Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 66 of 318
Found at i:19200555 original size:40 final size:40
Alignment explanation
Indices: 19200496--19200699 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
19200486 TGAATGATAC
* * * * *
19200496 CCGGGCTAAGCCCCAAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
19200536 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
19200576 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
19200616 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
19200656 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
19200696 CCGG
1 CCGG
19200700 CTAAATTCCG
Statistics
Matches: 148, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 146 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:19203745 original size:42 final size:43
Alignment explanation
Indices: 19203686--19203782 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
19203676 AAAGGTTACG
*
19203686 TGTAAGACCATATCTAGGATA-TGGCATCGATATGAGATGTC-A
1 TGTAAGACCATAACTAGGATATTGGCATCGATATGAGAT-TCTA
* * *
19203728 TGTAAGACCATAACTAGGCTATTGGTATTGATATGAGATTCTA
1 TGTAAGACCATAACTAGGATATTGGCATCGATATGAGATTCTA
19203771 TGTAAGACCATA
1 TGTAAGACCATA
19203783 TATGGGATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 21 0.43
43 28 0.57
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATAACTAGGATATTGGCATCGATATGAGATTCTA
Found at i:19207531 original size:45 final size:46
Alignment explanation
Indices: 19207458--19207585 Score: 222
Period size: 45 Copynumber: 2.8 Consensus size: 46
19207448 TATTTGGGCA
*
19207458 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
19207504 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
19207549 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19207586 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 42 0.54
46 36 0.46
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:19210574 original size:15 final size:15
Alignment explanation
Indices: 19210535--19210614 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
19210525 GTATCTTGGG
*
19210535 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
19210550 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
19210565 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
19210580 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
19210595 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
19210609 TTTCTT
1 TTTCTT
19210615 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:19210604 original size:30 final size:30
Alignment explanation
Indices: 19210526--19210613 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
19210516 CATAGTATCG
* * *
19210526 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
19210556 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
19210586 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
19210614 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:19213046 original size:46 final size:46
Alignment explanation
Indices: 19212996--19213171 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
19212986 TATTTGGGCA
19212996 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
19213042 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
19213089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
19213135 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19213172 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:19213151 original size:93 final size:93
Alignment explanation
Indices: 19212992--19213163 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19212982 TGGATATTTG
* *
19212992 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19213057 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19213085 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19213150 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19213164 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19216144 original size:15 final size:15
Alignment explanation
Indices: 19216105--19216183 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
19216095 GTATCTTGGG
*
19216105 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
19216120 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
19216135 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
19216149 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
19216164 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
19216178 TTTCTT
1 TTTCTT
19216184 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:19216168 original size:29 final size:29
Alignment explanation
Indices: 19216096--19216182 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
19216086 CATAGTATCG
* * * *
19216096 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
19216126 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
19216155 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
19216183 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:19221986 original size:20 final size:21
Alignment explanation
Indices: 19221940--19221992 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
19221930 TACTAATTAC
19221940 AAATATTTAATAATTATATTT
1 AAATATTTAATAATTATATTT
19221961 AAATATTTAA-AA-TATAGTTT
1 AAATATTTAATAATTATA-TTT
*
19221981 ATATATTCTAAT
1 AAATATT-TAAT
19221993 TAAATTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATTTAATAATTATATTT
Found at i:19225731 original size:21 final size:22
Alignment explanation
Indices: 19225691--19225731 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19225681 GTAGGAGACG
* *
19225691 ACAATTTTTGTAATTTTTTAAA
1 ACAATTTATGTAATTATTTAAA
19225713 ACAATTTATG-AATTATTTA
1 ACAATTTATGTAATTATTTA
19225732 TTAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (22 bp):
ACAATTTATGTAATTATTTAAA
Found at i:19226804 original size:16 final size:17
Alignment explanation
Indices: 19226765--19226815 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
19226755 AGCTTAATAT
19226765 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
19226783 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
19226799 TATTTAAAATTAATAAA
1 TATTTATTATTAATAAA
19226816 ATACTATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 12 0.46
17 11 0.42
18 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:19235136 original size:22 final size:22
Alignment explanation
Indices: 19235099--19235155 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
19235089 AAAGAAAAAC
19235099 AAAATAATAAAT-AAT-ATATGAT
1 AAAAT-ATAAATAAATAATA-GAT
19235121 AAAATATAAATAAATAATAGAT
1 AAAATATAAATAAATAATAGAT
*
19235143 AATATATATAATA
1 AAAATATA-AATA
19235156 GACAACATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 6 0.19
22 18 0.58
23 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAATATAAATAAATAATAGAT
Found at i:19236593 original size:17 final size:17
Alignment explanation
Indices: 19236571--19236603 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19236561 TAAATGGACT
*
19236571 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
19236588 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
19236604 TAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:19236920 original size:79 final size:80
Alignment explanation
Indices: 19236750--19236932 Score: 248
Period size: 80 Copynumber: 2.3 Consensus size: 80
19236740 CTCCCCGTTG
** *
19236750 AATATAGAGGCGCCCAAATCATCTTAAATCAGCCTTGATGAAAGTCAGATCTACTAATGTCTTCG
1 AATATAGAGATGCCCAAATCATCTTAAATCAGCCTCGATGAAAGTCAGATCTACTAATGTCTTCG
*
19236815 ATTTGCTCTCCGTCC
66 ATTTGCTCTCCGTCA
* ** *
19236830 ATTATAGAGATGCCCAAATCATCTTGGATCTGCCTCGAT-AAAGGTCAGATCTACT-ATGTCTTC
1 AATATAGAGATGCCCAAATCATCTTAAATCAGCCTCGATGAAA-GTCAGATCTACTAATGTCTTC
19236893 GATTTGCTC-CCTGTCA
65 GATTTGCTCTCC-GTCA
19236909 AATATAGAGATG-CCAAATCATCTT
1 AATATAGAGATGCCCAAATCATCTT
19236933 CTTGGTTTTG
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 14 0.15
79 34 0.37
80 44 0.48
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (80 bp):
AATATAGAGATGCCCAAATCATCTTAAATCAGCCTCGATGAAAGTCAGATCTACTAATGTCTTCG
ATTTGCTCTCCGTCA
Found at i:19237055 original size:44 final size:43
Alignment explanation
Indices: 19236916--19237185 Score: 233
Period size: 44 Copynumber: 6.3 Consensus size: 43
19236906 TCAAATATAG
* * * * * *
19236916 AGATGCCAAATCATCTTCTTGGTTTTGCTCCCCGTCAAATACGG
1 AGATGCCAAATC-TCATCTTGGATCTACTCCCCGTCGAATACGA
* * ** *
19236960 AGATGCCAAATCTGTCACCTTGAATCCGCTCCCCGTCGAATACGG
1 AGATGCCAAATC--TCATCTTGGATCTACTCCCCGTCGAATACGA
* * * * *
19237005 GGATGCCAAATCTGCTTCTTGTATTTACTCCTCGTCGAATACGA
1 AGATGCCAAATCT-CATCTTGGATCTACTCCCCGTCGAATACGA
* * * *
19237049 AAATGCCAAA--TCATATTGGATCTACTCCCTGTTGAATACGA
1 AGATGCCAAATCTCATCTTGGATCTACTCCCCGTCGAATACGA
* * * * *
19237090 AGATGCCAAATCTACTTCTTGGATTTGCTCCTCGTCAAATACGA
1 AGATGCCAAATCT-CATCTTGGATCTACTCCCCGTCGAATACGA
*
19237134 AGATGCCAAA--TCATCTTGGATCTACTCCCCGTCGAATACGG
1 AGATGCCAAATCTCATCTTGGATCTACTCCCCGTCGAATACGA
19237175 AGATGCCAAAT
1 AGATGCCAAAT
19237186 TTATTATCTT
Statistics
Matches: 179, Mismatches: 41, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
41 66 0.37
42 2 0.01
43 2 0.01
44 74 0.41
45 35 0.20
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (43 bp):
AGATGCCAAATCTCATCTTGGATCTACTCCCCGTCGAATACGA
Found at i:19237087 original size:41 final size:41
Alignment explanation
Indices: 19236988--19237185 Score: 184
Period size: 41 Copynumber: 4.7 Consensus size: 41
19236978 CTTGAATCCG
* ** * * *
19236988 CTCCCCGTCGAATACGGGGATGCCAAATCTGCTTCTTGTATTTA
1 CTCCCTGTCGAATACGAAGATGCCAAA--T-CATCTTGGATCTA
* *
19237032 CT-CCTCGTCGAATACGAAAATGCCAAATCATATTGGATCTA
1 CTCCCT-GTCGAATACGAAGATGCCAAATCATCTTGGATCTA
* * *
19237073 CTCCCTGTTGAATACGAAGATGCCAAATCTACTTCTTGGATTTG
1 CTCCCTGTCGAATACGAAGATGCCAAATC-A--TCTTGGATCTA
*
19237117 CT-CCTCGTCAAATACGAAGATGCCAAATCATCTTGGATCTA
1 CTCCCT-GTCGAATACGAAGATGCCAAATCATCTTGGATCTA
* *
19237158 CTCCCCGTCGAATACGGAGATGCCAAAT
1 CTCCCTGTCGAATACGAAGATGCCAAAT
19237186 TTATTATCTT
Statistics
Matches: 127, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
