Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 145 of 226
Found at i:45339017 original size:75 final size:75
Alignment explanation
Indices: 45338861--45339100 Score: 253
Period size: 75 Copynumber: 3.3 Consensus size: 75
45338851 AGAGTTTGTG
* * * * * *
45338861 CCCAGCGCTATTCGGATAAA-T--C--AATAAAT-GTGTGCCCAGCACTAGTTAGACAAACTAAC
1 CCCAGCGCTAGTCGGATAAACTAACGAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACAAAC
* *
45338920 AGA-AGTTGCG
66 -GATATTTGCA
* *
45338930 CCCAGCGTTAGTCGGATAAACTGAA-GAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAA
1 CCCAGCGCTAGTCGGATAAACT-AACGAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACAAA
45338994 CGATATTTGCA
65 CGATATTTGCA
* * * * *
45339005 CCCAACGCTAGTCTGATAAACTAACGAAATAACTAGTGAGCACAGCTCTAGTAGGATAAACAAAC
1 CCCAGCGCTAGTCGGATAAACTAACGAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACAAAC
*
45339070 AATATTTGCA
66 GATATTTGCA
*
45339080 CCCAGCGCTAGTCGGACAAAC
1 CCCAGCGCTAGTCGGATAAAC
45339101 CAACCAATGC
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
69 18 0.13
70 1 0.01
74 11 0.08
75 112 0.79
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (75 bp):
CCCAGCGCTAGTCGGATAAACTAACGAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACAAAC
GATATTTGCA
Found at i:45347256 original size:48 final size:48
Alignment explanation
Indices: 45347200--45347297 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
45347190 AAATGCTATG
45347200 ACAAAACCAGACAAGAGTAAGAATGCAATGAGAAATTTGAGAATAATC
1 ACAAAACCAGACAAGAGTAAGAATGCAATGAGAAATTTGAGAATAATC
*
45347248 ACAAAACCAGACAAGAGTAAGAATGCAATGATAAATTTGAGAATAATC
1 ACAAAACCAGACAAGAGTAAGAATGCAATGAGAAATTTGAGAATAATC
45347296 AC
1 AC
45347298 GTGAATGATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (48 bp):
ACAAAACCAGACAAGAGTAAGAATGCAATGAGAAATTTGAGAATAATC
Found at i:45349969 original size:32 final size:32
Alignment explanation
Indices: 45349927--45349996 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
45349917 ACAATTGTGA
45349927 AGAAG-AACAACAATCCTCAAGAAGTATCCCT
1 AGAAGCAACAACAATCCTCAAGAAGTATCCCT
45349958 AGAAGCAACAACAATCCTCAAGAAGTATCCCT
1 AGAAGCAACAACAATCCTCAAGAAGTATCCCT
45349990 AGAAGCA
1 AGAAGCA
45349997 TAAGATGAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (32 bp):
AGAAGCAACAACAATCCTCAAGAAGTATCCCT
Found at i:45364770 original size:182 final size:180
Alignment explanation
Indices: 45364545--45365066 Score: 891
Period size: 182 Copynumber: 2.9 Consensus size: 180
45364535 TTTTCACTTC
* *
45364545 AAATTTGTATACGACACCACTAACATACCCGAACCTCTTTTCTGGTAAGATTTTGGGGATGAAAA
1 AAATTTTTATACGACACTACTAACATACCCGAACCTCTTTTCTGGTAAGATTTTGGGGAT-AAAA
*
45364610 TTCCTTTAGGGGGAGAGTTATAACAGTCCATTTTCAGTGAAATCGAAATAGTCGTTTCATGACCA
65 TTCCTTTAGGGGGAGAGTTGTAACAGTCCATTTTCAGTGAAATCGAAATAGT-GTTTCATGACCA
45364675 CAAATTTGACGTGAAAATATTTATTTTATACCATGAAAATATTTATGTTACA
129 CAAATTTGACGTGAAAATATTTATTTTATACCATGAAAATATTTATGTTACA
45364727 AAATTTTTATACGACACTACTAACATACCCGAACCTCTTTTCTGGTAAGATTTTGGGGATAAAAA
1 AAATTTTTATACGACACTACTAACATACCCGAACCTCTTTTCTGGTAAGATTTTGGGGAT-AAAA
45364792 TTCCTTTAGGGGGAGAGTTGTAACAGTCCATTTTCAGTGAAATCGAAATAGTGATTTCATGACCA
65 TTCCTTTAGGGGGAGAGTTGTAACAGTCCATTTTCAGTGAAATCGAAATAGTG-TTTCATGACCA
*
45364857 CAAATTTTACGTGAAAATATTTATTTTATACCATGAAAATATTTATGTTACA
129 CAAATTTGACGTGAAAATATTTATTTTATACCATGAAAATATTTATGTTACA
*
45364909 AAATTTTTATACGACACTACTAACATACCCGAACCTCTTTTCTGGTAAGATTTCGGGGATAAAAT
1 AAATTTTTATACGACACTACTAACATACCCGAACCTCTTTTCTGGTAAGATTTTGGGGATAAAAT
* * * * ** *
45364974 TCCTTTAAGGGGAGAGTTGTAATAGTCAATTTTTAGTGAAATCGAAATAGTGGTTTTGTGACCAT
66 TCCTTTAGGGGGAGAGTTGTAACAGTCCATTTTCAGTGAAATCGAAATAGT-GTTTCATGACCAC
45365039 AAATTTGACGTGAAAATATTTATTTTAT
130 AAATTTGACGTGAAAATATTTATTTTAT
45365067 TATTATTTTA
Statistics
Matches: 324, Mismatches: 14, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
181 89 0.27
182 235 0.73
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (180 bp):
AAATTTTTATACGACACTACTAACATACCCGAACCTCTTTTCTGGTAAGATTTTGGGGATAAAAT
TCCTTTAGGGGGAGAGTTGTAACAGTCCATTTTCAGTGAAATCGAAATAGTGTTTCATGACCACA
AATTTGACGTGAAAATATTTATTTTATACCATGAAAATATTTATGTTACA
Found at i:45372113 original size:50 final size:50
Alignment explanation
Indices: 45372034--45372137 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 50
45372024 TGCTGGAATG
*
45372034 AGTT-GAATATAATGAATATTAAATGGATTAAATTTGCTTATTTAGATCA
1 AGTTAGAATAGAATGAATATTAAATGGATTAAATTTGCTTATTTAGATCA
*
45372083 AGTTAGAATAGAATGAATATTAAATGGATTAAATTTGTTTATTTAGATCA
1 AGTTAGAATAGAATGAATATTAAATGGATTAAATTTGCTTATTTAGATCA
45372133 AGTTA
1 AGTTA
45372138 AGCCTCGTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 4 0.08
50 48 0.92
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.40
Consensus pattern (50 bp):
AGTTAGAATAGAATGAATATTAAATGGATTAAATTTGCTTATTTAGATCA
Found at i:45380940 original size:19 final size:19
Alignment explanation
Indices: 45380904--45380961 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 19
45380894 TTTTGATATA
*
45380904 ATATAGATTAGAAA-TTTTG
1 ATATA-ATTTGAAATTTTTG
45380923 ATATAATGTT--AATTTTT-
1 ATATAAT-TTGAAATTTTTG
*
45380940 TTATAATTTGAAATTTTTG
1 ATATAATTTGAAATTTTTG
45380959 ATA
1 ATA
45380962 AGTGTACATC
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
16 2 0.06
17 8 0.26
18 13 0.42
19 8 0.26
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATTTGAAATTTTTG
Found at i:45381291 original size:16 final size:18
Alignment explanation
Indices: 45381260--45381293 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
45381250 GTTGTTAGGA
45381260 TTTCTATATGTGTTTTTT
1 TTTCTATATGTGTTTTTT
45381278 TTTCT-TAT-TGTTTTTT
1 TTTCTATATGTGTTTTTT
45381294 ATTACTACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTCTATATGTGTTTTTT
Found at i:45383156 original size:51 final size:50
Alignment explanation
Indices: 45383026--45383208 Score: 190
Period size: 51 Copynumber: 3.6 Consensus size: 50
45383016 AAAGTGATTG
* *
45383026 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
* * * *
45383076 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAAT-G-ATAGA
** * * * * *
45383127 TCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AAATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGAT-A-GA
*
45383178 TCACATGTGTAGTACTATGAGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
45383209 TGTGAACCGA
Statistics
Matches: 109, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
49 3 0.03
50 40 0.37
51 66 0.61
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
Found at i:45383270 original size:45 final size:45
Alignment explanation
Indices: 45383214--45383309 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
45383204 TACTATGTGA
* *
45383214 ACCGAACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
* *
45383259 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
45383304 ACCGAA
1 ACCGAA
45383310 TATCTGTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
Found at i:45392148 original size:303 final size:303
Alignment explanation
Indices: 45391594--45392199 Score: 1176
Period size: 303 Copynumber: 2.0 Consensus size: 303
45391584 ATTTTGTTGT
*
45391594 TTTGAATGATTCCAAGAATCAAGAAAATCAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAAC
1 TTTGAACGATTCCAAGAATCAAGAAAATCAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAAC
45391659 TGAATCTTGCAGCAAAGGTGCATTGGATCTCCGTTACGAGTATCAACGAACCAATTTCGGTAGGA
66 TGAATCTTGCAGCAAAGGTGCATTGGATCTCCGTTACGAGTATCAACGAACCAATTTCGGTAGGA
*
45391724 AACAGACTACAAGCCCAAGTTCTTGAAGGCAAGGCTCAATAAGATGTCCAAGCCCAAATCAAGGT
131 AACAGACTACAAGCCCAAGTTCTTGAAGGCAAGGCCCAATAAGATGTCCAAGCCCAAATCAAGGT
*
45391789 CAAAGTGGCCCAATTTGTAAAATTCTAATTCTTTAAATACCTAGTTTAATTTTAGACTTTGGGAT
196 CAAAGTGGCCCAATTTGTAAAATTCTAATTCTTTAAATACCTAGTTTAATTTTAGACTTTAGGAT
45391854 TATTATATATGTAAAAATTCAGCCCAAGCAGCCCATTAAATGC
261 TATTATATATGTAAAAATTCAGCCCAAGCAGCCCATTAAATGC
*
45391897 TTTGAACGATTCCAAGAATCAAGAAAATCAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAAT
1 TTTGAACGATTCCAAGAATCAAGAAAATCAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAAC
45391962 TGAATCTTGCAGCAAAGGTGCATTGGATCTCCGTTACGAGTATCAACGAACCAATTTCGGTAGGA
66 TGAATCTTGCAGCAAAGGTGCATTGGATCTCCGTTACGAGTATCAACGAACCAATTTCGGTAGGA
45392027 AACAGACTACAAGCCCAAGTTCTTGAAGGCAAGGCCCAATAAGATGTCCAAGCCCAAATCAAGGT
131 AACAGACTACAAGCCCAAGTTCTTGAAGGCAAGGCCCAATAAGATGTCCAAGCCCAAATCAAGGT
45392092 CAAAGTGGCCCAATTTGTAAAATTCTAATTCTTTAAATACCTAGTTTAATTTTAGACTTTAGGAT
196 CAAAGTGGCCCAATTTGTAAAATTCTAATTCTTTAAATACCTAGTTTAATTTTAGACTTTAGGAT
45392157 TATTATATATGTAAAAATTCAGCCCAAGCAGCCCATTAAATGC
261 TATTATATATGTAAAAATTCAGCCCAAGCAGCCCATTAAATGC
45392200 CTTGGTCGAA
Statistics
Matches: 299, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
303 299 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (303 bp):
TTTGAACGATTCCAAGAATCAAGAAAATCAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAAC
TGAATCTTGCAGCAAAGGTGCATTGGATCTCCGTTACGAGTATCAACGAACCAATTTCGGTAGGA
AACAGACTACAAGCCCAAGTTCTTGAAGGCAAGGCCCAATAAGATGTCCAAGCCCAAATCAAGGT
CAAAGTGGCCCAATTTGTAAAATTCTAATTCTTTAAATACCTAGTTTAATTTTAGACTTTAGGAT
TATTATATATGTAAAAATTCAGCCCAAGCAGCCCATTAAATGC
Found at i:45396054 original size:60 final size:60
Alignment explanation
Indices: 45395926--45396052 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 60
45395916 CTTGTTTTAA
* ** * * * *
45395926 AAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAATGTTGAGGGTTAATTTTATT
1 AAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGAGCTAAATTTATT
* * *
45395986 AAATTTTTAGAATTTGAACTAAAATG-TAAATTTTGTAAACATTAAGAGCTAAATTTGTT
1 AAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGAGCTAAATTTATT
45396045 AAATTTTT
1 AAATTTTT
45396053 TATATTTAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 33 0.58
60 24 0.42
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (60 bp):
AAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGAGCTAAATTTATT
Found at i:45399339 original size:14 final size:14
Alignment explanation
