Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 42 of 185
Found at i:11767808 original size:94 final size:95
Alignment explanation
Indices: 11767623--11767811 Score: 317
Period size: 95 Copynumber: 2.0 Consensus size: 95
11767613 TCCAACACAA
* * *
11767623 GTGGTCTTCAATTTTTCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGTTTCCA
1 GTGGTATTCAATTTTCCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGGTTCCA
* *
11767688 GACATTTATTCTTCAAGAAAGATGAAGAGT
66 GACATTGATTCTTCAAGAAAAATGAAGAGT
*
11767718 GTGGTATTCAATTTTCCCATGTCACTGAAAGGTCATATCTGGATGAGCATGGAC-AAAGGTTCCA
1 GTGGTATTCAATTTTCCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGGTTCCA
11767782 GACATTGATTCTTCAAGAAAAATGAAGAGT
66 GACATTGATTCTTCAAGAAAAATGAAGAGT
11767812 CGGGCCTTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 37 0.42
95 51 0.58
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (95 bp):
GTGGTATTCAATTTTCCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGGTTCCA
GACATTGATTCTTCAAGAAAAATGAAGAGT
Found at i:11774156 original size:27 final size:27
Alignment explanation
Indices: 11774097--11774190 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 27
11774087 AAAAATAAAA
*
11774097 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAA-ATTTTTTT
11774125 ATTTACCAAAATATTACAAATTTTTTT
1 ATTTACCAAAATATTACAAATTTTTTT
* *
11774152 ATTTATCAAAATA-TA-TAATTTTTTT
1 ATTTACCAAAATATTACAAATTTTTTT
*
11774177 ATTTATCAAAATAT
1 ATTTACCAAAATAT
11774191 ATAAAAAAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
25 22 0.35
26 2 0.03
27 19 0.31
28 19 0.31
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTACCAAAATATTACAAATTTTTTT
Found at i:11774214 original size:18 final size:18
Alignment explanation
Indices: 11774183--11774217 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11774173 TTTTATTTAT
* *
11774183 CAAAATATATAAAAAAAC
1 CAAAAAATAAAAAAAAAC
11774201 CAAAAAATAAAAAAAAA
1 CAAAAAATAAAAAAAAA
11774218 AACCTGACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (18 bp):
CAAAAAATAAAAAAAAAC
Found at i:11774260 original size:27 final size:27
Alignment explanation
Indices: 11774230--11774304 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
11774220 CCTGACACCA
*
11774230 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAAATAAATTGGCGGCACCAAAGGT
* **
11774257 GCCAAATAAATTGGTGGCACCATTGGT
1 GCCAAATAAATTGGCGGCACCAAAGGT
*
11774284 GCCAAAGT-CATTGGCGGCACC
1 GCCAAA-TAAATTGGCGGCACC
11774305 TTGGTGCCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (27 bp):
GCCAAATAAATTGGCGGCACCAAAGGT
Found at i:11774317 original size:27 final size:27
Alignment explanation
Indices: 11774239--11774315 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
11774229 AGCCAATTAA
** *
11774239 ATTGGCGGCACCAAAGGTGCCAAA-TAA
1 ATTGGCGGCACCATTGGTGCCAAAGT-C
*
11774266 ATTGGTGGCACCATTGGTGCCAAAGTC
1 ATTGGCGGCACCATTGGTGCCAAAGTC
11774293 ATTGGCGGCACC-TTGGTGCCAAA
1 ATTGGCGGCACCATTGGTGCCAAA
11774316 AGAAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 11 0.25
27 32 0.73
28 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (27 bp):
ATTGGCGGCACCATTGGTGCCAAAGTC
Found at i:11774398 original size:19 final size:19
Alignment explanation
Indices: 11774383--11774452 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
11774373 TTCAACTTAT
*
11774383 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
11774402 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* * *
11774420 TTCTCATTTAATAACTCCA
1 TTTTAATTTAATAACTCTA
11774439 TTTTAATTTAATAA
1 TTTTAATTTAATAA
11774453 ACTATTAAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 15 0.36
19 27 0.64
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:11774430 original size:37 final size:37
Alignment explanation
Indices: 11774388--11774458 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
11774378 CTTATTTTTT
*
11774388 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCCATTTTAATTTAATAAACTATTCTC
11774425 ATTTAATAACTCCATTTTAATTTAATAAACTATT
1 ATTTAATAACTCCATTTTAATTTAATAAACTATT
11774459 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (37 bp):
ATTTAATAACTCCATTTTAATTTAATAAACTATTCTC
Found at i:11774807 original size:20 final size:19
Alignment explanation
Indices: 11774768--11774808 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11774758 ACTTAATAGT
* *
11774768 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
11774787 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
11774807 TT
1 TT
11774809 GAAAGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:11775045 original size:19 final size:19
Alignment explanation
Indices: 11775021--11775078 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
11775011 ATTTAATAGT
11775021 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
11775040 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
11775058 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
11775077 TT
1 TT
11775079 CATAAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:11775063 original size:18 final size:18
Alignment explanation
Indices: 11775015--11775074 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
11775005 AGTATTATTT
*
11775015 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
* *
11775033 AATAGAGTTATTAAATGAG
1 AATAG-TTTATTAAATGAA
*
11775052 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
11775070 AATAG
1 AATAG
11775075 AGTTCATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.57
19 15 0.43
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATGAA
Found at i:11775230 original size:53 final size:53
Alignment explanation
Indices: 11775162--11775265 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
11775152 CATTTTTTTC
*
11775162 CTTTGGCACCATGGTGCCGCCAA-TGACTTTGGCACC-ATGGTGCCGCCAATGA
1 CTTTGGCACCATGGTGCCACCAATTGA-TTTGGCACCTATGGTGCCGCCAATGA
* *
11775214 CTTTGGCACCAATGGTGCCACCAATTTATTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACC-ATGGTGCCACCAATTGATTTGGCACCTATGGTGCCGCCAAT
11775266 TTAATTGGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 10 0.22
53 21 0.46
54 15 0.33
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (53 bp):
CTTTGGCACCATGGTGCCACCAATTGATTTGGCACCTATGGTGCCGCCAATGA
Found at i:11775274 original size:27 final size:26
Alignment explanation
Indices: 11775162--11775265 Score: 147
Period size: 26 Copynumber: 3.9 Consensus size: 26
11775152 CATTTTTTTC
11775162 CTTTGGCACCATGGTGCCGCCAATGA
1 CTTTGGCACCATGGTGCCGCCAATGA
11775188 CTTTGGCACCATGGTGCCGCCAATGA
1 CTTTGGCACCATGGTGCCGCCAATGA
* *
11775214 CTTTGGCACCAATGGTGCCACCAATTTA
1 CTTTGGCACC-ATGGTGCCGCCAA-TGA
*
11775242 -TTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACC-ATGGTGCCGCCAAT
11775266 TTAATTGGCT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
26 37 0.52
27 32 0.45
28 2 0.03
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (26 bp):
CTTTGGCACCATGGTGCCGCCAATGA
Found at i:11775343 original size:28 final size:28
Alignment explanation
Indices: 11775314--11775408 Score: 135
Period size: 26 Copynumber: 3.5 Consensus size: 28
11775304 TTTTTTTAAT
11775314 ATATTTTAGTAAATAAAAAAAAGTT-TA
1 ATATTTTAGTAAATAAAAAAAAGTTGTA
*
11775341 TATATTTTGGTAAAT--AAAAAAGTTGTA
1 -ATATTTTAGTAAATAAAAAAAAGTTGTA
*
11775368 ATATTTTGGTAAATAAAAAAAA-TTGTA
1 ATATTTTAGTAAATAAAAAAAAGTTGTA
11775395 ATATTTTAGTAAAT
1 ATATTTTAGTAAAT
11775409 TTTTATTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
26 23 0.37
27 20 0.32
28 19 0.31
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (28 bp):
ATATTTTAGTAAATAAAAAAAAGTTGTA
Found at i:11775386 original size:27 final size:27
Alignment explanation
Indices: 11775314--11775408 Score: 131
Period size: 27 Copynumber: 3.5 Consensus size: 27
11775304 TTTTTTTAAT
11775314 ATATTTTAGTAAATAAAAAAAAGTT-TA
1 ATATTTTAGTAAAT-AAAAAAAGTTGTA
*
11775341 TATATTTTGGTAAAT-AAAAAAGTTGTA
1 -ATATTTTAGTAAATAAAAAAAGTTGTA
* *
11775368 ATATTTTGGTAAATAAAAAAAATTGTA
1 ATATTTTAGTAAATAAAAAAAGTTGTA
11775395 ATATTTTAGTAAAT
1 ATATTTTAGTAAAT
11775409 TTTTATTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.37
27 26 0.42
28 13 0.21
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (27 bp):
ATATTTTAGTAAATAAAAAAAGTTGTA
Found at i:11781032 original size:18 final size:17
Alignment explanation
Indices: 11781009--11781048 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
11780999 ATATATTATG
11781009 ATTTTAGTAAATTCATAT
1 ATTTTAGTAAATT-ATAT
*
11781027 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
11781044 ATTTT
1 ATTTT
11781049 TATTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTAGTAAATTATAT
Found at i:11781049 original size:18 final size:17
Alignment explanation
Indices: 11780930--11781060 Score: 80
Period size: 17 Copynumber: 7.9 Consensus size: 17
11780920 TACTAAGAAG
11780930 TTTATTAAATTATATAT
1 TTTATTAAATTATATAT
*
11780947 TTTGTTAAA-T-TATA-
1 TTTATTAAATTATATAT
* *
11780961 TTTAAT-AATAAT-TAT
1 TTTATTAAATTATATAT
* *
11780976 TTTAAATTATATTTTATAGT
1 TTT--ATTAAATTATATA-T
* * *
11780996 GTTA-TATATTAT-GAT
1 TTTATTAAATTATATAT
*
11781011 TTTAGTAAATTCATATAT
1 TTTATTAAATT-ATATAT
11781029 TTTATTAAATTATATATT
1 TTTATTAAATTATATA-T
11781047 TTTATT-AATTATAT
1 TTTATTAAATTATAT
11781061 TTAATAATAA
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 12 0.14
16 7 0.08
17 32 0.37
18 23 0.26
19 2 0.02
20 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTATTAAATTATATAT
Found at i:11781278 original size:49 final size:51
Alignment explanation
Indices: 11781218--11781315 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 51
11781208 TTACACATCT
* *
11781218 ATTCCATTCAACCAAACACAAGAA-TA-CTATTACGCCTCTATTCCATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTCC
11781267 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATT
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATT
11781316 ACGCATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 23 0.51
50 2 0.04
51 20 0.44
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.30
Consensus pattern (51 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTCC
Found at i:11781324 original size:16 final size:16
Alignment explanation
Indices: 11781297--11781366 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
11781287 AGAATTACCT
*
11781297 ATTACACCTCTATTCC
1 ATTACACATCTATTCC
*
11781313 ATTACGCATCTATTCC
1 ATTACACATCTATTCC
* *
11781329 ATTACACTTTTATTCC
1 ATTACACATCTATTCC
*
11781345 ATTACACCTCTATTCC
1 ATTACACATCTATTCC
11781361 ATTACA
1 ATTACA
11781367 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.27, C:0.31, G:0.01, T:0.40
Consensus pattern (16 bp):
ATTACACATCTATTCC
Found at i:11781740 original size:17 final size:15
Alignment explanation
Indices: 11781709--11781777 Score: 54
Period size: 17 Copynumber: 4.4 Consensus size: 15
11781699 ACATGTGAAA
11781709 AAAAAT-AAAA-A-T
1 AAAAATAAAAATATT
11781721 AAAAATAAAAATCAATT
1 AAAAATAAAAAT--ATT
*
11781738 AAAGTTATAAAAATTATT
1 AAA--AATAAAAA-TATT
11781756 AAAATATAAAAATATT
1 AAAA-ATAAAAATATT
11781772 AAAAAT
1 AAAAAT
11781778 TAGAAAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
12 6 0.13
13 4 0.09
15 2 0.04