41 63 0.50
42 7 0.06
43 6 0.05
44 51 0.40
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (41 bp):
CTCCCTGTCGAATACGAAGATGCCAAATCATCTTGGATCTA
Found at i:19237108 original size:85 final size:85
Alignment explanation
Indices: 19236915--19237185 Score: 319
Period size: 85 Copynumber: 3.1 Consensus size: 85
19236905 GTCAAATATA
* * * * * *
19236915 GAGATGCCAAATC-ATCTTCTTGGTTTTGCTCCCCGTCAAATACGGAGATGCCAAATCTGTCACC
1 GAGATGCCAAATCTA-CTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAATC-AT-A--
* **
19236979 TTGAATCCGCTCCCCGTCGAATACG
61 TTGGATCTACTCCCCGTCGAATACG
* * * *
19237004 GGGATGCCAAATCTGCTTCTTGTATTTACTCCTCGTCGAATACGAAAATGCCAAATCATATTGGA
1 GAGATGCCAAATCTACTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAATCATATTGGA
* *
19237069 TCTACTCCCTGTTGAATACG
66 TCTACTCCCCGTCGAATACG
* * * *
19237089 AAGATGCCAAATCTACTTCTTGGATTTGCTCCTCGTCAAATACGAAGATGCCAAATCATCTTGGA
1 GAGATGCCAAATCTACTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAATCATATTGGA
19237154 TCTACTCCCCGTCGAATACG
66 TCTACTCCCCGTCGAATACG
19237174 GAGATGCCAAAT
1 GAGATGCCAAAT
19237186 TTATTATCTT
Statistics
Matches: 155, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
85 106 0.68
87 1 0.01
88 1 0.01
89 47 0.30
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (85 bp):
GAGATGCCAAATCTACTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAATCATATTGGA
TCTACTCCCCGTCGAATACG
Found at i:19237216 original size:85 final size:85
Alignment explanation
Indices: 19237042--19237508 Score: 324
Period size: 88 Copynumber: 5.4 Consensus size: 85
19237032 CTCCTCGTCG
* * * * *
19237042 AATACGAAAATGCCAAATCATATTGGATCTACTCCCTGTTGAATACGAAGATGCCAAATCTACT-
1 AATACGAAGATGCCAAATCATCTTGGATCTACTCCCTGTCGAATACGGAGATGCCAAATTTACTA
* * *
19237106 TCTTGGATTTGCTCCTCGTCA-
66 TCTTCGATCTGCT-CTC-TAAC
* *
19237127 AATACGAAGATGCCAAATCATCTTGGATCTACTCCCCGTCGAATACGGAGATGCCAAATTTATTA
1 AATACGAAGATGCCAAATCATCTTGGATCTACTCCCTGTCGAATACGGAGATGCCAAATTTACTA
19237192 TCTTCGATCTGCTCTCTAAC
66 TCTTCGATCTGCTCTCTAAC
* * * * * *
19237212 AATACGGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAAATTT
1 AATACGAAGATGCCAAA--T-C-ATCTTGGATCTACTCCCTGTCGAATACGGAGATGCCAAATTT
* *
19237276 GCTATCTTCGATCTGTTCTCTAAC
62 ACTATCTTCGATCTGCTCTCTAAC
* * * * ** ** *
19237300 AATAC-AGAGATGCCAAATCTGCTATCTTCGAT-TCGCTCTCTGAC-AATATAGAGACACGAAAT
1 AATACGA-AGATGCCAAA--T-C-ATCTTGGATCT-ACTCCCTGTCGAATACGGAGATGCCAAAT
* * *
19237362 CTGCTATCTTCGATCTGCTCTCTGAC
60 TTACTATCTTCGATCTGCTCTCTAAC
* * * * * ** *
19237388 AATACAAAGATGCCAAATCTGCTATCTTCGATCTGCTCACTGAC-AATACAAAGATGCCAAATCT
1 AATACGAAGATGCCAAA--T-C-ATCTTGGATCTACTCCCTGTCGAATACGGAGATGCCAAATTT
* *
19237452 GCTATCTTCGATCTGCTACT-TGTA-
62 ACTATCTTCGATCTGCT-CTCT-AAC
*
19237476 AATGC-AAGGATGCCAAATCATCTTGGATCTACT
1 AATACGAA-GATGCCAAATCATCTTGGATCTACT
19237509 TCAATGCAAA
Statistics
Matches: 331, Mismatches: 38, Indels: 27
0.84 0.10 0.07
Matches are distributed among these distances:
84 14 0.04
85 77 0.23
86 12 0.04
87 4 0.01
88 203 0.61
89 21 0.06
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (85 bp):
AATACGAAGATGCCAAATCATCTTGGATCTACTCCCTGTCGAATACGGAGATGCCAAATTTACTA
TCTTCGATCTGCTCTCTAAC
Found at i:19237222 original size:44 final size:44
Alignment explanation
Indices: 19237168--19237468 Score: 442
Period size: 44 Copynumber: 6.8 Consensus size: 44
19237158 CTCCCCGTCG
* * ** *
19237168 AATACGGAGATGCCAAATTTATTATCTTCGATCTGCTCTCTAAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
*
19237212 AATACGGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
19237256 AATACAGAGATGCCAAATTTGCTATCTTCGATCTGTTCTCTAAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
19237300 AATACAGAGATGCCAAATCTGCTATCTTCGAT-TCGCTCTCTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCT-GCTCTCTGAC
* ** *
19237344 AATATAGAGACACGAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
19237388 AATACAAAGATGCCAAATCTGCTATCTTCGATCTGCTCACTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
*
19237432 AATACAAAGATGCCAAATCTGCTATCTTCGATCTGCT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCT
19237469 ACTTGTAAAT
Statistics
Matches: 234, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
43 1 0.00
44 232 0.99
45 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
Found at i:19239938 original size:71 final size:71
Alignment explanation
Indices: 19239854--19240017 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19239844 CGATTTGTCT
19239854 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19239919 CTTTCA
66 CTTTCA
19239925 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19239990 CTTTCA
66 CTTTCA
19239996 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19240018 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19240055 original size:71 final size:70
Alignment explanation
Indices: 19239854--19240051 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
19239844 CGATTTGTCT
* * * *
19239854 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
19239919 CTTTCA
65 CTTTCA
* * * *
19239925 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
19239990 CTTTCA
65 CTTTCA
* *
19239996 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
19240052 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:19247512 original size:71 final size:71
Alignment explanation
Indices: 19247428--19247591 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19247418 CGATTTGTCT
19247428 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19247493 CTTTCA
66 CTTTCA
19247499 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19247564 CTTTCA
66 CTTTCA
19247570 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19247592 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19247629 original size:71 final size:70
Alignment explanation
Indices: 19247428--19247625 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
19247418 CGATTTGTCT
* * * *
19247428 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
19247493 CTTTCA
65 CTTTCA
* * * *
19247499 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
19247564 CTTTCA
65 CTTTCA
* *
19247570 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
19247626 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:19252437 original size:20 final size:20
Alignment explanation
Indices: 19252412--19252453 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
19252402 TGAATTAAAG
19252412 AATAAGAATTGCAAAAGTTT
1 AATAAGAATTGCAAAAGTTT
*
19252432 AATAAGAATTGCAAAATTTT
1 AATAAGAATTGCAAAAGTTT
19252452 AA
1 AA
19252454 CGGAATATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (20 bp):
AATAAGAATTGCAAAAGTTT
Found at i:19257086 original size:20 final size:20
Alignment explanation
Indices: 19257063--19257100 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19257053 GAAAATAAAG
19257063 AAATGAAAAAAAAAAAAGGA
1 AAATGAAAAAAAAAAAAGGA
**
19257083 AAATGATGAAAAAAAAAG
1 AAATGAAAAAAAAAAAAG
19257101 AGTGTGGATG
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (20 bp):
AAATGAAAAAAAAAAAAGGA
Found at i:19258430 original size:30 final size:28
Alignment explanation
Indices: 19258390--19258490 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
19258380 GACAAGATTG
* * *
19258390 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
19258420 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
19258448 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
19258477 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19258491 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:19258454 original size:28 final size:29
Alignment explanation
Indices: 19258419--19258490 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
19258409 AAAATTGTAC
*
19258419 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
19258447 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
19258476 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19258491 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:19266420 original size:30 final size:28
Alignment explanation
Indices: 19266380--19266480 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
19266370 GACAAGATTG
* * *
19266380 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
19266410 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
19266438 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
19266467 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19266481 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:19266444 original size:28 final size:29
Alignment explanation
Indices: 19266409--19266480 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
19266399 AAAATTGTAC
*
19266409 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
19266437 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
19266466 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19266481 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:19271089 original size:20 final size:22
Alignment explanation
Indices: 19271046--19271094 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
19271036 AAACAACATA
19271046 ATAAAT-AATATATGAGAAAAT
1 ATAAATAAATATATGAGAAAAT
*
19271067 ATAAATAAATA-AT-AGATAAT
1 ATAAATAAATATATGAGAAAAT
*
19271087 ATATATAA
1 ATAAATAA
19271095 TAGACAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 13 0.52
21 8 0.32
22 4 0.16
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
ATAAATAAATATATGAGAAAAT
Found at i:19271222 original size:25 final size:27
Alignment explanation
Indices: 19271176--19271240 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
19271166 ATGTATATAG
* *
19271176 TAAAATAAAT-ATTATATAAAAT-ATT
1 TAAAATAAATAAATAAATAAAATAATT
19271201 TAAAATAAATAAATAAAT-AAATAATT
1 TAAAATAAATAAATAAATAAAATAATT
*
19271227 TAGAAATATATAAA
1 TA-AAATAAATAAA
19271241 AAGGATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.41
26 10 0.29
27 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
TAAAATAAATAAATAAATAAAATAATT
Found at i:19272537 original size:17 final size:17