Indices: 45399320--45399346 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45399310 TAACAAATCA
45399320 AATAACTTTTTTAG
1 AATAACTTTTTTAG
45399334 AATAACTTTTTTA
1 AATAACTTTTTTA
45399347 AAATTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AATAACTTTTTTAG
Found at i:45401632 original size:34 final size:34
Alignment explanation
Indices: 45401594--45401690 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 34
45401584 TAAAGTCATG
45401594 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
* *
45401628 CATTA---AA--TT-AAGTCATGTT-AGTTT--A-
1 CATTATGTAACTTTCATGTTA-GTTAAGTTTGCAT
*
45401653 -ATTATGTAACTTTCATGTTAGATAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
45401686 CATTA
1 CATTA
45401691 AATTAAGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 24
0.61 0.07 0.32
Matches are distributed among these distances:
24 4 0.09
26 1 0.02
27 2 0.04
28 9 0.20
29 9 0.20
30 9 0.20
31 2 0.04
32 1 0.02
34 9 0.20
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (34 bp):
CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
Found at i:45401644 original size:33 final size:33
Alignment explanation
Indices: 45401607--45401702 Score: 93
Period size: 33 Copynumber: 3.2 Consensus size: 33
45401597 TATGTAACTT
45401607 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
* *
45401640 TCATGTTAGTTTAA--TT--AT--GTAACTT---
1 TCATGTTAG-TTAAGTTTGCATCATTAAATTAAG
*
45401665 TCATGTTAGATAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
45401698 TCATG
1 TCATG
45401703 CATTAACTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
24 3 0.06
25 9 0.19
26 2 0.04
28 7 0.15
30 7 0.15
32 2 0.04
33 14 0.29
34 4 0.08
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (33 bp):
TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
Found at i:45401879 original size:14 final size:14
Alignment explanation
Indices: 45401860--45401888 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45401850 TAAAATGTGA
45401860 TTAATGTGTTTGAT
1 TTAATGTGTTTGAT
45401874 TTAATGTGTTTGAT
1 TTAATGTGTTTGAT
45401888 T
1 T
45401889 ATAGGTGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (14 bp):
TTAATGTGTTTGAT
Found at i:45406897 original size:22 final size:24
Alignment explanation
Indices: 45406848--45406901 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
45406838 TTTTTTATGA
45406848 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
45406873 TTAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
45406895 TTAAATT
1 TTAAATT
45406902 TAATTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.04
22 12 0.43
24 4 0.14
25 11 0.39
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:45409197 original size:23 final size:23
Alignment explanation
Indices: 45409170--45409221 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
45409160 GAAGATTTTG
45409170 GCATATTCCCTGAAGCGAATATT
1 GCATATTCCCTGAAGCGAATATT
*
45409193 GCATATTCCCTGAAGTGAATATT
1 GCATATTCCCTGAAGCGAATATT
*
45409216 GTATAT
1 GCATAT
45409222 AATTATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (23 bp):
GCATATTCCCTGAAGCGAATATT
Found at i:45412686 original size:29 final size:32
Alignment explanation
Indices: 45412626--45412688 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 32
45412616 ACAAGAAATA
45412626 ATAATATATAAAATTTAAAATTATATAATAAT
1 ATAATATATAAAATTTAAAATTATATAATAAT
* *
45412658 ATAATA-AT-AAATTT-AAATTTTATATTAAT
1 ATAATATATAAAATTTAAAATTATATAATAAT
45412687 AT
1 AT
45412689 TTATATTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.52
30 6 0.21
31 2 0.07
32 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATATAAAATTTAAAATTATATAATAAT
Found at i:45423451 original size:31 final size:32
Alignment explanation
Indices: 45423413--45423479 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
45423403 TTAATGACTA
* * * *
45423413 GTGACCAAAAGAG-AAAAGATCGAATAGTTGG
1 GTGACCAAAAAAGAAAAAAATCAAATAATTGG
45423444 GTGACCAAAAAAGAAAAAAATCAAATAATTGG
1 GTGACCAAAAAAGAAAAAAATCAAATAATTGG
45423476 GTGA
1 GTGA
45423480 TCATTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.51, C:0.09, G:0.24, T:0.16
Consensus pattern (32 bp):
GTGACCAAAAAAGAAAAAAATCAAATAATTGG
Found at i:45428789 original size:23 final size:22
Alignment explanation
Indices: 45428763--45428816 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
45428753 TGTATACGCG
45428763 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
45428786 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
45428808 TAC-TAATAA
1 TACATAATAA
45428817 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:45428797 original size:3 final size:3
Alignment explanation
Indices: 45428766--45428835 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
45428756 ATACGCGTAC
* * * *
45428766 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
45428813 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
45428836 CAAGGATATT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:45429910 original size:18 final size:17
Alignment explanation
Indices: 45429887--45429935 Score: 82
Period size: 18 Copynumber: 2.9 Consensus size: 17
45429877 ACAATAATTA
45429887 TTTTATTAAATTATATAT
1 TTTTATTAAATTATAT-T
45429905 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
45429922 TTTT-TTAAATTATA
1 TTTTATTAAATTATA
45429936 CATATACCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.32
17 5 0.16
18 16 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:45429921 original size:16 final size:16
Alignment explanation
Indices: 45429887--45429935 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
45429877 ACAATAATTA
45429887 TTTTATTAAATTATATAT
1 TTTTATTAAA-T-TATAT
45429905 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
*
45429921 TTTTTTTAAATTATA
1 TTTTATTAAATTATA
45429936 CATATACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 19 0.63
17 1 0.03
18 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:45430435 original size:44 final size:45
Alignment explanation
Indices: 45430411--45431078 Score: 137
Period size: 44 Copynumber: 14.7 Consensus size: 45
45430401 ATTTTAATTC
*
45430411 ACTCCACTGTAATCTCAGGCAGATAGGAT-TACTATCTTCAATCT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTCAATCT
* * * * **
45430455 ACTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTCGGTCT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTCAATCT
** * * * **
45430501 GTTCCACTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTCGGTCT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTCAATCT
** * **
45430547 GTTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGATGT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTCAATC-----T
* * * *
45430596 GATCTACTCTACTGTAA-CTTCAAAG-AGATAAGATCCT-TTAT-TTTAATCC
1 -A-CT-C-C-ACTGTAATC-TC-AGGCAGATAAGAT-CTACTATCTTCAATCT
* * *
45430645 GCTCCACTGTAA-CTTCAGAG-AGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTCAATCT
* **
45430689 A--CCGCTGTAATCTCAGAG-AGATAAGATCT-CTGGCTTCAATCT
1 ACTCCACTGTAATCTCAG-GCAGATAAGATCTACTATCTTCAATCT
* * * * * **
45430731 GCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTTTTCGGTCT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTCAATCT
* * ** * *
45430777 ACTCCCCTGTAACCTCAGGGTGATAAGA-C--CTGA--TGCGATCT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCTACT-ATCTTCAATCT
** * * *
45430818 ACTCTGCTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTTAATCC
1 ACTCCACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTCAATCT
* * * **
45430862 GCTCCACTGTAATCTCAGGGAGATAGGATCT-CTGGCTTCAATCTGATGT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTCAATC-----T
* * *
45430911 GATCTACTCTACTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTTAATCC
1 -A-CT-C-C-ACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTCAATCT
* * *
45430960 GCTCCACTGTAA-CTTCAGAG-AGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTCAATCT
* **
45431004 ACTCCGCTGTAATCTCAGAG-AGATAAGATCT-CTGGCTTCAATCT
1 ACTCCACTGTAATCTCAG-GCAGATAAGATCTACTATCTTCAATCT
* * *
45431048 GCTCCACTGTAACCTCAGGGAGATAAGATCT
1 ACTCCACTGTAATCTCAGGCAGATAAGATCT
45431079 GAAATTCTTG
Statistics
Matches: 480, Mismatches: 87, Indels: 114
0.70 0.13 0.17
Matches are distributed among these distances:
40 1 0.00
41 27 0.06
42 37 0.08
43 15 0.03
44 205 0.43
45 8 0.02
46 115 0.24
47 4 0.01
49 1 0.00
51 3 0.01
52 2 0.00
53 4 0.01
54 49 0.10
55 9 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
ACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTCAATCT
Found at i:45430517 original size:46 final size:46
Alignment explanation
Indices: 45430461--45430577 Score: 234
Period size: 46 Copynumber: 2.5 Consensus size: 46
45430451 ATCTACTCCG
45430461 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
45430507 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
45430553 CTGTAATCTCAGGGAGATAAGATCT
1 CTGTAATCTCAGGGAGATAAGATCT
45430578 CTGGCTTCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (46 bp):
CTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCA
Found at i:45430698 original size:42 final size:42
Alignment explanation
Indices: 45430651--45430761 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
45430641 ATCCGCTCCA
*
45430651 CTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTACCG
1 CTGTAATC-TCAGAGAGATAAGATCT-CTAGCTTCAATCTACCG
* * *
45430693 CTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGAGAGATAAGATCTCTAGCTTCAATCT--ACCG
* *
45430737 CTGTAACCTCAGGGAGATAAGATCT
1 CTGTAATCTCAGAGAGATAAGATCT
45430762 GAAATTTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
42 32 0.54
43 2 0.03
44 25 0.42
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
CTGTAATCTCAGAGAGATAAGATCTCTAGCTTCAATCTACCG
Found at i:45430894 original size:315 final size:313
Alignment explanation
Indices: 45430549--45431206 Score: 1246
Period size: 315 Copynumber: 2.1 Consensus size: 313
45430539 TTCGGTCTGT
45430549 TCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAAC
1 TCCACTGTAATCTCAGGGAGAT-AGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAAC
45430614 TTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
65 TTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
45430679 GCTTCAATCTA-CCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
130 GCTTCAATCTACCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
*
45430743 CCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGACCT
195 CCTCAGGGAGATAAGATCTGAAATTCTT-GGTCTACT-CCCTGTAACCTCAGGGTGATAAGACCT
45430808 GATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
258 GATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
45430864 TCCACTGTAATCTCAGGGAGATAGGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAAC
1 TCCACTGTAATCTCAGGGAGATA-GATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAAC
*
45430929 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
65 TTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA
45430994 GCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
130 GCTTCAATCTAC-CCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTA
45431059 ACCTCAGGGAGATAAGATCTGAAATTCTTGGTCTACTCCCTGTAACCTCAGGGTGATAAGACCTG
194 ACCTCAGGGAGATAAGATCTGAAATTCTTGGTCTACTCCCTGTAACCTCAGGGTGATAAGACCTG
45431124 ATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
259 ATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
45431179 TCCACTGTAATCTCAGGGAGATAGATCT
1 TCCACTGTAATCTCAGGGAGATAGATCT
45431207 GAAATTCTTT
Statistics
Matches: 338, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
314 6 0.02
315 244 0.72
316 8 0.02
317 80 0.24
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (313 bp):
TCCACTGTAATCTCAGGGAGATAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACT
TCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAG
CTTCAATCTACCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAAC
CTCAGGGAGATAAGATCTGAAATTCTTGGTCTACTCCCTGTAACCTCAGGGTGATAAGACCTGAT
GCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
Found at i:45430983 original size:98 final size:98
Alignment explanation
Indices: 45430806--45431003 Score: 328
Period size: 98 Copynumber: 2.0 Consensus size: 98
45430796 GTGATAAGAC
*
45430806 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
45430871 TAATCTCAGGGAGATAGGATCT-CTGGCTTCAAT
66 TAATCTCAGAGAGATAGGAT-TACTAGCTTCAAT
*
45430904 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
45430969 TAA-CTTCAGAGAGATAGGATTACTAGCTTCAAT
66 TAATC-TCAGAGAGATAGGATTACTAGCTTCAAT
45431002 CT
1 CT
45431004 ACTCCGCTGT
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
97 2 0.02
98 92 0.98
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGAGAGATAGGATTACTAGCTTCAAT
Found at i:45431071 original size:88 final size:88
Alignment explanation
Indices: 45430912--45431072 Score: 209
Period size: 88 Copynumber: 1.8 Consensus size: 88
45430902 ATCTGATGTG
* * * * *
45430912 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
45430977 GAGAGATAGGATTACTAGCTTCA
66 GAGAGATAGGATTACTAGCTTCA
* * *
45431000 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCT
*
45431063 CAGGGAGATA
64 CAGAGAGATA
45431073 AGATCTGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 3 0.05
88 59 0.95
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (88 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GAGAGATAGGATTACTAGCTTCA
Found at i:45431102 original size:44 final size:45
Alignment explanation
Indices: 45431044--45431249 Score: 167
Period size: 44 Copynumber: 4.7 Consensus size: 45
45431034 TCTGGCTTCA
*
45431044 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTG
* * * *
45431089 GTCTACTCC-CTGTAACCTCAGGGTGATAAGACCTG--ATGC--G
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTG
** * * ** *
45431129 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTATT-TTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTG
** *
45431173 ATCCGCTCCACTGTAATCTCAGGGAGAT-AGATCTGAAATTCTTTG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTC-TTG
* ** *
45431218 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA
45431250 CCTGTATAAT
Statistics
Matches: 125, Mismatches: 26, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
40 8 0.06
41 19 0.15
42 7 0.06
43 9 0.07
44 45 0.36
45 34 0.27
46 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTG
Found at i:45431157 original size:129 final size:130
Alignment explanation
Indices: 45431000--45431253 Score: 354
Period size: 129 Copynumber: 2.0 Consensus size: 130
45430990 ACTAGCTTCA
* *
45431000 ATCTACTCCGCTGTAATCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCTC
*
45431064 AGGGAGATAAGATCTGAAATTC-TTGGTCTACTCC-CTGTAACCTCAGGGTGATAAGACCTGATG
65 AGGGAGAT-AGATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATG
45431127 CG
129 CG
* * * * *
45431129 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTC
** *
45431193 AGGGAGATAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
65 AGGGAGATAGATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
45431254 TATAATAAAC
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
128 14 0.13
129 70 0.64
130 26 0.24
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (130 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GGGAGATAGATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCG
Found at i:45444047 original size:23 final size:22
Alignment explanation
Indices: 45444021--45444074 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
45444011 TGTATACGCG
45444021 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
45444044 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
45444066 TAC-TAATAA
1 TACATAATAA
45444075 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:45444055 original size:3 final size:3
Alignment explanation
Indices: 45444024--45444093 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
45444014 ATACGCGTAC
* * * *
45444024 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
45444071 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
45444094 CAAGGATATT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:45445086 original size:8 final size:8
Alignment explanation
Indices: 45445073--45445097 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45445063 GGTGTTCGGC
45445073 GCAAGTGG
1 GCAAGTGG
45445081 GCAAGTGG
1 GCAAGTGG
45445089 GCAAGTGG
1 GCAAGTGG
45445097 G
1 G
45445098 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:45445172 original size:18 final size:17
Alignment explanation
Indices: 45445149--45445197 Score: 82
Period size: 18 Copynumber: 2.9 Consensus size: 17
45445139 ACAATAATTA
45445149 TTTTATTAAATTATATAT
1 TTTTATTAAATTATAT-T
45445167 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
45445184 TTTT-TTAAATTATA
1 TTTTATTAAATTATA
45445198 CATATACCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.32
17 5 0.16
18 16 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:45445183 original size:16 final size:16
Alignment explanation
Indices: 45445149--45445197 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
45445139 ACAATAATTA
45445149 TTTTATTAAATTATATAT
1 TTTTATTAAA-T-TATAT
45445167 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
*
45445183 TTTTTTTAAATTATA
1 TTTTATTAAATTATA
45445198 CATATACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 19 0.63
17 1 0.03
18 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:45448461 original size:21 final size:21
Alignment explanation
Indices: 45448420--45448462 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
45448410 AATAAAGTAG
*
45448420 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
45448441 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
45448462 A
1 A
45448463 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:45448491 original size:10 final size:10
Alignment explanation
Indices: 45448478--45448560 Score: 54
Period size: 10 Copynumber: 8.8 Consensus size: 10
45448468 ATATAAAAAT
45448478 AATTATATTA
1 AATTATATTA
*
45448488 AATTTTATTA
1 AATTATATTA
45448498 AATTATA-T-
1 AATTATATTA
* *
45448506 ATTTTTATTA
1 AATTATATTA
45448516 AATTATATT-
1 AATTATATTA
*
45448525 --TAATATT-
1 AATTATATTA
*
45448532 AATTATTTTA
1 AATTATATTA
45448542 AATTAT-TTA
1 AATTATATTA
45448551 TATATTATAT
1 -A-ATTATAT
45448561 ATTATGATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
7 6 0.11
8 5 0.09
9 10 0.18
10 29 0.52
11 5 0.09
12 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTATATTA
Found at i:45448607 original size:95 final size:98
Alignment explanation
Indices: 45448508--45448716 Score: 370
Period size: 98 Copynumber: 2.2 Consensus size: 98
45448498 AATTATATAT
45448508 TTTTATTAAATTATATTTAATATTAATTATTTTAAA-T-TATTTATA-TATTATATATTATGATT
1 TTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTATAGTATTATATATTATGATT
45448570 TTAGTAAATTCATATAAGAATAATTATATTGAA
66 TTAGTAAATTCATATAAGAATAATTATATTGAA
*
45448603 TTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTATAGTCTTATATATTATGATT
1 TTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTATAGTATTATATATTATGATT
*
45448668 TTAGTAAATTCATATAAGAATAATTATCTTGAA
66 TTAGTAAATTCATATAAGAATAATTATATTGAA
*
45448701 TTTTATTAAAATATAT
1 TTTTATTAAATTATAT
45448717 ATTTTATTAA
Statistics
Matches: 108, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
95 36 0.33
96 1 0.01
97 8 0.07
98 63 0.58
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (98 bp):
TTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTATAGTATTATATATTATGATT
TTAGTAAATTCATATAAGAATAATTATATTGAA
Found at i:45448637 original size:26 final size:27
Alignment explanation
Indices: 45448595--45448647 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
45448585 AAGAATAATT
45448595 ATATTGAATTTTATTAAATTATATTTA
1 ATATTGAATTTTATTAAATTATATTTA
45448622 ATATT-AATTATT-TTAAATTATATTTA
1 ATATTGAATT-TTATTAAATTATATTTA
45448648 TAGTCTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
ATATTGAATTTTATTAAATTATATTTA
Found at i:45448730 original size:16 final size:17
Alignment explanation
