Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 147 of 186
Found at i:48592309 original size:21 final size:21
Alignment explanation
Indices: 48592271--48592310 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48592261 AGCAATTGTG
**
48592271 ACTGTTAGTAAGCTGTTAGAA
1 ACTGTTAGTAAGAAGTTAGAA
*
48592292 ACTGTTAGTAATAAGTTAG
1 ACTGTTAGTAAGAAGTTAG
48592311 TAGCAGTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (21 bp):
ACTGTTAGTAAGAAGTTAGAA
Found at i:48594740 original size:28 final size:28
Alignment explanation
Indices: 48594700--48594758 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
48594690 ATTCAGTTTT
48594700 AGAGAATAGTTAATACTCAATTTGGGAA
1 AGAGAATAGTTAATACTCAATTTGGGAA
*
48594728 AGAGAATGGTTAATACTCAATTTGGGAA
1 AGAGAATAGTTAATACTCAATTTGGGAA
48594756 AGA
1 AGA
48594759 CATTAAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (28 bp):
AGAGAATAGTTAATACTCAATTTGGGAA
Found at i:48595540 original size:69 final size:69
Alignment explanation
Indices: 48595407--48595541 Score: 193
Period size: 69 Copynumber: 2.0 Consensus size: 69
48595397 TTCACTGTTT
* * *
48595407 TTTGGAAAATGATGTAGGTGCCTTGGCTCCTAGTAGTAGCACCTCTCCCCCCACACTTGGGTTGT
1 TTTGGAAAATGATGTAGGTGCCTTGGATCCTAGTAGCAGCACCTCTCCCCCCACACTCGGGTTGT
48595472 CACC
66 CACC
* *
48595476 TTTGGAAAATGATGTAGGTGCCTTGGATCAC-AGTAGCAGCACTTCTTCCCCCACAC-CGGTGTT
1 TTTGGAAAATGATGTAGGTGCCTTGGATC-CTAGTAGCAGCACCTCTCCCCCCACACTCGG-GTT
48595539 GTC
64 GTC
48595542 TACAACTTCG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 2 0.03
69 56 0.95
70 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (69 bp):
TTTGGAAAATGATGTAGGTGCCTTGGATCCTAGTAGCAGCACCTCTCCCCCCACACTCGGGTTGT
CACC
Found at i:48597220 original size:16 final size:16
Alignment explanation
Indices: 48597199--48597232 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48597189 AAGTTAGGTG
48597199 AATGTTAGAGTTTGTT
1 AATGTTAGAGTTTGTT
48597215 AATGTTAGAGTTTGTT
1 AATGTTAGAGTTTGTT
48597231 AA
1 AA
48597233 AACAATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (16 bp):
AATGTTAGAGTTTGTT
Found at i:48598076 original size:17 final size:17
Alignment explanation
Indices: 48598054--48598086 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48598044 AGGGTTTTCT
48598054 TAAAAA-ATAAAGATAAA
1 TAAAAAGATAAA-ATAAA
48598071 TAAAAAGATAAAATAA
1 TAAAAAGATAAAATAA
48598087 TTTTTACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAAAGATAAAATAAA
Found at i:48598229 original size:20 final size:20
Alignment explanation
Indices: 48598206--48598249 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
48598196 AATGAAAAAG
*
48598206 AAAAATT-AATTTTTTCTAT
1 AAAAATTCAATTTTTCCTAT
48598225 AAAAATTCAATTTTTCCTAT
1 AAAAATTCAATTTTTCCTAT
48598245 AAAAA
1 AAAAA
48598250 CCTAAGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAAATTCAATTTTTCCTAT
Found at i:48603446 original size:111 final size:111
Alignment explanation
Indices: 48603246--48603502 Score: 311
Period size: 111 Copynumber: 2.3 Consensus size: 111
48603236 ACATGTAATT
** * * ** *
48603246 ACATATCAATGCC-ACTGTCCCAAATAGGGTCTTACTCGTAAACACATATCGGAATCACCTATCG
1 ACATATCAATGCCAAC-GTATCAAACATGGTCTTACTCACAAACACATATCGGAATCACATATCG
* *
48603310 ATGCCAACGTATTAAAGTGGCCTTACTCGCACACACATATCGGAATC
65 ATGCCAACGTATTAAAGTAGCCTTACTCGCACACACATATCAGAATC
* * * * *
48603357 ACATATCGATGCCAACGTGTCAAACGTGGTCTTACTCACACACACATATCGGTATCACATATC-A
1 ACATATCAATGCCAACGTATCAAACATGGTCTTACTCACAAACACATATCGGAATCACATATCGA
* * *
48603421 TGTCAACGTATTAAACGTAGTCTTACTTGCACACACATATCAGAATC
66 TGCCAACGTATTAAA-GTAGCCTTACTCGCACACACATATCAGAATC
* *
48603468 ACATATTAATGCCAACGTATTAAACATGGTCTTAC
1 ACATATCAATGCCAACGTATCAAACATGGTCTTAC
48603503 ACGTAATCAT
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
110 15 0.12
111 106 0.86
112 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (111 bp):
ACATATCAATGCCAACGTATCAAACATGGTCTTACTCACAAACACATATCGGAATCACATATCGA