16 9 0.20
17 11 0.24
18 6 0.13
19 7 0.15
20 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (15 bp):
AAAAATAAAAATATT
Found at i:11781747 original size:19 final size:17
Alignment explanation
Indices: 11781720--11781775 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
11781710 AAAATAAAAA
11781720 TAAAA-ATAAAAATCAAT
1 TAAAATATAAAAAT-AAT
* *
11781737 TAAAGTTATAAAAATTAT
1 TAAA-ATATAAAAATAAT
11781755 TAAAATATAAAAAT-AT
1 TAAAATATAAAAATAAT
11781771 TAAAA
1 TAAAA
11781776 ATTAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 7 0.21
17 13 0.38
18 6 0.18
19 8 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAATATAAAAATAAT
Found at i:11781811 original size:19 final size:19
Alignment explanation
Indices: 11781746--11781844 Score: 87
Period size: 19 Copynumber: 5.2 Consensus size: 19
11781736 TTAAAGTTAT
* *
11781746 AAAAATTATTAAAA-TAT-
1 AAAAATTATAAAAATTGTA
*
11781763 AAAAA-TATTAAAAATTAGAA
1 AAAAATTA-TAAAAATT-GTA
11781783 AAAAATTTATAAAAATTGTA
1 AAAAA-TTATAAAAATTGTA
*
11781803 AAAAATTATAAAACTTGTA
1 AAAAATTATAAAAATTGTA
** *
11781822 AAATTTTATAAAAATAGTA
1 AAAAATTATAAAAATTGTA
11781841 AAAA
1 AAAA
11781845 TATAGAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
16 2 0.03
17 10 0.15
18 1 0.02
19 31 0.47
20 12 0.18
21 8 0.12
22 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATTGTA
Found at i:11781865 original size:10 final size:10
Alignment explanation
Indices: 11781742--11781815 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
11781732 TCAATTAAAG
11781742 TTAT-AAAAA
1 TTATAAAAAA
*
11781751 TTAT-TAAAA
1 TTATAAAAAA
11781760 -TAT-AAAAA
1 TTATAAAAAA
*
11781768 -TATTAAAAA
1 TTATAAAAAA
*
11781777 TTAGAAAAAAA
1 TTA-TAAAAAA
11781788 TT-TATAAAAA
1 TTATA-AAAAA
*
11781798 TTGTAAAAAA
1 TTATAAAAAA
11781808 TTATAAAA
1 TTATAAAA
11781816 CTTGTAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 10 0.19
9 14 0.26
10 21 0.39
11 9 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:11781900 original size:68 final size:65
Alignment explanation
Indices: 11781746--11781935 Score: 155
Period size: 68 Copynumber: 2.8 Consensus size: 65
11781736 TTAAAGTTAT
** * *
11781746 AAAAATTATTAAAATATAAAAATATTAAAAATTAGAAAAAAATTTATAAAAATTGTAAAAAATTA
1 AAAAATTAAAAAAATATAAAAATA-TAAAAATTAGAAAAAAAATTAT-AAAATTGTAAAAAATCA
11781811 TA
64 TA
** *** * * *
11781813 AAACTTGTAAAATTTTATAAAAATAGTAAAAATATAGAAAAAAAATTATAAAATTTTATAAAGTC
1 AAAAAT-TAAAAAAATATAAAAATA-TAAAAAT-TAGAAAAAAAATTATAAAATTGTAAAAAATC
*
11781878 GTA
63 ATA
* * * *
11781881 AGAAAATTAAAAAAATATAAAGATATATAAAATTCGTAAAAAAGTTATTAAAATT
1 A-AAAATTAAAAAAATATAAAAATATA-AAAATTAGAAAAAAAATTA-TAAAATT
11781936 ATCGTACCAA
Statistics
Matches: 95, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
67 17 0.18
68 61 0.64
69 17 0.18
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (65 bp):
AAAAATTAAAAAAATATAAAAATATAAAAATTAGAAAAAAAATTATAAAATTGTAAAAAATCATA
Found at i:11781918 original size:38 final size:37
Alignment explanation
Indices: 11781800--11781937 Score: 91
Period size: 38 Copynumber: 3.6 Consensus size: 37
11781790 TATAAAAATT
* * * * * *
11781800 GTAAAAAATTATAAAACTTGTAAAATTTTATAAAAATA
1 GTAAAAAATTAAAAAAATTATAAAATTATAT-AAAGTC
* *
11781838 GTAAAAATATAGAAAAAAAATTATAAAATTTTATAAAGTC
1 GTAAAAA-AT--TAAAAAAATTATAAAATTATATAAAGTC
*
11781878 GTAAGAAAATTAAAAAAA-TATAAAGA-TATATAAAATTC
1 GTAA-AAAATTAAAAAAATTATAAA-ATTATAT-AAAGTC
**
11781916 GTAAAAAAGTTATTAAAATTAT
1 GTAAAAAA-TTAAAAAAATTAT
11781938 CGTACCAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
37 14 0.17
38 31 0.38
39 5 0.06
40 10 0.12
41 21 0.26
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (37 bp):
GTAAAAAATTAAAAAAATTATAAAATTATATAAAGTC
Found at i:11781991 original size:16 final size:17
Alignment explanation
Indices: 11781961--11781993 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11781951 GCAATTTATA
11781961 ATTTTTCTATAATTTTT
1 ATTTTTCTATAATTTTT
*
11781978 ATTTTT-TATCATTTTT
1 ATTTTTCTATAATTTTT
11781994 CGCCATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTCTATAATTTTT
Found at i:11782176 original size:10 final size:9
Alignment explanation
Indices: 11782094--11782210 Score: 76
Period size: 9 Copynumber: 12.4 Consensus size: 9
11782084 TTTTGATGCA
11782094 TTTTATAAT
1 TTTTATAAT
*
11782103 TTTTATAAAA
1 TTTTAT-AAT
*
11782113 TTATATATAT
1 TTTTATA-AT
*
11782123 TTTTACAAT
1 TTTTATAAT
11782132 TTTTATAATTT
1 TTTTATAA--T
*
11782143 TTTTCTAAT
1 TTTTATAAT
* *
11782152 TTCTAATAAAA
1 TT-TTAT-AAT
*
11782163 TTTAATAAT
1 TTTTATAAT
*
11782172 TTTTATAAA
1 TTTTATAAT
*
11782181 TTTTATTGAT
1 TTTTA-TAAT
11782191 TTTTAT--T
1 TTTTATAAT
11782198 TTTTATAAT
1 TTTTATAAT
11782207 TTTT
1 TTTT
11782211 TGCCACATGT
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.08
9 39 0.46
10 26 0.31
11 12 0.14
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:11787923 original size:22 final size:19
Alignment explanation
Indices: 11787886--11787929 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
11787876 TACCATAAAA
11787886 ACATTAAATTTAACACATT
1 ACATTAAATTTAACACATT
11787905 ACATATAAACTTTAAACACATT
1 ACAT-TAAA-TTT-AACACATT
11787927 ACA
1 ACA
11787930 ATTCCAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 3 0.14
22 11 0.50
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (19 bp):
ACATTAAATTTAACACATT
Found at i:11788501 original size:20 final size:20
Alignment explanation
Indices: 11788476--11788513 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11788466 CAGAGACACT
*
11788476 GAAGTGTAAACAAAGGCACC
1 GAAGTGCAAACAAAGGCACC
11788496 GAAGTGCAAACAAAGGCA
1 GAAGTGCAAACAAAGGCA
11788514 AGATTGTGTA
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:0.47, C:0.18, G:0.26, T:0.08
Consensus pattern (20 bp):
GAAGTGCAAACAAAGGCACC
Found at i:11788553 original size:60 final size:60
Alignment explanation
Indices: 11788445--11788564 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
11788435 ATAATGCTAT
* * * *
11788445 ACAAAGGCACGATTATGCAATCAGAGACACTGAAGTGTAAACAAAGGCACCGAAGTGCAA
1 ACAAAGGCAAGATTATGCAATCAGAGACACCGAAGTGTAAACAAAGGCACCAAAATGCAA
* * * ** *
11788505 ACAAAGGCAAGATTGTGTAATTAGAGACACCGAAGTGTAAGTAGAGGCACCAAAATGCAA
1 ACAAAGGCAAGATTATGCAATCAGAGACACCGAAGTGTAAACAAAGGCACCAAAATGCAA
11788565 CCTCGTACAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.15
Consensus pattern (60 bp):
ACAAAGGCAAGATTATGCAATCAGAGACACCGAAGTGTAAACAAAGGCACCAAAATGCAA
Found at i:11789534 original size:64 final size:64
Alignment explanation
Indices: 11789433--11789560 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
11789423 ATAACGATCT
11789433 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
1 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
11789497 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
1 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
11789561 AATTCTCTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (64 bp):
CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
Found at i:11797692 original size:32 final size:32
Alignment explanation
Indices: 11797651--11797725 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
11797641 AAAATAAATT
11797651 ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
1 ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
* *
11797683 ATGAAGAGTTAGAAATGTGAAGAGACTTGAAG
1 ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
11797715 ATGAAGAGTTA
1 ATGAAGAGTTA
11797726 CACACATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.28, T:0.23
Consensus pattern (32 bp):
ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
Found at i:11797789 original size:39 final size:39
Alignment explanation
Indices: 11797735--11797823 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
11797725 ACACACATGC
11797735 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
*
11797774 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
11797813 ATGAATAGTCA
1 ATGAATAGTCA
11797824 TTTACAACTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
Found at i:11806959 original size:13 final size:13
Alignment explanation
Indices: 11806941--11806965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11806931 AATATTAATT
11806941 AAAAAAAAGTTGA
1 AAAAAAAAGTTGA
11806954 AAAAAAAAGTTG
1 AAAAAAAAGTTG
11806966 CTACTTTCTC
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAAAAGTTGA
Found at i:11811640 original size:509 final size:506
Alignment explanation
Indices: 11809801--11812520 Score: 3396
Period size: 480 Copynumber: 5.4 Consensus size: 506
11809791 CTCTATTTTC
* **
11809801 AAATTAAAACAGAATTTGAAGAGATAAACTCAGCTGAGGAAAAATAAAAAAATGTATTGGGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * *
11809866 AATATCCGTAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATAATAGGATCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
* * * * *
11809931 CCAGAAAAATATAGATATATATATAAAATCTAAAAAA-ATAAATTGGAAATAAAAACTAGATCGA
131 CCAGAACAATATAGATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCGA
* * * * * * *
11809995 AATTGTATACTCGTAGGTAGGCAAAAATTCGATTGGTAGTTGAGGCTTGTTTTCACAATTTCTTT
196 AATTGTATACTCGTAGGTAGGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCCTT
** * * * * * * *
11810060 AAGGTAGATTCGGCTGCTCCTTTGGTGCAGGAGAAATGTTGGTCGAATATCTCCCAAGATGCAAT
261 AAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAAC
* * * *
11810125 AACGATATGAGCACACCAGTAGCACGGCTGCAGTGATCAACGAATTGTAGCCTAGCTTTCTTCTA
326 AACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTA
* * * * *
11810190 TCACTGAAAACATGTTCAAAATATGAAAGGGAAGATATCTCGAAACTTTTGCAGGAAAAATGGGG
391 TCACTGAAAA-TTGTTCAAAATATG-AAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAGGG
* *
11810255 AAAATTTAAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
454 AAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * * * *
11810308 AAATTAAAACTGAATTTGAAGAGATAAAACGCTGCTAATGAAAATTAAAATTATGTATTGGGCTA
1 AAATTAAAACAGAATTTGAAGAGAT-AAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTA
* * *
11810373 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATATAAAATATTAATTTAAATAATAGGATCAA
65 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGA
* * *
11810438 ACCAG----A-AT--A-ATATATATATAATCTAAAAAATAGAAATTGGAAATAAAAACTTGATAG
130 ACCAGAACAATATAGATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCG
* * *
11810495 AAATTGTATACTCGTAGGTAGGGAAAAATTCGACTAGTAGTTGAGGCCTGTTTTCACAG-TTCCT
195 AAATTGTATACTCGTAGGTAGGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCCT
* * *
11810559 TAAGACAGATTCGACTGCTACTTTGGTGTTGGAGAAATATTGGTCGACTGTCTCCCAGGATACAA
260 TAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAA
* * * * *
11810624 CAACGAGATGAGCACAGTAGTAACACGACTGCAATGATCAACGAACTGTAGCTTAGCTTTCTTCT
325 CAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCT
* * * *
11810689 ATCACTGAAAACTGGTTCAAAATATGAAGGGAAAAGTTCTCGAAATTTTTGTAGG-AAAATCGGG
390 ATCACTGAAAA-TTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAGGG
*
11810753 -AAAATGCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
454 AAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * *
11810805 AAATTAAAATAGAATTTGAAGCGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTAGGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * *
11810870 AATATCTGCAGGTCTAGGAAAATTTAATAGTAATGTAATATA-TAGATTTAAATCATAGGATCGA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTA-ATTTAAATCATAGGATCGA
11810934 ACCAGAACAATATAGATATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGAT
130 ACCAGAACAATATAGATATATATATAT--AATCTAAAAAATAGAAATTGGAAAGAAAAACTGGAT
** **
11810999 CGAAATTGTATACTCAAAGGTAAAGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTC
193 CGAAATTGTATACTCGTAGGTAGGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTC
* * * * * * * *
11811064 TTTAAGACAGATCCGGCTACTTCTTTGGTGCTGAAGAAATGTTGGTTGACTGTCTCCCAGCATAC
258 CTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATAC
* * *
11811129 AACAACAAGATGAGCACAGCAGTATCATGGCTGCAGTGATCAACGAATTGTAGCCTAGCTTTCTT
323 AACAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTT
*
11811194 CTATCA-TAGAAAATTGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATA
388 CTATCACT-GAAAATT-GTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATA
*
11811258 TGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTTTCCTTTTAATTCCAA
451 GGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTC--TTTTTCCTTTTAATTCCAA
* *
11811316 AAATTAAAACAGAATTTGAAGAGGTAAACTCTGCTGAGGAAAAATAAAATTATGTATTGAGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* *
11811381 AATATCCGCTGGTTTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
* * * *
11811446 CTAGAACAATATAGATATATATATATAATCTGAAAAATAGAAATTAGAAAGAAAAACTGGACCGA
131 CCAGAACAATATAGATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCGA
* * * *
11811511 AATTGCATACTTGTACGTAGGGAAAAATCCAACTGGTAGTTGAGGCCTGTTTTCATAGTTTCCTT
196 AATTGTATACTCGTAGGTAGGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCCTT
* * * * *
11811576 AAGACAGATTTGACCGCTCCTTTGCTGCTGGAGAAATGTTGATCGACTGTCTCACAGGATACAAC
261 AAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAAC
* * * * * * *
11811641 AACAAAATGATCACAGCAGTATCAGGGTTGCAGTGATCAACGAAATGTAGCCTAGCTTTCTTCTG
326 AACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTA
* * *
11811706 TCAC-----A--G----AAA-A--CA--G----G-T-TCG--A--TTTGAAGGAAAAATCGGGAA
391 TCACTGAAAATTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAGGGAA
11811745 AAATTCAGTTTTCTTTTTCCTAAAGATTATTAC-TTTTCCTTTTAATTCCAA
456 AAATTCAGTTTTCTTTTTCCTAAAGATTATT-CTTTTTCCTTTTAATTCCAA
* *
11811796 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTGTGTATTGGGTTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * * *
11811861 AATATCCGCAGGTCTAGGAAAAATTAATAGTAGTGTAAAAAATTGATTTAAATCATAGGACCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
* *
11811926 CCAGAACAATATAGATATATATATAAAATCTAAAAAATAGAATTTGGAAAGAAAAACTGGATCGA
131 CCAGAACAATATAGATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCGA
* * * *
11811991 AATTGTATACTCGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTCTGTTGTGATAGTTTCCTT
196 AATTGTATACTCGTAGGTAGGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCCTT
* * * *
11812056 AAGACAGATTCGA-TCGCTCATTTGTTGTTGGAGAAATGTTGGTCGACTGTCTCCCAAGATACAA
261 AAGACAGATTCGACT-GCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAA
* * * * *
11812120 CAACGAGATAAACATAGCAATATCACGGCTGCAGTGATTAACGAACTGTAGCCTAGCTTTCTTCT
325 CAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCT
** * *
11812185 ATCACTGAAAACTTGTTTGAAATATGAAGGGAAAAGATCTTGAAATTTTTGCTGGAAAAATATGA
390 ATCACTGAAAA-TTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATA-G-
11812250 AAAAATTTAGTTTTCAAAATATGAAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCC
452 ---------G------------G-AAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCC
11812315 TTTTAATTCCAA
495 TTTTAATTCCAA
*
11812327 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTTA-GAAAAATTAAAATTATGTATTGGGCTA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAA-TAAAATTATGTATTGGGCTA
* * * * *
11812391 AAATAGCCGCAGGCCTAGGAAATATTAATTGTAATGTAAAATATTGATTTAAATCATAGGATCGA
65 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGA
* * *
11812456 ACCAGAACAATAT--ATATATATA-A-AATTTGAAAAAA-A-AAATTAGAAATAAAAACTGGATC
130 ACCAGAACAATATAGATATATATATATAATCT-AAAAAATAGAAATTGGAAAGAAAAACTGGATC
11812515 GAAATT
194 GAAATT
11812521 AAAACAGCTG
Statistics
Matches: 1926, Mismatches: 209, Indels: 137
0.85 0.09 0.06
Matches are distributed among these distances:
480 368 0.19
482 48 0.02
483 1 0.00
484 1 0.00
485 1 0.00
486 3 0.00
487 1 0.00
488 2 0.00
492 4 0.00
493 1 0.00
494 1 0.00
495 3 0.00
496 96 0.05
497 75 0.04
498 8 0.00
499 24 0.01
500 159 0.08
501 82 0.04
502 1 0.00
503 5 0.00
504 12 0.01
505 1 0.00
506 89 0.05
507 200 0.10
508 106 0.06
509 239 0.12
511 161 0.08
512 2 0.00
518 1 0.00
526 26 0.01
527 5 0.00
528 7 0.00
529 9 0.00
530 8 0.00
531 176 0.09
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (506 bp):
AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
CCAGAACAATATAGATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCGA
AATTGTATACTCGTAGGTAGGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCCTT
AAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAAC
AACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTA
TCACTGAAAATTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAGGGAA
AAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
Found at i:11812273 original size:24 final size:24
Alignment explanation
Indices: 11812241--11812288 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11812231 TTTTGCTGGA
*
11812241 AAAATATGAAAAAATTTAGTTTTC
1 AAAATATGAAAAAATTCAGTTTTC
11812265 AAAATATGAAAAAATTCAGTTTTC
1 AAAATATGAAAAAATTCAGTTTTC
11812289 TTTTTCCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAATATGAAAAAATTCAGTTTTC
Found at i:11813098 original size:889 final size:862
Alignment explanation
Indices: 11811725--11813341 Score: 2179
Period size: 889 Copynumber: 1.8 Consensus size: 862
11811715 ACAGGTTCGA
*
11811725 TTTGAAGGAAAAATCGGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
1 TTTGAAGGAAAAATCGGGAAAAATCCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
* * * * *
11811790 TTCCAAAAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTGTGTATTG
66 TTCCAAAAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
* * *
11811855 GGTTAAAATATCCGCAGGTCTAGGAAAAATTAATAGTAGTGTAAAAAATTGATTTAAATCATAGG
131 GGCTAAAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAAAATTGATTTAAATCATAGG
* *
11811920 ACCGAACCAGAACAATATAGATATATATATAAAATCTAAAAAATAGAATTTGGAAAGAAAAACTG
196 ACCGAACCAGAACAATATAGATATATATATAAAATCTAAAAAACAGAATTTGGAAAGAAAAACTA
** * * *
11811985 GATCGAAATTGTATACTCGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTCTGTTGTGATAGT
261 GATCGAAATTGTATACAAGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTCTATTGTCACAGT
* * * * * ** *
11812050 TTCCTTAAGACAGATTCGATCGCTCATTTGTTGTTGGAGAAATGTTGGTCGACTGTCTCCCAAGA
326 TTCATTAAGACAAATTCGATCGCTCATTTGGTGCTGGAGAAATATTGCCCAACTGTCTCCCAAGA
* * * * *
11812115 TACAACAACGAGATAAACATAGCAATATCACGGCTGCAGTGATTAACGAACTGTAGCCTAGCTTT
391 TACAACAACGAGATAAACACAGCAATAGCACGGCTGCACTGATCAACGAACTATAGCCTAGCTTT
* * *
11812180 CTTCTATCACTGAAAACTTGTTTGAAATATGAAGGGAAAAGATCTTGAAATTTTTGCTGGAAAAA
456 CTTCTATCACTGAAAACATGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGC--------
*
11812245 TATGAAAAAATTTAGTTTTCAAAATATGAAAAAATTCAGTTTTCTTTTTCCTA-AAGATTATTCT
513 ----AAAAAA---A----TC------GGAAAAAATTCAGTTTTCTTTTTCCTACAA-ATTATTCT
* **
11812309 TTTTCCTTTTAATTCCAAAAATTAAAACAGAATTTGAAGAGATAAACTCTGCTTA-GAAAAATTA
560 TTTTCCTTTTAATTCCAAAAATTAAAACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAA-TA
*** * * * *
11812373 AAATTATGTATTGGGCTAAAATAGCCGCAG-GCCTAGGAAATATTAATTGTAAT-GTAAAATATT
624 AAATTATGTATTAACCTAAAATAGCCACAGAGCCTA-AAAAAATTAATAGTAATAG-AAAATATT
* * *
11812436 GATTTAAATCATAGGATCGAACCAGAACAATATATATATATAAAATTTGAAAAAAAAAATTAGAA
687 GATTTAAATCATAGGATAGAACCAAAACAATATAGATATATAAAATTTGAAAAAAAAAATTAGAA
11812501 ATAAAAACTGGATCGAAATTAAAACAGCTGTAGTGATCAATGAACTGTTGTCTGGCTTTCTTCTA
752 ATAAAAACTGGATCGAAATTAAAACAGCTGTAGTGATCAATGAACTGTTGTCTGGCTTTCTTCTA
11812566 TAACTGAAATAAATTTTGAAATATGTACGGAAAAGATCTCGAAATT
817 TAACTGAAATAAATTTTGAAATATGTACGGAAAAGATCTCGAAATT
* * * * *
11812612 TTTGCAGGAAAAATTGGGAAAAATCCTGTTTTCTTTTTCCTACAGGTTATT-CTTTTCCTTTTAA
1 TTTGAAGGAAAAATCGGGAAAAATCCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
*
11812676 TTCCAAGAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
66 TTCCAAAAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
* * * *
11812741 GGCTAAAATATCCATATGTTTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGG
131 GGCTAAAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAAAATTGATTTAAATCATAGG
* * *
11812806 ATCGAACCAGAACAATATAGATATCTATATATAAAAATCTAAAAAACAGAAATTT-GAAATAAGA
196 ACCGAACCAGAACAATATAGATA--TATATAT-AAAATCTAAAAAACAG-AATTTGGAAAGAAAA
* *
11812870 ACTAGATCGAAATTGTATACAAGTAGGTAGGTAAAAATCCGACTGGTAGTTGAGG-CTTATTTTC
257 ACTAGATCGAAATTGTATACAAGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTC-TATTGTC
*
11812934 ACAGTTTCATTAAGACAAATTCGAAT-GCTCCTTTGGTGCTGGAGAAATATTGCCCAACTGTCTC
321 ACAGTTTCATTAAGACAAATTCG-ATCGCTCATTTGGTGCTGGAGAAATATTGCCCAACTGTCTC
* * * ** *
11812998 TCAGGATACAACAACGAGATGAGTACAGCAATAGCACGGCTGCACTGATCAACGAGCTATAGCCT
385 CCAAGATACAACAACGAGATAAACACAGCAATAGCACGGCTGCACTGATCAACGAACTATAGCCT
*
11813063 AGCTTTCTTCTATCACTGAAAACATGTTCGAAATATGCAGGGAAAAGATCTCGAAATTTTTGCAA
450 AGCTTTCTTCTATCACTGAAAACATGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAA
* *
11813128 AAAAATCGGGAAAAATTCAGTTTTCTTTTTCCTACAAATTATTCTTTTTCCTTTTAATTTCAAAA
515 AAAAATCGGAAAAAATTCAGTTTTCTTTTTCCTACAAATTATTCTTTTTCCTTTTAATTCCAAAA
11813193 ATTAAAACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAATAAAATTATGTATTAACCTAAAA
580 ATTAAAACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAATAAAATTATGTATTAACCTAAAA
* * * * *
11813258 TATCTACAGATCTTAAAAAAATTAATAGTAATAGAAAATATTTATTTAAATCATAGGATAGAACC
645 TAGCCACAGAGCCTAAAAAAATTAATAGTAATAGAAAATATTGATTTAAATCATAGGATAGAACC
11813323 AAAACAATATAGATATATA
710 AAAACAATATAGATATATA
11813342 TATAAAATCT
Statistics
Matches: 644, Mismatches: 76, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
864 170 0.26
865 12 0.02
870 2 0.00
874 1 0.00
877 6 0.01
886 152 0.24
887 45 0.07
888 8 0.01
889 241 0.37
890 7 0.01
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (862 bp):
TTTGAAGGAAAAATCGGGAAAAATCCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
TTCCAAAAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
GGCTAAAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAAAATTGATTTAAATCATAGG
ACCGAACCAGAACAATATAGATATATATATAAAATCTAAAAAACAGAATTTGGAAAGAAAAACTA
GATCGAAATTGTATACAAGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTCTATTGTCACAGT
TTCATTAAGACAAATTCGATCGCTCATTTGGTGCTGGAGAAATATTGCCCAACTGTCTCCCAAGA
TACAACAACGAGATAAACACAGCAATAGCACGGCTGCACTGATCAACGAACTATAGCCTAGCTTT
CTTCTATCACTGAAAACATGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAAAAAAAT
CGGAAAAAATTCAGTTTTCTTTTTCCTACAAATTATTCTTTTTCCTTTTAATTCCAAAAATTAAA
ACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAATAAAATTATGTATTAACCTAAAATAGCCA
