATATTAATATAAAAATACTTAAAATAAAAATATTTATTATTCT
1 TTATATTAATATAAAAATACTTAAAATAAAAATATTTATTATTCT
* * *
4832920 TTATATTAATATTTTAAAATATTTAAAATAATAATATTTATTATT
1 TTATATTAATA--TAAAAATACTTAAAATAAAAATATTTATTATT
4832965 AAAATATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 11 0.28
47 29 0.73
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (45 bp):
TTATATTAATATAAAAATACTTAAAATAAAAATATTTATTATTCT
Found at i:4832970 original size:15 final size:15
Alignment explanation
Indices: 4832807--4832989 Score: 57
Period size: 15 Copynumber: 11.3 Consensus size: 15
4832797 ATATTGAAAT
4832807 TATTTATTATTAAAA
1 TATTTATTATTAAAA
*
4832822 TTATTAATT-TTCAAGAA
1 -TATTTATTATT-AA-AA
* *
4832839 TAATTATTTTTAATAATAA
1 T-A-T-TTATTATTAA-AA
**
4832858 TATTTAACATTAAAA
1 TATTTATTATTAAAA
4832873 TATTATATTAATATAAAAA
1 TATT-TATT-AT-T-AAAA
* ** *
4832892 TACTTAAAATAAAAA
1 TATTTATTATTAAAA
***
4832907 TATTTATTATTCTTTA
1 TATTTATTATT-AAAA
4832923 TATTAATATT-TTAAAA
1 TATT--TATTATTAAAA
* *
4832939 TATTTA-AAATAATAA
1 TATTTATTATTAA-AA
4832954 TATTTATTATTAAAA
1 TATTTATTATTAAAA
*
4832969 TATTTATACAGTTAAAA
1 TATTTAT-TA-TTAAAA
4832986 TATT
1 TATT
4832990 CATATTTTAT
Statistics
Matches: 119, Mismatches: 30, Indels: 35
0.65 0.16 0.19
Matches are distributed among these distances:
14 5 0.04
15 36 0.30
16 33 0.28
17 20 0.17
18 9 0.08
19 15 0.13
20 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (15 bp):
TATTTATTATTAAAA
Found at i:4832984 original size:47 final size:45
Alignment explanation
Indices: 4832850--4832989 Score: 127
Period size: 47 Copynumber: 2.9 Consensus size: 45
4832840 AATTATTTTT
** *
4832850 AATAATAATATTTAACATTAAAATATTATATTAATATAAAAATACTTAA
1 AATAATAATATTTATTATTAAAATATT-TA-TAAT-T-AAAATATTTAA
* *** * *
4832899 AATAAAAATATTTATTATTCTTTATATTAATATTTTAAAATATTTAA
1 AATAATAATATTTATTATT-AAAATATTTATA-ATTAAAATATTTAA
4832946 AATAATAATATTTATTATTAAAATATTTATACAGTTAAAATATT
1 AATAATAATATTTATTATTAAAATATTTATA-A-TTAAAATATT
4832990 CATATTTTAT
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
46 8 0.11
47 38 0.53
48 3 0.04
49 18 0.25
50 5 0.07
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (45 bp):
AATAATAATATTTATTATTAAAATATTTATAATTAAAATATTTAA
Found at i:4833267 original size:25 final size:25
Alignment explanation
Indices: 4833216--4833268 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
4833206 ATAATAACGT
* * *
4833216 AAAACTATTTATTGTTGAAATACTA
1 AAAAATATTTATGGTTAAAATACTA
4833241 AAAAATATTTATGGTTAATAATA-TA
1 AAAAATATTTATGGTTAA-AATACTA
4833266 AAA
1 AAA
4833269 GATAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (25 bp):
AAAAATATTTATGGTTAAAATACTA
Found at i:4833370 original size:19 final size:18
Alignment explanation
Indices: 4833334--4833371 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4833324 TTTAATTAAA
4833334 ATTAAATAAAATACTTTT
1 ATTAAATAAAATACTTTT
4833352 ATTAATATAATAATA-TTTT
1 ATTAA-ATAA-AATACTTTT
4833371 A
1 A
4833372 AGTCAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAATAAAATACTTTT
Found at i:4834766 original size:17 final size:17
Alignment explanation
Indices: 4834744--4834778 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4834734 CAAATTATTA
4834744 TTTTATAAATAAAATAT
1 TTTTATAAATAAAATAT
4834761 TTTTATAAATAAAATAT
1 TTTTATAAATAAAATAT
4834778 T
1 T
4834779 AAGATATAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTATAAATAAAATAT
Found at i:4834788 original size:19 final size:17
Alignment explanation
Indices: 4834747--4834790 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4834737 ATTATTATTT