TGCCAACGTATTAAAGTAGCCTTACTCGCACACACATATCAGAATC
Found at i:48603517 original size:56 final size:56
Alignment explanation
Indices: 48603273--48603502 Score: 311
Period size: 55 Copynumber: 4.1 Consensus size: 56
48603263 TCCCAAATAG
* * *
48603273 GGTCTTACTCGTAAACACATATCGGAATCACCTATCGATGCCAACGTATTAAA-GT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
48603328 GGCCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTGTCAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
48603384 GGTCTTACTCACACACACATATCGGTATCACATATC-ATGTCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * * ** *
48603439 AGTCTTACTTGCACACACATATCAGAATCACATATTAATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
48603495 GGTCTTAC
1 GGTCTTAC
48603503 ACGTAATCAT
Statistics
Matches: 152, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
55 93 0.61
56 59 0.39
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:48606238 original size:14 final size:14
Alignment explanation
Indices: 48606227--48606254 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48606217 TTTTCTAATG
48606227 ATACTATTCTAACA
1 ATACTATTCTAACA
48606241 ATACTATTCTAACA
1 ATACTATTCTAACA
48606255 TGTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ATACTATTCTAACA
Found at i:48606880 original size:6 final size:6
Alignment explanation
Indices: 48606866--48606934 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
48606856 GGGGCATACA
* * * * * *
48606866 AGCCAG AGCCCG AGCCAG AGCTAG AGCCAA AGCCCG AGCCAA AGCCAA
1 AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG
* * *
48606914 AGCTAG AGCTAG AGCCCG AGC
1 AGCCAG AGCCAG AGCCAG AGC
48606935 TGTCGCATAC
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.33, C:0.33, G:0.29, T:0.04
Consensus pattern (6 bp):
AGCCAG
Found at i:48606905 original size:30 final size:30
Alignment explanation
Indices: 48606878--48606934 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
48606868 CCAGAGCCCG
*
48606878 AGCCAGAGCTAGAGCCAAAGCCCGAGCCAA
1 AGCCAAAGCTAGAGCCAAAGCCCGAGCCAA
* *
48606908 AGCCAAAGCTAGAGCTAGAGCCCGAGC
1 AGCCAAAGCTAGAGCCAAAGCCCGAGC
48606935 TGTCGCATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.32, G:0.28, T:0.05
Consensus pattern (30 bp):
AGCCAAAGCTAGAGCCAAAGCCCGAGCCAA
Found at i:48606935 original size:18 final size:18
Alignment explanation
Indices: 48606878--48606929 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
48606868 CCAGAGCCCG
48606878 AGCCAGAGCTAGAGCCAA
1 AGCCAGAGCTAGAGCCAA
* * *
48606896 AGCCCGAGCCAAAGCCAA
1 AGCCAGAGCTAGAGCCAA
*
48606914 AGCTAGAGCTAGAGCC
1 AGCCAGAGCTAGAGCC
48606930 CGAGCTGTCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.37, C:0.31, G:0.27, T:0.06
Consensus pattern (18 bp):
AGCCAGAGCTAGAGCCAA
Found at i:48607458 original size:49 final size:49
Alignment explanation
Indices: 48607399--48607538 Score: 235
Period size: 49 Copynumber: 2.9 Consensus size: 49
48607389 GTATTTATTT
* *
48607399 AATTAGATTAATTGAAACATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
* *
48607448 AATTAAATTAATTGCAACATTAAAACTTGGAATAAACTTTATGGTCATA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
*
48607497 AATTAGATTATTTGCAACATTAAAACTTGGAACAAACTTTAT
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTAT
48607539 AATATAAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (49 bp):
AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
Found at i:48611288 original size:4 final size:4
Alignment explanation
Indices: 48611279--48611318 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
48611269 AAAAATGCAT
*
48611279 TTTC TTTC TTTC TTTC TTCTC TTTTC TTTT TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TTTC TT
48611319 CCCCCCCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 26 0.81
5 4 0.12
6 2 0.06
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:48611306 original size:22 final size:22