Indices: 45448700--45448732 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
45448690 ATTATCTTGA
45448700 ATTTTATTAAAATATAT
1 ATTTTATTAAAATATAT
45448717 ATTTTATT-AAATATAT
1 ATTTTATTAAAATATAT
45448733 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45448759 original size:98 final size:96
Alignment explanation
Indices: 45448508--45448746 Score: 333
Period size: 98 Copynumber: 2.5 Consensus size: 96
45448498 AATTATATAT
* * *
45448508 TTTTATTAAATTATATTTAATATTAATTATTTTAAAT--TATTTATATATTATATATTATGATTT
1 TTTTATTAAATTATATTT-ATATTAAATATTTTAAATAATAATTATATCTTATATATTATGATTT
45448571 TAGTAAATTCATATAAGAATAATTATATTGAA
65 TAGTAAATTCATATAAGAATAATTATATTGAA
* * *
45448603 TTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTATAGTCTTATATATTATGATT
1 TTTTATTAAATTATATTT-ATATTAAATATTTTAAATAATAATTATA-TCTTATATATTATGATT
*
45448668 TTAGTAAATTCATATAAGAATAATTATCTTGAA
64 TTAGTAAATTCATATAAGAATAATTATATTGAA
45448701 TTTTATTAAAATATATATTT-TATTAAATATATTT-AATAATAATTAT
1 TTTTATT-AAAT-TATATTTATATTAAATAT-TTTAAATAATAATTAT
45448747 TTTAAATTAT
Statistics
Matches: 133, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
95 37 0.28
97 8 0.06
98 74 0.56
99 7 0.05
100 7 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (96 bp):
TTTTATTAAATTATATTTATATTAAATATTTTAAATAATAATTATATCTTATATATTATGATTTT
AGTAAATTCATATAAGAATAATTATATTGAA
Found at i:45448804 original size:115 final size:117
Alignment explanation
Indices: 45448602--45448834 Score: 382
Period size: 115 Copynumber: 2.0 Consensus size: 117
45448592 ATTATATTGA
* *
45448602 ATTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTATAGTCTTATATATTATGAT
1 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTATAGTATTATATATTATGAT
*
45448667 TTTAGTAAATTCATATAAGAATAATT-ATCTT-GAATTTTATTAAAATATAT
66 TTTAGTAAATTCATATAAGAATAATTAATATTAGAATTTTATTAAAATATAT
45448717 ATTTTATTAAA-TATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
1 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTTATAGTATTATATATTATGA
* *
45448781 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
65 TTTTAGTAAATTCATATAAGAATAATTAATATT-AGAATTTTATTAAAATATAT
45448835 TTAATAATTA
Statistics
Matches: 109, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
114 29 0.27
115 58 0.53
116 4 0.04
118 18 0.17
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (117 bp):
ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATAATTAATATTAGAATTTTATTAAAATATAT
Found at i:45448923 original size:102 final size:102
Alignment explanation
Indices: 45448508--45448956 Score: 605
Period size: 102 Copynumber: 4.4 Consensus size: 102
45448498 AATTATATAT
45448508 TTTTATTAAATTATATTTAAT-ATTAATTATTTTAAA-T-TATTTATA-TATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATTAATTATTTTAAATTATATTTATAGTATTATATATTATGAT
* *
45448569 TTTAGTAAATTCATATAAGAATAATT-ATATT--GAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAAAA
*
45448603 TTTTATTAAATTATATTTAAT-ATTAATTATTTTAAATTATATTTATAGTCTTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATTAATTATTTTAAATTATATTTATAGTATTATATATTATGAT
45448667 TTTAGTAAATTCATATAAGAATAATTATCTTGAATTTTATTAAAATA
66 TTTAGTAAATTCATATAAG---AA-TAT-TT-AA---TATTAAAA-A
* * *
45448714 TATATTTTATTAAATATATTTAATAA-TAATTATTTTAAATTATATTTTATAGTATTATATATTA
1 T-TTTATTA--AATTATATTTAATAATTAATTATTTTAAATTATA-TTTATAGTATTATATATTA
*
45448778 TGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
62 TGATTTTAGTAAATTCATATAAGAATATTTAATATTAAAAA
45448819 TTTTATTAAATTATATTTAATAATT-ATTATTTTAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAATTAATTATTTTAAATTATA-TTTATAGTATTATATATTATGA
45448883 TTTTAGTAAATTCATATAAGAATATTTAATATTAAAAA
65 TTTTAGTAAATTCATATAAGAATATTTAATATTAAAAA
* *
45448921 TTTTATTAAATTATATTTAATAA-AAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATTAATTATTTTAAA
45448957 ATATGATTAA
Statistics
Matches: 317, Mismatches: 14, Indels: 39
0.86 0.04 0.11
Matches are distributed among these distances:
95 36 0.11
96 1 0.00
97 8 0.03
98 34 0.11
101 2 0.01
102 125 0.39
103 3 0.01
104 5 0.02
105 3 0.01
106 7 0.02
108 4 0.01
109 2 0.01
110 3 0.01
111 5 0.02
112 7 0.02
114 30 0.09
115 42 0.13
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATTAATTATTTTAAATTATATTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAAAA
Found at i:45449185 original size:45 final size:44
Alignment explanation
Indices: 45449096--45449188 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
45449086 ATTACAACAT
45449096 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
45449140 CATTCCATTCAACCAAACA-ATTGAATTACTATTAC-GTCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGT-TCTATTC
45449185 CATT
1 CATT
45449189 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
43 1 0.02
44 24 0.53
45 20 0.44
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:45449196 original size:16 final size:16
Alignment explanation
Indices: 45449177--45449209 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45449167 ACTATTACGT
45449177 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
45449193 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
45449209 C
1 C
45449210 GAACCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:45454717 original size:9 final size:9
Alignment explanation
Indices: 45454700--45454744 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
45454690 TTTTTTCTCC
45454700 AAAACCCTA
1 AAAACCCTA
*
45454709 AAAATCCTA
1 AAAACCCTA
45454718 AAAACCCT-
1 AAAACCCTA
45454726 AAAACCCT-
1 AAAACCCTA
45454734 -AAACCCTA
1 AAAACCCTA
45454742 AAA
1 AAA
45454745 TCCAAAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.22
8 8 0.25
9 17 0.53
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAACCCTA
Found at i:45454720 original size:8 final size:8
Alignment explanation
Indices: 45454700--45454754 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
45454690 TTTTTTCTCC
45454700 AAAACCCT
1 AAAACCCT
*
45454708 AAAAATCCT
1 -AAAACCCT
45454717 AAAAACCCT
1 -AAAACCCT
45454726 AAAACCCT
1 AAAACCCT
45454734 -AAACCCT
1 AAAACCCT
* *
45454741 AAAATCCA
1 AAAACCCT
45454749 AAAACC
1 AAAACC
45454755 TACAAGTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
7 7 0.17
8 18 0.45
9 15 0.38
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAACCCT
Found at i:45455112 original size:29 final size:29
Alignment explanation
Indices: 45455051--45455113 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
45455041 GATAATGCCA
**
45455051 ATTTTTTTAATATTTATGGGATTAGGTTG
1 ATTTTTTTAATATTTATGGGATTAAATTG
*
45455080 -TTTTTTTAATATTTGTGGGATTAAATTG
1 ATTTTTTTAATATTTATGGGATTAAATTG
45455108 ATTTTT
1 ATTTTT
45455114 GAAAATGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (29 bp):
ATTTTTTTAATATTTATGGGATTAAATTG
Found at i:45456782 original size:29 final size:28
Alignment explanation
Indices: 45456736--45456800 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
45456726 TCAATGCGTT
* * *
45456736 TTCAAAAATCGGTCTAATCCCATAAATA
1 TTCAAAAAGCGGCCTAATCCAATAAATA
45456764 TTCAATAAAGCGGCCTAATCCAATAAATA
1 TTCAA-AAAGCGGCCTAATCCAATAAATA
*
45456793 TTAAAAAA
1 TTCAAAAA
45456801 AATAGGCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (28 bp):
TTCAAAAAGCGGCCTAATCCAATAAATA
Found at i:45457152 original size:21 final size:21
Alignment explanation
Indices: 45457127--45457168 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
45457117 TATTCTTTAA
45457127 AAATACT-AGTATTTTTAGTTG
1 AAATACTCA-TATTTTTAGTTG
45457148 AAATACTCATATTTTTAGTTG
1 AAATACTCATATTTTTAGTTG
45457169 TATACACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (21 bp):
AAATACTCATATTTTTAGTTG
Found at i:45471639 original size:41 final size:41
Alignment explanation
Indices: 45471578--45471850 Score: 359
Period size: 41 Copynumber: 6.7 Consensus size: 41
45471568 TTGGAGTGTA
*
45471578 AAAC-GGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * *
45471618 AAACAGGGGCACGTGTGTGCAATTCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* *
45471659 AAATAGGGGCACGTATGTGCAAATCAAGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * * * * * * *
45471700 AAATAAGGGAACGTATGTGCAATTTAGGGGTATCAAAGTCC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* *
45471741 AAACAGAGGCACGTATGTGCAATTCAAGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
*
45471782 AAATAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * *
45471823 AAACAAGGGCACATATGTGTAATTCAAG
1 AAACAGGGGCACGTATGTGCAATTCAAG
45471851 AAATAATTAA
Statistics
Matches: 202, Mismatches: 30, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
40 4 0.02
41 198 0.98
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
Found at i:45471647 original size:21 final size:21
Alignment explanation
Indices: 45471582--45471807 Score: 76
Period size: 20 Copynumber: 11.0 Consensus size: 21
45471572 AGTGTAAAAC
45471582 GGGGCACGTATGTGCAATTCA
1 GGGGCACGTATGTGCAATTCA
* * * *
45471603 GGGGTACCG-AAGTACAA-ACA
1 GGGGCA-CGTATGTGCAATTCA
*
45471623 GGGGCACGTGTGTGCAATTCA
1 GGGGCACGTATGTGCAATTCA
* * * *
45471644 GGGGTATCG-AAGTACAAAT-A
1 GGGGCA-CGTATGTGCAATTCA
*
45471664 GGGGCACGTATGTGCAAATCA
1 GGGGCACGTATGTGCAATTCA
* * * * *
45471685 AGGGTACCG-AAGTACAAAT-A
1 GGGGCA-CGTATGTGCAATTCA
* * *
45471705 AGGGAACGTATGTGCAATTTA
1 GGGGCACGTATGTGCAATTCA
* * * * *
45471726 GGGGTATC-AAAGTCCAA-ACA
1 GGGGCA-CGTATGTGCAATTCA
*
45471746 GAGGCACGTATGTGCAATTCA
1 GGGGCACGTATGTGCAATTCA
* * * * *
45471767 AGGGTATCG-AAGTACAAAT-A
1 GGGGCA-CGTATGTGCAATTCA
45471787 GGGGCACGTATGTGCAATTCA
1 GGGGCACGTATGTGCAATTCA
45471808 AGGGTACCGA
Statistics
Matches: 141, Mismatches: 49, Indels: 30
0.64 0.22 0.14
Matches are distributed among these distances:
19 9 0.06
20 62 0.44
21 61 0.43
22 9 0.06
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.20
Consensus pattern (21 bp):
GGGGCACGTATGTGCAATTCA
Found at i:45471809 original size:123 final size:123
Alignment explanation
Indices: 45471587--45471848 Score: 416
Period size: 123 Copynumber: 2.1 Consensus size: 123
45471577 AAAACGGGGC
* * * *