**
4834747 TATAAATAAAATATTTT
1 TATAAATAAAATATTGA
4834764 TATAAATAAAATATTAAGA
1 TATAAATAAAATATT--GA
4834783 TATAAATA
1 TATAAATA
4834791 TTTTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
19 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TATAAATAAAATATTGA
Found at i:4836092 original size:26 final size:26
Alignment explanation
Indices: 4836051--4836115 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
4836041 TCTTTTTTGG
*
4836051 TTTTTGTTTGAG-AAAAAAAAGCCTT
1 TTTTTGTTTGAGAAAAAAAAAACCTT
4836076 TTTTTGTTTGAGAAAAAAAAAACCTT
1 TTTTTGTTTGAGAAAAAAAAAACCTT
4836102 TTTTTGTTTTGAGA
1 TTTTTG-TTTGAGA
4836116 TTTGAAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
25 12 0.32
26 18 0.49
27 7 0.19
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (26 bp):
TTTTTGTTTGAGAAAAAAAAAACCTT
Found at i:4838520 original size:36 final size:36
Alignment explanation
Indices: 4838474--4838547 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
4838464 TTAGGCTTTG
*
4838474 TTGTATGCTGGATTCAACTGAAGGTTTGCCTCATTT
1 TTGTATGCTGGATACAACTGAAGGTTTGCCTCATTT
4838510 TTGTATGCTGGATACAACTGAAGGTTTGCCTCATTT
1 TTGTATGCTGGATACAACTGAAGGTTTGCCTCATTT
4838546 TT
1 TT
4838548 TATCATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (36 bp):
TTGTATGCTGGATACAACTGAAGGTTTGCCTCATTT
Found at i:4840965 original size:6 final size:6
Alignment explanation
Indices: 4840954--4841013 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
4840944 TGATCCACGA
* * * * * * *
4840954 CAACAG CAACAG CAGCAG CAGCAG CAGCAG CAGCAA CAACAA CATCAG
1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG
4841002 CAACAG CAACAG
1 CAACAG CAACAG
4841014 TCTCAACAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.45, C:0.33, G:0.20, T:0.02
Consensus pattern (6 bp):
CAACAG
Found at i:4840971 original size:3 final size:3
Alignment explanation
Indices: 4840957--4840988 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4840947 TCCACGACAA
*
4840957 CAG CAA CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
4840989 ACAACAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.34, G:0.28, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:4841005 original size:9 final size:9
Alignment explanation
Indices: 4840957--4841009 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 9
4840947 TCCACGACAA
4840957 CAGCAACAG
1 CAGCAACAG
*
4840966 CAGCAGCAG
1 CAGCAACAG
*
4840975 CAGCAGCAG
1 CAGCAACAG
4840984 CAGCAACA-
1 CAGCAACAG
*
4840992 -A-CAACAT
1 CAGCAACAG
4840999 CAGCAACAG
1 CAGCAACAG
4841008 CA
1 CA
4841010 ACAGTCTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
6 5 0.13
7 1 0.03
8 1 0.03
9 31 0.82
ACGTcount: A:0.43, C:0.34, G:0.21, T:0.02
Consensus pattern (9 bp):
CAGCAACAG
Found at i:4844615 original size:3 final size:3
Alignment explanation
Indices: 4844600--4844637 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4844590 GCCAAAGGCT
*
4844600 CAC CAC CAT CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
4844638 ATGGTGGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.63, G:0.00, T:0.03
Consensus pattern (3 bp):
CAC
Found at i:4849832 original size:14 final size:13
Alignment explanation
Indices: 4849815--4849848 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4849805 TACCCATCAT
4849815 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
4849828 CAAAAAAGAAAAAG
1 -AAAAAAAAAAAAG
4849842 AAAAAAA
1 AAAAAAA
4849849 TCCCAGGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Done.