Alignment explanation
Indices: 48611278--48611319 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
48611268 TAAAAATGCA
48611278 TTTTCTTTCTTTCTTTCTTCTC
1 TTTTCTTTCTTTCTTTCTTCTC
*
48611300 TTTTCTTTTTTTCTTTCTTC
1 TTTTCTTTCTTTCTTTCTTC
48611320 CCCCCCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCTTTCTTTCTTTCTTCTC
Found at i:48612012 original size:2 final size:2
Alignment explanation
Indices: 48612005--48612030 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48611995 CTTTGCCAAT
48612005 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
48612031 AATGGCTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:48618476 original size:25 final size:25
Alignment explanation
Indices: 48618448--48618527 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
48618438 TTACAAAGAG
** *
48618448 AAAGTCCTAATCTAATTCCTAATTT
1 AAAGTCCTAATAGAATTCTTAATTT
*
48618473 AAAGTACTAATAGAATTCTTAATTT
1 AAAGTCCTAATAGAATTCTTAATTT
48618498 AAAG-CCTTAATAGAATTCTTAATTT
1 AAAGTCC-TAATAGAATTCTTAATTT
48618523 AAAGT
1 AAAGT
48618528 TTATAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (25 bp):
AAAGTCCTAATAGAATTCTTAATTT
Found at i:48620027 original size:26 final size:26
Alignment explanation
Indices: 48619991--48620045 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
48619981 TCAAAGTAGC
*
48619991 TGTTAAATAAAGAACTGTAGCCAATA
1 TGTTAAATAAAGAACTGTAGCCAACA
48620017 TGTTAAATAAAGAACTGTAGCCAACA
1 TGTTAAATAAAGAACTGTAGCCAACA
48620043 TGT
1 TGT
48620046 ATACCCCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (26 bp):
TGTTAAATAAAGAACTGTAGCCAACA
Found at i:48625600 original size:17 final size:16
Alignment explanation
Indices: 48625580--48625615 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48625570 GTCTTTTTAA
*
48625580 ATTTTATTTGATTTTTT
1 ATTTTATTT-ATTTGTT
48625597 ATTTTATTTATTTGTT
1 ATTTTATTTATTTGTT
48625613 ATT
1 ATT
48625616 ATTAGGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (16 bp):
ATTTTATTTATTTGTT
Found at i:48625890 original size:10 final size:9
Alignment explanation
Indices: 48625858--48626068 Score: 59
Period size: 10 Copynumber: 21.7 Consensus size: 9
48625848 TTAAAAAAAT
*
48625858 AAAATTTTA
1 AAAATTATA
*
48625867 AAATATTAAGA
1 AAA-ATT-ATA
*
48625878 AAAATTATT
1 AAAATTATA
48625887 AAAATTATA
1 AAAATTATA
*
48625896 TAAACTTATA
1 -AAAATTATA
48625906 AAAATTATAA
1 AAAATTAT-A
48625916 AATTAACTTATA
1 AA--AA-TTATA
*
48625928 AATATTATAAA
1 AAAATTAT--A
48625939 AAAAGTTAT-
1 AAAA-TTATA
* *
48625948 AAATTTCTTA
1 AAAATT-ATA
**
48625958 ATAAATCCTA
1 A-AAATTATA
*
48625968 ATAATTATAA
1 AAAATTAT-A
48625978 AAAATTAT-
1 AAAATTATA
*
48625986 AAAGTTAATA
1 AAAATT-ATA
*
48625996 AAACA-TATTT
1 AAA-ATTA-TA
*
48626006 AAAATAATA
1 AAAATTATA
*
48626015 ATATATTATA
1 A-AAATTATA
*
48626025 AAAATGTATT
1 AAAAT-TATA
* *
48626035 AGAATTCTTA
1 AAAATT-ATA
48626045 AAAATTATA
1 AAAATTATA
* *
48626054 AAAAATATT
1 AAAATTATA
48626063 AAAATT
1 AAAATT
48626069 GATATAAGCT
Statistics
Matches: 145, Mismatches: 35, Indels: 44
0.65 0.16 0.20
Matches are distributed among these distances:
8 7 0.05
9 55 0.38
10 59 0.41
11 11 0.08
12 9 0.06
13 4 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.37
Consensus pattern (9 bp):
AAAATTATA
Found at i:48625892 original size:9 final size:9
Alignment explanation
Indices: 48625878--48625920 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
48625868 AATATTAAGA
48625878 AAAATTATT
1 AAAATTATT
48625887 AAAATTATAT
1 AAAATTAT-T
* *
48625897 AAACTTATA
1 AAAATTATT
48625906 AAAATTA-T
1 AAAATTATT
48625914 AAAATTA
1 AAAATTA
48625921 ACTTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 7 0.24
9 14 0.48
10 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATT
Found at i:48625949 original size:21 final size:22
Alignment explanation
Indices: 48625895--48625951 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
48625885 TTAAAATTAT
*