45471587 ACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTGTGTGCAATTCAGGGGTATC
1 ACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGAGGCACGTATGTGCAATTCAAGGGTATC
*
45471652 GAAGTACAAATAGGGGCACGTATGTGCAAATCAAGGGTACCGAAGTACAAATAAGGGA
66 GAAGTACAAATAGGGGCACGTATGTGCAAATCAAGGGTACCGAAGTACAAACAAGGGA
* * *
45471710 ACGTATGTGCAATTTAGGGGTATCAAAGTCCAAACAGAGGCACGTATGTGCAATTCAAGGGTATC
1 ACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGAGGCACGTATGTGCAATTCAAGGGTATC
* *
45471775 GAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAACAAGGGC
66 GAAGTACAAATAGGGGCACGTATGTGCAAATCAAGGGTACCGAAGTACAAACAAGGGA
* *
45471833 ACATATGTGTAATTCA
1 ACGTATGTGCAATTCA
45471849 AGAAATAATT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 126 1.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (123 bp):
ACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGAGGCACGTATGTGCAATTCAAGGGTATC
GAAGTACAAATAGGGGCACGTATGTGCAAATCAAGGGTACCGAAGTACAAACAAGGGA
Found at i:45486747 original size:4 final size:4
Alignment explanation
Indices: 45486725--45486757 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
45486715 AACAAGAGAA
*
45486725 GAAT GAA- GAAT GGAT GAAT GAAT GAAT GAAT GA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GA
45486758 TGGATGGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (4 bp):
GAAT
Found at i:45486747 original size:12 final size:12
Alignment explanation
Indices: 45486727--45486763 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45486717 CAAGAGAAGA
45486727 ATGAA-GAATGG
1 ATGAATGAATGG
*
45486738 ATGAATGAATGA
1 ATGAATGAATGG
45486750 ATGAATG-ATGG
1 ATGAATGAATGG
45486761 ATG
1 ATG
45486764 GATGGATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGAATGAATGG
Found at i:45486760 original size:23 final size:23
Alignment explanation
Indices: 45486725--45486773 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
45486715 AACAAGAGAA
45486725 GAATGAAGAATGGATGAATGAAT
1 GAATGAAGAATGGATGAATGAAT
* *
45486748 GAATGAATG-ATGGATGGATGGAT
1 GAATGAA-GAATGGATGAATGAAT
45486771 GAA
1 GAA
45486774 GGATATGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (23 bp):
GAATGAAGAATGGATGAATGAAT
Found at i:45486767 original size:8 final size:8
Alignment explanation
Indices: 45486732--45486777 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
45486722 GAAGAATGAA
45486732 GAATGGAT
1 GAATGGAT
*
45486740 GAATGAAT
1 GAATGGAT
*
45486748 GAATGAAT
1 GAATGGAT
45486756 G-ATGGAT
1 GAATGGAT
*
45486763 GGATGGAT
1 GAATGGAT
45486771 GAA-GGAT
1 GAATGGAT
45486778 ATGGGAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 10 0.29
8 24 0.71
ACGTcount: A:0.39, C:0.00, G:0.37, T:0.24
Consensus pattern (8 bp):
GAATGGAT
Found at i:45490730 original size:125 final size:126
Alignment explanation
Indices: 45490590--45490830 Score: 414
Period size: 126 Copynumber: 1.9 Consensus size: 126
45490580 TAATTTTTAA
*
45490590 AAAAAATCTGAAAACTTAAAAATTATCAAAAATTT-AAAAAGTGTAAAATTTATTTAATACTAAA
1 AAAAAATCTAAAAACTTAAAAATTATCAAAAATTTAAAAAAGTGTAAAATTTATTTAATACTAAA
45490654 AATTATAATAATATTCTATAATTTTTAAAAATTTTGAA-AAATTAATTAATTTTTTACCTAT
66 AATTATAATAATATTCTATAATTTTTAAAAATTTT-AAGAAATTAATTAATTTTTTACCTAT
* *
45490715 AAAAAATCTAAAAACTTAAAAATTATCAAAATTTTAAAAAAGTGTAAAGTTTATTTAATACTAAA
1 AAAAAATCTAAAAACTTAAAAATTATCAAAAATTTAAAAAAGTGTAAAATTTATTTAATACTAAA
* *
45490780 AATTATAATAATATTCTATAATTTTTAGATATTTTAAGAAATTAATTAATT
66 AATTATAATAATATTCTATAATTTTTAAAAATTTTAAGAAATTAATTAATT
45490831 GCTTACGTAT
Statistics
Matches: 109, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
125 35 0.32
126 74 0.68
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (126 bp):
AAAAAATCTAAAAACTTAAAAATTATCAAAAATTTAAAAAAGTGTAAAATTTATTTAATACTAAA
AATTATAATAATATTCTATAATTTTTAAAAATTTTAAGAAATTAATTAATTTTTTACCTAT
Found at i:45500575 original size:168 final size:168
Alignment explanation
Indices: 45500297--45500618 Score: 644
Period size: 168 Copynumber: 1.9 Consensus size: 168
45500287 AGTTTTATTG
45500297 TTATTATTAAATTGAATTATGATCACAAAGTTCAGTCATTTATGCAAACACATAGCAAACTTATA
1 TTATTATTAAATTGAATTATGATCACAAAGTTCAGTCATTTATGCAAACACATAGCAAACTTATA
45500362 GCTGTAAATGGAACAAATTTCTATCTCTTTCACCTAAATTATGTACTTTTCACTTGTTTATGAAC
66 GCTGTAAATGGAACAAATTTCTATCTCTTTCACCTAAATTATGTACTTTTCACTTGTTTATGAAC
45500427 AAAAACAACAACCCATATCCATGTTCACAAAAATTTGT
131 AAAAACAACAACCCATATCCATGTTCACAAAAATTTGT
45500465 TTATTATTAAATTGAATTATGATCACAAAGTTCAGTCATTTATGCAAACACATAGCAAACTTATA
1 TTATTATTAAATTGAATTATGATCACAAAGTTCAGTCATTTATGCAAACACATAGCAAACTTATA
45500530 GCTGTAAATGGAACAAATTTCTATCTCTTTCACCTAAATTATGTACTTTTCACTTGTTTATGAAC
66 GCTGTAAATGGAACAAATTTCTATCTCTTTCACCTAAATTATGTACTTTTCACTTGTTTATGAAC
45500595 AAAAACAACAACCCATATCCATGT
131 AAAAACAACAACCCATATCCATGT
45500619 AAGAGAAGGG
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 154 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (168 bp):
TTATTATTAAATTGAATTATGATCACAAAGTTCAGTCATTTATGCAAACACATAGCAAACTTATA
GCTGTAAATGGAACAAATTTCTATCTCTTTCACCTAAATTATGTACTTTTCACTTGTTTATGAAC
AAAAACAACAACCCATATCCATGTTCACAAAAATTTGT
Found at i:45501642 original size:22 final size:22
Alignment explanation
Indices: 45501613--45501662 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
45501603 CAACTAAATC
*
45501613 ATTTCTCTC-AATTTCTCTCTA
1 ATTTCTCTCAAATTTCTCTCAA
45501634 ATATTCTCTCAAATTTCTCTCAA
1 AT-TTCTCTCAAATTTCTCTCAA
45501657 ATTTCT
1 ATTTCT
45501663 ATTTAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 11 0.42
23 13 0.50
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTCTCTCAAATTTCTCTCAA
Found at i:45501653 original size:11 final size:11
Alignment explanation
Indices: 45501613--45501662 Score: 75
Period size: 11 Copynumber: 4.5 Consensus size: 11
45501603 CAACTAAATC
45501613 ATTTCTCTC-A
1 ATTTCTCTCAA
*
45501623 ATTTCTCTCTA
1 ATTTCTCTCAA
45501634 ATATTCTCTCAA
1 AT-TTCTCTCAA
45501646 ATTTCTCTCAA
1 ATTTCTCTCAA
45501657 ATTTCT
1 ATTTCT
45501663 ATTTAAAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
10 9 0.24
11 18 0.49
12 10 0.27
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTCTCTCAA
Found at i:45507406 original size:126 final size:125
Alignment explanation
Indices: 45507180--45507593 Score: 677
Period size: 126 Copynumber: 3.3 Consensus size: 125
45507170 CCAAACATGC
* *
45507180 GCTACTGTAGCAAAAGC-GCGTCCACTTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCC
1 GCTACTGTAGCAAAA-CTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCC
** *
45507244 TGCTTAAAGAATTTTTGACAGTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
65 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT-AGGA
45507306 GCTACTGTAGCAAAACTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAACTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
45507371 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTTAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTA-TTTTTTAGGA
* * *
45507432 GCTACTGTAGCAAAACCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTGACAAAGCATTCT
1 GCTACTGTAGCAAAACTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
45507497 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAGGA
* * * *
45507557 TCTACTGTAGCAAAAGTGCGTCCCCGTAGGAGCTTCT
1 GCTACTGTAGCAAAACTGCGTCCACGTGGGAGCTTCT
45507594 GTAAATTAAC
Statistics
Matches: 271, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
125 43 0.16
126 222 0.82
127 6 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (125 bp):
GCTACTGTAGCAAAACTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAGGA
Found at i:45507747 original size:97 final size:95
Alignment explanation
Indices: 45507628--45507909 Score: 329
Period size: 97 Copynumber: 2.9 Consensus size: 95
45507618 AGTAACCTTA
* * *
45507628 AACCCCAAACCCCAATTTATTTGAGTTTTTACTT-AAAAACCCTAAACATTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTT-CTTAAAAAACCATAAACATTAAACCCTAATCTAA
45507692 TTTTATAAAAAATTATAATTAATTTACTCAAGT
64 TTTT-TAAAAAATTATAATTAATTTACTCAAGT
* * *
45507725 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAAAACCTTTAAC-TCTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGATTTTT-CTTAAAAAACCATAAACAT-TAAACCCTAATCTAA
* *
45507789 TTTTTTTAAAAAAAT-TAATTAAATTACTCAAGT
64 --TTTTTAAAAAATTATAATTAATTTACTCAAGT
* * ** *
45507822 AACCCTAAACCCTAATTTAATTGATTTTTCTTAAAAAAACAATAAACAAGAAA-CCTAATCCAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTCTT-AAAAAACCATAAACATTAAACCCTAATCTAAT
* *
45507886 TTTGAAAAATTTATAATTAATTTA
65 TTTTAAAAAATTATAATTAATTTA
45507910 ATTGACAAAC
Statistics
Matches: 158, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
94 10 0.06
95 10 0.06
96 21 0.13
97 105 0.66
98 8 0.05
99 4 0.03
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCTTAAAAAACCATAAACATTAAACCCTAATCTAATT
TTTAAAAAATTATAATTAATTTACTCAAGT
Found at i:45508193 original size:14 final size:14
Alignment explanation
Indices: 45508174--45508201 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45508164 TCCCTGACAT
45508174 CGCGCTGACGTGGA
1 CGCGCTGACGTGGA
45508188 CGCGCTGACGTGGA
1 CGCGCTGACGTGGA
45508202 AATAGGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.43, T:0.14
Consensus pattern (14 bp):
CGCGCTGACGTGGA
Found at i:45510770 original size:18 final size:18
Alignment explanation
Indices: 45510747--45510804 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
45510737 AGGACTGAAC
*
45510747 TTGGCGAACTCTCCCATA
1 TTGGCGAACTCTCCAATA
45510765 TTGGCGAA-TCATCCAATA
1 TTGGCGAACTC-TCCAATA
* **
45510783 TTGGTGAACTCTATAATA
1 TTGGCGAACTCTCCAATA
45510801 TTGG
1 TTGG
45510805 TGGACTCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (18 bp):
TTGGCGAACTCTCCAATA
Found at i:45510948 original size:24 final size:24
Alignment explanation
Indices: 45510921--45510968 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
45510911 TAAAACTTTA
45510921 TTAGCATA-ATATATTTGTTATTTC
1 TTAGCATACA-ATATTTGTTATTTC
*
45510945 TTAGCATACAATCTTTGTTATTTC
1 TTAGCATACAATATTTGTTATTTC
45510969 CTTATGTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.52
