Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 220 of 226
Found at i:65792372 original size:7 final size:7
Alignment explanation
Indices: 65792360--65792392 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
65792350 TTTGTGTCAA
65792360 TGACAAT
1 TGACAAT
65792367 TGACAAT
1 TGACAAT
*
65792374 GGACAAT
1 TGACAAT
65792381 TGACAAT
1 TGACAAT
65792388 TGACA
1 TGACA
65792393 TTTCCTCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (7 bp):
TGACAAT
Found at i:65796818 original size:13 final size:13
Alignment explanation
Indices: 65796796--65796829 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
65796786 TTTGGGAAAG
65796796 AAAA-GATGGAGA
1 AAAATGATGGAGA
65796808 AAAATGATGGAGA
1 AAAATGATGGAGA
65796821 AAAATGATG
1 AAAATGATG
65796830 TGTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.15
Consensus pattern (13 bp):
AAAATGATGGAGA
Found at i:65798932 original size:69 final size:67
Alignment explanation
Indices: 65798818--65799067 Score: 257
Period size: 69 Copynumber: 3.7 Consensus size: 67
65798808 ATAAGCTGTA
* * * * * *
65798818 ATGAGGAATAATGTGTAAGACTATAGCTTGACTATGGAAATATAGAGAGAGTTTGCGAGGACATT
1 ATGAGGAATAATGTGTAAGACCATAACTCGACTATGGCAACATAGAGAGAGTCTGC-AGGACATT
65798883 CAAC
65 -AAC
* * * *
65798887 ATGAGGAATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGAGTCTACTAGGTCATT
1 ATGAGGAATAATGTGTAAGACCATAACTCGACTATGGCAACATAGAGAGAGTCTGC-AGGACATT
65798952 AAC
65 AAC
* * * * * *
65798955 ATGGGGAATAATGTCTAAGACCATAACTCAACTATGGCAACATAGAAAGAGTCTGTCAAGATATT
1 ATGAGGAATAATGTGTAAGACCATAACTCGACTATGGCAACATAGAGAGAGTCTG-CAGGACATT
65799020 AAAC
65 -AAC
* * * * * *
65799024 ATGAGGCATGATGTGTAAAACCATAACTTGGCTATGGCAGCATA
1 ATGAGGAATAATGTGTAAGACCATAACTCGACTATGGCAACATA
65799068 TGGAGTTCAC
Statistics
Matches: 151, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
68 56 0.37
69 95 0.63
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (67 bp):
ATGAGGAATAATGTGTAAGACCATAACTCGACTATGGCAACATAGAGAGAGTCTGCAGGACATTA
AC
Found at i:65799258 original size:20 final size:20
Alignment explanation
Indices: 65799217--65799264 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
65799207 TTATTTTTAT
*
65799217 ATTTTTAAAAATTTTTAGTA
1 ATTTTTAAAAATTTCTAGTA
*
65799237 ATTTTTAACAATATTCTA-TA
1 ATTTTTAAAAAT-TTCTAGTA
*
65799257 ATATTTAA
1 ATTTTTAA
65799265 TACTCTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTTTAAAAATTTCTAGTA
Found at i:65799290 original size:19 final size:19
Alignment explanation
Indices: 65799268--65799306 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
65799258 TATTTAATAC
65799268 TCTTTTAGATTTTTATATA
1 TCTTTTAGATTTTTATATA
65799287 TCTTTTAGATTTTTATATA
1 TCTTTTAGATTTTTATATA
65799306 T
1 T
65799307 TGAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (19 bp):
TCTTTTAGATTTTTATATA
Found at i:65800142 original size:16 final size:18
Alignment explanation
Indices: 65800117--65800153 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
65800107 TTTTTTTTAG
65800117 TTTTCTCTTC-TCCTTCT
1 TTTTCTCTTCTTCCTTCT
*
65800134 TTTTC-CTTCTTCGTTCT
1 TTTTCTCTTCTTCCTTCT
65800151 TTT
1 TTT
65800154 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTCTCTTCTTCCTTCT
Found at i:65805286 original size:18 final size:17
Alignment explanation
Indices: 65805245--65805286 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
65805235 AATTTTAATT
*
65805245 ATTTAATATATTTTTAA
1 ATTTAAAATATTTTTAA
*
65805262 A-TGAAAATATTTATTAA
1 ATTTAAAATATTT-TTAA
65805279 ATTTAAAA
1 ATTTAAAA
65805287 GTTATAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
ATTTAAAATATTTTTAA
Found at i:65811672 original size:55 final size:55
Alignment explanation
Indices: 65811582--65811688 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
65811572 CGATTGTGTG
* * **
65811582 ATAGAGTTTCAGTGGAAGTGAAATTCTGGTTTAGTTGAGAGTTAGTGGGTCGGTT
1 ATAGAGGTTCAGTGGAAGTGAAATCCTGGGGTAGTTGAGAGTTAGTGGGTCGGTT
*
65811637 ATAGAGGTTCGGTGGAAGTGAAATCCTGGGGTAGTTGAGAGTTAGTGGGTCG
1 ATAGAGGTTCAGTGGAAGTGAAATCCTGGGGTAGTTGAGAGTTAGTGGGTCG
65811689 ATTAGTAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.23, C:0.07, G:0.38, T:0.32
Consensus pattern (55 bp):
ATAGAGGTTCAGTGGAAGTGAAATCCTGGGGTAGTTGAGAGTTAGTGGGTCGGTT
Found at i:65825518 original size:17 final size:17
Alignment explanation
Indices: 65825498--65825531 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65825488 CAAAAATATT
*
65825498 TAAAATATATGATAAAA
1 TAAAAAATATGATAAAA
*
65825515 TAAAAAATTTGATAAAA
1 TAAAAAATATGATAAAA
65825532 CTCACAAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAAAAATATGATAAAA
Found at i:65840400 original size:26 final size:26
Alignment explanation
Indices: 65840371--65840421 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
65840361 TTGAATCTTA
65840371 GTGATGGTGAGCAATGCAATGAACAT
1 GTGATGGTGAGCAATGCAATGAACAT
65840397 GTGATGGTGAGCAATGCAATGAACA
1 GTGATGGTGAGCAATGCAATGAACA
65840422 ATCCATCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (26 bp):
GTGATGGTGAGCAATGCAATGAACAT
Found at i:65851370 original size:2 final size:2
Alignment explanation
Indices: 65851363--65851388 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65851353 GCGATCTCGA
65851363 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
65851389 GCCTTGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:65851484 original size:4 final size:4
Alignment explanation
Indices: 65851471--65851516 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
65851461 AATTTTTAAA
65851471 ATTT -TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
65851517 CAAAACGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:65863992 original size:20 final size:21
Alignment explanation
Indices: 65863969--65864007 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65863959 AATTTAGAGA
* *
65863969 ACCCTAAA-CTAATTAAAGTT
1 ACCCAAAATCTAAATAAAGTT
65863989 ACCCAAAATCTAAATAAAG
1 ACCCAAAATCTAAATAAAG
65864008 GCAGCGCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (21 bp):
ACCCAAAATCTAAATAAAGTT
Found at i:65865362 original size:10 final size:10
Alignment explanation
Indices: 65865344--65865442 Score: 69
Period size: 10 Copynumber: 9.7 Consensus size: 10
65865334 GAGGGAAAGG
65865344 AGAAGAAAGAA
1 AGAA-AAAGAA
65865355 AGAAAAAGAA
1 AGAAAAAGAA
*
65865365 AGAAAAGGAA
1 AGAAAAAGAA
*
65865375 AGGAGAAA-AA
1 A-GAAAAAGAA
65865385 A-AAAAAGAA
1 AGAAAAAGAA
65865394 AGAAAAA-AGA
1 AGAAAAAGA-A
* *
65865404 AGAAGAAGAG
1 AGAAAAAGAA
* *
65865414 GGAAGGAAGGAA
1 AGAA--AAAGAA
*
65865426 GGAAAAAGAA
1 AGAAAAAGAA
65865436 AGAAAAA
1 AGAAAAA
65865443 AAGAAGTAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
8 4 0.06
9 4 0.06
10 45 0.65
11 9 0.13
12 7 0.10
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:65865407 original size:43 final size:42
Alignment explanation
Indices: 65865346--65865448 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
65865336 GGGAAAGGAG
65865346 AAGAAAGAAAGAAA-AAGAAAGAAAAGGAAAGG-AGAAAAAAAAA
1 AAGAAAGAAA-AAAGAAG-AAGAAAAGGAAAGGAAG-AAAAAAAA
* * * **
65865389 AAGAAAGAAAAAAGAAGAAGAAGAGGGAAGGAAGGAAGGAAA
1 AAGAAAGAAAAAAGAAGAAGAAAAGGAAAGGAAGAAAAAAAA
65865431 AAGAAAGAAAAAAAGAAG
1 AAGAAAG-AAAAAAGAAG
65865449 TAAGGTAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (42 bp):
AAGAAAGAAAAAAGAAGAAGAAAAGGAAAGGAAGAAAAAAAA
Found at i:65865475 original size:16 final size:17
Alignment explanation
Indices: 65865454--65865486 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
65865444 AGAAGTAAGG
65865454 TAATTT-TTTTTTGTAT
1 TAATTTATTTTTTGTAT
65865470 TAATTTAATTTTTTGTA
1 TAATTT-ATTTTTTGTA
65865487 ATATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TAATTTATTTTTTGTAT
Found at i:65866266 original size:140 final size:145
Alignment explanation
Indices: 65865933--65866535 Score: 581
Period size: 153 Copynumber: 4.1 Consensus size: 145
65865923 TTTTACTAAA
* * * * *
65865933 TTTTTTA-AAAA-TTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATA
1 TTTTTTACAAAATTTAAGAAATAATTAATAC----ACTTCAAACATAATGTACTAAAATAATGTA
*
65865996 AAATAATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGG-GAAAATAATGC
62 AAATAATAAAATTA-GAAAATAATATA-TTTTATTGAAAGTAATAAAATTCGGAGAAAA-AATAC
* * *
65866059 GAGCAAA-GGACAGAAATAAGGG
124 GAACAAATGG-CCGAAATAAGAG
* * * * *
65866081 TTTTTTA-AAATTTATTCAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATA
1 TTTTTTACAAA---ATT--TAAGA-A-A-T-AATTAATACACTTCAAACATAATGTACTAAAATA
*
65866145 ATGTAAAATAATAAAATTAG-AAAT-ATGATATTTT-TT-AAAGTAATAAAATGCGGAGAAAAAA
57 ATGTAAAATAATAAAATTAGAAAATAAT-ATATTTTATTGAAAGTAATAAAATTCGGAGAAAAAA
*
65866206 TACGAACAAATGGCCGAAGTAAGAG
121 TACGAACAAATGGCCGAAATAAGAG
**
65866231 TTTTTTA-AAAATTT-AGAAATAATTAATACACTTCAAACATAATGTACTAAAATAAAATAAAAT
1 TTTTTTACAAAATTTAAGAAATAATTAATACACTTCAAACATAATGTACTAAAATAATGTAAAAT