48625895 ATAAACTTATAAAAATTATAAA
1 ATAAACTTATAAATATTATAAA
*
48625917 ATTAACTTATAAATATTATAAA
1 ATAAACTTATAAATATTATAAA
*
48625939 A-AAAGTTATAAAT
1 ATAAACTTATAAAT
48625952 TTCTTAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAAACTTATAAATATTATAAA
Found at i:48630799 original size:73 final size:73
Alignment explanation
Indices: 48630639--48630776 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
48630629 AAAATAATAA
* * *
48630639 AAAATAGAATAAAATCCATTAAACAGCGGGAATAAATCTTGAAACAGATTTTATTTACTTTTAAT
1 AAAATAGAATAAAATCCATTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTACTTTCAAT
48630704 TTGAAAAC
66 TTGAAAAC
* ** *
48630712 AAAATTGAATAAAATCTGTTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTAGTTTCAAT
1 AAAATAGAATAAAATCCATTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTACTTTCAAT
48630777 ATTCATTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 58 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (73 bp):
AAAATAGAATAAAATCCATTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTACTTTCAAT
TTGAAAAC
Found at i:48634778 original size:27 final size:26
Alignment explanation
Indices: 48634728--48634915 Score: 216
Period size: 27 Copynumber: 7.0 Consensus size: 26
48634718 CAACGAGGCT
* * *
48634728 ATCAGATATTGTGACAAAGTCACCAG
1 ATCAGATATTGTGGCAGAGCCACCAG
*
48634754 ATATAGATATTGTGGCAGAGCCACCAG
1 AT-CAGATATTGTGGCAGAGCCACCAG
* *
48634781 AACAGATATATGTGGAAGAGCCACCAG
1 ATCAGATAT-TGTGGCAGAGCCACCAG
*
48634808 ATCAGATAATTGTGGCATAGCCACCAGG
1 ATCAGAT-ATTGTGGCAGAGCCACCA-G
48634836 A-CAGATATATGTGGCAGAGCCACCAG
1 ATCAGATAT-TGTGGCAGAGCCACCAG
*
48634862 ATCAGATAATTATGGCAGAGCCACCAG
1 ATCAGAT-ATTGTGGCAGAGCCACCAG
* *
48634889 ATCAGATAATTATGGCATAGCCACCAG
1 ATCAGAT-ATTGTGGCAGAGCCACCAG
48634916 GACGCTTCTT
Statistics
Matches: 142, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.08
27 124 0.87
28 6 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
ATCAGATATTGTGGCAGAGCCACCAG
Found at i:48634833 original size:81 final size:81
Alignment explanation
Indices: 48634758--48634918 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 81
48634748 CACCAGATAT
*
48634758 AGATAT-TGTGGCAGAGCCACCAGAACAGAT-ATATGTGGAAGAGCCACCAGATCAGATAATTGT
1 AGATATATGTGGCAGAGCCACCAGAACAGATAAT-TATGGAAGAGCCACCAGATCAGATAATTGT
48634821 GGCATAGCCACCAGGAC
65 GGCATAGCCACCAGGAC
* * *
48634838 AGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCAGAGCCACCAGATCAGATAATTATG
1 AGATATATGTGGCAGAGCCACCAGAACAGATAATTATGGAAGAGCCACCAGATCAGATAATTGTG
48634903 GCATAGCCACCAGGAC
66 GCATAGCCACCAGGAC
48634919 GCTTCTTCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
80 6 0.08
81 67 0.89
82 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (81 bp):
AGATATATGTGGCAGAGCCACCAGAACAGATAATTATGGAAGAGCCACCAGATCAGATAATTGTG
GCATAGCCACCAGGAC
Found at i:48635912 original size:26 final size:26
Alignment explanation
Indices: 48635883--48635941 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
48635873 TAATTACATA
* * *
48635883 ATTATCATGGAATATTTACCTAATCC
1 ATTATCATGGAACATTCACCTAACCC
48635909 ATTATCATGGAACATTCACCTAACCC
1 ATTATCATGGAACATTCACCTAACCC
48635935 ATTATCA
1 ATTATCA
48635942 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATTATCATGGAACATTCACCTAACCC
Found at i:48641259 original size:27 final size:27
Alignment explanation
Indices: 48641211--48641369 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
48641201 GCGAGGTTGT
* *
48641211 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
48641238 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
48641264 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
48641291 CAGATAATTGTGGCATAGCCATCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
48641318 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
48641345 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
48641370 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:48641371 original size:54 final size:54