Consensus pattern (24 bp):
TTAGCATACAATATTTGTTATTTC
Found at i:45515406 original size:24 final size:24
Alignment explanation
Indices: 45515377--45515423 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45515367 CATTTTTAGA
45515377 ATATTTAG-AATTTATTAGCATAAT
1 ATATTT-GTAATTTATTAGCATAAT
*
45515401 ATATTTGTTATTTATTAGCATAA
1 ATATTTGTAATTTATTAGCATAA
45515424 AATCTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (24 bp):
ATATTTGTAATTTATTAGCATAAT
Found at i:45538271 original size:24 final size:23
Alignment explanation
Indices: 45538212--45538274 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
45538202 ATTTACTCAT
45538212 ATAATAAATTATTAATATAATTTA
1 ATAATAAATT-TTAATATAATTTA
* * * *
45538236 TTAAAAATATTTTAATTTTATTTTA
1 ATAATAA-ATTTTAA-TATAATTTA
45538261 ATAATAAATTTTAA
1 ATAATAAATTTTAA
45538275 AAATAATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 16 0.52
25 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAATAAATTTTAATATAATTTA
Found at i:45538273 original size:13 final size:14
Alignment explanation
Indices: 45538255--45538296 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
45538245 TTTTAATTTT
45538255 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
45538268 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
45538283 ATTTTAAATAATAT
1 ATTTT-AATAATAT
45538297 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:45538281 original size:16 final size:16
Alignment explanation
Indices: 45538259--45538295 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
45538249 AATTTTATTT
45538259 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
45538276 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
45538291 TAATA
1 TAATA
45538296 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:45541037 original size:9 final size:10
Alignment explanation
Indices: 45541023--45541069 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
45541013 AAAAGTGATC
*
45541023 GAAAAA-ATG
1 GAAAAATATA
45541032 GAAAAATATA
1 GAAAAATATA
*
45541042 GAAAAATAAA
1 GAAAAATATA
*
45541052 GAAAAATAAA
1 GAAAAATATA
45541062 GAAAAATA
1 GAAAAATA
45541070 AAAAATTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 6 0.17
10 29 0.83
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (10 bp):
GAAAAATATA
Found at i:45541045 original size:10 final size:10
Alignment explanation
Indices: 45541032--45541071 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
45541022 CGAAAAAATG
*
45541032 GAAAAATATA
1 GAAAAATAAA
45541042 GAAAAATAAA
1 GAAAAATAAA
45541052 GAAAAATAAA
1 GAAAAATAAA
45541062 GAAAAATAAA
1 GAAAAATAAA
45541072 AAATTTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (10 bp):
GAAAAATAAA
Found at i:45541507 original size:10 final size:10
Alignment explanation
Indices: 45541485--45541530 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
45541475 AAAAGTGATC
*
45541485 GAAAAA-ATG
1 GAAAAATATA
45541494 GAAAAATATA
1 GAAAAATATA
*
45541504 GAAAAATA-C
1 GAAAAATATA
*
45541513 GAAAAATAAA
1 GAAAAATATA
45541523 GAAAAATA
1 GAAAAATA
45541531 AAAAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.72, C:0.02, G:0.13, T:0.13
Consensus pattern (10 bp):
GAAAAATATA
Found at i:45541509 original size:19 final size:20
Alignment explanation
Indices: 45541485--45541528 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
45541475 AAAAGTGATC
* *
45541485 GAAAAAAT-GGAAAAATATA
1 GAAAAAATACGAAAAATAAA
45541504 G-AAAAATACGAAAAATAAA
1 GAAAAAATACGAAAAATAAA
45541523 GAAAAA
1 GAAAAA
45541529 TAAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (20 bp):
GAAAAAATACGAAAAATAAA
Found at i:45541529 original size:19 final size:19
Alignment explanation
Indices: 45541494--45541530 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45541484 CGAAAAAATG
*
45541494 GAAAAATATAGAAAAATAC
1 GAAAAATAAAGAAAAATAC
45541513 GAAAAATAAAGAAAAATA
1 GAAAAATAAAGAAAAATA
45541531 AAAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.11, T:0.14
Consensus pattern (19 bp):
GAAAAATAAAGAAAAATAC
Found at i:45541531 original size:10 final size:10
Alignment explanation
Indices: 45541494--45541532 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
45541484 CGAAAAAATG
*
45541494 GAAAAATATA
1 GAAAAATAAA
*
45541504 GAAAAAT-AC
1 GAAAAATAAA
45541513 GAAAAATAAA
1 GAAAAATAAA
45541523 GAAAAATAAA
1 GAAAAATAAA
45541533 AAATTTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (10 bp):
GAAAAATAAA
Found at i:45563876 original size:60 final size:54
Alignment explanation
Indices: 45563798--45563945 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 54
45563788 CATCTTCAGA
* * * *
45563798 TGAAGTGTTTTCTTCATCAAAATTATGACTAGTGACTTTTATGTCTTCATCCTGATCCGT
1 TGAAGTTTTTTCTTCATCAAAATTATAACTAGTAACCTTTA-----T-ATCCTGATCCGT
* *
45563858 TGAAGTTTTTTCTTCATC-AGATTGATAACTAGTAACCTTTATATCCTGATCTGT
1 TGAAGTTTTTTCTTCATCAAAATT-ATAACTAGTAACCTTTATATCCTGATCCGT
* *
45563912 TGAAGTTTTTTCTTCATCAGATTTATAACTAGTA
1 TGAAGTTTTTTCTTCATCAAAATTATAACTAGTA
45563946 GCTTCTAAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
54 39 0.51
55 3 0.04
59 4 0.05
60 31 0.40
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (54 bp):
TGAAGTTTTTTCTTCATCAAAATTATAACTAGTAACCTTTATATCCTGATCCGT
Found at i:45566779 original size:25 final size:25
Alignment explanation
Indices: 45566750--45566811 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 25
45566740 AATTTGGTTT
** *
45566750 ATTTCGTACCAAAAAATTCCTTACC
1 ATTTCGTACCAAAAAACCCCATACC
45566775 ATTTCGTACC--AAAACCCCATACC
1 ATTTCGTACCAAAAAACCCCATACC
45566798 ATTTCGTACCAAAA
1 ATTTCGTACCAAAA
45566812 CCAACTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 20 0.62
25 12 0.38
ACGTcount: A:0.37, C:0.31, G:0.05, T:0.27
Consensus pattern (25 bp):
ATTTCGTACCAAAAAACCCCATACC
Found at i:45572005 original size:71 final size:72
Alignment explanation
Indices: 45571867--45572006 Score: 173
Period size: 71 Copynumber: 2.0 Consensus size: 72
45571857 TAGCAACCTG
* *
45571867 AAAAGAAAGAAATCCACATACCAACAACAAAGATTGGCAACGTGGAAGTCATCATCAAATCCATG
1 AAAAGAAAGAAATCCACATACCAACAAAAAAGATTGGCAACGTGGAAGTCATCATCAAATACATG
45571932 ATGAGAC
66 ATGAGAC
* *
45571939 AAAAG-AAGAAATCCAGAT-GCAGACAAAAAAGTATT-GCAACGTGGAAG-CTATCATCAAA-AC
1 AAAAGAAAGAAATCCACATACCA-ACAAAAAAG-ATTGGCAACGTGGAAGTC-ATCATCAAATAC
45571999 ATTGATGA
63 A-TGATGA
45572007 CGCAAGCAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
70 5 0.08
71 47 0.78
72 8 0.13
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (72 bp):
AAAAGAAAGAAATCCACATACCAACAAAAAAGATTGGCAACGTGGAAGTCATCATCAAATACATG
ATGAGAC
Found at i:45572034 original size:27 final size:27
Alignment explanation
Indices: 45572003--45572085 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
45571993 CAAAACATTG
*
45572003 ATGACGCAAGCAGTTATGGAAGCAACC
1 ATGACACAAGCAGTTATGGAAGCAACC
* *
45572030 CTGACACAAACAGTTATGGAAGCAACC
1 ATGACACAAGCAGTTATGGAAGCAACC
* * *
45572057 ATGACAAAAGCAGTGATGGAAGCAGCC
1 ATGACACAAGCAGTTATGGAAGCAACC
45572084 AT
1 AT
45572086 TAACTCAAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (27 bp):
ATGACACAAGCAGTTATGGAAGCAACC
Found at i:45572939 original size:30 final size:30
Alignment explanation
Indices: 45572882--45572939 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
45572872 TAACTAATGT
* *
45572882 TAATAATAAATTAGATCAGGTTATAAATAA
1 TAATAATAAAATAGATCAGGATATAAATAA
*
45572912 TAATAATAATAATA-ATCAGGATGTAAAT
1 TAATAATAA-AATAGATCAGGATATAAAT
45572940 TTAGGTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.33
Consensus pattern (30 bp):
TAATAATAAAATAGATCAGGATATAAATAA
Found at i:45573390 original size:54 final size:54
Alignment explanation
Indices: 45573305--45573411 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
45573295 ACAGAAAACT
* * *
45573305 TAAAAGCTACTAGTTATAAATCTGATGAAGAAAAAACTTCAATAGATCAGGATA
1 TAAAAGCTACTAGTTATAAATCTGATAAAGAAAAAACTTCAACAAATCAGGATA
* *
45573359 TAAAAGTTACTAGTTATCAATCTGATAAAGAAAAAACTTCAACAAATCAGGAT
1 TAAAAGCTACTAGTTATAAATCTGATAAAGAAAAAACTTCAACAAATCAGGAT
45573412 GAAGGCATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.26
Consensus pattern (54 bp):
TAAAAGCTACTAGTTATAAATCTGATAAAGAAAAAACTTCAACAAATCAGGATA
Found at i:45573443 original size:60 final size:53
Alignment explanation
Indices: 45573305--45573459 Score: 150
Period size: 54 Copynumber: 2.8 Consensus size: 53
45573295 ACAGAAAACT
* * *
45573305 TAAAAG-CTACTAGTTATAAATCTGATGAAGAAAAAACTTCAATAGATCAGGATA
1 TAAAAGTC-ACTAGTTAT-AATCTGATAAAGAAAAAACTTCAACAAATCAGGATA
*
45573359 TAAAAGTTACTAGTTATCAATCTGATAAAGAAAAAACTTCAACAAATCAGGATGAAGGCA
1 TAAAAGTCACTAGTTAT-AATCTGATAAAGAAAAAACTTCAACAAATCAGGAT------A
* * *
45573419 TAAAGGTCACTAGTCATAATTCTGATAAAGAAAACACTTCA
1 TAAAAGTCACTAGTTATAA-TCTGATAAAGAAAAAACTTCA
45573460 TTTGAAGATG
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
54 47 0.56
59 2 0.02
60 35 0.42
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (53 bp):
TAAAAGTCACTAGTTATAATCTGATAAAGAAAAAACTTCAACAAATCAGGATA
Found at i:45574717 original size:19 final size:19
Alignment explanation
Indices: 45574695--45574738 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
45574685 TAAAAAATAT
45574695 AAAAATAAT-AAAAACAGAA
1 AAAAATAATGAAAAACA-AA
*
45574714 AAAAAT-ATGAAAAACAAC
1 AAAAATAATGAAAAACAAA
45574732 AAAAATA
1 AAAAATA
45574739 TGATTTCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (19 bp):
AAAAATAATGAAAAACAAA
Found at i:45574740 original size:18 final size:19
Alignment explanation
Indices: 45574695--45574741 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
45574685 TAAAAAATAT
45574695 AAAAATAAT-AAAAACAGAA
1 AAAAAT-ATGAAAAACAGAA
*
45574714 AAAAATATGAAAAACA-AC
1 AAAAATATGAAAAACAGAA
45574732 AAAAATATGA
1 AAAAATATGA
45574742 TTTCCAGTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (19 bp):
AAAAATATGAAAAACAGAA
Found at i:45578834 original size:29 final size:30
Alignment explanation
Indices: 45578775--45578832 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45578765 TCCGAGCCTT
*