Alignment explanation
Indices: 19272515--19272547 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19272505 TAAATGGACT
*
19272515 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
19272532 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
19272548 TAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:19275081 original size:19 final size:17
Alignment explanation
Indices: 19275057--19275091 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
19275047 TTTTTTAAAA
19275057 TAATTTATGAATTATTTAT
1 TAATTTAT--ATTATTTAT
19275076 TAATTTATATTATTTA
1 TAATTTATATTATTTA
19275092 AATTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TAATTTATATTATTTAT
Found at i:19275096 original size:19 final size:20
Alignment explanation
Indices: 19275044--19275096 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
19275034 ACAATTCGTG
* *
19275044 TAATTTTTTAAAATAATTTA
1 TAATTATTTAAATTAATTTA
19275064 TGAATTATTT--ATTAATTTA
1 T-AATTATTTAAATTAATTTA
19275083 T-ATTATTTAAATTA
1 TAATTATTTAAATTA
19275097 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 7 0.25
19 13 0.46
20 1 0.04
21 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TAATTATTTAAATTAATTTA
Found at i:19277220 original size:29 final size:30
Alignment explanation
Indices: 19277167--19277224 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
19277157 TTTTAATCCT
* *
19277167 TTTTAAATTTTTTTATATATAATTTATTTA
1 TTTTAAATTATTTTAAATATAATTTATTTA
*
19277197 TTTTAAA-TATTTTAAATATTATTTATTT
1 TTTTAAATTATTTTAAATATAATTTATTT
19277225 TTACTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTAAATTATTTTAAATATAATTTATTTA
Found at i:19277273 original size:3 final size:3
Alignment explanation
Indices: 19277256--19277347 Score: 79
Period size: 3 Copynumber: 30.7 Consensus size: 3
19277246 TATGTAAAAA
19277256 ATT ATT A-T ATAT ATT ATT -TT ATT A-T ATAT ATT ATT CATT A-T ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT -ATT ATT ATT
*
19277300 ATT TTT ATT -TT ATT ATAT ATT A-T ATT ATT ATTT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT A-TT ATT ATT
19277346 AT
1 AT
19277348 GTATAATTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 24
0.74 0.02 0.24
Matches are distributed among these distances:
2 12 0.16
3 45 0.60
4 18 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:19277279 original size:17 final size:17
Alignment explanation
Indices: 19277257--19277358 Score: 90
Period size: 17 Copynumber: 6.2 Consensus size: 17
19277247 ATGTAAAAAA
19277257 TTATTATATATATTATT
1 TTATTATATATATTATT
19277274 TTATTATATATATTA-T
1 TTATTATATATATTATT
*
19277290 TCATTATAT-TATT-TT
1 TTATTATATATATTATT
* *
19277305 TATTTTATTATATATTATA
1 T-TATTA-TATATATTATT
19277324 TTATTAT-T-TATTA-T
1 TTATTATATATATTATT
* *
19277338 TTATTATTATGTATAATT
1 TTATTA-TATATATTATT
19277356 TTA
1 TTA
19277359 AAAATTTGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.09
15 12 0.17
16 14 0.20
17 23 0.33
18 12 0.17
19 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (17 bp):
TTATTATATATATTATT
Found at i:19277288 original size:29 final size:28
Alignment explanation
Indices: 19277256--19277352 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 28
19277246 TATGTAAAAA
19277256 ATTATTATATATATTATTTTATTATATAT
1 ATTATTATATATATTATTTTATTATAT-T
*
19277285 ATTATTCAT-TATATTATTTTTATTTTATT
1 ATTATT-ATATATATTA-TTTTATTATATT
19277314 ATATATTATAT-TATTA-TTTATTAT-TT
1 AT-TATTATATATATTATTTTATTATATT
*
19277340 ATTATTATGTATA
1 ATTATTATATATA
19277353 ATTTTAAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
25 7 0.12
26 6 0.10
27 7 0.12
29 23 0.38
30 17 0.28
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTATTATATATATTATTTTATTATATT
Found at i:19277322 original size:7 final size:7
Alignment explanation
Indices: 19277263--19277344 Score: 54
Period size: 7 Copynumber: 12.4 Consensus size: 7
19277253 AAAATTATTA
19277263 TATATAT
1 TATATAT
19277270 TAT-T-T
1 TATATAT
19277275 TAT-TA-
1 TATATAT
19277280 TATATAT
1 TATATAT
19277287 TAT-TCAT
1 TATAT-AT
19277294 TATATTAT
1 TATA-TAT
*
19277302 T-TTTAT
1 TATATAT
19277308 T-T-TAT
1 TATATAT
19277313 TATATAT
1 TATATAT
19277320 TATATTAT
1 TATA-TAT
*
19277328 TATTTAT
1 TATATAT
*
19277335 TATTTAT
1 TATATAT
19277342 TAT
1 TAT
19277345 TATGTATAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
5 12 0.19
6 10 0.16
7 32 0.50
8 9 0.14
9 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (7 bp):
TATATAT
Found at i:19277414 original size:22 final size:22
Alignment explanation
Indices: 19277356--19277418 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
19277346 ATGTATAATT
* *
19277356 TTAAAAATTT-GTAAATTATTA
1 TTAAATATTTAGTATATTATTA
* *
19277377 TTAAATA-GTACATATATTATTA
1 TTAAATATTTA-GTATATTATTA
19277399 TTAAATATTTAGTATATTAT
1 TTAAATATTTAGTATATTAT
19277419 GTAATATTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 1 0.03
21 6 0.18
22 24 0.73
23 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (22 bp):
TTAAATATTTAGTATATTATTA
Found at i:19277700 original size:19 final size:19
Alignment explanation
Indices: 19277663--19277701 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19277653 TAATTTGTTG
*
19277663 ATTTATTTTCGTATTTTTT
1 ATTTATTTTAGTATTTTTT
19277682 ATTTA-TTTAGTATTGTTTT
1 ATTTATTTTAGTATT-TTTT
19277701 A
1 A
19277702 GTATGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (19 bp):
ATTTATTTTAGTATTTTTT
Found at i:19278120 original size:43 final size:43
Alignment explanation
Indices: 19278047--19278356 Score: 451
Period size: 43 Copynumber: 7.2 Consensus size: 43
19278037 AAAAAATGCA
* * *
19278047 GCTAAAGGTCATGACCTTTAGCAGCGCTTTTCCCACAAACGCC
1 GCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
19278090 GCTAGAGGTCAAGACCTTTAGCGGCACTTTTCCCACAAACGCA
1 GCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
*
19278133 GCTAGAGGTCAAGACCTTTAGCGGCGCTTTCCCCACAAACGCC
1 GCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * *
19278176 GCTAGAGGTCAAGACCTTTAGTGGCGCTTTCCCCACAAACGCT
1 GCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
19278219 GCTAGAGGTCAAGACCTTTAGC-GCTACTTTCCCCACAAACGCC
1 GCTAGAGGTCAAGACCTTTAGCGGC-GCTTTTCCCACAAACGCC
**
19278262 GCTAGAGGTCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
** *
19278305 GCTAGAGGTCTTGACCTTTAGCGACGCTTTTCCCACAAACGCC
1 GCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
*
19278348 GCTAAAGGT
1 GCTAGAGGT
19278357 AATGAAATTT
Statistics
Matches: 246, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
42 2 0.01
43 242 0.98
44 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.23
Consensus pattern (43 bp):
GCTAGAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:19279552 original size:138 final size:138
Alignment explanation
Indices: 19279397--19279668 Score: 474
Period size: 138 Copynumber: 2.0 Consensus size: 138
19279387 TTTTAAAATT
19279397 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * *
19279462 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTA-AAAGC
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCC-ACAAAGC
19279526 ATCCAGACG
130 ATCCAGACG
*
19279535 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* *
19279600 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACAGGGACTCCACAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
19279665 TCCA
131 TCCA
19279669 TACATTATTA
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
137 1 0.01
138 126 0.99
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
TCCAGACG
Found at i:19281320 original size:14 final size:14
Alignment explanation
Indices: 19281301--19281342 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
19281291 TAAATATTAA
19281301 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
19281316 ATTTTTTATTTTTT
1 ATTTTTAATTTTTT
19281330 ATTTTTTAATTTT
1 A-TTTTTAATTTT
19281343 AAAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:19281327 original size:6 final size:7
Alignment explanation
Indices: 19281310--19281342 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
19281300 AATTTTTAAG
19281310 TTTTTTA
1 TTTTTTA
19281317 TTTTTTA
1 TTTTTTA
19281324 TTTTTTA
1 TTTTTTA
19281331 TTTTTTAA
1 TTTTTT-A
19281339 TTTT
1 TTTT
19281343 AAAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:19281969 original size:15 final size:15
Alignment explanation
Indices: 19281936--19281978 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
19281926 TTATCTCTTA
*
19281936 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
19281949 CATAATCCCTAAACC
1 CATAATCCATAAACC
19281964 CATAATCCATAAACC
1 CATAATCCATAAACC
19281979 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:19281983 original size:22 final size:22
Alignment explanation
Indices: 19281941--19282027 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
19281931 TCTTACATAA
*
19281941 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
19281963 CCAT-AATCCATAAACCTTAAAA
1 CCATAAAT-CATAAACCCTAAAC
** * * **
19281985 TAATAACTCATACACTTTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
19282007 CC-TAAACCCTAAACCCTAAAC
1 CCATAAATCATAAACCCTAAAC
19282028 TATAATGATA
Statistics
Matches: 46, Mismatches: 17, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:19282014 original size:7 final size:7
Alignment explanation
Indices: 19282002--19282027 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19281992 TCATACACTT
19282002 TAAACCC
1 TAAACCC
19282009 TAAACCC
1 TAAACCC
19282016 TAAACCC
1 TAAACCC
19282023 TAAAC
1 TAAAC
19282028 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:19282148 original size:15 final size:15
Alignment explanation
Indices: 19282124--19282165 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
19282114 CACTAACTAA
19282124 TCTAAACCCTAAACT
1 TCTAAACCCTAAACT
* *
19282139 TCTAATCCCTAAACC
1 TCTAAACCCTAAACT
*
19282154 T-TAAACCTTAAA
1 TCTAAACCCTAAA
19282166 ACATAAGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (15 bp):
TCTAAACCCTAAACT
Found at i:19282220 original size:13 final size:13
Alignment explanation