Alignment explanation
Indices: 48641229--48641372 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
48641219 GTGACGAAGT
* * *
48641229 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
48641283 CACCAGATCAGATAATTGTGGCATAGCCATCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
48641337 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
48641373 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 4 0.05
54 80 0.95
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:48642360 original size:22 final size:22
Alignment explanation
Indices: 48642330--48642385 Score: 58
Period size: 26 Copynumber: 2.4 Consensus size: 22
48642320 TAAGCTTTAA
* *
48642330 TTACATAATTATCATGGAATAT
1 TTACCTAATTATCATGGAACAT
48642352 TTACCTAATCCATTATCATGGAACAT
1 TTACCT-A---ATTATCATGGAACAT
48642378 TTACCTAA
1 TTACCTAA
48642386 CCCATTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
22 6 0.21
23 1 0.04
25 1 0.04
26 20 0.71
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TTACCTAATTATCATGGAACAT
Found at i:48642366 original size:26 final size:26
Alignment explanation
Indices: 48642337--48642395 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
48642327 TAATTACATA
* *
48642337 ATTATCATGGAATATTTACCTAATCC
1 ATTATCATGGAACATTTACCTAACCC
48642363 ATTATCATGGAACATTTACCTAACCC
1 ATTATCATGGAACATTTACCTAACCC
48642389 ATTATCA
1 ATTATCA
48642396 ATTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (26 bp):
ATTATCATGGAACATTTACCTAACCC
Found at i:48643863 original size:96 final size:96
Alignment explanation
Indices: 48643696--48643881 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 96
48643686 CCGAGGAAGT
* * * *
48643696 CTATCATCTAAAGGAATGATAGAGTAGACAAGGGGCCCAAAAAGCTTGGTTCGAGCAAAGGAAAA
1 CTATCATCGAAAGGAACGATAGAGCAGACAAGGAGCCCAAAAAGCTTGGTTCGAGCAAAGGAAAA
*
48643761 GCCGAAGCCAAGAGAGCAAAGAGGAACAAGC
66 ACCGAAGCCAAGAGAGCAAAGAGGAACAAGC
* * * *
48643792 CTATCATCGAAGGGAACGATATAGCAGACAAGGAGCCCAAGAAGTTTGGTTCGAGC-AAGAGAAA
1 CTATCATCGAAAGGAACGATAGAGCAGACAAGGAGCCCAAAAAGCTTGGTTCGAGCAAAG-GAAA
* * *
48643856 AATCGAAGCCAATAGGGCAAAGAGGA
65 AACCGAAGCCAAGAGAGCAAAGAGGA
48643882 GAAAAAAGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 3 0.04
96 74 0.96
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.12
Consensus pattern (96 bp):
CTATCATCGAAAGGAACGATAGAGCAGACAAGGAGCCCAAAAAGCTTGGTTCGAGCAAAGGAAAA
ACCGAAGCCAAGAGAGCAAAGAGGAACAAGC
Found at i:48648756 original size:6 final size:6
Alignment explanation
Indices: 48648745--48648773 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
48648735 AGAGAGAAGA
48648745 GAAGGG GAAGGG GAAGGG GAAGGG GAAGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGG
48648774 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:48651343 original size:33 final size:33
Alignment explanation
Indices: 48651279--48651343 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
48651269 CTCCTTTCAG
* * *
48651279 CTCGTATCCACCGCATTACTCCAGTCTTCCCGA
1 CTCGTATCCACCGCAGTACTCCACTCCTCCCGA
* * *
48651312 CTCGTATCTACTGCAGTACTCTACTCCTCCCG
1 CTCGTATCCACCGCAGTACTCCACTCCTCCCG
48651344 GCTTAAGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.17, C:0.42, G:0.12, T:0.29
Consensus pattern (33 bp):
CTCGTATCCACCGCAGTACTCCACTCCTCCCGA
Found at i:48651758 original size:48 final size:48
Alignment explanation
Indices: 48651603--48651760 Score: 201
Period size: 48 Copynumber: 3.3 Consensus size: 48
48651593 GTATTTATTT
* * **
48651603 AATTAGATTA-ATTGCAACATTCAAACTTGGAACAAACTTTGTAATATA
1 AATTAGA-TACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
* * * *
48651651 AATTAGATAAATTAAAACATTAAAATGAAGAACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
*
48651699 AATTAGATACATTACAACATTAAAACGAGGAAAAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
**
48651747 AATTACTTACATTA
1 AATTAGATACATTA
48651761 GCTCAATTCC