45578775 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
45578805 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
45578833 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:45579062 original size:13 final size:13
Alignment explanation
Indices: 45579044--45579075 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45579034 TTTCCAGCAA
45579044 TTATGAATTTATT
1 TTATGAATTTATT
45579057 TTATGAATTTATT
1 TTATGAATTTATT
*
45579070 TGATGA
1 TTATGA
45579076 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:45579283 original size:50 final size:50
Alignment explanation
Indices: 45579170--45579411 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
45579160 ATTTGGGTAA
* * *
45579170 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
45579226 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45579276 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45579326 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
45579376 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
45579412 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:45579359 original size:100 final size:103
Alignment explanation
Indices: 45579170--45579419 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
45579160 ATTTGGGTAA
45579170 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
45579235 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
45579276 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
45579338 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
45579376 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
45579420 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:45582504 original size:71 final size:72
Alignment explanation
Indices: 45582379--45582518 Score: 169
Period size: 71 Copynumber: 2.0 Consensus size: 72
45582369 TAGCAACATG
* * * * *
45582379 AAAAGAAAGAAATCCACATACCAACAACAAAGATTGGCAACGTGAAAGTCATCATCAAATCCATG
1 AAAAGAAAGAAATCCAAATACAAACAACAAAAATTGGCAACGTGAAAGTCATCATCAAAACAATG
45582444 ATGAAAC
66 ATGAAAC
* * *
45582451 AAAAG-AAGAAATCCAAATACAAACAA-AAAAATCTTGCAATGTGGAAG-CTATCATCAAAACAA
1 AAAAGAAAGAAATCCAAATACAAACAACAAAAAT-TGGCAACGTGAAAGTC-ATCATCAAAACAA
45582513 TGATGA
64 TGATGA
45582519 CGCAAGCAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
70 6 0.10
71 47 0.81
72 5 0.09
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.16
Consensus pattern (72 bp):
AAAAGAAAGAAATCCAAATACAAACAACAAAAATTGGCAACGTGAAAGTCATCATCAAAACAATG
ATGAAAC
Found at i:45595850 original size:20 final size:20
Alignment explanation
Indices: 45595825--45595897 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
45595815 CCCTCATGTT
45595825 CTTTATATTATTTTGTTTAA
1 CTTTATATTATTTTGTTTAA
* *
45595845 CTTTATTTTATAATT-TTTATA
1 CTTTATATTAT-TTTGTTTA-A
*
45595866 -TTTTTATATATTTTGTTTTAA
1 CTTTATAT-TATTTTG-TTTAA
*
45595887 CTTTATTTTAT
1 CTTTATATTAT
45595898 AATTTTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
20 21 0.52
21 10 0.25
22 9 0.22
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (20 bp):
CTTTATATTATTTTGTTTAA
Found at i:45596633 original size:30 final size:30
Alignment explanation
Indices: 45596580--45596658 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
45596570 AAAATTATTA
* *
45596580 TTTTAGGATTTTTTTAAAA-TTTTA-ACTT
1 TTTTAGAATTTTTTTAAAATTTTTAGAATT
*
45596608 TTTATA-TATTTTTTTAGAAATTTTTAGAATT
1 TTT-TAGAATTTTTTTA-AAATTTTTAGAATT
45596639 TTTTAGAATTTTTTTAAAAT
1 TTTTAGAATTTTTTTAAAAT
45596659 ATAAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
28 12 0.28
29 5 0.12
30 11 0.26
31 15 0.35
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (30 bp):
TTTTAGAATTTTTTTAAAATTTTTAGAATT
Found at i:45596652 original size:10 final size:10
Alignment explanation
Indices: 45596617--45596652 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
45596607 TTTTATATAT
45596617 TTTTTTAGAA
1 TTTTTTAGAA
*
45596627 ATTTTTAGAA
1 TTTTTTAGAA
45596637 TTTTTTAGAA
1 TTTTTTAGAA
45596647 TTTTTT
1 TTTTTT
45596653 TAAAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:45596704 original size:19 final size:19
Alignment explanation
Indices: 45596670--45596733 Score: 85
Period size: 20 Copynumber: 3.4 Consensus size: 19
45596660 TAAAATTTGA
*
45596670 AAATTTTATAAA-TATTTT
1 AAATTTTAAAAATTATTTT
*
45596688 GAATTTTAAAAATTATTTT
1 AAATTTTAAAAATTATTTT
*
45596707 AAATTTTTGAAAATTATTTT
1 AAA-TTTTAAAAATTATTTT
45596727 AAATTTT
1 AAATTTT
45596734 TTTTGTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 10 0.25
19 12 0.30
20 18 0.45
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
AAATTTTAAAAATTATTTT
Found at i:45597469 original size:10 final size:10
Alignment explanation
Indices: 45597450--45597514 Score: 60
Period size: 10 Copynumber: 6.3 Consensus size: 10
45597440 TAATATAAAT
45597450 AAAATTATTA
1 AAAATTATTA
*
45597460 AAACTTATTA
1 AAAATTATTA
*
45597470 TAAAAGTATTA
1 -AAAATTATTA
45597481 AAAATTATTA
1 AAAATTATTA
*
45597491 TAAAA-TATAAA
1 -AAAATTAT-TA
*
45597502 AAAATTACTA
1 AAAATTATTA
45597512 AAA
1 AAA
45597515 TTTTATAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
10 29 0.66
11 15 0.34
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTATTA
Found at i:45597472 original size:21 final size:21
Alignment explanation
Indices: 45597426--45597516 Score: 82
Period size: 21 Copynumber: 4.4 Consensus size: 21
45597416 AGAATCAATC
* *
45597426 ATAAATATTATTAATAA-TATAA
1 ATAAA-ATTATTAAAAATTAT-T
*
45597448 ATAAAATTATTAAAACTTATT
1 ATAAAATTATTAAAAATTATT
*
45597469 ATAAAAGTATTAAAAATTATT
1 ATAAAATTATTAAAAATTATT
*
45597490 ATAAAA-TA-TAAAAA-AATT
1 ATAAAATTATTAAAAATTATT
45597508 ACTAAAATT
1 A-TAAAATT
45597517 TTATAAAGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.07
19 11 0.18
20 3 0.05
21 34 0.57
22 8 0.13
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (21 bp):
ATAAAATTATTAAAAATTATT
Found at i:45597514 original size:31 final size:30
Alignment explanation
Indices: 45597481--45597593 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 30
45597471 AAAAGTATTA
45597481 AAAATTATTATAAAATATAAAAAAATTACT
1 AAAATTATTATAAAATATAAAAAAATTACT
* *
45597511 AAAATT-TTATAAAGCTTAGAAAAAAATTA--
1 AAAATTATTATAAA--ATATAAAAAAATTACT
* *
45597540 AAAATCTA-TAAACAAATATAGAAAAATT-CT
1 AAAAT-TATTATA-AAATATAAAAAAATTACT
45597570 AAAA-TATTATAAAAATCATAAAAA
1 AAAATTATTAT-AAAAT-ATAAAAA
45597594 GAATAAGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
28 2 0.03
29 28 0.43
30 21 0.32
31 14 0.22
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (30 bp):
AAAATTATTATAAAATATAAAAAAATTACT
Found at i:45597593 original size:59 final size:59
Alignment explanation
Indices: 45597477--45597593 Score: 139
Period size: 59 Copynumber: 2.0 Consensus size: 59
45597467 TTATAAAAGT
* * ** *
45597477 ATTAAAAATTATTATAAAATATAAAAAAATTACTAAAATTTTATAAAGCTTAGAAAAAA
1 ATTAAAAATTATTAAAAAATATAAAAAAATTACTAAAATATTATAAAAATCAGAAAAAA
* *
45597536 ATTAAAAATCTA-TAAACAAATATAGAAAAATT-CTAAAATATTATAAAAATCATAAAAA
1 ATTAAAAAT-TATTAAA-AAATATAAAAAAATTACTAAAATATTATAAAAATCAGAAAAA
45597594 GAATAAGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
59 33 0.67
60 16 0.33
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (59 bp):
ATTAAAAATTATTAAAAAATATAAAAAAATTACTAAAATATTATAAAAATCAGAAAAAA
Found at i:45597892 original size:27 final size:26
Alignment explanation
Indices: 45597857--45597932 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 26
45597847 TTTATATGCC
45597857 TTATAATTTTTAATAATTTTTTGTATTT
1 TTAT-ATTTTTAATAATTTTTT-TATTT
**
45597885 TTATATTTTATAATAAATTTAATTATTT
1 TTATATTTT-TAAT-AATTTTTTTATTT
* *
45597913 TTATATTATTAATAAATTTT
1 TTATATTTTTAATAATTTTT
45597933 AAATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 4 0.10
27 9 0.22
28 21 0.52
29 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (26 bp):
TTATATTTTTAATAATTTTTTTATTT
Found at i:45597949 original size:27 final size:27
Alignment explanation
Indices: 45597880--45597953 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 27
45597870 TAATTTTTTG
*
45597880 TATTTTTATATTTTATAATAAATTTAAT
1 TATTTTTATATTAT-TAATAAATTTAAT
45597908 TATTTTTATATTATTAATAAATTTTAAAT
1 TATTTTTATATTATTAATAAA-TTT-AAT
*
45597937 TTTTTTCTATATT-TTAA
1 TATTTT-TATATTATTAA
45597954 AAAAATCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 7 0.17
28 16 0.39
29 12 0.29
30 6 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTTTATATTATTAATAAATTTAAT
Found at i:45604730 original size:4 final size:4
Alignment explanation
Indices: 45604721--45604775 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
45604711 ATGAGTGATA
*
45604721 TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
45604769 TATG TAT
1 TATG TAT
45604776 TTGAATTGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:45610674 original size:21 final size:22
Alignment explanation
Indices: 45610650--45610690 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
45610640 ATGAAATGGT
45610650 ATGGCAAAAAAG-ATGATTTGG
1 ATGGCAAAAAAGCATGATTTGG
* *
45610671 ATGGCTAAAAGGCATGATTT
1 ATGGCAAAAAAGCATGATTT
45610691 ACAAGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (22 bp):
ATGGCAAAAAAGCATGATTTGG
Found at i:45630110 original size:25 final size:25
Alignment explanation
Indices: 45630065--45630152 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
45630055 TCGAGCCACG
*
45630065 TAACTGGAAGCTCATATGAGCCATA
1 TAACAGGAAGCTCATATGAGCCATA
*
45630090 TAACAGGAAGCTCTTGA-GAGCCA-A
1 TAACAGGAAGCTCAT-ATGAGCCATA
* * * *
45630114 TTATCGGGAAGGTCAGATGAGCCATA
1 -TAACAGGAAGCTCATATGAGCCATA
45630140 -AACTA-GAAGCTCA
1 TAAC-AGGAAGCTCA
45630153 AGAGAGCCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
24 11 0.23
25 35 0.73
26 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (25 bp):
TAACAGGAAGCTCATATGAGCCATA
Found at i:45630111 original size:50 final size:49
Alignment explanation
Indices: 45630057--45630162 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 49
45630047 AAACTCTTTC
* * * **
45630057 GAGCCACGTAACTGGAAGCTCATATGAGCCATATAAC-AGGAAGCTCTTGA