Indices: 19282185--19282227 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
19282175 CTGAACCATG
*
19282185 AACCCCTCACCCTT
1 AACCCCTAACCC-T
19282199 AACCCCTAACCCT
1 AACCCCTAACCCT
*
19282212 AACCTCTAACACCT
1 AACCCCTAAC-CCT
19282226 AA
1 AA
19282228 ATCTTAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.19
Consensus pattern (13 bp):
AACCCCTAACCCT
Found at i:19282816 original size:41 final size:40
Alignment explanation
Indices: 19282744--19282921 Score: 259
Period size: 41 Copynumber: 4.4 Consensus size: 40
19282734 ATTATATGAC
*
19282744 TTTTAGCGGCGTTTTATCGAAAA-CGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCT-GT
*
19282785 TTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
19282826 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
19282866 TTTTAGCGGCGTTTTAACATAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGT
*
19282907 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
19282922 TGGTAAAACG
Statistics
Matches: 128, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 25 0.20
41 103 0.80
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:19282903 original size:82 final size:81
Alignment explanation
Indices: 19282744--19282952 Score: 262
Period size: 82 Copynumber: 2.6 Consensus size: 81
19282734 ATTATATGAC
* * *
19282744 TTTTAGCGGCGTTTTATCGAAAACGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTATCCAAAACGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAACAAAAAC
*
19282809 GCTGCTAATGCTCTGGT
66 GCCGCTAATGCTCT-GT
19282826 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTAACATAAA
1 TTTTAGCGGCGTTTTATCCAAAA-CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAACA-AAA
*
19282889 ACGCCGCTATTGCTCTGT
64 ACGCCGCTAATGCTCTGT
* ** * * *
19282907 TTTTAGCGGCATTTT-TGGTAAAACGCCGCTATTGCTCCGTTTTTTA
1 TTTTAGCGGCGTTTTAT-CCAAAACGCCGCTAATGCTCTGGTTTTTA
19282953 TAATTTTTGT
Statistics
Matches: 111, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
81 54 0.49
82 57 0.51
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTATCCAAAACGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAACAAAAAC
GCCGCTAATGCTCTGT
Found at i:19282934 original size:81 final size:79
Alignment explanation
Indices: 19282744--19282950 Score: 245
Period size: 81 Copynumber: 2.5 Consensus size: 79
19282734 ATTATATGAC
* * *
19282744 TTTTAGCGGCGTTTTATCGAAAACGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGC-TTTT-TAGAAAACGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTAACAAAAAC
*
19282809 GCTGCTAATGCTCTGGT
63 GCCGCTAATGCTCTGGT
* *
19282826 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTAACATAAAAC
1 TTTTAGCGGCTTTTTA-GAAAA-CGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTAACA-AAAAC
*
19282891 GCCGCTATTGCTCT-GT
63 GCCGCTAATGCTCTGGT
* * *
19282907 TTTTAGCGGCATTTTTGGTAAAACGCCGCTATTGCTCCGTTTTT
1 TTTTAGCGGC-TTTTTAG-AAAACGCCGCTAATGCTCTGTTTTT
19282951 TATAATTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
80 1 0.01
81 58 0.54
82 49 0.45
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (79 bp):
TTTTAGCGGCTTTTTAGAAAACGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTAACAAAAACGCC
GCTAATGCTCTGGT
Found at i:19282952 original size:41 final size:39
Alignment explanation
Indices: 19282744--19282950 Score: 225
Period size: 41 Copynumber: 5.1 Consensus size: 39
19282734 ATTATATGAC
* *
19282744 TTTTAGCGGCGTTTTATCGAAAACGCCGCTAATGCTCTGGT
1 TTTTAGCGGCTTTTTA-CCAAAACGCCGCTAATGCTCT-GT
* *
19282785 TTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCTTTTTACCAAAA-CGCCGCTAATGCTCT-GT
*
19282826 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCTTTTTACCAAAA-CGCCGCTAATGCTCTGT
* * *
19282866 TTTTAGCGGCGTTTTAACATAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGC-TTTTTAC-CAAAACGCCGCTAATGCTCTGT
*** * *
19282907 TTTTAGCGGCATTTTTGGTAAAACGCCGCTATTGCTCCGT
1 TTTTAGCGGC-TTTTTACCAAAACGCCGCTAATGCTCTGT
19282947 TTTT
1 TTTT
19282951 TATAATTTTT
Statistics
Matches: 151, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
40 42 0.28
41 105 0.70
42 4 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (39 bp):
TTTTAGCGGCTTTTTACCAAAACGCCGCTAATGCTCTGT
Found at i:19282991 original size:12 final size:12
Alignment explanation
Indices: 19282976--19283001 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19282966 GTTTTTTAAT
19282976 AAAACGCCGCTA
1 AAAACGCCGCTA
19282988 AAAACGCCGCTA
1 AAAACGCCGCTA
19283000 AA
1 AA
19283002 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:19285530 original size:40 final size:40
Alignment explanation
Indices: 19285468--19285690 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
19285458 ACCCAAGTAT
* *
19285468 CTTCGGGATTTAGCCC-GATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * * **
19285507 CTTCGGGTCTTATCCCAGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
19285547 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
19285587 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* *
19285630 CTTCGGGACTTAG-CCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
19285669 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
19285691 CATCCGAATA
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 37 0.23
40 88 0.54
41 1 0.01
42 13 0.08
43 23 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:19301017 original size:43 final size:43
Alignment explanation
Indices: 19300955--19301244 Score: 154
Period size: 45 Copynumber: 6.6 Consensus size: 43
19300945 GATCATTGAT
* * * *
19300955 AGCAGATTTGGCATCTCTGTATTGACATGGAACAAATCGAAGT
1 AGCAGATTTGGCATCTCTGTATTAACAGGGAACAAATCAAAGA
* * *
19300998 CGCAGATTTGGCATCTCTGTATTAACGGGGAATAAATCAAAGA
1 AGCAGATTTGGCATCTCTGTATTAACAGGGAACAAATCAAAGA
** *
19301041 AGCAGATTTGGTGTCTCTGTATTAA-ACGGGAAGCAGATCAAAGA
1 AGCAGATTTGGCATCTCTGTATTAACA-GGGAA-CAAATCAAAGA
* * * * * ** *
19301085 TAACAGATCTGACAT-TCGTGTGTTTACATCGAAGCAAATCGAAGA
1 -AGCAGATTTGGCATCTC-TGTATTAACAGGGAA-CAAATCAAAGA
* * ** * * *
19301130 TGATAGATTTGGCGCCTCTGTATTAGATAGGGAGCAGATCAAAGA
1 AG-CAGATTTGGCATCTCTGTATTA-ACAGGGAACAAATCAAAGA
* * * * ** *
19301175 TAGCAGATCTGACAT-TCATGTGTTTACATCGAAGCAGATCAAAGA
1 -AGCAGATTTGGCATCTC-TGTATTAACAGGGAA-CAAATCAAAGA
* *
19301220 TGACAGATTTGGCGTCTCTGTATTA
1 AG-CAGATTTGGCATCTCTGTATTA
19301245 GACGGGCAGC
Statistics
Matches: 177, Mismatches: 57, Indels: 24
0.69 0.22 0.09
Matches are distributed among these distances:
43 63 0.36
44 18 0.10
45 86 0.49
46 10 0.06
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
AGCAGATTTGGCATCTCTGTATTAACAGGGAACAAATCAAAGA
Found at i:19301084 original size:44 final size:43
Alignment explanation
Indices: 19300955--19301084 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
19300945 GATCATTGAT
* ** * *
19300955 AGCAGATTTGGCATCTCTGTATTGACATGGAACAAATCGAAGT
1 AGCAGATTTGGCATCTCTGTATTAACGGGGAACAAATCAAAGA
* *
19300998 CGCAGATTTGGCATCTCTGTATTAACGGGGAATAAATCAAAGA
1 AGCAGATTTGGCATCTCTGTATTAACGGGGAACAAATCAAAGA
** *
19301041 AGCAGATTTGGTGTCTCTGTATTAAAC-GGGAAGCAGATCAAAGA
1 AGCAGATTTGGCATCTCTGTATT-AACGGGGAA-CAAATCAAAGA
19301085 TAACAGATCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
43 61 0.84
44 12 0.16
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (43 bp):
AGCAGATTTGGCATCTCTGTATTAACGGGGAACAAATCAAAGA
Found at i:19301119 original size:45 final size:44
Alignment explanation
Indices: 19301070--19301497 Score: 204
Period size: 45 Copynumber: 9.5 Consensus size: 44
19301060 TATTAAACGG
*
19301070 GAAGCAGATCAAAGATAACAGATCTGACATTCGTGTGTTTACATC
1 GAAGCAGATCGAAGATAACAGATCTGACATTC-TGTGTTTACATC
* * * * * ** * * *
19301115 GAAGCAAATCGAAGATGATAGATTTGGCGCCTCTGT-ATTAGATAG
1 GAAGCAGATCGAAGATAACAGATCTGAC-ATTCTGTGTTTACAT-C
* * *
19301160 GGAGCAGATCAAAGATAGCAGATCTGACATTCATGTGTTTACATC
1 GAAGCAGATCGAAGATAACAGATCTGACATTC-TGTGTTTACATC
* * * * * * *
19301205 GAAGCAGATCAAAGATGACAGATTTGGCGTCTCTGT-ATTAGA-C
1 GAAGCAGATCGAAGATAACAGATCTGACAT-TCTGTGTTTACATC
* * * * *
19301248 GGGCAGCAGATCGAAGATAGCAAACCTGACATTTGTGTGTTTACATC
1 --GAAGCAGATCGAAGATAACAGATCTGACA-TTCTGTGTTTACATC
* * * * * * *
19301295 GAAGCAGATGGAAGATTACAGATTTGGCGTCTCTGT-ATTAGA-C
1 GAAGCAGATCGAAGATAACAGATCTGACAT-TCTGTGTTTACATC
* *
19301338 GGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATC
1 --GAAGCAGATCGAAGATAACAGATCTGACATTC-TGTGTTTACATC
** * * * ** *
19301385 GAAGCAGATCGAAGATGGCAGATTTGGCGTCTCTG-AATTAGA-C
1 GAAGCAGATCGAAGATAACAGATCTGACAT-TCTGTGTTTACATC
* * ** * * *
19301428 GGGGAGCAGATCGAACATAGTAGACCTAACATTTGTGTGTTTACATC
1 --GAAGCAGATCGAAGATAACAGATCTGACA-TTCTGTGTTTACATC
*
19301475 GAAGCAGATCGAAGATGACAGAT
1 GAAGCAGATCGAAGATAACAGAT
19301498 TTGGCGTCTC
Statistics
Matches: 269, Mismatches: 92, Indels: 44
0.66 0.23 0.11
Matches are distributed among these distances:
43 3 0.01
44 22 0.08
45 216 0.80
46 25 0.09
47 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (44 bp):
GAAGCAGATCGAAGATAACAGATCTGACATTCTGTGTTTACATC
Found at i:19301521 original size:90 final size:90
Alignment explanation
Indices: 19301043--19301535 Score: 725
Period size: 90 Copynumber: 5.5 Consensus size: 90
19301033 ATCAAAGAAG
* * * * *
19301043 CAGATTTGGTGTCTCTGTATTAAACGGGAAGCAGATCAAAGATAACAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
*
19301108 TTACATCGAAGCAAATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * ** * *
19301133 TAGATTTGGCGCCTCTGTATTAGATAGGGAGCAGATCAAAGATAGCAGATCTGACATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
*
19301198 TTACATCGAAGCAGATCAAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * * *
19301223 CAGATTTGGCGTCTCTGTATTAGACGGGCAGCAGATCGAAGATAGCAAACCTGACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
* *
19301288 TTACATCGAAGCAGATGGAAGATTA
66 TTACATCGAAGCAGATCGAAGATGA
19301313 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
*
19301378 TTACATCGAAGCAGATCGAAGATGG
66 TTACATCGAAGCAGATCGAAGATGA
* * * * * *
19301403 CAGATTTGGCGTCTCTGAATTAGACGGGGAGCAGATCGAACATAGTAGACCTAACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
19301468 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