CAGAGCCTAAAAAAATTAATAGTAATAGAAAATATTGATTTAAATCATAGGATAGAACCAAAACA
ATATAGATATATAAAATTTGAAAAAAAAAATTAGAAATAAAAACTGGATCGAAATTAAAACAGCT
GTAGTGATCAATGAACTGTTGTCTGGCTTTCTTCTATAACTGAAATAAATTTTGAAATATGTACG
GAAAAGATCTCGAAATT
Found at i:11813719 original size:27 final size:27
Alignment explanation
Indices: 11813681--11813745 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
11813671 TCTGTCAAGT
*
11813681 AGGCACCAATGAATGTGCCCCATAGAG
1 AGGCGCCAATGAATGTGCCCCATAGAG
* *
11813708 AGGCGCCAATGAATGTGCCTCATAGGG
1 AGGCGCCAATGAATGTGCCCCATAGAG
11813735 AGGCGCCAATG
1 AGGCGCCAATG
11813746 GTGGCCTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.31, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAATGTGCCCCATAGAG
Found at i:11814078 original size:19 final size:19
Alignment explanation
Indices: 11814032--11814201 Score: 132
Period size: 19 Copynumber: 8.4 Consensus size: 19
11814022 TTGGATTAGT
*
11814032 ATTTTGTATGAATATTCTA
1 ATTTTGTATGAATATTGTA
11814051 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
11814072 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
11814091 ATTATTTTAT-AATTAATTTTGT-
1 ATT-TTGTATGAA-T-A--TTGTA
* * *
11814113 ATTTATAGTTTTGGAT-TAGT-
1 ATTT-T-G-TATGAATATTGTA
11814133 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
11814152 ATTTTTGTATGAATATTGCA
1 A-TTTTGTATGAATATTGTA
11814172 ATTTTTTTGTATGAATATTGTA
1 A---TTTTGTATGAATATTGTA
11814194 ATTTTGTA
1 ATTTTGTA
11814202 ATTTTGTATG
Statistics
Matches: 124, Mismatches: 11, Indels: 32
0.74 0.07 0.19
Matches are distributed among these distances:
17 5 0.04
18 4 0.03
19 33 0.27
20 31 0.25
21 20 0.16
22 23 0.19
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:11814138 original size:101 final size:100
Alignment explanation
Indices: 11814014--11814196 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 100
11814004 ATTTATAGTG
*
11814014 TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTGTAA-TTTTG
1 TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAA-TTTTTGTATGAATATTGCAATTTTTG
11814078 TATGAATATTGTAATTATTTTATAATTAATTTTGTA
65 TATGAATATTGTAATTATTTTATAATTAATTTTGTA
*
11814114 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTTGTATGAATATTGCAATTTTTT
1 TTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATGAATATTGCAA--TTTT
11814179 TGTATGAATATTGTAATT
63 TGTATGAATATTGTAATT
11814197 TTGTAATTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
100 26 0.34
101 30 0.39
103 21 0.27
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (100 bp):
TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATGAATATTGCAATTTTTGT
ATGAATATTGTAATTATTTTATAATTAATTTTGTA
Found at i:11814161 original size:27 final size:27
Alignment explanation
Indices: 11814147--11814252 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 27
11814137 TGTATGAATA
*
11814147 TTGTAATTTTTGTATGAATATTGCAA--
1 TTGTAA-TTTTGTATGAATATTGTAATT
11814173 TT-T--TTTTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTGTAATT
* *
11814197 TTGTAATTTTGTATGAATATTTTAATA
1 TTGTAATTTTGTATGAATATTGTAATT
11814224 TTGTAATTTTTTGTATGAATATTGTAATT
1 TTGTAA--TTTTGTATGAATATTGTAATT
11814253 ATTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
22 18 0.26
24 2 0.03
25 2 0.03
26 2 0.03
27 25 0.37
29 19 0.28
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.57
Consensus pattern (27 bp):
TTGTAATTTTGTATGAATATTGTAATT
Found at i:11814181 original size:22 final size:22
Alignment explanation
Indices: 11814134--11814198 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
11814124 TGGATTAGTA
11814134 TTTTGTATGAATATTGTAA--T
1 TTTTGTATGAATATTGTAATTT
*
11814154 TTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTGTAATTT
11814176 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTGTAATTT
11814198 T
1 T
11814199 GTAATTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 18 0.44
22 23 0.56
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.57
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:11814198 original size:61 final size:63
Alignment explanation
Indices: 11814133--11814252 Score: 125
Period size: 56 Copynumber: 2.0 Consensus size: 63
11814123 TTGGATTAGT
11814133 ATTTTGTATGAATATTGTAA-T-TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATTATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
* * * *
11814194 ATTTTG--T-AATTTTGT-ATGAATATT-T-T-AATATTGTAA-TTTTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAAT-TATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
11814250 ATT
1 ATT
11814253 ATTTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
56 23 0.44
57 10 0.19
58 8 0.15
59 2 0.04
60 3 0.06
61 6 0.12
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (63 bp):
ATTTTGTATGAATATTGTAATTATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
Found at i:11814244 original size:29 final size:29
Alignment explanation
Indices: 11814163--11814251 Score: 128
Period size: 27 Copynumber: 3.1 Consensus size: 29
11814153 TTTTTGTATG
*
11814163 AATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAA-TTTTTTGTATGAATATTGT
* *
11814193 AATTTTGTAA--TTTTGTATGAATATTTT
1 AATATTGTAATTTTTTGTATGAATATTGT
11814220 AATATTGTAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTTTGTATGAATATTGT
11814249 AAT
1 AAT
11814252 TATTTTATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 25 0.48
29 19 0.37
30 8 0.15
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (29 bp):
AATATTGTAATTTTTTGTATGAATATTGT
Found at i:11814314 original size:60 final size:60
Alignment explanation
Indices: 11814245--11814363 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
11814235 TGTATGAATA
* * * * *
11814245 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
11814305 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
11814364 CTTAGTTTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 47 0.89
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:11816153 original size:6 final size:6
Alignment explanation
Indices: 11816142--11816175 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
11816132 GCATCATGCA
*
11816142 CCAGAG CCAGAG CTAGAG CCAGAG CCAGAG CCAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAG
11816176 TGCTAGCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.32, T:0.03
Consensus pattern (6 bp):
CCAGAG
Found at i:11816161 original size:12 final size:12
Alignment explanation
Indices: 11816144--11816181 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
11816134 ATCATGCACC
11816144 AGAGCCAGAGCT
1 AGAGCCAGAGCT
*
11816156 AGAGCCAGAGCC
1 AGAGCCAGAGCT
*
11816168 AGAGCCAGTGCT
1 AGAGCCAGAGCT
11816180 AG
1 AG
11816182 CGACGGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.26, G:0.34, T:0.08
Consensus pattern (12 bp):
AGAGCCAGAGCT
Found at i:11817941 original size:21 final size:23
Alignment explanation
Indices: 11817917--11817970 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
11817907 CTTATCCTTC
11817917 TTCTTCTTTTCCTTTCTT-TT-T
1 TTCTTCTTTTCCTTTCTTCTTAT
*
11817938 TTCTTC--TACCTTTCTTCTTAT
1 TTCTTCTTTTCCTTTCTTCTTAT
11817959 TTCTTCTGTTTC
1 TTCTTCT-TTTC
11817971 TCTGGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
19 9 0.35
20 2 0.08
21 13 0.50
24 2 0.08
ACGTcount: A:0.04, C:0.26, G:0.02, T:0.69
Consensus pattern (23 bp):
TTCTTCTTTTCCTTTCTTCTTAT
Found at i:11818059 original size:27 final size:27
Alignment explanation
Indices: 11817987--11818061 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
11817977 AAAAATCAGT
*
11817987 CCATTGGCGCCTCTCA-ACATGGCACCA
1 CCATTGGCGCCTCTCAGATA-GGCACCA
* *
11818014 CTAATGGCGCCTCTCAGATAGGCACCA
1 CCATTGGCGCCTCTCAGATAGGCACCA
*
11818041 CCATTGGCGCCTCTGAGATAG
1 CCATTGGCGCCTCTCAGATAG
11818062 ACGCCACTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.20
Consensus pattern (27 bp):
CCATTGGCGCCTCTCAGATAGGCACCA
Found at i:11822927 original size:3 final size:3
Alignment explanation
Indices: 11822919--11822956 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
11822909 TACCGTCCAC
11822919 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
11822957 GGTCTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11824050 original size:22 final size:23
Alignment explanation
Indices: 11824025--11824067 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11824015 CTTTCAATTT
11824025 TATAAACTT-GAAGAAAACTATA
1 TATAAACTTAGAAGAAAACTATA
*
11824047 TATAAAGTTAGAAGAAAACTA
1 TATAAACTTAGAAGAAAACTA
11824068 ACCAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (23 bp):
TATAAACTTAGAAGAAAACTATA
Found at i:11827513 original size:32 final size:32
Alignment explanation
Indices: 11827472--11827532 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11827462 TTTTTTGAAA
11827472 AATAATTATAAATATTTAAAT-AAT-ATTATTTG
1 AATAATTAT-AATA-TTAAATGAATAATTATTTG
*
11827504 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
11827533 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 7 0.27
32 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:11827525 original size:20 final size:20
Alignment explanation
Indices: 11827491--11827532 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11827481 AAATATTTAA
** *
11827491 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11827511 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11827531 AT
1 AT
11827533 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11829601 original size:15 final size:16
Alignment explanation
Indices: 11829576--11829609 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11829566 AATATGAAGC
11829576 GTTTGATAAATTTAAA
1 GTTTGATAAATTTAAA
*
11829592 GTTT-ATAAATTTGAA
1 GTTTGATAAATTTAAA
11829607 GTT
1 GTT
11829610 GAAATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (16 bp):
GTTTGATAAATTTAAA
Found at i:11835527 original size:21 final size:21
Alignment explanation
Indices: 11835503--11835558 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
11835493 CGGAACAATT
*
11835503 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAATA-AAAA
*
11835524 AAG-AATAGATCAAATAAAAA
1 AAGAAAAAGATCAAATAAAAA
*
11835544 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
11835559 CAATTTGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 12 0.40
21 13 0.43
22 5 0.17
ACGTcount: A:0.71, C:0.05, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATAAAAA
Found at i:11838413 original size:34 final size:34
Alignment explanation
Indices: 11838370--11838456 Score: 129
Period size: 34 Copynumber: 2.5 Consensus size: 34
11838360 AAATGATACC
11838370 AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
*
11838404 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
* * *
11838438 ACAAAATAATGCGTGAACA
1 A-GAAATGATGAGTGAACA
11838457 TGAAATATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
34 34 0.71
35 14 0.29
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.18
Consensus pattern (34 bp):
AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
Found at i:11839474 original size:20 final size:20
Alignment explanation
Indices: 11839440--11839481 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11839430 AACTATTTAA