1 GAGCCAAGTAACGGGAAGCTCAGATGAGCCATA-AACTA-GAAGCTCAAGA
* * *
45630107 GAGCCAATTATCGGGAAGGTCAGATGAGCCATAAACTAGAAGCTCAAGA
1 GAGCCAAGTAACGGGAAGCTCAGATGAGCCATAAACTAGAAGCTCAAGA
45630156 GAGCCAA
1 GAGCCAA
45630163 ATTTAGGAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
49 19 0.40
50 28 0.60
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (49 bp):
GAGCCAAGTAACGGGAAGCTCAGATGAGCCATAAACTAGAAGCTCAAGA
Found at i:45630172 original size:24 final size:24
Alignment explanation
Indices: 45630145--45630212 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
45630135 CCATAAACTA
45630145 GAAGCTCA-AGAGAGCCAAATTTAG
1 GAAGCTCATA-AGAGCCAAATTTAG
* *
45630169 GAAGCTCATAAGAGCCGTAA-TTGG
1 GAAGCTCATAAGAGCC-AAATTTAG
45630193 GAAGCTCATAAGAGCCAAAT
1 GAAGCTCATAAGAGCCAAAT
45630213 ACCGAGACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 2 0.05
24 33 0.87
25 3 0.08
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCAAATTTAG
Found at i:45632306 original size:54 final size:54
Alignment explanation
Indices: 45632246--45632351 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 54
45632236 TAAAGATTCT
* *
45632246 CAAAGCTTCTATATAATTAAAGATTCTGGGTTTTTATGGGA-TAACCTTCTTTCC
1 CAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTAT-GGACTAACCTCCTTTCC
45632300 CAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTATGGACTAACCTCCTTT
1 CAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTATGGACTAACCTCCTTT
45632352 AGTTTAACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 3 0.06
54 46 0.94
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (54 bp):
CAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTATGGACTAACCTCCTTTCC
Found at i:45634477 original size:25 final size:25
Alignment explanation
Indices: 45634449--45634508 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
45634439 AAGTAATCGA
* *
45634449 GAAGCTCTTTTGAGCCATGTAATAG
1 GAAGCTCTTGTGAGCCATATAATAG
* * *
45634474 GAAGGTCATGTGAGCCATATAATGG
1 GAAGCTCTTGTGAGCCATATAATAG
45634499 GAAGCTCTTG
1 GAAGCTCTTG
45634509 AGAGACAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (25 bp):
GAAGCTCTTGTGAGCCATATAATAG
Found at i:45641544 original size:54 final size:54
Alignment explanation
Indices: 45641484--45641593 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 54
45641474 AGAGTAAAGA
*
45641484 TTCTCAAAGCTTCTATATAATTAAAGATTCTGGGTTTTTATGGGA-TAACCTCCT
1 TTCTCAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTAT-GGACTAACCTCCT
45641538 TTCTCAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTATGGACTAACCTCCT
1 TTCTCAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTATGGACTAACCTCCT
45641592 TT
1 TT
45641594 AGTTTAACTG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 3 0.06
54 51 0.94
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (54 bp):
TTCTCAAAGCTTCTATATAATTAAAGATTCTGGGTTTCTATGGACTAACCTCCT
Found at i:45671965 original size:26 final size:26
Alignment explanation
Indices: 45671931--45671990 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
45671921 CATTTGGACC
* * *
45671931 CACAGCTCGTGTGAATAGGCCCATTT
1 CACAACTCGTGTGAACAAGCCCATTT
*
45671957 CACAACTCGTGTGAGCAAGCCCATTT
1 CACAACTCGTGTGAACAAGCCCATTT
45671983 CACAACTC
1 CACAACTC
45671991 TTGTAAGCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (26 bp):
CACAACTCGTGTGAACAAGCCCATTT
Found at i:45671999 original size:26 final size:26
Alignment explanation
Indices: 45671949--45671999 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
45671939 GTGTGAATAG
*
45671949 GCCCATTTCACAACTCGTGTGAGCAA
1 GCCCATTTCACAACTCGTGTAAGCAA
*
45671975 GCCCATTTCACAACTCTTGTAAGCA
1 GCCCATTTCACAACTCGTGTAAGCA
45672000 CTATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (26 bp):
GCCCATTTCACAACTCGTGTAAGCAA
Found at i:45673020 original size:19 final size:17
Alignment explanation
Indices: 45672981--45673023 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
45672971 CATGGGTTGT
*
45672981 CACACAGCCGTGTGACG
1 CACACAACCGTGTGACG
45672998 CACACAACCGTGTGACG
1 CACACAACCGTGTGACG
45673015 CACACAACC
1 CACACAACC
45673024 TAGCTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.40, G:0.21, T:0.09
Consensus pattern (17 bp):
CACACAACCGTGTGACG
Found at i:45676696 original size:144 final size:143
Alignment explanation
Indices: 45676437--45676939 Score: 562
Period size: 144 Copynumber: 3.6 Consensus size: 143
45676427 CAACTCTGAA
* * * * * * * * *
45676437 ACAGCTTGCGGACCTATGCTCCTAGTTGATGTTTAAAGCTTAGCTGAGTTATGCTTACAGCCTTT
1 ACAGCTCGTGGACCTACGCTCCTAGTTAATGTTTAAAGGTTAGTTGAGTTATGCTCACAACCTTC
** * * * *
45676502 ATTTATTTTTGTTAGTTGAGTTAAGCTCACAACTCCAAAAAAACTCACAAACCTACGCTCCCAGC
66 ATTTATTTGAGTTAGTTGAGTTAAGCTCGCAACTTC-GAAAAACTTACAAACCTACGCTCCCAGC
45676567 TAATAAAC-TCTGAC
130 TAATAAACTTC-GAC
* * * * *
45676581 ACAGCTCGTGGACTTACGGTCCTAGTTGATGTTTAAAGGTTAGATGAGTTATGCTCACAACATTC
1 ACAGCTCGTGGACCTACGCTCCTAGTTAATGTTTAAAGGTTAGTTGAGTTATGCTCACAACCTTC
* * *
45676646 ATTTATTTTAGTTAGCT-AGGTTAAGCTCGCAACTTCGAAACAACTTACAAACCTACGCTCTCAG
66 ATTTATTTGAGTTAGTTGA-GTTAAGCTCGCAACTTCGAAA-AACTTACAAACCTACGCTCCCAG
45676710 CTAATAAACTTCGAC
129 CTAATAAACTTCGAC
* * * *
45676725 ACAACTCATGGACCTGCGCTCCTAGTTAATGTTTAAAGGTTAGTTGAGTTATGCTCTCAACCTTC
1 ACAGCTCGTGGACCTACGCTCCTAGTTAATGTTTAAAGGTTAGTTGAGTTATGCTCACAACCTTC
* *
45676790 ATTTATTTGAGTTAGTTGAGTTAAGCTCGCAAC-TCTG----GC-T---AACCTACCCTCCCAGC
66 ATTTATTTGAGTTAGTTGAGTTAAGCTCGCAACTTC-GAAAAACTTACAAACCTACGCTCCCAGC
*
45676846 TGATAAACTTCGAC
130 TAATAAACTTCGAC
* * * *
45676860 ATAGCTCGTGGACCTACGCTACC-AGCTAATGTTTAAAGGTTAGTTGAGTTATGTTCACAGCCTT
1 ACAGCTCGTGGACCTACGCT-CCTAGTTAATGTTTAAAGGTTAGTTGAGTTATGCTCACAACCTT
45676924 CATTTATTTGAGTTAG
65 CATTTATTTGAGTTAG
45676940 CTGAATAGCT
Statistics
Matches: 312, Mismatches: 41, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
135 96 0.31
136 2 0.01
138 1 0.00
139 1 0.00
143 6 0.02
144 203 0.65
145 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (143 bp):
ACAGCTCGTGGACCTACGCTCCTAGTTAATGTTTAAAGGTTAGTTGAGTTATGCTCACAACCTTC
ATTTATTTGAGTTAGTTGAGTTAAGCTCGCAACTTCGAAAAACTTACAAACCTACGCTCCCAGCT
AATAAACTTCGAC
Found at i:45687751 original size:5 final size:5
Alignment explanation
Indices: 45687741--45687815 Score: 84
Period size: 5 Copynumber: 15.0 Consensus size: 5
45687731 AAAGATATTT
* *
45687741 TTATA TTATA TTATA TTATA TTATA TTATA TTA-A CTTA-A -TAAA TAAGTAA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TTATA TTATA TTA-T-A
45687791 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
45687816 AAGAAAGGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 54 0.87
6 1 0.02
7 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (5 bp):
TTATA
Found at i:45687884 original size:16 final size:18
Alignment explanation
Indices: 45687845--45687889 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 18
45687835 AAATTGAAAC
45687845 GAAAATAGAGAAGCAAAAAT
1 GAAAA-AGA-AAGCAAAAAT
45687865 GAAAAAGAAAG-AAAAA-
1 GAAAAAGAAAGCAAAAAT
45687881 GAAAAAGAA
1 GAAAAAGAA
45687890 GGAAGCCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.36
17 5 0.20
18 3 0.12
19 3 0.12
20 5 0.20
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (18 bp):
GAAAAAGAAAGCAAAAAT
Found at i:45688774 original size:25 final size:24
Alignment explanation
Indices: 45688746--45688854 Score: 100
Period size: 22 Copynumber: 4.6 Consensus size: 24
45688736 GTTTAGCGCC
*
45688746 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
* * *
45688771 CTCTCTGATTACTAGCATGTCAGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
* *
45688796 CTCTCTG-T-TTAGCACATTTGTG
1 CTCTCTGTTATTAGCACGTTAGTG
*
45688818 CTCTCTG-T-TTAGCACTTTAGTG
1 CTCTCTGTTATTAGCACGTTAGTG
45688840 CTCTCTGTTCATTAG
1 CTCTCTGTT-ATTAG
45688855 TGCATAATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
22 36 0.51
23 2 0.03
25 32 0.46
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (24 bp):
CTCTCTGTTATTAGCACGTTAGTG
Found at i:45688819 original size:47 final size:44
Alignment explanation
Indices: 45688757--45688848 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 44
45688747 TCTCTGATTA
*
45688757 TTAGCACGTTGGTGCTCTCTGATTACTAGCA-TGTCAGTGCTCTCTGT
1 TTAGCACATTGGTGCTCTCTG-TT--TAGCACT-TCAGTGCTCTCTGT
* *
45688804 TTAGCACATTTGTGCTCTCTGTTTAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTGGTGCTCTCTGTTTAGCACTTCAGTGCTCTCTGT
45688848 T
1 T
45688849 CATTAGTGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 19 0.46
45 1 0.02
46 2 0.05
47 19 0.46
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (44 bp):
TTAGCACATTGGTGCTCTCTGTTTAGCACTTCAGTGCTCTCTGT
Found at i:45696931 original size:18 final size:18
Alignment explanation
Indices: 45696910--45696961 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
45696900 ATATATTATT
45696910 AAAATATTATAAAAATA-G
1 AAAATA-TATAAAAATAGG
45696928 AAAA-ACTATAAAAATAGG
1 AAAATA-TATAAAAATAGG
*
45696946 AAAATATAAAAAAATA
1 AAAATATATAAAAATA
45696962 TAAGTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
18 18 0.60
19 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAATATATAAAAATAGG
Found at i:45696939 original size:17 final size:16
Alignment explanation
Indices: 45696917--45696957 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
45696907 ATTAAAATAT
45696917 TATAAAAATAGAAAAA
1 TATAAAAATAGAAAAA
*
45696933 CTATAAAAATAGGAAAA
1 -TATAAAAATAGAAAAA
45696950 TATAAAAA
1 TATAAAAA
45696958 AATATAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (16 bp):
TATAAAAATAGAAAAA
Found at i:45696958 original size:17 final size:17
Alignment explanation
Indices: 45696910--45696958 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
45696900 ATATATTATT
45696910 AAAATATTATAAAAATAGA
1 AAAATA-TA-AAAAATAGA
*
45696929 AAAACTAT-AAAAATAGG
1 AAAA-TATAAAAAATAGA
45696946 AAAATATAAAAAA
1 AAAATATAAAAAA
45696959 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.11
17 17 0.63
19 5 0.19
20 2 0.07
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAATATAAAAAATAGA
Done.