19301493 CAGATTTGGCGTCTCTGTATTTGGCGGGGAGTAGATCGAAGAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGAT
19301536 TTCAGCATGG
Statistics
Matches: 360, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 360 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:19304196 original size:16 final size:17
Alignment explanation
Indices: 19304157--19304207 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
19304147 AGCTTAATAT
19304157 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
19304175 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
19304191 TATTTAAAATTAATAAA
1 TATTTATTATTAATAAA
19304208 ATACTATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 12 0.46
17 11 0.42
18 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:19306536 original size:23 final size:23
Alignment explanation
Indices: 19306510--19306557 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
19306500 TTTTAGTTAT
19306510 TTTGTT-CTTTTTATTTATATAAA
1 TTTGTTACTTTTTATTTATA-AAA
*
19306533 TTTGTTATTTTTTATTTATAAAA
1 TTTGTTACTTTTTATTTATAAAA
19306556 TT
1 TT
19306558 GGCATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTGTTACTTTTTATTTATAAAA
Found at i:19309175 original size:22 final size:21
Alignment explanation
Indices: 19309130--19309175 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
19309120 ATTGAACATG
*
19309130 TGCATGTACGAACCTCTTCCA
1 TGCATGTACGAACCTCATCCA
* *
19309151 TGCATTGTGCGAACCTCATCTA
1 TGCA-TGTACGAACCTCATCCA
19309173 TGC
1 TGC
19309176 GTTATGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (21 bp):
TGCATGTACGAACCTCATCCA
Found at i:19311410 original size:26 final size:26
Alignment explanation
Indices: 19311381--19311433 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
19311371 TCAAACATGC
*
19311381 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTACGT-AATTTAACTCCTAGGGGT
* *
19311407 ATTTCCGTAATTTATCTCCTAGGGGT
1 ATTTACGTAATTTAACTCCTAGGGGT
19311433 A
1 A
19311434 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTACGTAATTTAACTCCTAGGGGT
Found at i:19313112 original size:40 final size:41
Alignment explanation
Indices: 19313068--19313252 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 41
19313058 GCTACTCGTT
* *
19313068 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
19313108 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * *
19313148 CCAATGCCTTTGGG-CTTAGCTCGGGATTA-A-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGC-CCGGATTATAGTAACTCGCA
* * * * * *
19313187 CAAATACCTTC-GGATCTTAGTCCTGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
19313228 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19313253 CATCATTCGA
Statistics
Matches: 117, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
38 4 0.03
39 25 0.21
40 75 0.64
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:19316290 original size:26 final size:26
Alignment explanation
Indices: 19316260--19316315 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
19316250 TGAAATGCCC
19316260 ATCATGGAACATTGACCTAACCCATT
1 ATCATGGAACATTGACCTAACCCATT
* *
19316286 ATCATGGAACATTTACCTAGCCCATT
1 ATCATGGAACATTGACCTAACCCATT
19316312 ATCA
1 ATCA
19316316 ATTTTTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTGACCTAACCCATT
Found at i:19318446 original size:46 final size:46
Alignment explanation
Indices: 19318393--19318568 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
19318383 TATTTGGGCA
19318393 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
19318439 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
19318486 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
19318532 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19318569 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:19318548 original size:93 final size:93
Alignment explanation
Indices: 19318389--19318560 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19318379 GGGATATTTG
* *
19318389 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19318454 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19318482 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19318547 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19318561 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19320472 original size:14 final size:15
Alignment explanation
Indices: 19320453--19320508 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
19320443 AATCTTCAAT
19320453 GATATG-CAATCTTA
1 GATATGACAATCTTA
19320467 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
19320484 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
19320502 GATATGA
1 GATATGA
19320509 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:19320497 original size:35 final size:37
Alignment explanation
Indices: 19320451--19320529 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
19320441 ATAATCTTCA
19320451 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
19320487 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
19320523 A-GATATG
1 ATGATATG
19320530 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:19320529 original size:17 final size:19
Alignment explanation
Indices: 19320451--19320522 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
19320441 ATAATCTTCA
19320451 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
19320470 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
19320487 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
19320505 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
19320523 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:19320548 original size:22 final size:22
Alignment explanation
Indices: 19320451--19320545 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
19320441 ATAATCTTCA
19320451 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
19320470 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
19320487 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
19320505 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
19320527 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
19320546 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:19320835 original size:17 final size:16
Alignment explanation
Indices: 19320813--19320844 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
19320803 GTTTCCCTAT
19320813 TTTTTTATATATTTTAA
1 TTTTTTATA-ATTTTAA
19320830 TTTTTTATAATTTTA
1 TTTTTTATAATTTTA
19320845 GTATCATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTATAATTTTAA
Found at i:19321583 original size:13 final size:13
Alignment explanation
Indices: 19321565--19321589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19321555 CTTTTATCGA
19321565 AATTTGAAAACTC
1 AATTTGAAAACTC
19321578 AATTTGAAAACT
1 AATTTGAAAACT
19321590 ATGATCTTTT
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTTGAAAACTC
Found at i:19328050 original size:26 final size:26
Alignment explanation
Indices: 19328021--19328128 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19328011 TGGTACAAAT
19328021 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19328047 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19328073 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19328099 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19328125 TGAT
1 TGAT
19328129 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19329644 original size:26 final size:26
Alignment explanation
Indices: 19329615--19329667 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
19329605 TTTACAGTTT
19329615 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
19329641 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
19329667 T
1 T
19329668 GCATGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:19331350 original size:12 final size:12
Alignment explanation
Indices: 19331320--19331350 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19331310 ACTCGGGGAA
*
19331320 GAGGCCATGGTC
1 GAGGCCGTGGTC
19331332 GAGGCCGTGGTC
1 GAGGCCGTGGTC
19331344 GAGGCCG
1 GAGGCCG
19331351 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.26, G:0.48, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:19332912 original size:40 final size:39
Alignment explanation
Indices: 19332867--19333074 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
19332857 CGGAATACAA
*
19332867 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19332907 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19332947 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
19332987 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
19333027 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
19333067 CCGGATAT
1 CCGGATAT
19333075 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:19333007 original size:80 final size:80
Alignment explanation
Indices: 19332867--19333073 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
19332857 CGGAATACAA
* * *
19332867 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
19332931 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
19332947 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
19333011 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
19333027 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
19333074 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:19339491 original size:26 final size:26
Alignment explanation
Indices: 19339462--19339569 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19339452 TGGTACAAAT
19339462 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19339488 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19339514 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19339540 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19339566 TGAT
1 TGAT
19339570 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19341083 original size:26 final size:26
Alignment explanation
Indices: 19341054--19341106 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
19341044 TTTACAGTTT
19341054 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