** *
11839440 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11839460 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11839480 AT
1 AT
11839482 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11841102 original size:32 final size:33
Alignment explanation
Indices: 11841033--11841105 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 33
11841023 TAGTCCATCA
*
11841033 TTAATCACTATAACCATGTGTCTAAACCCAAAG
1 TTAATCATTATAACCATGTGTCTAAACCCAAAG
*
11841066 -TAATCATTATAACCATGTGTCTAAACCC-TAG
1 TTAATCATTATAACCATGTGTCTAAACCCAAAG
11841097 TTAATCATT
1 TTAATCATT
11841106 GCAAGGTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.05
32 35 0.95
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (33 bp):
TTAATCATTATAACCATGTGTCTAAACCCAAAG
Found at i:11855560 original size:41 final size:40
Alignment explanation
Indices: 11855519--11855611 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
11855509 ATAAAGCAGA
11855519 AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
1 AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
* * * **
11855559 AAAATGCTCCCTCAAGGAAGCGCTTTGTCCACGTGGACAG
1 AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
11855599 AAAACGCTTCCTT
1 AAAACGCTTCCTT
11855612 GAGGGAGCGC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
Found at i:11855582 original size:40 final size:40
Alignment explanation
Indices: 11855536--11855637 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
11855526 TTCCTTAAAA
*
11855536 AAGCGCTTTGTCCACGTGGACAGAAAATGCTCCCTCAAGG
1 AAGCGCTTTGTCCACGTGGACAGAAAACGCTCCCTCAAGG
* **
11855576 AAGCGCTTTGTCCACGTGGACAGAAAACGCTTCCTTGAGG
1 AAGCGCTTTGTCCACGTGGACAGAAAACGCTCCCTCAAGG
*
11855616 GAGCGCTTTGTGTCCACGTGGA
1 AAGCGC-TT-TGTCCACGTGGA
11855638 TAGGATTTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 41 0.75
41 2 0.04
42 12 0.22
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGCGCTTTGTCCACGTGGACAGAAAACGCTCCCTCAAGG
Found at i:11856482 original size:96 final size:97
Alignment explanation
Indices: 11856380--11856697 Score: 482
Period size: 96 Copynumber: 3.3 Consensus size: 97
11856370 AACAACTAGT
* * *
11856380 TTTATTTGATTTTTT-CTTAAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
*
11856444 AATTAATTTACTCAAGTAACCCTAAGCCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* * *
11856476 TTTATTTGATTTTTT-CTTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
*
11856540 AATTAATATACTCAAGTAACCCTAAACCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
11856572 TTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACTCTAATCTAA-TTTTTTAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
* * * *
11856636 AATTAATTTAATTAAGAAACCCTAAACCCTTA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
11856668 TTTATTTAATTTTTTCCTT-AAAACCCTAAA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAA
11856698 ATCTAAAAAT
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
95 10 0.05
96 164 0.80
97 30 0.15
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.42
Consensus pattern (97 bp):
TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
AATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:11868463 original size:26 final size:26
Alignment explanation
Indices: 11868416--11868465 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
11868406 GTCATAACTA
11868416 TAATCATAAGTAATATACTAATAAAT
1 TAATCATAAGTAATATACTAATAAAT
11868442 TAATCATTAAAGTAA-ATA-TAATAA
1 TAATCA-T-AAGTAATATACTAATAA
11868466 TTATAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.55
27 4 0.18
28 6 0.27
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (26 bp):
TAATCATAAGTAATATACTAATAAAT
Found at i:11870121 original size:17 final size:17
Alignment explanation
Indices: 11870100--11870142 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
11870090 ATTGATGAAA
11870100 TTTTAAAATTTACAATTC
1 TTTTAAAATTTA-AATTC
* *
11870118 -TTTAAATTTTAATTTC
1 TTTTAAAATTTAAATTC
11870134 TTTTAAAAT
1 TTTTAAAAT
11870143 ATAGTTGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAAATTTAAATTC
Found at i:11872024 original size:30 final size:31
Alignment explanation
Indices: 11871966--11872024 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
11871956 TTGTCTTTAC
*
11871966 TTTTCTTTCATCTTTTTAGCTTTCTAGTTAG
1 TTTTCTTTCATCTTTTTAGCGTTCTAGTTAG
*
11871997 TTTTC-TTCATCTTTTCTAGGGTT-TAGTT
1 TTTTCTTTCATCTTTT-TAGCGTTCTAGTT
11872025 TAGAACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (31 bp):
TTTTCTTTCATCTTTTTAGCGTTCTAGTTAG
Found at i:11872392 original size:16 final size:16
Alignment explanation
Indices: 11872371--11872401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11872361 TTCACTATTA
*
11872371 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
11872387 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
11872402 ACATGTATAG
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:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:11880264 original size:41 final size:39
Alignment explanation
Indices: 11880147--11880268 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 39
11880137 TTTGGTACCT
* * *
11880147 AGTGCCTCATCGGATAATTCGAAGTAATAAATTGACACCC
1 AGTGCCTCAT-TGATAATCCGAAGTAGTAAATTGACACCC
* * * *
11880187 AGTGTCTCATTGGCTAAACCG-A--AGTAAATTGGCACCC
1 AGTGCCTCATT-GATAATCCGAAGTAGTAAATTGACACCC
11880224 AGTGCCTCATTGAATTAATCCGAAGTAGTAAATTGACACCC
1 AGTGCCTCATTG-A-TAATCCGAAGTAGTAAATTGACACCC
11880265 AGTG
1 AGTG
11880269 TCTCGTCGAC
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
36 1 0.02
37 23 0.35
38 6 0.09
39 2 0.03
40 15 0.23
41 18 0.28
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (39 bp):
AGTGCCTCATTGATAATCCGAAGTAGTAAATTGACACCC
Found at i:11881271 original size:7 final size:7
Alignment explanation
Indices: 11881259--11881283 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11881249 GTTTTATTAT
11881259 TATAATA
1 TATAATA
11881266 TATAATA
1 TATAATA
11881273 TATAATA
1 TATAATA
11881280 TATA
1 TATA
11881284 TACTTATAGA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:11883227 original size:40 final size:38
Alignment explanation
Indices: 11883183--11883258 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 38
11883173 CGTTTGGATA
* * *
11883183 AAAACGCTGCTAAAGATTGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAA-AATAAGCATTAGCGGCG-TTTTTGG
11883223 AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTT
1 AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTT
11883259 CAAGAAGCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 15 0.45
40 13 0.39
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (38 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTTGG
Found at i:11883277 original size:39 final size:39
Alignment explanation
Indices: 11883202--11883277 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
11883192 CTAAAGATTG
* * *
11883202 AGCATTAGCGGCGCTTTTTGGAAAACGCCGCTAAAAATA
1 AGCATTAGCGGCGCTTTTTGCAAAACGCCACAAAAAATA
11883241 AGCATTAGCGGCG-TTTTT-CAAGAAGCGCCACAAAAAA
1 AGCATTAGCGGCGCTTTTTGCAA-AA-CGCCACAAAAAA
11883278 CCTATGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 2 0.06
38 7 0.22
39 23 0.72
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCATTAGCGGCGCTTTTTGCAAAACGCCACAAAAAATA
Found at i:11884485 original size:21 final size:21
Alignment explanation
Indices: 11884461--11884516 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
11884451 TAAGGTTTAA
11884461 GGGTTAGGGGTTAGACGTTAG
1 GGGTTAGGGGTTAGACGTTAG
11884482 GGGTTAGGGGTTAGACGTTAG
1 GGGTTAGGGGTTAGACGTTAG
*
11884503 GGGTTAGGGTTTAG
1 GGGTTAGGGGTTAG
11884517 GGTTTATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.04, G:0.48, T:0.30
Consensus pattern (21 bp):
GGGTTAGGGGTTAGACGTTAG
Found at i:11884522 original size:7 final size:7
Alignment explanation
Indices: 11884461--11884518 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
11884451 TAAGGTTTAA
11884461 GGGTTAG
1 GGGTTAG
11884468 GGGTTAG
1 GGGTTAG
**
11884475 ACGTTAG
1 GGGTTAG
11884482 GGGTTAG
1 GGGTTAG
11884489 GGGTTAG
1 GGGTTAG
**
11884496 ACGTTAG
1 GGGTTAG
11884503 GGGTTAG
1 GGGTTAG
*
11884510 GGTTTAG
1 GGGTTAG
11884517 GG
1 GG
11884519 TTTATGTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.17, C:0.03, G:0.50, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:11887411 original size:37 final size:37
Alignment explanation
Indices: 11887346--11887528 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
11887336 TACGTATGAT
* *
11887346 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11887381 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11887418 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11887455 CACTTATCACTTTGTTTCTTGATCAAATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11887492 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11887529 TAAAGCTATC
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 10 0.07
36 3 0.02
37 126 0.91
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11887501 original size:111 final size:114
Alignment explanation
Indices: 11887346--11887575 Score: 326
Period size: 111 Copynumber: 2.0 Consensus size: 114
11887336 TACGTATGAT
* *
11887346 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAA
1 CACTTATCACTTGTCCCTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGATAA
*
11887411 -GT-G-T-AGC-CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
66 GGTAGCTAAGCTCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
* *
11887455 CACTTATCACTTTGTTTCTTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
1 CACTTATCAC-TTG-TCCCTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
11887520 AAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
64 AAG-GTAGCT-AAGC--TCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
11887575 C
1 C
11887576 GAAGCTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
109 10 0.10
110 3 0.03
111 48 0.46
113 2 0.02
114 1 0.01
115 1 0.01
117 3 0.03
120 37 0.35
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (114 bp):
CACTTATCACTTGTCCCTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGATAA
GGTAGCTAAGCTCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
Found at i:11887545 original size:46 final size:46
Alignment explanation
Indices: 11887492--11887859 Score: 448
Period size: 46 Copynumber: 7.6 Consensus size: 46
11887482 TAAGTGTAGC
* **
11887492 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11887538 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11887584 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11887636 CACTTATCACTTTCCATTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCA-----C--TTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11887689 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11887735 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
11887781 TACTTATCACTTTCCACTAGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TT----T-GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
11887833 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11887860 AGTACTCAAA
Statistics
Matches: 288, Mismatches: 17, Indels: 34