** *
65866294 AATAAAATGCGAAAATAATATATTTTGATTGAAAGTAATAAAATTCAGGA-AAATAATACGAACA
66 AATAAAATTAGAAAATAATATATTTT-ATTGAAAGTAATAAAATTC-GGAGAAAAAATACGAACA
*
65866358 AATGGCCGAAATAAGGG
129 AATGGCCGAAATAAGAG
*
65866375 TTTTTTACTAAATTTAAAAAAACAGAAATAATTAATACACTTCAAACATAATGTACTAAAATAAT
1 TTTTTTACAAAATTT------A-AGAAATAATTAATACACTTCAAACATAATGTACTAAAATAAT
*
65866440 GTAAAATAATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGG-GAAAATAG
59 GTAAAATAATAAAATTA-GAAAATAATATA-TTTTATTGAAAGTAATAAAATTCGGAGAAAA-AA
* *
65866503 TACGAATAAATGACCGAAATAA-AG
121 TACGAACAAATGGCCGAAATAAGAG
65866527 ATTTTTTAC
1 -TTTTTTAC
65866536 TAATTTTTTT
Statistics
Matches: 386, Mismatches: 35, Indels: 63
0.80 0.07 0.13
Matches are distributed among these distances:
140 47 0.12
141 12 0.03
142 3 0.01
143 3 0.01
144 51 0.13
145 9 0.02
147 3 0.01
148 10 0.03
150 45 0.12
151 10 0.03
152 13 0.03
153 121 0.31
154 46 0.12
155 3 0.01
156 1 0.00
157 1 0.00
158 8 0.02
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (145 bp):
TTTTTTACAAAATTTAAGAAATAATTAATACACTTCAAACATAATGTACTAAAATAATGTAAAAT
AATAAAATTAGAAAATAATATATTTTATTGAAAGTAATAAAATTCGGAGAAAAAATACGAACAAA
TGGCCGAAATAAGAG
Found at i:65866299 original size:294 final size:296
Alignment explanation
Indices: 65865784--65866534 Score: 939
Period size: 294 Copynumber: 2.5 Consensus size: 296
65865774 AATTGTATAT
*
65865784 TTAAAAAACACACTAAATTAATAAATTTCAAACTTAATGTACTAAAATAATGTAAAATAATAAAA
1 TTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
** * *
65865849 TTATAAAATATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAAGGGCCGAA
66 TTACGAAATATGATATTTTTTAAAGTAATAAAATGCGGAG-AAAAAATACGAACAAATGGCCGAA
* *
65865914 GTAAAAGTTTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAA
130 GT--AAG----------AGTTTTTTAAAAATTCAGAAATAATTAATAC--A-ACTTCAAACAAAA
* * *
65865979 TGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAT
180 TGTACTAAAATAAAATAAAATAATAAAATACGAAAATAATATATTTTGATTGAAAGTAATAAAAT
* * *
65866044 TCGGGAAAATAATGCGAGCAAA-GGACAGAAATAAGGGTTTTTTA-AAATTTA
245 TCAGGAAAATAATACGAACAAATGG-CAGAAATAAGGGTTTTTTACAAATTTA
*
65866095 TTCAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAAA
1 TT-AAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
65866160 ATTA-GAAATATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAATGGCCGAA
65 ATTACGAAATATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAATGGCCGAA
* *
65866224 GTAAGAGTTTTTTAAAAATTTAGAAATAATTAATAC-ACTTCAAACATAATGTACTAAAATAAAA
130 GTAAGAGTTTTTTAAAAATTCAGAAATAATTAATACAACTTCAAACAAAATGTACTAAAATAAAA
*
65866288 TAAAATAATAAAATGCGAAAATAATATATTTTGATTGAAAGTAATAAAATTCAGGAAAATAATAC
195 TAAAATAATAAAATACGAAAATAATATATTTTGATTGAAAGTAATAAAATTCAGGAAAATAATAC
*
65866353 GAACAAATGGCCGAAATAAGGGTTTTTTACTAAATTTA
260 GAACAAATGGCAGAAATAAGGGTTTTTTAC-AAATTTA
* * * *
65866391 --AAAAAACAGA-AATAATTAATACACTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
1 TTAAAAAACACACTA-AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* * *
65866453 A-TACGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGG-GAAAATAGTACGAATAAATG
65 ATTACG-AAAT-ATGATA-TTTT-TT-AAAGTAATAAAATGCGGAGAAAA-AATACGAACAAATG
* *
65866515 ACCGAAATAA-AGATTTTTTA
124 GCCGAAGTAAGAG-TTTTTTA
65866535 CTAATTTTTT
Statistics
Matches: 400, Mismatches: 27, Indels: 40
0.86 0.06 0.09
Matches are distributed among these distances:
292 3 0.01
293 57 0.14
294 116 0.29
295 8 0.02
296 16 0.04
297 43 0.11
298 29 0.07
308 3 0.01
310 25 0.06
311 36 0.09
312 64 0.16
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (296 bp):
TTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
TTACGAAATATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAATGGCCGAAG
TAAGAGTTTTTTAAAAATTCAGAAATAATTAATACAACTTCAAACAAAATGTACTAAAATAAAAT
AAAATAATAAAATACGAAAATAATATATTTTGATTGAAAGTAATAAAATTCAGGAAAATAATACG
AACAAATGGCAGAAATAAGGGTTTTTTACAAATTTA
Found at i:65870944 original size:24 final size:24
Alignment explanation
Indices: 65870901--65870978 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
65870891 ATGAGATAAC
* * * *
65870901 TTAAAATAATAATACCTAATAGCT
1 TTAAAACAATCATACATAATAGAT
* *
65870925 TTAAAACAA-CAGTACATAATAAAA
1 TTAAAACAATCA-TACATAATAGAT
*
65870949 TTAAAACAATTATACATAATAGAT
1 TTAAAACAATCATACATAATAGAT
65870973 TTAAAA
1 TTAAAA
65870979 GAATGTACAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 1 0.02
24 41 0.95
25 1 0.02
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (24 bp):
TTAAAACAATCATACATAATAGAT
Found at i:65875361 original size:19 final size:19
Alignment explanation
Indices: 65875337--65875375 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
65875327 CCCAACCTAA
65875337 ACACCTCTACTTCTACTGC
1 ACACCTCTACTTCTACTGC
65875356 ACACCTCTACTTCTACTGC
1 ACACCTCTACTTCTACTGC
65875375 A
1 A
65875376 TGCTAATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.41, G:0.05, T:0.31
Consensus pattern (19 bp):
ACACCTCTACTTCTACTGC
Found at i:65876699 original size:84 final size:84
Alignment explanation
Indices: 65876551--65876705 Score: 224
Period size: 84 Copynumber: 1.8 Consensus size: 84
65876541 ATAGGACATG
* ** **
65876551 TGGCATTTTTTTTAACTCCTTTGTGGAGTTAAAAAATTGTATTGCTAGTGTACTGAATTCGAACC
1 TGGCATTTTTTTTAACTCCTTTATGGAGTTAAAAAATTCCATTGCTAGTGTACCAAATTCGAACC
65876616 CTATATATATGAAGCAATT
66 CTATATATATGAAGCAATT
*
65876635 TGGCAGTTTTTTTT-ACT-CTGTTATGGAGTTAAAAAATTCCATTGCTAGTGTACCAAATTTGAA
1 TGGCA-TTTTTTTTAACTCCT-TTATGGAGTTAAAAAATTCCATTGCTAGTGTACCAAATTCGAA
65876698 CCCTATAT
64 CCCTATAT
65876706 GTGTCTGTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
83 2 0.03
84 53 0.84
85 8 0.13
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (84 bp):
TGGCATTTTTTTTAACTCCTTTATGGAGTTAAAAAATTCCATTGCTAGTGTACCAAATTCGAACC
CTATATATATGAAGCAATT
Found at i:65881802 original size:22 final size:22
Alignment explanation
Indices: 65881775--65881852 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
65881765 AAACACAATG
65881775 GAATTTTTTGCTTCACAATATT
1 GAATTTTTTGCTTCACAATATT
** *
65881797 GAATTTTTTATTTTA-ATATATTTT
1 GAATTTTTTGCTTCACA-ATA--TT
* *
65881821 CCAATTATTTGCTTCACAATATT
1 -GAATTTTTTGCTTCACAATATT
65881844 GAATTTTTT
1 GAATTTTTT
65881853 ATTTTAATTA
Statistics
Matches: 41, Mismatches: 10, Indels: 10
0.67 0.16 0.16
Matches are distributed among these distances:
21 1 0.02
22 22 0.54
23 2 0.05
24 2 0.05
25 13 0.32
26 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.55
Consensus pattern (22 bp):
GAATTTTTTGCTTCACAATATT
Found at i:65881881 original size:53 final size:47
Alignment explanation
Indices: 65881776--65881864 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
65881766 AACACAATGG
*
65881776 AATTTTTTGCTTCACAATATTGAATTTTTTATTTTAATATATTTTCC
1 AATTATTTGCTTCACAATATTGAATTTTTTATTTTAATATATTTTCC
65881823 AATTATTTGCTTCACAATATTGAATTTTTTATTTTAAT-TATT
1 AATTATTTGCTTCACAATATTGAATTTTTTATTTTAATATATT
65881865 ATTTATTGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 4 0.10
47 37 0.90
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.57
Consensus pattern (47 bp):
AATTATTTGCTTCACAATATTGAATTTTTTATTTTAATATATTTTCC
Found at i:65886251 original size:9 final size:9
Alignment explanation
Indices: 65886237--65886305 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
65886227 AAGAAATGAT
65886237 TAAAAATTA
1 TAAAAATTA
*
65886246 TAAAAATCA
1 TAAAAATTA
*
65886255 GAAAAA-TA
1 TAAAAATTA
*
65886263 GAAAAA-TA
1 TAAAAATTA
*
65886271 TTAAAATTGA
1 TAAAAATT-A
*
65886281 TATAAATTTA
1 TA-AAAATTA
*
65886291 TTAAAATTA
1 TAAAAATTA
65886300 TAAAAA
1 TAAAAA
65886306 AAATATAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
8 13 0.28
9 25 0.53
10 4 0.09
11 5 0.11
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:65886320 original size:26 final size:25
Alignment explanation
Indices: 65886291--65886340 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
65886281 TATAAATTTA
*
65886291 TTAAAATTATAAAAAAAATATAAAAC
1 TTAAAAGTAT-AAAAAAATATAAAAC
* *
65886317 TTAAAAGTATTATAAAATATAAAA
1 TTAAAAGTATAAAAAAATATAAAA
65886341 AATCTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
TTAAAAGTATAAAAAAATATAAAAC
Found at i:65894555 original size:12 final size:12
Alignment explanation
Indices: 65894538--65894564 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
65894528 TTAACTGTAA
65894538 AAATTAAAAATT
1 AAATTAAAAATT
65894550 AAATTAAAAATT
1 AAATTAAAAATT
65894562 AAA
1 AAA
65894565 AAAAATCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTAAAAATT
Found at i:65894566 original size:8 final size:7
Alignment explanation
Indices: 65894535--65894566 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
65894525 TCTTTAACTG
65894535 TAAAAAT
1 TAAAAAT
65894542 TAAAAAT
1 TAAAAAT
65894549 T--AAAT
1 TAAAAAT
65894554 TAAAAAT
1 TAAAAAT
65894561 TAAAAA
1 TAAAAA
65894567 AAATCCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.22