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
47 2 0.02
48 93 0.98
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (48 bp):
AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
Found at i:48655309 original size:46 final size:46
Alignment explanation
Indices: 48655082--48655308 Score: 330
Period size: 46 Copynumber: 4.9 Consensus size: 46
48655072 TTTGACATGA
* * * * *
48655082 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
48655128 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
48655174 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
48655220 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
48655266 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
48655309 GAGAGTACAC
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:48657455 original size:11 final size:11
Alignment explanation
Indices: 48657439--48657484 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
48657429 CTTTATATAC
48657439 TAATAAAATAA
1 TAATAAAATAA
48657450 TAATAAAATATA
1 TAATAAAATA-A
* *
48657462 TTATTAAAATAT
1 -TAATAAAATAA
48657474 TAATAAAATAA
1 TAATAAAATAA
48657485 ATTTATCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 19 0.66
12 1 0.03
13 9 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:48657469 original size:24 final size:24
Alignment explanation
Indices: 48657433--48657483 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
48657423 TTCTTTCTTT
48657433 ATATACTAATAAAATAATAATAAA
1 ATATACTAATAAAATAATAATAAA
* * *
48657457 ATATATTATTAAAATATTAATAAA
1 ATATACTAATAAAATAATAATAAA
48657481 ATA
1 ATA
48657484 AATTTATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATACTAATAAAATAATAATAAA
Found at i:48662415 original size:13 final size:14
Alignment explanation
Indices: 48662399--48662434 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
48662389 CAATCTCATA
48662399 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
48662412 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
48662425 TCTC-ATTTCA
1 TCTCAATTTCA
48662435 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:48662417 original size:26 final size:25
Alignment explanation
Indices: 48662379--48662441 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
48662369 AACCTTTTGG
*
48662379 TTCATATTTTCAATCTC-ATATCTCAAT
1 TTCA-ATTCTCAAT-TCAATATCTC-AT
*
48662406 TTCAATTCTCAATTCAATTTCTCAT
1 TTCAATTCTCAATTCAATATCTCAT
48662431 TTC-ATTC-CAAT
1 TTCAATTCTCAAT
48662442 AGTTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 7 0.21
26 14 0.42
27 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCAATTCTCAATTCAATATCTCAT
Found at i:48662424 original size:18 final size:19
Alignment explanation
Indices: 48662386--48662426 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
48662376 TGGTTCATAT
48662386 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
48662405 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
48662423 TTTC
1 TTTC
48662427 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:48662660 original size:23 final size:23
Alignment explanation
Indices: 48662602--48662662 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
48662592 GACACATAAA
48662602 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
48662623 GTGCCTG--ATATGACACACGAG
1 GTGCCTGAAATACGACACACGAG
48662644 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
48662663 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.71
23 9 0.26
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:48662670 original size:23 final size:23
Alignment explanation
Indices: 48662589--48662674 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
48662579 CTGATCAGAG
*
48662589 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
48662611 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* * *
48662631 TATGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
48662654 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