0.85 0.05 0.10
Matches are distributed among these distances:
46 156 0.54
47 3 0.01
48 1 0.00
49 1 0.00
51 3 0.01
52 79 0.27
53 42 0.15
56 2 0.01
57 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:11887611 original size:52 final size:52
Alignment explanation
Indices: 11887535--11887853 Score: 392
Period size: 52 Copynumber: 6.3 Consensus size: 52
11887525 TAGCTAAAGC
* *
11887535 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
11887588 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * *
11887640 TATCACTTTCCATTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCA-CTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11887693 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11887739 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
11887785 TATCACTTTCCACTAGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11887837 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
11887854 ATCAGAAGTA
Statistics
Matches: 237, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
46 88 0.37
52 89 0.38
53 60 0.25
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11887854 original size:98 final size:96
Alignment explanation
Indices: 11887504--11887859 Score: 477
Period size: 98 Copynumber: 3.6 Consensus size: 96
11887494 CTTATCACTT
* * *
11887504 TGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
11887569 TATAGCCGAAGCTATCACTTATCACTTTTCAC
66 TATAGCCGAAGCTATCACTTATCAC-TTTCAC
* *
11887601 TTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACTTATCACTTTCCATTTTGTCACTTGAT
1 -TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCA-----C--TTTGTCACTTGAT
* *
11887666 CAGATAAGTGTAGCTGAAGCTATCACTTATCAC-TT---
58 CAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCAC
* *
11887701 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
*
11887766 TATAGCCGAAGCTATTACTTATCACTTTCCAC
66 TATAGCCGAAGCTATCACTTATCACTTT-CAC
* *
11887798 TAGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 T-GTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
11887860 AGTACTCAAA
Statistics
Matches: 229, Mismatches: 16, Indels: 26
0.85 0.06 0.10
Matches are distributed among these distances:
92 43 0.19
93 2 0.01
94 1 0.00
97 1 0.00
98 95 0.41
99 41 0.18
103 3 0.01
105 43 0.19
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (96 bp):
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
TATAGCCGAAGCTATCACTTATCACTTTCAC
Found at i:11891977 original size:43 final size:43
Alignment explanation
Indices: 11891907--11892148 Score: 301
Period size: 43 Copynumber: 5.7 Consensus size: 43
11891897 CGAGAAGCGT
* *
11891907 CGCTAAAGGT-TTGTTCTATAGCAGCGTTTGTGGGAAAAACGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
* * *
11891949 CGCTAAAGGTATTGAGCTATAGCGGCGTTTGT-GAAAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAA-CGC
* * *
11891992 CGCTAAATGTCTTGATCTATAGCAGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
* * * * *
11892035 CGCTAAAGGTCCTGATCTATAGCGACGTTTAT-GCAAAATCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
* * *
11892077 CGCTAAAAGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
*
11892120 CGCTAAAGGTCATGATCTATAGCGGCGTT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTT
11892149 GACAACAGCG
Statistics
Matches: 172, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 53 0.31
43 114 0.66
44 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
Found at i:11892116 original size:85 final size:86
Alignment explanation
Indices: 11891921--11892148 Score: 343
Period size: 85 Copynumber: 2.7 Consensus size: 86
11891911 AAAGGTTTGT
* * *
11891921 TCTATAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGT-ATTGAGCTATAGCGGCGTTTGTGAAA
1 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA-TGATCTATAGCGGCGTTTATGAAA
* *
11891985 AAAGCGCCGCTAAATGTCTTGA
65 AAAGCGCCGCTAAAAGTCCTGA
* * *
11892007 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGACGTTTATG-CAA
1 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATGAAAA
*
11892071 AATCGCCGCTAAAAGTCCTGA
66 AAGCGCCGCTAAAAGTCCTGA
*
11892092 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTT
1 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTT
11892149 GACAACAGCG
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
85 74 0.57
86 55 0.43
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (86 bp):
TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATGAAAA
AAGCGCCGCTAAAAGTCCTGA
Found at i:11892116 original size:128 final size:128
Alignment explanation
Indices: 11891901--11892148 Score: 329
Period size: 128 Copynumber: 1.9 Consensus size: 128
11891891 TTTTTGCGAG
* * * * * * *
11891901 AAGCGTCGCTAAAGGTTTGTTCTATAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGTATTGAGC
1 AAGCGCCGCTAAAGGTCTGATCTATAGCAGCGTTTATGGCAAAAACGCCGCTAAAAGTACTGAGC
* *
11891966 TATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAATGTCTTGATCTATAGCAGCGTTTGTGGGAA
66 TATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGGGAA
* *
11892029 AAGCGCCGCTAAAGGTCCTGATCTATAGC-GACGTTTAT-GCAAAATCGCCGCTAAAAGTCCTGA
1 AAGCGCCGCTAAAGGT-CTGATCTATAGCAG-CGTTTATGGCAAAAACGCCGCTAAAAGTACTGA
* ** *
11892092 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTT
64 GCTATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTT
11892149 GACAACAGCG
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
128 87 0.84
129 16 0.16
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (128 bp):
AAGCGCCGCTAAAGGTCTGATCTATAGCAGCGTTTATGGCAAAAACGCCGCTAAAAGTACTGAGC
TATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGGGAA
Found at i:11892861 original size:35 final size:35
Alignment explanation
Indices: 11892794--11892868 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
11892784 TTGGGCTGGA
* * *
11892794 AAATGATATACTGGCTCTATAGAGTGATATCATGG
1 AAATGATATACTAGCTCTATAGAGCGACATCATGG
* * *
11892829 AAATGATCTACTAGCTCTATAGAGCGGCATCATGT
1 AAATGATATACTAGCTCTATAGAGCGACATCATGG
11892864 AAATG
1 AAATG
11892869 GTTTATTGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (35 bp):
AAATGATATACTAGCTCTATAGAGCGACATCATGG
Found at i:11897452 original size:13 final size:13
Alignment explanation
Indices: 11897434--11897459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11897424 AAAGAGATTT
11897434 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
11897447 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
11897460 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:11897529 original size:19 final size:19
Alignment explanation
Indices: 11897489--11897530 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
11897479 GTCTCTTTTC
* *
11897489 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
11897508 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
11897527 GCAT
1 GCAT
11897531 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:11899438 original size:19 final size:19
Alignment explanation
Indices: 11899414--11899453 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
11899404 GCAAATGTTC
11899414 TTTCATTC-TTTACGATTTT
1 TTTCATTCTTTTA-GATTTT
11899433 TTTCATTCTTTTAGATTTT
1 TTTCATTCTTTTAGATTTT
11899452 TT
1 TT
11899454 CTGACAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTCATTCTTTTAGATTTT
Found at i:11901888 original size:132 final size:132
Alignment explanation
Indices: 11901709--11902480 Score: 1208
Period size: 132 Copynumber: 5.7 Consensus size: 132
11901699 GAGCAGGTTA
*
11901709 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATTAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
*
11901774 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAATGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
11901839 TG
131 TG
11901841 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
11901906 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCAGTAATTCTACTTCCCTGGGC
66 CTGTGGTTACAGTGGAGTACATTG-A---AG-----------CCAGTAATTCTACTTCCCTGGGC
11901971 AGCAGTGGAATAGATTG
116 AGCAGTGGAATAGATTG
*
11901988 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATTAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
*
11902053 CTGTGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
11902118 TG
131 TG
11902120 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
*
11902185 CTGTGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
11902250 TG
131 TG
*
11902252 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAGGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
* *
11902317 CTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTA-TCTCCCTGGGCAACAGTGGAATAGA
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGA
11902381 TTG
130 TTG
* * * * *
11902384 AAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTTGAGCAGATCAAGGATGG-CAGATTTTACCT
1 AAGATT-TCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGA-ATTTTACCT
* * * *
11902447 CCTTGAGGTTGCAGTGGAGTATATTGAAGCCAGT
64 CCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
11902481 TACCCTATTT
Statistics
Matches: 602, Mismatches: 20, Indels: 36
0.91 0.03 0.05
Matches are distributed among these distances:
131 2 0.00
132 466 0.77
133 2 0.00
136 2 0.00
143 2 0.00
146 1 0.00
147 127 0.21
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
TG
Found at i:11901953 original size:15 final size:15
Alignment explanation
Indices: 11901933--11901964 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11901923 TACATTGAAG
11901933 CCAGTAATTCTACTT
1 CCAGTAATTCTACTT
11901948 CCAGTAATTCTACTT
1 CCAGTAATTCTACTT
11901963 CC
1 CC
11901965 CTGGGCAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (15 bp):
CCAGTAATTCTACTT
Found at i:11905956 original size:2 final size:2
Alignment explanation
Indices: 11905949--11905989 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11905939 TGTGCACGCG
11905949 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
11905990 TAGCAGTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11907203 original size:30 final size:33
Alignment explanation
Indices: 11907142--11907203 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 33
11907132 ACTATAAAAC
**
11907142 ATTTATTATTAAATATTTATAAATTGTAATATAT
1 ATTTATTATTAAATA-TTATAAATTACAATATAT
11907176 ATTTATTATTAAA-A-TA-AAATTACAATAT
1 ATTTATTATTAAATATTATAAATTACAATAT
11907204 TAAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 10 0.38
31 2 0.08
33 1 0.04
34 13 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (33 bp):
ATTTATTATTAAATATTATAAATTACAATATAT
Found at i:11907250 original size:39 final size:40
Alignment explanation
Indices: 11907168--11907268 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 40
11907158 TTATAAATTG
*
11907168 TAATATATATT-TATTATTAAA-ATAAAATTACAATATTAAA
1 TAATAT-TATTATATTATTAAATATAAAATTACAACATT-AA
11907208 TAAT-TTATTATATTATTAAATATAAATAATTA-AACATT-A
1 TAATATTATTATATTATTAAATAT-AA-AATTACAACATTAA
*
11907247 TAATATT-TGATATTATTTAAAT
1 TAATATTATTATATTA-TTAAAT
11907269 TTTTTAGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
38 4 0.08
39 23 0.43
40 14 0.26
41 7 0.13
42 5 0.09
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (40 bp):