7 18 0.78
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAAAT
Found at i:65895370 original size:13 final size:13
Alignment explanation
Indices: 65895352--65895382 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
65895342 AAAATAAGAT
65895352 AAAATTTCCATAA
1 AAAATTTCCATAA
65895365 AAAATTTCCATAA
1 AAAATTTCCATAA
65895378 AAAAT
1 AAAAT
65895383 AAGATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTTCCATAA
Found at i:65895391 original size:23 final size:22
Alignment explanation
Indices: 65895365--65895412 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
65895355 ATTTCCATAA
65895365 AAAATTTCCATAAAAAATAAGAT
1 AAAATTTCCATAAAAAATAA-AT
*
65895388 AAAATTTCCATAAAAGATAAAT
1 AAAATTTCCATAAAAAATAAAT
65895410 AAA
1 AAA
65895413 TTTGGTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAATTTCCATAAAAAATAAAT
Found at i:65896246 original size:169 final size:169
Alignment explanation
Indices: 65895950--65896267 Score: 453
Period size: 169 Copynumber: 1.9 Consensus size: 169
65895940 TGTATACCAT
* *
65895950 TGAATCTGTTAAACATTTCATAGATCATTAGCATTGGATGTTATGTCACGTACGTTGTATATGAA
1 TGAATCTGTTAAACATTTCATAGATCATTAGCATTGGATGTTATGTCACGTAAGTTGCATATGAA
** ** * *
65896015 TATGTGTTGTCGGTGTTGGTTTCAGAATTATATTTGATGTATCAACTTGGTTATTGATCTCTGCA
66 TACCTGTCATCGGTATTGGTTTCAGAATTATATTTGATGTATCAACTTGGTTATTAATCTCTGCA
*
65896080 TTCATATAACCATTGTTGTTGTTTATACGGTTTTCTGAC
131 TTCATATAACAATTGTTGTTGTTTATACGGTTTTCTGAC
* **
65896119 TGAAT-TGTTCAACATTTCATAGATCAATTATTATTGGATGTTATGTCACGTATAG-TGCATAT-
1 TGAATCTGTTAAACATTTCATAGATC-ATTAGCATTGGATGTTATGTCACGTA-AGTTGCATATG
* *
65896181 AAGTACCTGTCATCGGTATTGGTTTGAGAATTATTTTTGATGTATCAACTTGGTTATTAATCTCT
64 AA-TACCTGTCATCGGTATTGGTTTCAGAATTATATTTGATGTATCAACTTGGTTATTAATCTCT
*
65896246 GCATTCATATAATAATTGTTGT
128 GCATTCATATAACAATTGTTGT
65896268 AGTTATTTAT
Statistics
Matches: 131, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
168 21 0.16
169 109 0.83
170 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (169 bp):
TGAATCTGTTAAACATTTCATAGATCATTAGCATTGGATGTTATGTCACGTAAGTTGCATATGAA
TACCTGTCATCGGTATTGGTTTCAGAATTATATTTGATGTATCAACTTGGTTATTAATCTCTGCA
TTCATATAACAATTGTTGTTGTTTATACGGTTTTCTGAC
Found at i:65897407 original size:3 final size:3
Alignment explanation
Indices: 65897401--65897438 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
65897391 TAATCATCAT
* *
65897401 CAC CAC CAC CAC CAC CAC CAT CAC CAC CAC CAT CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
65897439 TCATCACCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.61, G:0.00, T:0.05
Consensus pattern (3 bp):
CAC
Found at i:65897418 original size:12 final size:12
Alignment explanation
Indices: 65897395--65897438 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
65897385 CCACAGTAAT
*
65897395 CATCATCACCAC
1 CATCACCACCAC
*
65897407 CACCACCACCAC
1 CATCACCACCAC
65897419 CATCACCACCAC
1 CATCACCACCAC
65897431 CATCACCA
1 CATCACCA
65897439 TCATCACCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.34, C:0.57, G:0.00, T:0.09
Consensus pattern (12 bp):
CATCACCACCAC
Found at i:65897443 original size:9 final size:9
Alignment explanation
Indices: 65897395--65897448 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
65897385 CCACAGTAAT
65897395 CATCATCAC
1 CATCATCAC
65897404 CA-C--CAC
1 CATCATCAC
* *
65897410 CACCACCAC
1 CATCATCAC
*
65897419 CATCACCAC
1 CATCATCAC
*
65897428 CACCATCAC
1 CATCATCAC
65897437 CATCATCAC
1 CATCATCAC
65897446 CAT
1 CAT
65897449 AGTGCTGATC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 5 0.13
7 1 0.03
8 1 0.03
9 31 0.82
ACGTcount: A:0.33, C:0.54, G:0.00, T:0.13
Consensus pattern (9 bp):
CATCATCAC
Found at i:65913664 original size:30 final size:30
Alignment explanation
Indices: 65913623--65913686 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
65913613 GGGGCCAAAC
* *
65913623 TAATAAAAAAAAGTACAA-TAGTCAAATTGA
1 TAATAAAAAAAAATACAAGTA-TCAAAGTGA
*
65913653 TAATAATAAAAAATACAAGTATCAAAGTGA
1 TAATAAAAAAAAATACAAGTATCAAAGTGA
65913683 TAAT
1 TAAT
65913687 TTAGCTATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.25
Consensus pattern (30 bp):
TAATAAAAAAAAATACAAGTATCAAAGTGA
Found at i:65914263 original size:22 final size:23
Alignment explanation
Indices: 65914238--65914280 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
65914228 GAACTTTGGA
* *
65914238 ATTATCTTATTT-TTATAAAATC
1 ATTATATTATTTATTAAAAAATC
65914260 ATTATATTATTTATTAAAAAA
1 ATTATATTATTTATTAAAAAA
65914281 ACACAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTATATTATTTATTAAAAAATC
Found at i:65914887 original size:19 final size:19
Alignment explanation
Indices: 65914863--65914899 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
65914853 GTATATAACT
65914863 AAGTTTTCAAACAACATTA
1 AAGTTTTCAAACAACATTA
*
65914882 AAGTTTTCAAACATCATT
1 AAGTTTTCAAACAACATT
65914900 GTTACAGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (19 bp):
AAGTTTTCAAACAACATTA
Found at i:65921106 original size:64 final size:64
Alignment explanation
Indices: 65921022--65921198 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
65921012 ATATATATTT
*
65921022 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
65921086 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
65921150 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
65921199 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:65921612 original size:41 final size:41
Alignment explanation
Indices: 65921317--65921598 Score: 424
Period size: 41 Copynumber: 6.9 Consensus size: 41
65921307 TATATGAGAT
65921317 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
65921358 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
65921399 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
65921440 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
*
65921481 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* * * * * *
65921522 TTTTAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-GATTA
* * ** *
65921564 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
65921599 TTTTATATAG
Statistics
Matches: 225, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
40 2 0.01
41 216 0.96
42 7 0.03
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
Found at i:65937010 original size:2 final size:2
Alignment explanation
Indices: 65937003--65937039 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
65936993 GGTGTTAAAA
65937003 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
65937040 TTGTTGAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:65937501 original size:85 final size:84
Alignment explanation
Indices: 65937337--65937557 Score: 284
Period size: 85 Copynumber: 2.6 Consensus size: 84
65937327 CTGGTGCTAT
* *
65937337 AATCGAATCGAGCCGAATTTAATTAATAACGGGTAAATTATACAGATAGTTATTCGATTATTGAA
1 AATCGAGTCGAGCCGAATTTAATTAATAA-GGGTAAATTATACAGATAGTTATTCGATTATCGAA
* *
65937402 TTTGACACAGAAGATATAAA
65 TTTGACACAAAAGATACAAA
* * * *
65937422 AATCGAGTCAAGCCAAATTTAATTAATATA-GGTAAATTATACCGATAGTTATTCGGTTATCG-A
1 AATCGAGTCGAGCCGAATTTAATTAATA-AGGGTAAATTATACAGATAGTTATTCGATTATCGAA
*
65937485 TGATTGTCACAAAAGATACAAA
65 T--TTGACACAAAAGATACAAA
* **
65937507 AATCGAGTCGAGACGAATTTAATTAATAAGGGTAAATTATATTGATAGTTA
1 AATCGAGTCGAGCCGAATTTAATTAATAAGGGTAAATTATACAGATAGTTA
65937558 CTCAACTATT
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
83 2 0.02
84 30 0.25
85 85 0.72
86 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (84 bp):
AATCGAGTCGAGCCGAATTTAATTAATAAGGGTAAATTATACAGATAGTTATTCGATTATCGAAT
TTGACACAAAAGATACAAA
Found at i:65948949 original size:14 final size:14
Alignment explanation
Indices: 65948930--65948972 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
65948920 AAAAATAATC
65948930 AATATTTTTTATAT
1 AATATTTTTTATAT
*
65948944 AATA-TTTTTAAAT
1 AATATTTTTTATAT
*
65948957 ATATATTTTGTATAT
1 A-ATATTTTTTATAT
65948972 A
1 A
65948973 GAATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 9 0.38
14 7 0.29
15 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
AATATTTTTTATAT
Found at i:65951484 original size:15 final size:16
Alignment explanation
Indices: 65951464--65951504 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
65951454 TTTATTGGGA
65951464 TTTTTATTTTTA-TTT
1 TTTTTATTTTTAGTTT
65951479 TTTTTA-TTTTAGTTT
1 TTTTTATTTTTAGTTT
*
65951494 TATTTATTTTT
1 TTTTTATTTTT
65951505 TAATTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 14 0.61
16 4 0.17
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTATTTTTAGTTT
Found at i:65951494 original size:20 final size:21
Alignment explanation
Indices: 65951465--65951504 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
65951455 TTATTGGGAT
*
65951465 TTTTATTTTTATTT-TTTTTA
1 TTTTAGTTTTATTTATTTTTA
65951485 TTTTAGTTTTATTTATTTTT
1 TTTTAGTTTTATTTATTTTT