48662675 TCGATAAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.63
23 18 0.35
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:48663071 original size:15 final size:15
Alignment explanation
Indices: 48663046--48663103 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
48663036 TCATATATAT
48663046 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
48663062 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
48663077 AATAATTTCAATCAA
1 TATAAATTCAATCAA
48663092 TATAAATTCAAT
1 TATAAATTCAAT
48663104 AAAACAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:48663088 original size:30 final size:28
Alignment explanation
Indices: 48663049--48663107 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
48663039 TATATATTAT
48663049 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
48663078 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
48663107 A
1 A
48663108 CAAATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:48663266 original size:2 final size:2
Alignment explanation
Indices: 48663259--48663306 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
48663249 ATATCTCATT
48663259 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
48663301 CA CA CA
1 CA CA CA
48663307 TATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:48664095 original size:13 final size:13
Alignment explanation
Indices: 48664077--48664104 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48664067 CCTCTTTTTA
48664077 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
48664090 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
48664103 TT
1 TT
48664105 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:48667183 original size:44 final size:42
Alignment explanation
Indices: 48667109--48667230 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
48667099 AATGACGAAT
* * * *
48667109 CTTATCTCCTTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAA-C
1 CTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAG-CA-CAAGC
* * *
48667153 CTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCACAAGT
1 CTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAGCACAAGC
*
48667196 CTTATCTCCCTGAAGTTGCGGTGAAGCAGATTGAA
1 CTTATCTCCCTGAAGTTGCAGTG-AGCAGATTGAA
48667231 TATGCGAATC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.05
43 32 0.49
44 30 0.46
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTATCTCCCTGAAGTTGCAGTGAGCAGATTGAAGCACAAGC
Found at i:48667273 original size:87 final size:88
Alignment explanation
Indices: 48667108--48667281 Score: 194
Period size: 87 Copynumber: 2.0 Consensus size: 88
48667098 TAATGACGAA
*
48667108 TCTTATCTCCTTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
* *
48667173 GTAGAGCAGATTAAAGC-ACAAG
66 GTAGAACAAATTAAAGCTACAAG
* * * * *
48667195 TCTTATCTCCCTGAAGTTGCGGT-GAAGCAGATTGAA-T-ATGCGAATCTTATTTCCTTGAAGTT
1 TCTTATCTCCCTAAAGTTGCAGTGGAA-CAGATTGAAGTCA-G-GAACCTTATCTCCCTGAAGTT
** *
48667257 GTAGTGGAACAAATTAAAGCTACAA
63 ACAGTAGAACAAATTAAAGCTACAA
48667282 ATTACAAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
85 1 0.01
86 5 0.07
87 62 0.86
88 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
GTAGAACAAATTAAAGCTACAAG
Found at i:48667564 original size:51 final size:51
Alignment explanation
Indices: 48667477--48667586 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
48667467 TGAAGATGCT
* * * * *
48667477 AATCTTTTTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
*
48667528 AGTCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
1 AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
48667579 AATCTTAT
1 AATCTTAT
48667587 CTTTCTAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (51 bp):
AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
Found at i:48667604 original size:146 final size:148
Alignment explanation
Indices: 48667382--48667668 Score: 346