TAATATTATTATATTATTAAATATAAAATTACAACATTAA
Found at i:11917544 original size:39 final size:39
Alignment explanation
Indices: 11917493--11917588 Score: 140
Period size: 39 Copynumber: 2.5 Consensus size: 39
11917483 GGAGTTGTAA
* *
11917493 GTGACTATTCATCTACATCACTTAAGTGTTATAGGAGCT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGCT
* *
11917532 GTGACTAATCATCTTA-ATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATC-TACATCACTTAAATGCTATAGGAGCT
11917571 GTGACTATTCATCTACAT
1 GTGACTATTCATCTACAT
11917589 GCTTGTGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.04
39 46 0.92
40 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGCT
Found at i:11922000 original size:39 final size:39
Alignment explanation
Indices: 11921950--11922045 Score: 174
Period size: 39 Copynumber: 2.5 Consensus size: 39
11921940 GGAGTTGTAA
*
11921950 GTGACTATTCATCTACATCACTTAAGTGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
*
11921989 GTGACTATTCATCTTCATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
11922028 GTGACTATTCATCTACAT
1 GTGACTATTCATCTACAT
11922046 GCATGTGTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
Found at i:11922079 original size:16 final size:16
Alignment explanation
Indices: 11922058--11922110 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
11922048 ATGTGTGTAG
11922058 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
11922074 CTCTTCA-CATTTCTAA--
1 CTCTTCATC--TTC-AAGT
11922090 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
11922106 CTCTT
1 CTCTT
11922111 TACATACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 2 0.06
15 4 0.13
16 19 0.61
17 4 0.13
18 2 0.06
ACGTcount: A:0.19, C:0.32, G:0.04, T:0.45
Consensus pattern (16 bp):
CTCTTCATCTTCAAGT
Found at i:11928109 original size:37 final size:37
Alignment explanation
Indices: 11927999--11928466 Score: 487
Period size: 37 Copynumber: 12.6 Consensus size: 37
11927989 TAAGATAAGA
* * * **
11927999 TCTATCCCAAGCTTTTT-AAGTTTGGCTTAGA-TGGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
* *
11928034 TCTACCCCAACCTTTTT-TAGGTTGCCTTAGAC--GTG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAG-G
* *
11928069 TCTATCCCAACCGTTTTTAAAGATTGCCTTAGACGA-G
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGG
*
11928106 TCTATCCCAACCTTTTTTAAAGGTTGCTTTAGACAAGG
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGG
*
11928144 TCTATCCCAACC-TTTT-AAGGTTGCCTTCA-AC-GGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTT-AGACAAGG
* * * *
11928178 TCTATCCTAACCTTTTTTATAGGATGCCCTAGACAAGG
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGG
*
11928216 TCTATTCCAACCTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACC--TTTTTAAAGGTTGCCTTAGACAAGG
*
11928255 TCTATCCCAACCTTTTTAAAGGTTGCTTTAGACAAGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
*
11928292 TCTATCCTAACCTTTTT-AAGGTTGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
*
11928328 TCTA-CCCAACCTTTTTTAAAGGTTGCCTTAGATAAGAATG
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAG---G
* * *
11928368 TCTATCCCAACCTTTTT-AAGGTTTCCTTAGA-TAGC
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
* *
11928403 TCTATCCTAACCTTTTTTTAAAAGGTTTCCTTAGACAAGG
1 TCTATCCCAACC--TTTTT-AAAGGTTGCCTTAGACAAGG
11928443 TCTATCCCAACCTTTTTTAAAGGT
1 TCTATCCCAACC-TTTTTAAAGGT
11928467 CGGCCTCGAC
Statistics
Matches: 371, Mismatches: 37, Indels: 47
0.82 0.08 0.10
Matches are distributed among these distances:
34 14 0.04
35 67 0.18
36 42 0.11
37 118 0.32
38 33 0.09
39 67 0.18
40 23 0.06
41 7 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
Found at i:11928462 original size:76 final size:74
Alignment explanation
Indices: 11927999--11928459 Score: 523
Period size: 72 Copynumber: 6.2 Consensus size: 74
11927989 TAAGATAAGA
* * * ** *
11927999 TCTATCCCAAGCTTTTTAAGTTTGGCTTAGA-TGGGTCTACCCCAACCTTTTTT--AGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
11928061 TAGAC--GTG
66 TAGACAAG-G
* *
11928069 TCTATCCCAACCGTTTTTAAAGATTGCCTTAGACGA-GTCTATCCCAACCTTTTTTAAAGGTTGC
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGC
*
11928133 TTTAGACAAGG
64 CTTAGACAAGG
* * * *
11928144 TCTATCCCAACC-TTTTAAGGTTGCCTTCA-AC-GGGTCTATCCTAACCTTTTTTATAGGATGCC
1 TCTATCCCAACCTTTTTAAGGTTGCCTT-AGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCC
*
11928206 CTAGACAAGG
65 TTAGACAAGG
*
11928216 TCTATTCCAACCTTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACC-TTTTTAAAGGTTG
1 TCTATCCCAACC--TTTTT-AAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTG
*
11928280 CTTTAGACAAGG
63 CCTTAGACAAGG
*
11928292 TCTATCCTAACCTTTTTAAGGTTGCCTTAGACAAGGTCTA-CCCAACCTTTTTTAAAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
*
11928356 TAGATAAGAATG
66 TAGACAAG---G
* * * * *
11928368 TCTATCCCAACCTTTTTAAGGTTTCCTTAGA-TAGCTCTATCCTAACCTTTTTTTAAAAGGTTTC
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACC-TTTTTT-AAAGGTTGC
11928432 CTTAGACAAGG
64 CTTAGACAAGG
11928443 TCTATCCCAACCTTTTT
1 TCTATCCCAACCTTTTT
11928460 TAAAGGTCGG
Statistics
Matches: 337, Mismatches: 32, Indels: 39
0.83 0.08 0.10
Matches are distributed among these distances:
70 11 0.03
71 5 0.01
72 94 0.28
73 50 0.15
74 18 0.05
75 42 0.12
76 81 0.24
77 19 0.06
78 17 0.05
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (74 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
TAGACAAGG
Found at i:11930599 original size:12 final size:12
Alignment explanation
Indices: 11930582--11930620 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
11930572 ACAAGAACTG
11930582 CCTACATCTTTA
1 CCTACATCTTTA
11930594 CCTACATCTTTA
1 CCTACATCTTTA
11930606 CCTACATCTTTA
1 CCTACATCTTTA
11930618 CCT
1 CCT
11930621 TATTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (12 bp):
CCTACATCTTTA
Found at i:11933713 original size:44 final size:44
Alignment explanation
Indices: 11933650--11933740 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
11933640 AACTCTATTT
*
11933650 TTAGTTTTCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
11933694 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
11933738 TTA
1 TTA
11933741 TTAGACCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.47
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:11936175 original size:114 final size:115
Alignment explanation
Indices: 11935919--11936187 Score: 352
Period size: 115 Copynumber: 2.3 Consensus size: 115
11935909 ATATTGTATT
*
11935919 ATTTATATTTT-TTAAATGAAATAACATAGAAATATTCAAAATATTGCCTTATTTTAAAAAATTC
1 ATTT-TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTTAAAAAATTC
** * ** *
11935983 TATTTTATTAAAAACATTAAAGTAAATTACAATTACTTTATTCAAAACAAC
65 TATTTTATTAAAAACACAAAAGTAAATTACAATGAAATAATTCAAAACAAC
*
11936034 ATTTTATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTA-TTTAAAAGAATTT
1 ATTTTATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTTAAAA-AA-TT
*
11936098 CTATTTTATTAAAAATACAAAAGTAAATTAC-ATGAAATAATAT-AAAA-AA-
64 CTATTTTATTAAAAACACAAAAGTAAATTACAATGAAATAAT-TCAAAACAAC
* *
11936147 ATTTCTATTTTATTACATGAAATAATATAAAAATATTCAAA
1 ATTT-TATTTTATTAAATGAAATAATATAGAAATATTCAAA
11936188 TTGTTTGTAC
Statistics
Matches: 138, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
113 4 0.03
114 49 0.36
115 54 0.39
116 31 0.22
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (115 bp):
ATTTTATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTTAAAAAATTCT
ATTTTATTAAAAACACAAAAGTAAATTACAATGAAATAATTCAAAACAAC
Found at i:11936333 original size:20 final size:20
Alignment explanation
Indices: 11936310--11936356 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
11936300 ACGGGGGCTG
11936310 TGGTTGCTTCGG-GGGGATTC
1 TGGTTGCTTCGGAGGGGA-TC
*
11936330 TGGTTCCTTCGGTAGGGGATC
1 TGGTTGCTTCGG-AGGGGATC
11936351 TGGTTG
1 TGGTTG
11936357 TCGGTGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.48
21 7 0.30
22 5 0.22
ACGTcount: A:0.06, C:0.15, G:0.43, T:0.36
Consensus pattern (20 bp):
TGGTTGCTTCGGAGGGGATC
Found at i:11936727 original size:30 final size:30
Alignment explanation
Indices: 11936693--11936756 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
11936683 GTTGAAGTGT
*
11936693 TGGGCCGGGTGACTGTGTCGGTGCTGTTGC
1 TGGGCCGGGTGACTGTGTCGGTGCTGTTGA
* * * *
11936723 TGGGCCTGGTGATTGTGTGGGTGTTGTTGA
1 TGGGCCGGGTGACTGTGTCGGTGCTGTTGA
11936753 TGGG
1 TGGG
11936757 ATTGCATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.05, C:0.12, G:0.48, T:0.34
Consensus pattern (30 bp):
TGGGCCGGGTGACTGTGTCGGTGCTGTTGA
Found at i:11941636 original size:23 final size:22
Alignment explanation
Indices: 11941594--11941648 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
11941584 CAGCACAAAG
11941594 AAACAACA-AAAAGAAAGAAACAA
1 AAACAACAGAAAAGAAAG-AA-AA
*
11941617 AAACAACAGAAAAG-AGGAAAA
1 AAACAACAGAAAAGAAAGAAAA
*
11941638 AAAGAACAGAA
1 AAACAACAGAA
11941649 TAGGGGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 2 0.07
23 10 0.34
24 5 0.17
ACGTcount: A:0.75, C:0.11, G:0.15, T:0.00
Consensus pattern (22 bp):
AAACAACAGAAAAGAAAGAAAA
Found at i:11941645 original size:24 final size:24
Alignment explanation
Indices: 11941590--11941645 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
11941580 AACACAGCAC
*
11941590 AAAGAAACAACAAAAAGAAAGAAAC
1 AAAG-AACAACAAAAAGAAAGAAAA
*
11941615 AAA-AACAACAGAAAAG-AGGAAAA
1 AAAGAACAACA-AAAAGAAAGAAAA
11941638 AAAGAACA
1 AAAGAACA
11941646 GAATAGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 15 0.56
24 9 0.33
25 3 0.11
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAGAACAACAAAAAGAAAGAAAA
Found at i:11942458 original size:3 final size:3
Alignment explanation
Indices: 11942452--11942489 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11942442 GTTCTACTAC
11942452 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11942490 CATACGCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11942759 original size:22 final size:23
Alignment explanation
Indices: 11942718--11942761 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11942708 ACATGTACAT
* *
11942718 ATACATGTATTTTTATAATATTC
1 ATACATATATTTTTAAAATATTC
11942741 ATACATAT-TTTTTAAAATATT
1 ATACATATATTTTTAAAATATT
11942762 TATAAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
ATACATATATTTTTAAAATATTC
Found at i:11951250 original size:31 final size:31
Alignment explanation
Indices: 11951212--11951283 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
11951202 ACCAACAATT
* *
11951212 ACTCAACTTTGATCTCAATGATAAAACGGTC
1 ACTCAACTTTGATCTCAATGACAAAACAGTC
*
11951243 ACTCAACTTTGGTCTCAATGACAAAACAGTC
1 ACTCAACTTTGATCTCAATGACAAAACAGTC
11951274 ACTCAACTTT
1 ACTCAACTTT
11951284 CAATTCAGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (31 bp):
ACTCAACTTTGATCTCAATGACAAAACAGTC
Found at i:11951490 original size:233 final size:233
Alignment explanation
Indices: 11951208--11951675 Score: 864
Period size: 233 Copynumber: 2.0 Consensus size: 233
11951198 TTACACCAAC
*
11951208 AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAGT
1 AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAAT
*
11951273 CACTCAACTTTCAATTCAGTCACTCAACTTTTAAAAAATAACAAATCAGTCCTACTAACTTTCAA