65951505 TAATTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTAGTTTTATTTATTTTTA
Found at i:65951668 original size:25 final size:25
Alignment explanation
Indices: 65951618--65951669 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
65951608 CAATTAATTT
* *
65951618 TTTATATTTGATTCGATCTGATTAA
1 TTTATATTTGATTCGATCTAAATAA
*
65951643 TTTA-ATTTGAATTCGATTTAAATAA
1 TTTATATTTG-ATTCGATCTAAATAA
65951668 TT
1 TT
65951670 AAAAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (25 bp):
TTTATATTTGATTCGATCTAAATAA
Found at i:65953547 original size:21 final size:21
Alignment explanation
Indices: 65953523--65953562 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
65953513 ACTTTTTATA
*
65953523 AAGTTAAAAGTTAAAACTATT
1 AAGTTAAAAGGTAAAACTATT
65953544 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
65953563 CGTCGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:65954735 original size:18 final size:18
Alignment explanation
Indices: 65954700--65954735 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
65954690 GTTTATAATA
*
65954700 TTATATATTATGTTATTT
1 TTATATATTATGTAATTT
*
65954718 TTATATATTTTGTAATTT
1 TTATATATTATGTAATTT
65954736 AGAACACGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATATATTATGTAATTT
Found at i:65957101 original size:3 final size:3
Alignment explanation
Indices: 65957087--65957121 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
65957077 TCCTTTATCG
* *
65957087 TCA TCG TCA TCA TCA TCA TCA TCA ACA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
65957122 TTTTTGTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.34, G:0.03, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:65962902 original size:40 final size:39
Alignment explanation
Indices: 65962858--65962972 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 39
65962848 GTTTGGATAA
* *
65962858 AAAACGCCGCTAAAAATTAAGCATTATCGGCGCTTTTAAG
1 AAAACGCCACTAAAAA-TAAGCATTAGCGGCGCTTTTAAG
* * *
65962898 AAAACGCCACTAAAGATAGAGTATTAGCGGCGCTTTTAGG
1 AAAACGCCACTAAAAATA-AGCATTAGCGGCGCTTTTAAG
*
65962938 AAAACGCCACTAAAAATGAGCATTAGCGGCG-TTTT
1 AAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTT
65962973 CCAAAAAGCG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.06
39 14 0.21
40 48 0.73
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (39 bp):
AAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTTAAG
Found at i:65963082 original size:41 final size:41
Alignment explanation
Indices: 65963024--65963263 Score: 372
Period size: 41 Copynumber: 5.9 Consensus size: 41
65963014 TTTTGAGTTT
* * * *
65963024 TCGGGGCTTTAGTGGCGTTTTTAAGGAAGCGCCACTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
65963065 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
*
65963106 TCGGGTCTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* * *
65963147 TCGGGTCTTTAGCGGCGTTTTTAAATAGGCGCCACTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
*
65963188 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTTATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* * *
65963229 TCGGGCCTTTAGCGGCGTTTTTGAAGAATCGCCGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGC
65963264 AAAAAATATT
Statistics
Matches: 183, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 183 1.00
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
Found at i:65963398 original size:37 final size:36
Alignment explanation
Indices: 65963357--65963479 Score: 97
Period size: 38 Copynumber: 3.2 Consensus size: 36
65963347 ATTTGCTTTC
*
65963357 TCCCCTACCCCGATTCCCTTTATTTTTCCCCCGAATT
1 TCCCCAACCCCGATTCCCTTTATTTTTCCCCC-AATT
** * *
65963394 TCCCCAAATCAAC-A-GCCCTTTTATTTTTCCCAAACCATTT
1 TCCCC-AA-CCCCGATTCCC-TTTATTTTTCCC---CCAATT
65963434 CTCCCCCAACCCCGATTCCCTTTATTTTTCCCCCCAATT
1 -T-CCCCAACCCCGATTCCCTTTATTTTT-CCCCCAATT
65963473 TCCCCAA
1 TCCCCAA
65963480 ATCGGCAGTC
Statistics
Matches: 66, Mismatches: 9, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
37 14 0.21
38 15 0.23
39 7 0.11
40 5 0.08
41 15 0.23
42 10 0.15
ACGTcount: A:0.20, C:0.43, G:0.03, T:0.34
Consensus pattern (36 bp):
TCCCCAACCCCGATTCCCTTTATTTTTCCCCCAATT
Found at i:65968924 original size:43 final size:43
Alignment explanation
Indices: 65968859--65968998 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 43
65968849 ATTATGTTTT
* * *
65968859 TAGCGGCGTTTTTGTTAGAAGCGCCACTAAAGGTCATT-GTCTA
1 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTC-TTAGTCTA
* *
65968902 TAGCGGCGTTTGTGATAAAAGCGCCTCTAAAGGTCTTAGTCTT
1 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCTTAGTCTA
* *** * * *
65968945 TAGCGGCGTTTGT-AGGAAAAGCGTTGCTAAAAGTCTTGGTCTT
1 TAGCGGCGTTTGTGA-TAAAAGCGCCACTAAAGGTCTTAGTCTA
65968988 TAGCGGCGTTT
1 TAGCGGCGTTT
65968999 TTTCTGGTGC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 3 0.04
43 81 0.96
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCTTAGTCTA
Found at i:65970774 original size:16 final size:16
Alignment explanation
Indices: 65970753--65970786 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65970743 TTCCTTACTT
*
65970753 TTATTTCCTTTATTTA
1 TTATTTCATTTATTTA
*
65970769 TTATTTTATTTATTTA
1 TTATTTCATTTATTTA
65970785 TT
1 TT
65970787 TATTGCTGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTCATTTATTTA
Found at i:65970942 original size:23 final size:23
Alignment explanation
Indices: 65970916--65970960 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
65970906 CTTCTTTAAT
*
65970916 CCTTATTATTTTA-AAAATAATTA
1 CCTTATT-TTTTAGAAAAAAATTA
*
65970939 CCTTCTTTTTTAGAAAAAAATT
1 CCTTATTTTTTAGAAAAAAATT
65970961 TTAATTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (23 bp):
CCTTATTTTTTAGAAAAAAATTA
Found at i:65978093 original size:90 final size:88
Alignment explanation
Indices: 65977953--65978117 Score: 276
Period size: 90 Copynumber: 1.9 Consensus size: 88
65977943 TCCTCCAAAG
*
65977953 AAACTATCATTGAAACAAACCCCCAAAGGCAATTCGTTAAAAACCGGTATTTAACGCTCACACTC
1 AAACTATCATTGAAACAAACCCCAAAAGGCAATTCGTTAAAAACCGGTATTTAACGCTCACACTC
65978018 GAATCCAAATGAATCCCCCAGAC
66 GAATCCAAATGAATCCCCCAGAC
* * *
65978041 AAACTATCATTTAAACAAAACCCGAAAGAGGCAATTCGTTAAATACCGGTATTTAACGCTCACAC
1 AAACTATCATTGAAAC-AAACCCCAAA-AGGCAATTCGTTAAAAACCGGTATTTAACGCTCACAC
65978106 TCGAATCCAAAT
64 TCGAATCCAAAT
65978118 AACCTAGTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 15 0.21
89 8 0.11
90 48 0.68
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.21
Consensus pattern (88 bp):
AAACTATCATTGAAACAAACCCCAAAAGGCAATTCGTTAAAAACCGGTATTTAACGCTCACACTC
GAATCCAAATGAATCCCCCAGAC
Found at i:65979849 original size:7 final size:7
Alignment explanation
Indices: 65979837--65979861 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
65979827 TTTTATTTTA
65979837 TTTTATT
1 TTTTATT
65979844 TTTTATT
1 TTTTATT
65979851 TTTTATT
1 TTTTATT
65979858 TTTT
1 TTTT
65979862 TGGGAGGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:66000050 original size:19 final size:20
Alignment explanation
Indices: 66000012--66000050 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
66000002 TGTCAGAGTG
* *
66000012 CAATTTTAACATTATTAATT
1 CAATTATAACATTATAAATT
66000032 CAATTATAA-ATTATAAATT
1 CAATTATAACATTATAAATT
66000051 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
CAATTATAACATTATAAATT
Found at i:66000127 original size:91 final size:91
Alignment explanation
Indices: 65999964--66000140 Score: 264
Period size: 91 Copynumber: 1.9 Consensus size: 91
65999954 ATATTTATTG
* * * *
65999964 TTTTTAAAAGATTAAATCAAAATTTTATCATTTTTGGATGTCAGAGTGCAATTTTAACATTATTA
1 TTTTTAAAAGATTAAATCAAAATTTTATAATTTTTAGAGGTCAGAGTGCAATTTTAACATTACTA
*
66000029 ATTCAATTATAAATTATAAATTATAA
66 ATCCAATTATAAATTATAAATTATAA
* ** * *
66000055 TTTTTAAAAGATTAAATTAATTTTTTATAATTTTTAGAGGTCATAGTGCAATTTTACCATTACTA
1 TTTTTAAAAGATTAAATCAAAATTTTATAATTTTTAGAGGTCAGAGTGCAATTTTAACATTACTA
66000120 ATCCAATTATAAATTATAAAT
66 ATCCAATTATAAATTATAAAT
66000141 CAACATAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (91 bp):
TTTTTAAAAGATTAAATCAAAATTTTATAATTTTTAGAGGTCAGAGTGCAATTTTAACATTACTA
ATCCAATTATAAATTATAAATTATAA
Found at i:66002317 original size:22 final size:22
Alignment explanation
Indices: 66002291--66002332 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
66002281 CTATTACATG
*
66002291 TTTT-GATTGTGTTTTTTTGTCT
1 TTTTGGATTGT-TCTTTTTGTCT
66002313 TTTTGGATTGTTCTTTTTGT
1 TTTTGGATTGTTCTTTTTGT
66002333 TAGGATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.05, C:0.05, G:0.19, T:0.71
Consensus pattern (22 bp):
TTTTGGATTGTTCTTTTTGTCT
Found at i:66007346 original size:14 final size:15
Alignment explanation
Indices: 66007327--66007359 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
66007317 ATTTTTATTG
66007327 TTGTATTATTT-TTT
1 TTGTATTATTTGTTT
66007341 TTGTATTATTTGTTT
1 TTGTATTATTTGTTT