19341080 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
19341106 T
1 T
19341107 GCATGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:19351802 original size:28 final size:28
Alignment explanation
Indices: 19351732--19351831 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 28
19351722 TTTAAAATTT
19351732 TAAAATTATAAATAATATAATGAATAATA
1 TAAAA-TATAAATAATATAATGAATAATA
** *
19351761 TAAAACCTAAATAATATAATGGATAATA
1 TAAAATATAAATAATATAATGAATAATA
** * *
19351789 TACGATATACATAACAT-AT-AATAA-A
1 TAAAATATAAATAATATAATGAATAATA
*
19351814 -AAAATAATAAGTAATATA
1 TAAAAT-ATAAATAATATA
19351832 TAATAAAAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
24 3 0.06
25 9 0.17
26 4 0.07
27 2 0.04
28 31 0.57
29 5 0.09
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (28 bp):
TAAAATATAAATAATATAATGAATAATA
Found at i:19351820 original size:11 final size:11
Alignment explanation
Indices: 19351804--19351846 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
19351794 TATACATAAC
19351804 ATATAATAAAA
1 ATATAATAAAA
*
19351815 AAATAATAAGTAA
1 ATATAATAA--AA
19351828 TATATAATAAAA
1 -ATATAATAAAA
19351840 ATATAAT
1 ATATAAT
19351847 CAATGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 15 0.56
12 2 0.07
13 2 0.07
14 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:19351834 original size:25 final size:24
Alignment explanation
Indices: 19351804--19351881 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
19351794 TATACATAAC
19351804 ATATAATAAAAAAATAATAAGTAAT
1 ATATAATAAAAAAATAATAAGT-AT
*
19351829 ATATAATAAAAATATAATCAATGT-T
1 ATATAATAAAAAAATAAT-AA-GTAT
* *
19351854 ATATAATAAAATAA-AATAAATAT
1 ATATAATAAAAAAATAATAAGTAT
19351877 ATATA
1 ATATA
19351882 GGAAAATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.02
23 8 0.17
24 3 0.07
25 30 0.65
26 2 0.04
27 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (24 bp):
ATATAATAAAAAAATAATAAGTAT
Found at i:19353141 original size:20 final size:21
Alignment explanation
Indices: 19353112--19353150 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
19353102 GGTCTGTTTA
*
19353112 GGTCTGGTTTAAGT-TGGGCT
1 GGTCTAGTTTAAGTCTGGGCT
19353132 GGTCTAGTTTAAGTCTGGG
1 GGTCTAGTTTAAGTCTGGG
19353151 TTTGCTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.13, C:0.10, G:0.38, T:0.38
Consensus pattern (21 bp):
GGTCTAGTTTAAGTCTGGGCT
Found at i:19353821 original size:78 final size:78
Alignment explanation
Indices: 19353713--19354006 Score: 446
Period size: 78 Copynumber: 3.8 Consensus size: 78
19353703 CGAAGAAACA
* * * *
19353713 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
19353778 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
19353791 GATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAATACACAGCAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
19353856 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
19353869 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
19353933 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
19353947 GATTTGGCATCTCTATATTAGATGGGGAGCAGATCGAAGACATAGCAGTTCTGACCTTCA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA
19354007 CGTGTTTACG
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 193 0.99
79 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:19354216 original size:78 final size:78
Alignment explanation
Indices: 19354104--19354449 Score: 518
Period size: 78 Copynumber: 4.4 Consensus size: 78
19354094 ATTCGATGGA
* *
19354104 GAGCAGATCGAAGACATAGCAAATCTGACATTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
*
19354169 TGTATTAGACAGG
66 TGTATTAGACGGG
* * *
19354182 GA-CTAGATCGAAGACACAGTAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCT
1 GAGC-AGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
19354246 CTGTATTAGACGGG
65 CTGTATTAGACGGG
* *
19354260 GAGCAGATCGAAGACATAACAGAT-TGGACATTCATTGAAGCAGATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
*
19354324 CTGTATTAGACGGA
65 CTGTATTAGACGGG
* * *
19354338 GAGCAGATAGAAGACATAACAGA-CTGGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
*
19354402 CTGTATTAGATGGG
65 CTGTATTAGACGGG
*
19354416 GAGCAGATCGAAGACATAGTAGATCTGACCTTCA
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCA
19354450 CGTGTTTACC
Statistics
Matches: 243, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
77 2 0.01
78 238 0.98
79 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (78 bp):
GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
TGTATTAGACGGG
Found at i:19354277 original size:365 final size:362
Alignment explanation
Indices: 19353572--19354736 Score: 1362
Period size: 365 Copynumber: 3.2 Consensus size: 362
19353562 ACATAAAAGT
* ** **
19353572 AGATCCAAGATGATTTGTCATC-CTTGCGTT-GACAAGGAGCAGATCGAAGACATAGCAGATT-T
1 AGATCCAAGATGATTTGGCATCTC-TGTATTAGACGGGGAGCAGATCGAAGACATAGCAG-TTCT
* *
19353634 GGCTTTCACGTGTTTACGTTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAAC
64 GACCTTCACGTGTTTACG-TGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAAC
* * *
19353699 AAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATC
128 AAATCGAAGAAACAGATTTGGCATCTCCAAATTCGATGGAGAGCAGATCGAAGACATAGCAAATC
* * *
19353764 TGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAA
193 TGA-CTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* *
19353829 TACACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGG
256 GACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGG
19353894 GGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGC
321 GGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGC
* *
19353936 AGATCCAAGATGATTTGGCATCTCTATATTAGATGGGGAGCAGATCGAAGACATAGCAGTTCTGA
1 AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGTTCTGA
*
19354001 CCTTCACGTGTTTACGCTGAAGCAGATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAA
66 CCTTCACGTGTTTACG-TGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAA
* *
19354066 ATCAAAGAAACAGATTTGGCGTCTCCAAATTCGATGGAGAGCAGATCGAAGACATAGCAAATCTG
130 ATCGAAGAAACAGATTTGGCATCTCCAAATTCGATGGAGAGCAGATCGAAGACATAGCAAATCTG
19354131 ACATTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGA-CTAGATCGAAG
195 AC-TTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGC-AGATCGAAG
* *
19354195 ACACAGTAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGG
257 ACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
*
19354260 GAGCAGATCGAAGACATAACAGATTGGACATTCATTGAAGC
322 GAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGC
* * * *
19354301 AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAGATAGAAGACATAACAG-ACTGG
1 AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGTTCT-G
* * * * * *
19354365 ACCTTCA------T---TGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAT-GGGGAGC
65 ACCTTCACGTGTTTACGTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACT-G-TCAGAGAAC
* * * * * *** ** * *
19354420 AGATCGAAGACATAGTAGATCTGACCT-TCACGTGTTTACCCT-GA-AGCAGATCTAAGATGATT
128 AAATCGAAGA-A-A-CAGATTTGGCATCTC-C-AAATT-CGATGGAGAGCAGATCGAAGA-CA--
* ** * * * * * ** *
19354482 TGGCATCTCTGTACTGTCAATGAA-CAAATCGAAGAAACAGATTTGGCGTCTCCATATTCGACGG
184 TAGCAAATCTG-ACT-TCATTGAAGCAGATCCAAG--A-TGATTTGGCATCTCTGTATTAGACGG
* *
19354546 AGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATCT
244 -GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
* * * *
19354611 CTATATTAGACGGGGAGAAGATCGAAGACACAACAGATCT-GACCTTTATTGAAGC
308 CTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGAAGC
* *
19354666 AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGA
1 AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGTTCTGA
19354731 CCTTCA
66 CCTTCA
19354737 TTGAAGCAGA
Statistics
Matches: 699, Mismatches: 76, Indels: 51
0.85 0.09 0.06
Matches are distributed among these distances:
355 32 0.05
356 13 0.02
357 2 0.00
358 3 0.00
359 22 0.03
360 5 0.01
361 2 0.00
362 17 0.02
363 9 0.01
364 33 0.05
365 557 0.80
366 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (362 bp):
AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGTTCTGA
CCTTCACGTGTTTACGTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAA
TCGAAGAAACAGATTTGGCATCTCCAAATTCGATGGAGAGCAGATCGAAGACATAGCAAATCTGA
CTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACAC
AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
AGATCGAAGACATAACAGATTGGACCTTCATTGAAGC
Found at i:19354550 original size:443 final size:441
Alignment explanation
Indices: 19353713--19354941 Score: 1987
Period size: 443 Copynumber: 2.8 Consensus size: 441
19353703 CGAAGAAACA
* * *
19353713 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTATATTAGACGG-GA-CAGATCGAAGACACAGCAGATCTGACCTTTATTGAA
* * *
19353778 GTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAATACACAGCAGATCT
64 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
*
19353843 AACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
129 GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
*
19353908 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGATGGG
194 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGG
* * *
19353973 GAGCAGATCGAAGACATAGCAGTTCTGACCTTCACGTGTTTACGCTGAAGCAGATCTAAGATAAT
259 GAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATGAT
*
19354038 TTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCGTCTCCAAATTCGATGG
324 TTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCGTCTCCAAATTCGACGG
*
19354103 AGAGCAGATCGAAGACATAGCAAATCTGACATTCATTGAAGCAGATCCAAGAT
389 AGAGCAGATCGAAGACATAGCAAATCTGACATTCATTAAAGCAGATCCAAGAT
* * *
19354156 GATTTGGCATCTCTGTATTAGACAGGGACTAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGAC-GGGAC-AGATCGAAGACACAGCAGATCTGACCTTTATTGAA
* * *
19354221 GCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-T
64 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
* * *
19354285 GGACATTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAGATAGAA
129 -GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
* *
19354350 GACATAACAGACTGGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGATGG
193 GACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGG
*
19354415 GGAGCAGATCGAAGACATAGTAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATGA
258 GGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATGA
* *
19354480 TTTGGCATCTCTGTACTGTCA-ATGAACAAATCGAAGAAACAGATTTGGCGTCTCCATATTCGAC
323 TTTGGCATCTCTGTACTGTCAGA-GAACAAATCAAAGAAACAGATTTGGCGTCTCCAAATTCGAC
* *
19354544 GGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTAAAGCAGATCCAAGAT
387 GGAGAGCAGATCGAAGACATAGCAAATCTGACATTCATTAAAGCAGATCCAAGAT
* *
19354599 GATTTGGCATCTCTATATTAGACGGGGAGAAGATCGAAGACACAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTATATTAGAC-GGGA-CAGATCGAAGACACAGCAGATCTGACCTTTATTGAA
19354664 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
64 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
19354729 GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
129 GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
*
19354794 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
194 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGG
* * * * *
19354859 GAGCAGATCGAAAACATAGCAGATCTGACCTTCATGTGTTTA-CATCGAAGCAAATCCAAGATGA
259 GAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTACCCT-GAAGCAGATCTAAGAT--
19354923 CAGATTTGGCATCTCTGTA
321 --GATTTGGCATCTCTGTA
19354942 TTAGGCGGGG
Statistics
Matches: 725, Mismatches: 50, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
442 5 0.01
443 700 0.97
444 3 0.00
447 17 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (441 bp):
GATTTGGCATCTCTATATTAGACGGGACAGATCGAAGACACAGCAGATCTGACCTTTATTGAAGC
AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGA
CCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAC
ATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGGGA
GCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATGATTT
GGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCGTCTCCAAATTCGACGGAG
AGCAGATCGAAGACATAGCAAATCTGACATTCATTAAAGCAGATCCAAGAT
Found at i:19354633 original size:78 final size:78
Alignment explanation
Indices: 19354521--19354893 Score: 604
Period size: 78 Copynumber: 4.8 Consensus size: 78
19354511 CGAAGAAACA
* ** * * *
19354521 GATTTGGCGTCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTAAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
19354586 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
19354599 GATTTGGCATCTCTATATTAGACGGGGAGAAGATCGAAGACACAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
19354664 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
19354677 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
19354742 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
19354755 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
19354819 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
19354833 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
19354894 GTGTTTACAT
Statistics
Matches: 276, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
77 1 0.00
78 274 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:19355040 original size:89 final size:89
Alignment explanation
Indices: 19354923--19355092 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
19354913 TCCAAGATGA
* **
19354923 CAGATTTGGCATCTCTGTATTAGGCGGGGAGCAAATCAGGGATAACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
*
19354988 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGAGAGCAGATTGAAGAAG
* *
19355012 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
*
19355077 TAGACGGAGAGTAGAT
66 TAGACGGAGAGCAGAT
19355093 CAAAGATAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGAGAGCAGATTGAAGAAG
Found at i:19355093 original size:45 final size:45
Alignment explanation
Indices: 19354833--19355100 Score: 274
Period size: 45 Copynumber: 5.9 Consensus size: 45
19354823 GATCCAAGAT
* *
19354833 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC--AAAGATAACA
* * * * * * * * *
19354880 GATCTGACCT-TCATGTGTTTACATC--GAAGCAAATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAAAGATAACA
* * **
19354925 GATTTGGCATCTCTGTATTAGGCGGGGAGCAAATCAGGGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
** *
19354970 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
19355014 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
* * *
19355059 GATTTGGCGTCTCTGTATTAGACGGAGAGTAGATCAAAGATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATA
19355101 GCTAATATCG
Statistics
Matches: 179, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.01
44 44 0.25
45 107 0.60
46 4 0.02
47 18 0.10
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
Found at i:19355530 original size:35 final size:37
Alignment explanation
Indices: 19355458--19355548 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 37
19355448 ATAATCTTCA
*
19355458 ATGATATGTAATCTTAGATATGATACGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATACGCAATCTTAGAT
*
19355496 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATACGCAATCTTAGAT
19355531 ATGATATGCAATCTTAGA
1 ATGATA-GCAATCTTAGA
19355549 AGATATGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
35 18 0.37
36 15 0.31
37 10 0.20
38 6 0.12
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATACGCAATCTTAGAT
Found at i:19355555 original size:17 final size:19
Alignment explanation
Indices: 19355458--19355548 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
19355448 ATAATCTTCA
*
19355458 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
19355477 ATGATACGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
19355496 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
19355513 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
19355531 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
19355549 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:19355574 original size:22 final size:22
Alignment explanation
Indices: 19355458--19355571 Score: 78
Period size: 19 Copynumber: 5.8 Consensus size: 22
19355448 ATAATCTTCA
*
19355458 ATGATATGTAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
19355477 ATGATACGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
19355496 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
19355513 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
19355531 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
19355553 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
19355572 GATTTAATTT
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 32 0.38
22 8 0.10
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:19361573 original size:22 final size:21
Alignment explanation
Indices: 19361542--19361587 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
19361532 ATTTAATTAT
19361542 TTTG-TTTTTTATTTATATAAA
1 TTTGTTTTTTTATTTATA-AAA
19361563 TTTGTTATTTTTTATTTATAAAA
1 TTTG-T-TTTTTTATTTATAAAA
19361586 TT
1 TT
19361588 GGCATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
23 5 0.23
24 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTGTTTTTTTATTTATAAAA
Found at i:19367562 original size:40 final size:40
Alignment explanation
Indices: 19367517--19367683 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19367507 CGGAATATAA
19367517 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
19367557 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
19367597 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19367637 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19367676 CCGGATAT
1 CCGGATAT
19367684 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19367667 original size:80 final size:79
Alignment explanation
Indices: 19367517--19367683 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
19367507 CGGAATATAA
* *
19367517 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
19367582 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
19367597 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
19367659 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
19367676 CCGGATAT
1 CCGGATAT
19367684 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:19368532 original size:17 final size:19
Alignment explanation
Indices: 19368509--19368554 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
19368499 AAGAAGCATG
19368509 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
19368527 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
19368545 AATCATGCTC
1 AATCATGCTC
19368555 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:19375569 original size:40 final size:40
Alignment explanation
Indices: 19375524--19375690 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19375514 CGGAATATAA
19375524 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
19375564 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
19375604 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19375644 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19375683 CCGGATAT
1 CCGGATAT
19375691 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19375674 original size:80 final size:79
Alignment explanation
Indices: 19375524--19375690 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
19375514 CGGAATATAA
* *
19375524 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
19375589 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
19375604 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
19375666 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
19375683 CCGGATAT
1 CCGGATAT
19375691 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:19376538 original size:17 final size:19
Alignment explanation
Indices: 19376515--19376560 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
19376505 AAGAAGCATG
19376515 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
19376533 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
19376551 AATCATGCTC
1 AATCATGCTC
19376561 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:19378209 original size:26 final size:26
Alignment explanation