66 CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
*
11951338 AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATGAATTCTCCTTGTTCAGGAAGA
131 AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTCCTTGTTCAGGAAGA
11951403 AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
196 AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
* *
11951441 AATTACTCAACTTTGATCTCAATGATAAAATGGTCACTTAACTTTGGTCTCAATGACAAAACAAT
1 AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAAT
11951506 CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
66 CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
* *
11951571 AAAACCAAACACTCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTTCTTGTTCAGGAAGA
131 AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTCCTTGTTCAGGAAGA
*
11951636 AAGTTGAGAACCATGGCTTCCTCATTGCCATTACCCCA
196 AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
11951674 AA
1 AA
11951676 ATACCCTTTT
Statistics
Matches: 227, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
233 227 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (233 bp):
AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAAT
CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTCCTTGTTCAGGAAGA
AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
Found at i:11951509 original size:31 final size:31
Alignment explanation
Indices: 11951445--11951516 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
11951435 ACCCCAAATT
* ***
11951445 ACTCAACTTTGATCTCAATGATAAAATGGTC
1 ACTCAACTTTGATCTCAATGACAAAACAATC
* *
11951476 ACTTAACTTTGGTCTCAATGACAAAACAATC
1 ACTCAACTTTGATCTCAATGACAAAACAATC
11951507 ACTCAACTTT
1 ACTCAACTTT
11951517 CAATTCAGTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (31 bp):
ACTCAACTTTGATCTCAATGACAAAACAATC
Found at i:11953806 original size:19 final size:20
Alignment explanation
Indices: 11953762--11953806 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
11953752 GAAAAAATCC
*
11953762 TAAAAATTAAGTGATAAAAT
1 TAAAAATTAAGTGACAAAAT
* *
11953782 TGAAAA-TAAGTGACCAAAT
1 TAAAAATTAAGTGACAAAAT
11953801 TAAAAA
1 TAAAAA
11953807 AAACTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.24
Consensus pattern (20 bp):
TAAAAATTAAGTGACAAAAT
Found at i:11965753 original size:23 final size:23
Alignment explanation
Indices: 11965723--11965769 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11965713 AGTAACAATT
11965723 ACAGACTGGCAAAAAGACCATGA
1 ACAGACTGGCAAAAAGACCATGA
11965746 ACAGACTGGCAAAAAGACCATGA
1 ACAGACTGGCAAAAAGACCATGA
11965769 A
1 A
11965770 AACCTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (23 bp):
ACAGACTGGCAAAAAGACCATGA
Found at i:11972422 original size:16 final size:17
Alignment explanation
Indices: 11972401--11972446 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
11972391 AATTTTAAAA
11972401 TATTTTTAAAATACTTT
1 TATTTTTAAAATACTTT
* **
11972418 T-TTTTTAAATTTTTTT
1 TATTTTTAAAATACTTT
11972434 TATTTTTAAAATA
1 TATTTTTAAAATA
11972447 AATTTTTAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTAAAATACTTT
Found at i:11974466 original size:21 final size:21
Alignment explanation
Indices: 11974442--11974482 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11974432 CACGATTTGT
11974442 CCACACGACCATGTACCTTAG
1 CCACACGACCATGTACCTTAG
* *
11974463 CCACACGGCCGTGTACCTTA
1 CCACACGACCATGTACCTTA
11974483 TCCATACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (21 bp):
CCACACGACCATGTACCTTAG
Found at i:11975043 original size:41 final size:40
Alignment explanation
Indices: 11974945--11975045 Score: 107
Period size: 39 Copynumber: 2.5 Consensus size: 40
11974935 ACGACTACTT
* ** *
11974945 ATTTGGTGTGTGTTGGATGGATAGGTCTATTATAATCCTA
1 ATTTGGTGTGTATTGGATGGATAGGTCTACCATAACCCTA
* *
11974985 A-TTGGTGTGCAGTGGATGGAT-GAGTCTACCATAACCCTA
1 ATTTGGTGTGTATTGGATGGATAG-GTCTACCATAACCCTA
*
11975024 GATTTGGTGTGTTTTGGATGGA
1 -ATTTGGTGTGTATTGGATGGA
11975046 CGAAGTTGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.02
39 30 0.61
40 2 0.04
41 16 0.33
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.38
Consensus pattern (40 bp):
ATTTGGTGTGTATTGGATGGATAGGTCTACCATAACCCTA
Found at i:11979675 original size:22 final size:22
Alignment explanation
Indices: 11979650--11979725 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
11979640 CAATGCCTAT
11979650 TTTTATTACCAACTAGATTATA
1 TTTTATTACCAACTAGATTATA
* * *
11979672 TTTTACTACAAACCA-ATGCCTAT-
1 TTTTATTACCAACTAGAT---TATA
11979695 TTTTATTACCAACTAGATTATA
1 TTTTATTACCAACTAGATTATA
11979717 TTTTATTAC
1 TTTTATTAC
11979726 AAAATAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 5 0.12
22 21 0.49
23 12 0.28
24 5 0.12
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTTATTACCAACTAGATTATA
Found at i:11979688 original size:45 final size:45
Alignment explanation
Indices: 11979638--11979728 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
11979628 TTTTAAGATT
11979638 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
1 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
*
11979683 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTATTACAA
1 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
11979728 A
1 A
11979729 ATAAAACTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (45 bp):
ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
Found at i:11983426 original size:48 final size:48
Alignment explanation
Indices: 11983326--11983435 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
11983316 TTGGGCACGG
* * * * * *
11983326 TAAACTACCGACTAAAATATATTGTGGACGAACCATTGGTTATGTAGG
1 TAAACTACCAACTAAAATACATTGTGGACGAACCACTGGTCATGAAGA
* * * *
11983374 TAAACTGCCAACTAAAATACGTTGTGGATGAACCACTGGTCGTGAAGA
1 TAAACTACCAACTAAAATACATTGTGGACGAACCACTGGTCATGAAGA
*
11983422 TAAACTACCGACTA
1 TAAACTACCAACTA
11983436 CTTCCACCAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (48 bp):
TAAACTACCAACTAAAATACATTGTGGACGAACCACTGGTCATGAAGA
Found at i:11998807 original size:95 final size:95
Alignment explanation
Indices: 11998644--11998830 Score: 284
Period size: 95 Copynumber: 2.0 Consensus size: 95
11998634 CCACAATTTC
* * *
11998644 AAATTTTTTCCTAAAATCACTTCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
1 AAATTTTCTCCGAAAATCACTCCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
* *
11998709 TCTCCACTATCCGAATTTTAGTCCAACCCT
66 TCTCCACTATCAGAATTTTAATCCAACCCT
** * *
11998739 AAATTTTCTCCGAAAATCACTCCAACACTCTTCCATCCAAATCTCCTTAATTATCTCCATCAACC
1 AAATTTTCTCCGAAAATCACTCCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
*
11998804 TCTCCACTATCATAATTTTAATCCAAC
66 TCTCCACTATCAGAATTTTAATCCAAC
11998831 ACAAACTCAC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.32, C:0.35, G:0.02, T:0.32
Consensus pattern (95 bp):
AAATTTTCTCCGAAAATCACTCCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
TCTCCACTATCAGAATTTTAATCCAACCCT
Found at i:12003896 original size:20 final size:20
Alignment explanation
Indices: 12003871--12003908 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12003861 CACATGGTAG
*
12003871 TGTGTTTGAAAACCGTAGGT
1 TGTGTTGGAAAACCGTAGGT
*
12003891 TGTGTTGGAAAACTGTAG
1 TGTGTTGGAAAACCGTAG
12003909 CCCTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.34
Consensus pattern (20 bp):
TGTGTTGGAAAACCGTAGGT
Found at i:12005908 original size:48 final size:48
Alignment explanation
Indices: 12005851--12006003 Score: 113
Period size: 48 Copynumber: 3.2 Consensus size: 48
12005841 AAATCTCTTT
12005851 AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
1 AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
* * * *** * *
12005899 AATTTTCTCCTAA-AATCACTCCAAC-ACTCC----CCCA-TCCAAATCTCTTT
1 AATTATCTCC-AACAACCTCTCC-ACTA-TCCGAATTTTAGTCC-AA-C-CCTA
*
12005946 AATTATCTCCAACAACCTCTCCACTATTCGAATTTTAGTCCAACCCTA
1 AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
*
12005994 AATTTTCTCC
1 AATTATCTCC
12006004 TAAAATCACT
Statistics
Matches: 74, Mismatches: 18, Indels: 26
0.63 0.15 0.22
Matches are distributed among these distances:
44 3 0.04
45 3 0.04
46 7 0.09
47 19 0.26
48 28 0.38
49 8 0.11
50 3 0.04
51 3 0.04
ACGTcount: A:0.30, C:0.35, G:0.03, T:0.32
Consensus pattern (48 bp):
AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
Found at i:12005966 original size:95 final size:95
Alignment explanation
Indices: 12005803--12006084 Score: 519
Period size: 95 Copynumber: 3.0 Consensus size: 95
12005793 CCACAATCCC
12005803 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
1 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
12005868 TCTCCACTATCCGAATTTTAGTCCAACCCT
66 TCTCCACTATCCGAATTTTAGTCCAACCCT
12005898 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
1 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
*
12005963 TCTCCACTATTCGAATTTTAGTCCAACCCT
66 TCTCCACTATCCGAATTTTAGTCCAACCCT
* * *
12005993 AAATTTTCTCCTAAAATCACTCCAAAACTCCCCCATCCAAATCTCCTTAATTATCTCCATCAACC
1 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
*
12006058 TCTCCACTATCAGAATTTTAGTCCAAC
66 TCTCCACTATCCGAATTTTAGTCCAAC
12006085 ACAAACTCAC
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 181 1.00
ACGTcount: A:0.31, C:0.36, G:0.02, T:0.31
Consensus pattern (95 bp):
AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
TCTCCACTATCCGAATTTTAGTCCAACCCT
Found at i:12019829 original size:19 final size:18
Alignment explanation
Indices: 12019799--12019835 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
12019789 CTCCAATTAT
*
12019799 AATAAACATAATATAATA
1 AATAAACATAATAAAATA
12019817 AATAAATCATAATAAAATA
1 AATAAA-CATAATAAAATA
12019836 TATTTGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AATAAACATAATAAAATA
Found at i:12025860 original size:23 final size:23
Alignment explanation
Indices: 12025832--12025875 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
12025822 AGTAAATAAT
*
12025832 AAATATTTAAAATGAATAATGCG
1 AAATATTCAAAATGAATAATGCG
*
12025855 AAATATTCAAAATTAATAATG
1 AAATATTCAAAATGAATAATG
12025876 TACAATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (23 bp):
AAATATTCAAAATGAATAATGCG
Found at i:12026051 original size:26 final size:26
Alignment explanation
Indices: 12026022--12026071 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
12026012 AAATAACATA
* *
12026022 GAAAGCAATTTAAA-TAGGTAATATAT
1 GAAA-CAAGTTAAAGTAGCTAATATAT
12026048 GAAACAAGTTAAAGTAGCTAATAT
1 GAAACAAGTTAAAGTAGCTAATAT
12026072 CAAATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (26 bp):
GAAACAAGTTAAAGTAGCTAATATAT
Found at i:12027954 original size:44 final size:44
Alignment explanation
Indices: 12027906--12028006 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
12027896 TCAGTCTATT
* **
12027906 CCACTGTAACTTCAAGGAAATAAGACT-TGTATCTTCAACCTGCC
1 CCACTGCAACTTCAAGGAAATAAGACTCTCAAT-TTCAACCTGCC
* **
12027950 CCACTGCAACTTCAGGGGGATAAGACTCTCAATTTCAACCTGCC
1 CCACTGCAACTTCAAGGAAATAAGACTCTCAATTTCAACCTGCC
*
12027994 CCACTACAACTTC
1 CCACTGCAACTTC
12028007 GGGGAGATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 46 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.25
Consensus pattern (44 bp):
CCACTGCAACTTCAAGGAAATAAGACTCTCAATTTCAACCTGCC
Done.