66007356 TTGT
1 TTGT
66007360 TGAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (15 bp):
TTGTATTATTTGTTT
Found at i:66024472 original size:291 final size:294
Alignment explanation
Indices: 66023812--66024487 Score: 936
Period size: 300 Copynumber: 2.3 Consensus size: 294
66023802 GAGTGTTCAG
* **
66023812 TTTGAATGTTAAAAATGGAACAGTTAGGTATTGTTTGGTAAATGATAAGCGATTCTCAATGCGTT
1 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
* * *
66023877 TGGTTTCTCATTTTGGAGATTAAGCTTGATTGATTGTTTTCAATAATATATACTACTTATGAGTT
66 TGGTTTCTCATTCTGGAGATTAAGCTTGAATGATTATTTTCAATAATATATACTACTTATGAGTT
*
66023942 AAAGCAATGCTATTTTTTTCCCATCATTTGACCACTATGAGTTCAGTTCCTGTTTGGTTACCGAG
131 AAAGCAATGCTATTTTTTT-CCATCATTTGACCACTATGAGTTCACTTCCTGTTTGGTTACCGAG
* *
66024007 AAAGTGAAGGAACATGGAAAGTTGAAACATTGTTTCACTGTGCAAAAGAACCTGGTTTTGTCATC
195 AAAGTGAAGGAAAATGGAAAGTTGAAACATTGTTTCACTGTGCAAAAGAACCTGCTTTTGTCATC
*
66024072 TGAGTGTTCAGTAAAGGGTAGTATTTTTATTTCCATTGTT
260 TGA----TCA-TAAAGGGTAGTATTTTTATTTCCATTGGT
* * *
66024112 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTGAACGATAAGTAACTCTCAATGCGTT
1 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
* *
66024177 TGGTTTCTTATTCTGGAGATTAAGCTT-AATGAATTATTTTCAATAATATATACTACTTAATGTG
66 TGGTTTCTCATTCTGGAGATTAAGCTTGAATG-ATTATTTTCAATAATATATACTACTT-ATGAG
** **
66024241 TTACGGCAATG-T-TTTCTTTT-CATCATTTGACTGCTATGAGTTCACTTCCTGTTTGGTTACCG
129 TTAAAGCAATGCTATTT-TTTTCCATCATTTGACCACTATGAGTTCACTTCCTGTTTGGTTACCG
* * * * *
66024303 AGAAAGTGAAGGAAAATGGAAAGTTGAAATGATTGTTTTACTGTTCACAAGAACCTGCTTTTGTT
193 AGAAAGTGAAGGAAAATGGAAAGTTGAAA-CATTGTTTCACTGTGCAAAAGAACCTGCTTTTGTC
* * *
66024368 ATCTGA-C-TTAAGGTTAGTA-TTTTATTTTCATTGGT
257 ATCTGATCATAAAGGGTAGTATTTTTATTTCCATTGGT
* *
66024403 TTTGAATGTTAAAAATGGAACGGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCATT
1 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
66024468 TGGTTTCTCAATT-TGGAGAT
66 TGGTTTCTC-ATTCTGGAGAT
66024488 AAGTTTTATT
Statistics
Matches: 338, Mismatches: 33, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
291 89 0.26
292 13 0.04
294 1 0.00
298 67 0.20
299 41 0.12
300 114 0.34
301 13 0.04
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.40
Consensus pattern (294 bp):
TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
TGGTTTCTCATTCTGGAGATTAAGCTTGAATGATTATTTTCAATAATATATACTACTTATGAGTT
AAAGCAATGCTATTTTTTTCCATCATTTGACCACTATGAGTTCACTTCCTGTTTGGTTACCGAGA
AAGTGAAGGAAAATGGAAAGTTGAAACATTGTTTCACTGTGCAAAAGAACCTGCTTTTGTCATCT
GATCATAAAGGGTAGTATTTTTATTTCCATTGGT
Found at i:66025236 original size:159 final size:158
Alignment explanation
Indices: 66024882--66025201 Score: 385
Period size: 159 Copynumber: 2.0 Consensus size: 158
66024872 TTTTTACTGC
* * * ***
66024882 AATGAGTTCACTTCCTGTTTTGTTACCAAGAAAGTAAAGGAAAATTGGAGGAAAAGGGAAAGTTG
1 AATGAGATCACTTCCTGTTTGGTGAATGAGAAAGTAAAGGAAAATTGGAGGAAAAGGGAAAGTTG
* *
66024947 AAACGATCATTTCACTGTGCAGAAGAACCTGGTTTTGTCATCCGAGTGTTCACTAAAGGGTAGTA
66 AAACGATCATTTCACTGTGCAAAAGAACCTGCTTTTGTCATCCGAG-GTTCACTAAAGGGTAGTA
** *
66025012 TCATGTTTTCTTTGGTTTTAAATGTTACA
130 TCATGTTTTCAGTGGTTTTAAATGTTAAA
* * * *
66025041 AATGAGTTCACTTCCTGTTTGGTTACTGAGAAAGTAAAGGAAAATTGGAGGAAAATGGAAAGTTG
1 AATGAGATCACTTCCTGTTTGGTGAATGAGAAAGTAAAGGAAAATTGGAGGAAAAGGGAAAGTTG
* ** *
66025106 AAATGATTGTTTCACTGTG-AAAATGAACCTGCTTTTGTCATCTGA-GTTCAGC-AAAGGGTAGT
66 AAACGATCATTTCACTGTGCAAAA-GAACCTGCTTTTGTCATCCGAGGTTCA-CTAAAGGGTAGT
* ** *
66025168 GTTTTGTTTTCAGTGGTTTTGAATGTTAAA
129 ATCATGTTTTCAGTGGTTTTAAATGTTAAA
66025198 AATG
1 AATG
66025202 GAATAGTTAG
Statistics
Matches: 142, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
157 42 0.30
158 4 0.03
159 96 0.68
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (158 bp):
AATGAGATCACTTCCTGTTTGGTGAATGAGAAAGTAAAGGAAAATTGGAGGAAAAGGGAAAGTTG
AAACGATCATTTCACTGTGCAAAAGAACCTGCTTTTGTCATCCGAGGTTCACTAAAGGGTAGTAT
CATGTTTTCAGTGGTTTTAAATGTTAAA
Found at i:66029088 original size:14 final size:14
Alignment explanation
Indices: 66029071--66029120 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
66029061 ATTTCTTTAT
66029071 ATTTTAATAGTTAA
1 ATTTTAATAGTTAA
* * *
66029085 ATTTGAATAATCAA
1 ATTTTAATAGTTAA
* *
66029099 ATTTTAATTGTTTA
1 ATTTTAATAGTTAA
66029113 ATTTTAAT
1 ATTTTAAT
66029121 TTGTCAAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (14 bp):
ATTTTAATAGTTAA
Found at i:66035973 original size:5 final size:5
Alignment explanation
Indices: 66035963--66035989 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
66035953 GAAAAAGGGG
66035963 AAATT AAATT AAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AA
66035990 TATTTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:66047985 original size:240 final size:235
Alignment explanation
Indices: 66047329--66048001 Score: 703
Period size: 239 Copynumber: 2.8 Consensus size: 235
66047319 CATATACCAT
* * * * *
66047329 TCTTTCTACATATGAAAAGTTGACAACGAAACAATATATTAACTCCCAGACTCATCCCCTTCCTA
1 TCTTTCCACACATGACAAGCTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCTA
* * * * * *
66047394 TACTTATAACGAACATAAAAAGCCACGAATTCTGCTTCACTCATCTTAGAATTGCAAACTCGAAG
66 TACTTATAATGAACATAAAAAACCA-GAATTCTCCTTCGCCCATCTTAGAATGGCAAACTCGAAG
* * * * *
66047459 TGCACTCAGAGACAGGCAATTATTG-AATATAATACAACCTTAACACCTACAAAGGAGAATAATA
130 TGCACTCAGAGACAGGCAATTATTGAAATATCATACAACCTTAACACCGACAAAGGAAAAAAAGA
* * * *
66047523 ACGGTTCTATATCACGATGCGAACCTTTCAGCCAACATATACGA
195 ACAGCTCTATAACACGATGAGAACCTTTCAGCCAACA-ATA--A
* * * * * *
66047567 TTCTTTCCACATATGACAAGTTGACAACGAAACAATATATTAACTTCCACACTCGACTCCTTCCT
1 -TCTTTCCACACATGACAAGCTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCT
* * * * * *
66047632 ATACTTATAACT-AACATAAAAAGTAACA-AATTCTCCTTTGCCTATCTCAAAATGGCAAGCTCG
65 ATACTTATAA-TGAACATAAAAA--ACCAGAATTCTCCTTCGCCCATCTTAGAATGGCAAACTCG
*
66047695 AAGTGCACTCAGAGA-TGAGCAATTATTGAATATAATCATACAACCTTAACACCGACAAAGGGCA
127 AAGTGCACTCAGAGACAG-GCAATTATTGAA-AT-ATCATACAACCTTAACACCGACAAA-GG--
* ** *
66047759 AAAAAAAGGAACAGCTCTATAACATGATGAGAACCTTTTGGTCAAC-AT-A
186 AAAAAAA-GAACAGCTCTATAACACGATGAGAACCTTTCAGCCAACAATAA
* * * * *
66047808 -CTTTCCACACGTGACAAGCTGATAACGAAACAATACATTAACTCCCAGACTTGTCCCCCTCCTA
1 TCTTTCCACACATGACAAGCTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCTA
66047872 TACTTATAATGAACATAAAAAACCCATGAATTCTCCTTCGCCCATCTTAGAATGGCAAACTCGAA
66 TACTTATAATGAACATAAAAAA-CCA-GAATTCTCCTTCGCCCATCTTAGAATGGCAAACTCGAA
* * * * *
66047937 GTGCACTCAGAGACAGGTAACTATTGAACATATCCATACAACCTTAACACCTACAGAGGAGAAAA
129 GTGCACTCAGAGACAGGCAATTATTGAA-ATAT-CATACAACCTTAACACCGACAAAGGAAAAAA
66048002 TTAATGGTTC
Statistics
Matches: 360, Mismatches: 57, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
237 6 0.02
238 4 0.01
239 204 0.57
240 79 0.22
241 6 0.02
242 23 0.06
243 2 0.01
244 2 0.01
245 5 0.01
246 29 0.08
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.25
Consensus pattern (235 bp):
TCTTTCCACACATGACAAGCTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCTA
TACTTATAATGAACATAAAAAACCAGAATTCTCCTTCGCCCATCTTAGAATGGCAAACTCGAAGT
GCACTCAGAGACAGGCAATTATTGAAATATCATACAACCTTAACACCGACAAAGGAAAAAAAGAA
CAGCTCTATAACACGATGAGAACCTTTCAGCCAACAATAA
Found at i:66049384 original size:31 final size:33
Alignment explanation
Indices: 66049332--66049393 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
66049322 CAAGTTTGAT
* *
66049332 AAATAGAAATAAAAATTTGTTT-TTAATTATAA
1 AAATAGAAATAAAAATATGTTTGGTAATTATAA
*
66049364 AAATATAAA-AAAAATATGTTTGGTAATTAT
1 AAATAGAAATAAAAATATGTTTGGTAATTAT
66049394 TCTTTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (33 bp):
AAATAGAAATAAAAATATGTTTGGTAATTATAA
Found at i:66050018 original size:37 final size:37
Alignment explanation
Indices: 66049977--66050050 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
66049967 CACTAACAAT
*
66049977 GTTAGTTTTTTACGAGGGGGA-AACAAATAGCTGATTG
1 GTTAGTTTTTTACGA-GGGGACAACAAATAGCTAATTG
66050014 GTTAGTTTTTTACGAGGGGACAACAAATAGCTAATTG
1 GTTAGTTTTTTACGAGGGGACAACAAATAGCTAATTG
66050051 ATGACCAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 5 0.14
37 30 0.86
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.32
Consensus pattern (37 bp):
GTTAGTTTTTTACGAGGGGACAACAAATAGCTAATTG
Found at i:66051276 original size:22 final size:24
Alignment explanation
Indices: 66051250--66051293 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
66051240 AAAAAATATT
66051250 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
66051272 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
66051294 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:66051335 original size:3 final size:3
Alignment explanation
Indices: 66051327--66051359 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
66051317 TGACTAGTGT
66051327 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66051360 CATCAAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66051416 original size:9 final size:9