Indices: 19378171--19378252 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
19378161 TGATACAAAT
*
19378171 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19378197 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19378223 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19378249 TGAT
1 TGAT
19378253 GAGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19383138 original size:12 final size:12
Alignment explanation
Indices: 19383121--19383227 Score: 64
Period size: 12 Copynumber: 8.9 Consensus size: 12
19383111 AACAAAATAT
19383121 ATAATAATATAA
1 ATAATAATATAA
*
19383133 ATAAT-ATGATAG
1 ATAATAAT-ATAA
19383145 ATAAT-ATATAA
1 ATAATAATATAA
19383156 ATAATATATATATA
1 ATAATA-ATATA-A
* * *
19383170 GTAA-AATGTAT
1 ATAATAATATAA
* *
19383181 GTAAT-ATAATAT
1 ATAATAAT-ATAA
19383193 ATAATAATAT-A
1 ATAATAATATAA
19383204 ATAAATAATAT-A
1 AT-AATAATATAA
19383216 ATAAATAATATA
1 AT-AATAATATA
19383228 CAAAGATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 17
0.76 0.08 0.17
Matches are distributed among these distances:
11 18 0.23
12 48 0.62
13 8 0.10
14 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
ATAATAATATAA
Found at i:19383165 original size:34 final size:33
Alignment explanation
Indices: 19383116--19383227 Score: 102
Period size: 34 Copynumber: 3.2 Consensus size: 33
19383106 TTATAAACAA
*
19383116 AATATATAAT-A-ATATAAATAATATGATAGAT
1 AATATATAATAATATATAAATAATATGATAAAT
*
19383147 AATATATAAATAATATATATATAGTAAAATGTATGTAATAT
1 AATATAT-AATAATATATA-A-A-TAATATG-A--TAA-AT
*
19383188 AATATATAATAATATAATAAATAATATAATAAAT
1 AATATATAATAATAT-ATAAATAATATGATAAAT
19383222 AATATA
1 AATATA
19383228 CAAAGATAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
31 7 0.11
32 3 0.05
33 1 0.02
34 13 0.20
35 4 0.06
36 1 0.02
37 7 0.11
38 6 0.09
39 1 0.02
40 11 0.17
41 12 0.18
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (33 bp):
AATATATAATAATATATAAATAATATGATAAAT
Found at i:19386214 original size:26 final size:26
Alignment explanation
Indices: 19386185--19386344 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
19386175 TGGTACAAAT
*
19386185 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * **
19386211 TGATAATAGATTAGGTAAAAATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19386237 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19386263 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19386289 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19386315 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19386341 TGAT
1 TGAT
19386345 GGGCATTTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 122 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19389807 original size:16 final size:17
Alignment explanation
Indices: 19389768--19389818 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
19389758 AGGTTAATAT
19389768 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
19389786 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
19389802 TATTTAAAATTAATAAA
1 TATTTATTATTAATAAA
19389819 ATACTATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 12 0.46
17 11 0.42
18 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:19396474 original size:19 final size:19
Alignment explanation
Indices: 19396450--19396488 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19396440 TGCAGGAAGA
19396450 ATCAAAAGTTAAACTAAGC
1 ATCAAAAGTTAAACTAAGC
19396469 ATCAAAAGTTAAACTAAGC
1 ATCAAAAGTTAAACTAAGC
19396488 A
1 A
19396489 ACATTAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (19 bp):
ATCAAAAGTTAAACTAAGC
Found at i:19396986 original size:22 final size:21
Alignment explanation
Indices: 19396955--19397001 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
19396945 ATTTAATTAT
19396955 TTTGTTTTTTATT-TATATAAA
1 TTTGTTTTTT-TTATATATAAA
*
19396976 TTTGTTATTTTTTATTTATAAA
1 TTTGTT-TTTTTTATATATAAA
19396998 TTTG
1 TTTG
19397002 GCATAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (21 bp):
TTTGTTTTTTTTATATATAAA
Found at i:19398663 original size:28 final size:28
Alignment explanation
Indices: 19398628--19398686 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
19398618 CTAGGGTATA
19398628 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
19398656 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
19398684 TCG
1 TCG
19398687 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:19399350 original size:26 final size:27
Alignment explanation
Indices: 19399307--19399366 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
19399297 GGGCAAAATG
19399307 GTAA-TTTACCCACAA-GGGTATTTCA
1 GTAATTTTACCCACAAGGGGTATTTCA
*
19399332 GTAATTTTACCCTAC-AGGGGTATTTTA
1 GTAATTTTACCC-ACAAGGGGTATTTCA
19399359 GTAATTTT
1 GTAATTTT
19399367 TCAAACCGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 4 0.13
26 8 0.26
27 19 0.61
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCACAAGGGGTATTTCA
Found at i:19399361 original size:27 final size:27
Alignment explanation
Indices: 19399322--19399447 Score: 107
Period size: 27 Copynumber: 4.7 Consensus size: 27
19399312 TTACCCACAA
* **
19399322 GGGTATTTCAGTAATTTTACCCTACAG
1 GGGTATTTTAGTAATTTTACCAAACAG
* *
19399349 GGGTATTTTAGTAATTTT-TCAAACCG
1 GGGTATTTTAGTAATTTTACCAAACAG
*
19399375 TGGGTATTTTGGTAATTTTA-CAAACTAG
1 -GGGTATTTTAGTAATTTTACCAAAC-AG
* **
19399403 GGGTATTTTGGTAATTTTA-CAAATTG
1 GGGTATTTTAGTAATTTTACCAAACAG
19399429 AGGGTATTTCT-GTAATTTT
1 -GGGTATTT-TAGTAATTTT
19399448 GTAAATCGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
26 5 0.06
27 78 0.92
28 2 0.02
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACCAAACAG
Found at i:19399382 original size:54 final size:54
Alignment explanation
Indices: 19399321--19399447 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
19399311 TTTACCCACA
** *
19399321 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCG
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAACCG
* ** * **
19399375 TGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCG
*
19399429 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
19399448 GTAAATCGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.05
54 57 0.95
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCG
Found at i:19399461 original size:27 final size:27
Alignment explanation
Indices: 19399350--19399461 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
19399340 ACCCTACAGG
* * * **
19399350 GGTATTTTAGTAATTTTTCAAACCGTG
1 GGTATTTTGGTAATTTTACAAATCGAA
* *
19399377 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATCGA-A
* *
19399404 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAATCGAA
**
19399431 GGTATTTCT-GTAATTTTGTAAATCGAA
1 GGTATTT-TGGTAATTTTACAAATCGAA
19399458 GGTA
1 GGTA
19399462 AAATAGTAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.01
27 69 0.96
28 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCGAA
Found at i:19399470 original size:27 final size:27
Alignment explanation
Indices: 19399440--19399752 Score: 351
Period size: 27 Copynumber: 11.6 Consensus size: 27
19399430 GGGTATTTCT
* * * *
19399440 GTAATTTTGTAAATCGAAGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACA
* * * *
19399467 GTAATTC-AGTAAATCAAGAGAAAAATA
1 GTAATTCTA-TAAATCGAGGGTAAAACA
*
19399494 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTCTATAAATCGAGGGTAAAACA
* *
19399520 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTCTATAAATCGAGGGTAAAACA
* * *
19399548 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACA
*
19399575 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
* *
19399602 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACA
* *
19399629 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACA
* * *
19399656 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACA
**
19399683 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACA
* *
19399710 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
*
19399737 GTAATTCTGTAAATCG
1 GTAATTCTATAAATCG
19399753 GGAGTACTTT
Statistics
Matches: 245, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.00
27 242 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACA
Found at i:19403049 original size:27 final size:28
Alignment explanation
Indices: 19403009--19403076 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
19402999 TTTAAAACCC
*
19403009 TAGGGGT-ATATCGGTAA-TTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
19403035 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
19403063 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
19403077 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 9 0.23
28 23 0.59
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:19403715 original size:27 final size:27
Alignment explanation
Indices: 19403685--19403746 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19403675 GGGCAAAATG
19403685 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
19403712 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
19403739 GTAATTTT
1 GTAATTTT
19403747 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:19403759 original size:27 final size:27
Alignment explanation
Indices: 19403726--19403805 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
19403716 TTTTACCCTA
* *
19403726 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19403753 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19403780 TAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
19403806 TTGAGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:19403760 original size:54 final size:54
Alignment explanation
Indices: 19403701--19403827 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
19403691 TTACCCCACA
** *
19403701 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
** * **
19403754 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
19403809 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
19403828 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 56 0.92
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Done.