Alignment explanation
Indices: 66051402--66051429 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
66051392 TTTTGTTACA
66051402 ACAATTAAT
1 ACAATTAAT
66051411 ACAATTAAT
1 ACAATTAAT
66051420 ACAATTAAT
1 ACAATTAAT
66051429 A
1 A
66051430 ATTTCATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:66051450 original size:68 final size:68
Alignment explanation
Indices: 66051372--66051572 Score: 289
Period size: 59 Copynumber: 3.1 Consensus size: 68
66051362 TCAAGTTTGT
* *
66051372 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTCAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTAAT
66051437 AAA
66 AAA
*
66051440 TTTACTAATCAAATGTTAGATTTTATTACAAC-------A-AA-TAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTAAT
66051496 AAA
66 AAA
66051499 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTAAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTAAT
*
66051562 AAT
66 AAA
66051565 TTTACTAA
1 TTTACTAA
66051573 CAATTAATTT
Statistics
Matches: 120, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
59 55 0.46
60 2 0.02
61 1 0.01
66 27 0.22
67 3 0.03
68 32 0.27
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTAAT
AAA
Found at i:66051582 original size:16 final size:16
Alignment explanation
Indices: 66051561--66051602 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
66051551 AATAATTTAA
*
66051561 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
66051577 TAATTTTAATAACAAA
1 TAATTTTAATAACAAT
*
66051593 TAGTTTTAAT
1 TAATTTTAAT
66051603 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:66051601 original size:22 final size:22
Alignment explanation
Indices: 66051576--66051625 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
66051566 TTACTAACAA
* *
66051576 TTAATTTTAATAACAAATAGTT
1 TTAATTTTAATAAAAAATAATT
*
66051598 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
66051620 TTAATT
1 TTAATT
66051626 AAAAACAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:66051618 original size:16 final size:17
Alignment explanation
Indices: 66051599--66051630 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
66051589 CAAATAGTTT
66051599 TAATTTT-ATTAAAAAA
1 TAATTTTAATTAAAAAA
66051615 TAATTTTAATTAAAAA
1 TAATTTTAATTAAAAA
66051631 CAGGCTGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTTTAATTAAAAAA
Found at i:66052552 original size:24 final size:25
Alignment explanation
Indices: 66052506--66052554 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
66052496 TATATGTCAC
66052506 TTTCATATGTATATGTTGATGTATT
1 TTTCATATGTATATGTTGATGTATT
66052531 TTTCACTATGT-TAT-TTGATGTATT
1 TTTCA-TATGTATATGTTGATGTATT
66052555 GACAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
25 8 0.35
26 5 0.22
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.57
Consensus pattern (25 bp):
TTTCATATGTATATGTTGATGTATT
Found at i:66054444 original size:14 final size:14
Alignment explanation
Indices: 66054425--66054452 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66054415 TCATCCTCGC
66054425 ATTTTAAAATATTT
1 ATTTTAAAATATTT
66054439 ATTTTAAAATATTT
1 ATTTTAAAATATTT
66054453 CATAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTAAAATATTT
Found at i:66055830 original size:19 final size:20
Alignment explanation
Indices: 66055803--66055845 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
66055793 AAGTAAAACA
66055803 AAAATTTAAAAAAATATTTT
1 AAAATTTAAAAAAATATTTT
*
66055823 AAAA-TTAAAAAAGTATTTT
1 AAAATTTAAAAAAATATTTT
66055842 AAAA
1 AAAA
66055846 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATTTAAAAAAATATTTT
Found at i:66055832 original size:32 final size:31
Alignment explanation
Indices: 66055778--66055887 Score: 87
Period size: 30 Copynumber: 3.5 Consensus size: 31
66055768 AATAAATATC
* *
66055778 AAAAATTATTTTAAAAAGTAAAACAAAAATTTA
1 AAAAAATATTTT-AAAATTAAAA-AAAAATTTA
** *
66055811 AAAAAATATTTTAAAATTAAAAAAGTATTTT
1 AAAAAATATTTTAAAATTAAAAAAAAATTTA
* * ****
66055842 AAAAAA-ATTTAAAAATTTAAAATTTTTTTA
1 AAAAAATATTTTAAAATTAAAAAAAAATTTA
*
66055872 AAAAAGTATTTTAAAA
1 AAAAAATATTTTAAAA
66055888 GCATTTTAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 23 0.37
31 20 0.32
32 9 0.14
33 11 0.17
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (31 bp):
AAAAAATATTTTAAAATTAAAAAAAAATTTA
Found at i:66055846 original size:20 final size:21
Alignment explanation
Indices: 66055802--66055856 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 21
66055792 AAAGTAAAAC
66055802 AAAAATTTAAAAAAATATTTT
1 AAAAATTTAAAAAAATATTTT
*
66055823 -AAAA-TTAAAAAAGTATTTT
1 AAAAATTTAAAAAAATATTTT
66055842 AAAAAAATTTAAAAA
1 --AAAAATTTAAAAA
66055857 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 14 0.48
20 4 0.14
22 4 0.14
23 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATTTAAAAAAATATTTT
Found at i:66058410 original size:20 final size:18
Alignment explanation
Indices: 66058363--66058410 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
66058353 AAAAAATAAC
66058363 AAAAAAATAAAAATATTA
1 AAAAAAATAAAAATATTA
*
66058381 AATAAAAATAACATATATTA
1 AA-AAAAATAA-AAATATTA
66058401 AAAAATAATA
1 AAAAA-AATA
66058411 TGGTAGACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 11 0.42
20 13 0.50
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAAATAAAAATATTA
Found at i:66059256 original size:28 final size:29
Alignment explanation
Indices: 66059202--66059256 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
66059192 ATGGGAGTAA
* *
66059202 TTTTATTTTAGTTATTTATGTTTTTTTGT
1 TTTTATTTTAGTTATTTATCTTATTTTGT
*
66059231 TTTTA-TTTATTTATTTATCTTATTTT
1 TTTTATTTTAGTTATTTATCTTATTTT
66059257 AGTTAGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.76
Consensus pattern (29 bp):
TTTTATTTTAGTTATTTATCTTATTTTGT
Found at i:66064979 original size:17 final size:18
Alignment explanation
Indices: 66064950--66064996 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
66064940 AATTATTAAA
66064950 AAAATTCAAAATAATTT-T
1 AAAATTCAAAAT-ATTTAT
66064968 AAAATT-AAAATATTTAT
1 AAAATTCAAAATATTTAT
66064985 AAAATTCCAAAA
1 AAAATT-CAAAA
66064997 ATTATAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 12 0.46
18 6 0.23
19 4 0.15
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:66069205 original size:25 final size:25
Alignment explanation
Indices: 66069157--66069207 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
66069147 TTTAAAATAC
*
66069157 TTTTAAAATATTTTTATTTTTTTAT
1 TTTTAAAATATTTTTATTTGTTTAT
66069182 TTTTAAAATATTTTT-TTGTGTTTAT
1 TTTTAAAATATTTTTATT-TGTTTAT
66069207 T
1 T
66069208 AAAAATCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTTAAAATATTTTTATTTGTTTAT
Found at i:66070581 original size:14 final size:14
Alignment explanation
Indices: 66070562--66070589 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66070552 TAATTAACTC
66070562 CAAAAATATAAACA
1 CAAAAATATAAACA
66070576 CAAAAATATAAACA
1 CAAAAATATAAACA
66070590 ATGAAACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
CAAAAATATAAACA
Found at i:66073934 original size:28 final size:28
Alignment explanation
Indices: 66073879--66073937 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
66073869 AATATTAAAA
*
66073879 TATTTTTAAAATATATTTTTTAATTTTT
1 TATTTTTAAAATATAATTTTTAATTTTT
* *
66073907 TATTTTTAAAATA-AATTTTTAGTGTTT
1 TATTTTTAAAATATAATTTTTAATTTTT
66073934 TATT
1 TATT
66073938 AAAAAATGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (28 bp):
TATTTTTAAAATATAATTTTTAATTTTT
Found at i:66074429 original size:29 final size:29
Alignment explanation
Indices: 66074396--66074451 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
66074386 AAAAGCCAAT
66074396 TTTTTTAAAAAATTACCGAAATGGGCCGG
1 TTTTTTAAAAAATTACCGAAATGGGCCGG
** * *
66074425 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAAAAAATTACCGAAATGGGCC
66074452 ATTTTCCCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTTTTAAAAAATTACCGAAATGGGCCGG
Found at i:66074692 original size:22 final size:22
Alignment explanation
Indices: 66074667--66074736 Score: 113
Period size: 22 Copynumber: 3.2 Consensus size: 22
66074657 AAATTCAATA
66074667 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
66074689 TCAATTCCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
* *
66074711 TCAAATTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
66074733 TCAA
1 TCAA
66074737 ACTCTCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:66074743 original size:30 final size:30
Alignment explanation
Indices: 66074708--66074766 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
66074698 TTCAAAAATT
*
66074708 CTCTCAAATTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
66074738 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
66074767 TTTCCTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:66074752 original size:52 final size:51
Alignment explanation
Indices: 66074686--66074788 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
66074676 TTCAAAAATT
* * *
66074686 CTCTCAATTCCCTTCAAAAATTCTCTCAAATTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCAAAAATCCTCTCAAATTCCTTCAAAAAATCTC-CAAA
* *
66074738 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCAAAAATCCTCTCAAATTCCTTCAAAAAATCTCCAAA
66074789 TCCATATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.09
52 37 0.82
53 4 0.09
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (51 bp):
CTCTCAATTCCCTTCAAAAATCCTCTCAAATTCCTTCAAAAAATCTCCAAA
Found at i:66074777 original size:21 final size:22
Alignment explanation
Indices: 66074738--66074779 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66074728 TTCTCTCAAA
66074738 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
66074760 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
66074780 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:66074884 original size:30 final size:31
Alignment explanation
Indices: 66074820--66074885 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
66074810 ATTAAATTTC
* **
66074820 ATTTTTTTAAGAAAATTTTAAATTTTTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTAAT
*
66074851 ATTTTTTTAA-ATAATTTTAAAATTTTTAAT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTAAT
66074881 ATTTT
1 ATTTT
66074886 CAACAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTAAT
Found at i:66075009 original size:22 final size:23
Alignment explanation
Indices: 66074978--66075022 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
66074968 ATTTTATTTA
*
66074978 AGATATTTTATTTATGTATTTTT
1 AGATATTTTATTAATGTATTTTT
*
66075001 AGATA-TTTATTAATTTATTTTT
1 AGATATTTTATTAATGTATTTTT
66075023 TGTTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (23 bp):
AGATATTTTATTAATGTATTTTT
Found at i:66078472 original size:125 final size:124
Alignment explanation
Indices: 66078251--66078517 Score: 356
Period size: 125 Copynumber: 2.1 Consensus size: 124
66078241 CCACGAGGGC
* *
66078251 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAAAGTAAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * *
66078316 ATATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATATTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATATTGGTATCA
* * *
66078375 GCGATTTTATACTATTTGCTCAGTAAAAGTAAAAAAAAAATTATTTCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAAAGT-AAAAAAAAATTATTTCCTACATGACCAACTGTAG
* * ** **
66078439 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTTTTCTCAAATAGCATCCTGGTAGAA
64 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATATTGGTATCA
**
66078500 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
66078518 ACGAGATACG
Statistics
Matches: 123, Mismatches: 18, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
124 21 0.17
125 78 0.63
126 24 0.20
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAAAGTAAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATATTGGTATCA
Found at i:66085379 original size:13 final size:13
Alignment explanation
Indices: 66085363--66085387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66085353 AAAAATATTT
66085363 TAAAAATAAAAAA
1 TAAAAATAAAAAA
66085376 TAAAAATAAAAA
1 TAAAAATAAAAA
66085388 TATTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:66085404 original size:41 final size:42
Alignment explanation
Indices: 66085358--66085437 Score: 135
Period size: 41 Copynumber: 1.9 Consensus size: 42
66085348 ACACAAAAAA
*
66085358 TATTTTAAAAATAAAAAATAAAAAT-AAAAATATTTTTAAAG
1 TATTTTAAAAATAAAAAATAAAAATAAAAAATATATTTAAAG
*
66085399 TATTTTAAAATTAAAAAATAAAAATAAAAAATATATTTA
1 TATTTTAAAAATAAAAAATAAAAATAAAAAATATATTTA
66085438 TTATATTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 24 0.67
42 12 0.33
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (42 bp):
TATTTTAAAAATAAAAAATAAAAATAAAAAATATATTTAAAG
Found at i:66088869 original size:40 final size:40
Alignment explanation
Indices: 66088810--66088949 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
66088800 AACACACCAG
* * *
66088810 TTTGGCACCTAGTGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * *
66088850 TTTGACACCCAGTGTCTCATCGGCTAAACTGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * * *
66088888 -TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAATCTGAAGTAATAA
* *
66088928 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
66088950 ACTCAAAGTC
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 19 0.23
38 11 0.14
39 1 0.01
40 31 0.38
41 19 0.23
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
Found at i:66088937 original size:41 final size:40
Alignment explanation
Indices: 66088815--66088950 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 40
66088805 ACCAGTTTGG
* * * * *
66088815 CACCTAGTGCCTCATCGGATAATTTGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
* ** * *
66088855 CACCCAGTGTCTCATCGGCTAAACTG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
*
66088892 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCTGAAGTAGTAAATTGA
*
66088933 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
66088951 CTCAAAGTCG
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 23 0.30
38 5 0.06
39 2 0.03
40 21 0.27
41 26 0.34
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
Found at i:66090398 original size:8 final size:8
Alignment explanation
Indices: 66090385--66090499 Score: 68
Period size: 8 Copynumber: 12.8 Consensus size: 8
66090375 CTATAATAAC
66090385 TATAAAAA
1 TATAAAAA
66090393 TATAAAAA
1 TATAAAAA
* *
66090401 TTTACAAAG
1 TATA-AAAA
66090410 TATTAAAAA
1 TA-TAAAAA
*
66090419 CATAAACAA
1 TATAAA-AA
*
66090428 TTATTAAAATT
1 -TA-TAAAA-A
66090439 TATAAAAA
1 TATAAAAA
66090447 TATTAAAATTA
1 TA-TAAAA--A
66090458 TATAAAAA
1 TATAAAAA
66090466 TATAAATAA
1 TATAAA-AA
*
66090475 AAGTAAAGAA
1 TA-TAAA-AA
66090485 TTATAAAAA
1 -TATAAAAA
66090494 TATAAA
1 TATAAA
66090500 TAAATTACAA
Statistics
Matches: 84, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
8 30 0.36
9 25 0.30
10 21 0.25
11 8 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (8 bp):
TATAAAAA
Found at i:66090469 original size:10 final size:10
Alignment explanation
Indices: 66090388--66090497 Score: 53
Period size: 9 Copynumber: 11.8 Consensus size: 10
66090378 TAATAACTAT
66090388 AAAA-ATATA
1 AAAATATATA
66090397 AAAAT-T-TA
1 AAAATATATA
*
66090405 CAAAGTAT-TA
1 -AAAATATATA
*
66090415 AAAACATA-A
1 AAAATATATA
* *
66090424 ACAAT-TATT
1 AAAATATATA
*
66090433 AAAATTTATA
1 AAAATATATA
66090443 AAAATAT-TA
1 AAAATATATA
*
66090452 AAATTATATA
1 AAAATATATA
66090462 AAAATATA-A
1 AAAATATATA
66090471 ATAAA-AGTA-A
1 A-AAATA-TATA
*
66090481 AGAAT-TATA
1 AAAATATATA
66090490 AAAATATA
1 AAAATATA
66090498 AATAAATTAC
Statistics
Matches: 76, Mismatches: 13, Indels: 23
0.68 0.12 0.21
Matches are distributed among these distances:
8 6 0.08
9 40 0.53
10 30 0.39
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAATATATA
Found at i:66090472 original size:17 final size:18
Alignment explanation
Indices: 66090385--66090468 Score: 82
Period size: 19 Copynumber: 4.6 Consensus size: 18
66090375 CTATAATAAC
*
66090385 TATAAAAATATAAAAATT
1 TATAAAAATATTAAAATT
* * *
66090403 TA-CAAAGTATTAAAA-A
1 TATAAAAATATTAAAATT
*
66090419 CATAAACAATTATTAAAATT
1 TATAAA-AA-TATTAAAATT
66090439 TATAAAAATATTAAAATT
1 TATAAAAATATTAAAATT
66090457 ATATAAAAATAT
1 -TATAAAAATAT
66090469 AAATAAAAGT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.02
17 12 0.23
18 13 0.25
19 21 0.40
20 5 0.10
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (18 bp):
TATAAAAATATTAAAATT
Found at i:66090499 original size:18 final size:17
Alignment explanation
Indices: 66090385--66090499 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 17
66090375 CTATAATAAC
66090385 TATAAAAATA-TAAAAA
1 TATAAAAATATTAAAAA
* *
66090401 TTTACAAAGTATTAAAAA
1 TATA-AAAATATTAAAAA
* *
66090419 CATAAACAATTATTAAAATT
1 TATAAA-AA-TATTAAAA-A
66090439 TATAAAAATATTAAAATTA
1 TATAAAAATATTAAAA--A
66090458 TATAAAAATA-TAAATAA
1 TATAAAAATATTAAA-AA
*
66090475 AAGTAAAGAAT-TATAAAAA
1 TA-TAAA-AATAT-TAAAAA
66090494 TATAAA
1 TATAAA
66090500 TAAATTACAA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
16 3 0.04
17 9 0.12
18 29 0.37
19 28 0.36
20 9 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
TATAAAAATATTAAAAA
Found at i:66091890 original size:37 final size:40
Alignment explanation
Indices: 66091841--66091918 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 40
66091831 TAAAAATGAA
* *
66091841 AAAATTATTTTAAAAATAAAAA-AATAA-AAAATA-ATTT
1 AAAAGTATTTTAAAAATAAAAATAAAAATAAAATATATTT
66091878 AAAAGTATTTTAAAAATAAAAATAAAAATAAAATATATTT
1 AAAAGTATTTTAAAAATAAAAATAAAAATAAAATATATTT
66091918 A
1 A
66091919 TTTATTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 21 0.58
38 4 0.11
39 6 0.17
40 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (40 bp):
AAAAGTATTTTAAAAATAAAAATAAAAATAAAATATATTT
Found at i:66091909 original size:29 final size:29
Alignment explanation
Indices: 66091860--66091918 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
66091850 TTAAAAATAA
**
66091860 AAAAATAAAAAATAATTTAAAAGTAT-TTT
1 AAAAATAAAAAATAAAATAAAA-TATATTT
66091889 AAAAAT-AAAAATAAAAATAAAATATATTT
1 AAAAATAAAAAAT-AAAATAAAATATATTT
66091918 A
1 A
66091919 TTTATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAATAAAAAATAAAATAAAATATATTT
Found at i:66095090 original size:13 final size:12
Alignment explanation
Indices: 66095063--66095096 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
66095053 AAATGAATAG
*
66095063 AAGAAAAAAAGA
1 AAGAAAAAAACA
66095075 AAGAAAAAGAACA
1 AAGAAAAA-AACA
66095088 AAGAAAAAA
1 AAGAAAAAA
66095097 GAGAGAAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAACA
Found at i:66095340 original size:33 final size:33
Alignment explanation
Indices: 66095298--66095364 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
66095288 AGTAAGACAT
66095298 TTTCCACAGCTCATCTCTTCACTCTCTTCACCC
1 TTTCCACAGCTCATCTCTTCACTCTCTTCACCC
* *
66095331 TTTCCACAGCTCCTCTTTTCACTCTCTTCACCC
1 TTTCCACAGCTCATCTCTTCACTCTCTTCACCC
66095364 T
1 T
66095365 AATGATTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.13, C:0.45, G:0.03, T:0.39
Consensus pattern (33 bp):
TTTCCACAGCTCATCTCTTCACTCTCTTCACCC
Found at i:66095394 original size:14 final size:14
Alignment explanation
Indices: 66095375--66095404 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66095365 AATGATTGCA
66095375 GCCTCATCATCTCT
1 GCCTCATCATCTCT
*
66095389 GCCTCATCTTCTCT
1 GCCTCATCATCTCT
66095403 GC
1 GC
66095405 TAGTTCACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.37
Consensus pattern (14 bp):
GCCTCATCATCTCT
Found at i:66097047 original size:13 final size:13
Alignment explanation
Indices: 66097027--66097069 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
66097017 GCAAATGAAT
66097027 AGAAGAAAAA-AA
1 AGAAGAAAAAGAA
66097039 AGAAAGAAAAAGAA
1 AG-AAGAAAAAGAA
* *
66097053 CGAAGAAAAAGAG
1 AGAAGAAAAAGAA
66097066 AGAA
1 AGAA
66097070 ACGCACGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 2 0.08
13 21 0.81
14 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAGAA
Found at i:66097069 original size:23 final size:22
Alignment explanation
Indices: 66097027--66097070 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
66097017 GCAAATGAAT
66097027 AGAAGAAAAAAAAGAAAGAAAA
1 AGAAGAAAAAAAAGAAAGAAAA
* *
66097049 AGAACGAAGAAAAAGAGAGAAA
1 AGAA-GAAAAAAAAGAAAGAAA
66097071 CGCACGACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (22 bp):
AGAAGAAAAAAAAGAAAGAAAA
Found at i:66097231 original size:9 final size:9
Alignment explanation
Indices: 66097217--66097245 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
66097207 ATTAAGATTT
66097217 TAAATGTTG
1 TAAATGTTG
66097226 TAAATGTTG
1 TAAATGTTG
66097235 TAAATGTTG
1 TAAATGTTG
66097244 TA
1 TA
66097246 TAACTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAATGTTG
Found at i:66097445 original size:20 final size:20
Alignment explanation
Indices: 66097408--66097445 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
66097398 GTGAAATTAG
*
66097408 TATGAAAATATAAGATTAAA
1 TATGAAAATATAAAATTAAA
66097428 TATGAAGAAT-TAAAATTA
1 TATGAA-AATATAAAATTA
66097446 GTCTCAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (20 bp):
TATGAAAATATAAAATTAAA
Found at i:66097799 original size:25 final size:25
Alignment explanation
Indices: 66097751--66097799 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
66097741 CATAATTGAA
* * *
66097751 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
66097776 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
66097800 ATGTGGATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:66103538 original size:32 final size:31
Alignment explanation
Indices: 66103496--66103573 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 31
66103486 CAGTCATTGA
*
66103496 TTTAAATTGAATTAAATTTAATTTTC-AAGTT
1 TTTAAATTGAATTAAA-TTAATTTTCAAAATT
66103527 TTTAAATTTGAATTAAATTAATTTTCAAAATT
1 TTTAAA-TTGAATTAAATTAATTTTCAAAATT
66103559 TTTAAA-TGAATTAAA
1 TTTAAATTGAATTAAA
66103574 ATTGAAATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 9 0.20
31 15 0.34
32 20 0.45
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTAAATTGAATTAAATTAATTTTCAAAATT
Found at i:66103576 original size:31 final size:31
Alignment explanation
Indices: 66103496--66103576 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
66103486 CAGTCATTGA
* *
66103496 TTTAAATTGAATTAAATTTAATTTTCAAGTT
1 TTTAAATTGAATTAAAATTAATTTTCAAATT
66103527 TTTAAATTTGAATT-AAATTAATTTTCAAAATT
1 TTTAAA-TTGAATTAAAATTAATTTTC-AAATT
66103559 TTTAAA-TGAATTAAAATT
1 TTTAAATTGAATTAAAATT
66103577 GAAATGTGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 6 0.13
31 22 0.49
32 17 0.38
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTAAATTGAATTAAAATTAATTTTCAAATT
Found at i:66106234 original size:10 final size:11
Alignment explanation
Indices: 66106205--66106234 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
66106195 GTTGAATGGG
66106205 AATTTTTTTAA
1 AATTTTTTTAA
66106216 AATTTTTTT-A
1 AATTTTTTTAA
66106226 AATTTTTTT
1 AATTTTTTT
66106235 GTCAGACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:66115784 original size:16 final size:16
Alignment explanation
Indices: 66115747--66115791 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
66115737 CCCAAATGAA
*
66115747 TTGAACCCAAAATGGT
1 TTGAACTCAAAATGGT
**
66115763 CGGAACTCAAAATGGT
1 TTGAACTCAAAATGGT
*
66115779 TTGAACTTAAAAT
1 TTGAACTCAAAAT
66115792 AACTTAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (16 bp):
TTGAACTCAAAATGGT
Found at i:66117949 original size:21 final size:20
Alignment explanation
Indices: 66117919--66117958 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
66117909 TTCAAATTAG
66117919 AAATAATAT-ATCTAAAATCC
1 AAATAATATAAT-TAAAATCC
66117939 AAATAACTATAATTAAAATC
1 AAATAA-TATAATTAAAATC
66117959 TATTATTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAATATAATTAAAATCC
Found at i:66120358 original size:13 final size:13
Alignment explanation
Indices: 66120340--66120366 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66120330 TCAATTTCAA
66120340 TGGCAGGGAAATT
1 TGGCAGGGAAATT
66120353 TGGCAGGGAAATT
1 TGGCAGGGAAATT
66120366 T
1 T
66120367 CATTTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.37, T:0.26
Consensus pattern (13 bp):
TGGCAGGGAAATT
Found at i:66120417 original size:15 final size:16
Alignment explanation
Indices: 66120380--66120419 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
66120370 TTAGTTTCCT
*
66120380 TTAAAATTTATAAAAA
1 TTAAAATTAATAAAAA
*
66120396 TTTAAATTAATAAAAA
1 TTAAAATTAATAAAAA
66120412 -TAAAATTA
1 TTAAAATTA
66120420 TATTTTAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAATTAATAAAAA
Found at i:66120448 original size:31 final size:31
Alignment explanation
Indices: 66120413--66120483 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
66120403 TAATAAAAAT
66120413 AAAATTATATTTTAACCCTTT-AAAATTGATA
1 AAAATTATATTTTAACCCTTTAAAAATT-ATA
* ***
66120444 AAAATT-TAATTTATTTCTTTAAAAATTATA
1 AAAATTATATTTTAACCCTTTAAAAATTATA
66120474 AAAA-TATATT
1 AAAATTATATT
66120484 AAAATGGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
29 1 0.03
30 20 0.61
31 12 0.36
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (31 bp):
AAAATTATATTTTAACCCTTTAAAAATTATA
Found at i:66123326 original size:31 final size:32
Alignment explanation
Indices: 66123291--66123370 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 32
66123281 ACCCTTAGAT
66123291 TTTTAGAAATTTTAATTAAG-CCTTCCAAAAG
1 TTTTAGAAATTTTAATTAAGACCTTCCAAAAG
* *
66123322 TTTTA-AAATTTTTAATT-AGATCTTCCAAAAT
1 TTTTAGAAA-TTTTAATTAAGACCTTCCAAAAG
* *
66123353 TTTTGGAAATTCTAATTA
1 TTTTAGAAATTTTAATTA
66123371 GTCCTCTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
30 5 0.12
31 33 0.80
32 3 0.07
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (32 bp):
TTTTAGAAATTTTAATTAAGACCTTCCAAAAG
Found at i:66123421 original size:41 final size:41
Alignment explanation
Indices: 66123346--66123423 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
66123336 ATTAGATCTT
* ** *
66123346 CCAAAATTTTTGGAAATTCTAATTAGTCCTCTTAAAATTTC
1 CCAAAATGTTTGGAAATTCTAATTAAACCCCTTAAAATTTC
*
66123387 CCAAAATGTTTGGAAATTCTCATTAAACCCCTTAAAA
1 CCAAAATGTTTGGAAATTCTAATTAAACCCCTTAAAA
66123424 CTTTTGAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (41 bp):
CCAAAATGTTTGGAAATTCTAATTAAACCCCTTAAAATTTC
Done.