Period size: 146 Copynumber: 1.9 Consensus size: 148
48667372 TACCATAGAG
* * * * * *
48667382 AGTCTTATCTCCCTGGAGTTGCAATGGAATAAACTAAAGCTACAAGCTATAAATCTTATCTCTCT
1 AGTCTTATCTCCCTGAACTTACAATGGAACAAACTAAAGCTAAAAGCTACAAATCTTATCTCTCT
* * * *
48667447 GAAATTGCAGTGGAGCAGATTGAAG-AT-GCTAATCTTTTTTCCCTGAAGTTGCAGTGGAACAGA
66 GAAATTCCAGTGGAGCAGATTGAAGTATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGA
48667510 TTAAAGCTACAAGTTACA
131 TTAAAGCTACAAGTTACA
* * * * *
48667528 AGTCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACAAATCTTATCTTTCT
1 AGTCTTATCTCCCTGAACTTACAATGGAACAAACTAAAGCTAAAAGCTACAAATCTTATCTCTCT
*
48667593 -AAATTTCCAGTGGAGTAGATTGAAGTTATCATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
66 GAAA-TTCCAGTGGAGCAGATTGAAG---T-ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* *
48667657 GCAGATTGAAGC
126 ACAGATTAAAGC
48667669 CATAGATCTT
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
145 3 0.03
146 73 0.63
151 2 0.02
152 38 0.33
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (148 bp):
AGTCTTATCTCCCTGAACTTACAATGGAACAAACTAAAGCTAAAAGCTACAAATCTTATCTCTCT
GAAATTCCAGTGGAGCAGATTGAAGTATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGA
TTAAAGCTACAAGTTACA
Found at i:48667693 original size:44 final size:44
Alignment explanation
Indices: 48667630--48667755 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
48667620 ATCATGGCAA
* *
48667630 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAG
* * **
48667674 ATCTTATC-CTCTTGAAGTTGCAGTGAAGTAGATTGAAGTTACAG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAG
*
48667718 ATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
48667756 ATATAAAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 69 0.97
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAG
Found at i:48667821 original size:89 final size:88
Alignment explanation
Indices: 48667627--48667844 Score: 224
Period size: 89 Copynumber: 2.5 Consensus size: 88
48667617 GTTATCATGG
* * * * *
48667627 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAGATCTTATCCTCTTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACATAAATATCATCCTCTTGAAGT
* * *
48667692 TGCAGTGAAGTAGATTGAAGTTA
66 TACAATGAAGTAGATTAAAGTTA
* * * * *
48667715 CAGATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAGATATAAAATATCAT-CTCTCTGAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAT-AAATATCATCCTCT-TGAA
*
48667779 GTTACAAT-AGAGTAGGTTAAAGTTA
64 GTTACAATGA-AGTAGATTAAAGTTA
* * * * *
48667804 TAAACCTTATATCCCTGAAGTTACAGTGGGGCAGGTTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
48667845 TTACGAGTCT
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 45 0.42
89 61 0.58
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (88 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACATAAATATCATCCTCTTGAAGT
TACAATGAAGTAGATTAAAGTTA
Found at i:48668001 original size:141 final size:141
Alignment explanation
Indices: 48667809--48668064 Score: 343
Period size: 141 Copynumber: 1.8 Consensus size: 141
48667799 AGTTATAAAC
* * * *
48667809 CTTATATCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACGAGTCTTATCTCCCTAAAGTTGCAA
1 CTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
* * *
48667874 TTGAGCAGATTAAAGATGGCGAATCTTACTTT-CCTGAAGTTGCAGTGGAACAAGATTAATGATA
66 TAGAGCAGATCAAAGATAGCGAATCTTA-TTTCCCTGAAGTTGCAGTGGAACAAGATTAATGATA
48667938 CAAATGGAAAAT
130 CAAATGGAAAAT
* * * * * * *
48667950 CTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGTTATAAATCTTATCTCTCTAAAGTTGTAG
1 CTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
* * *
48668015 TAGAGTAGATCAAAGATAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAA
66 TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAA
48668065 TATATCAAGC
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
140 3 0.03
141 94 0.97
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (141 bp):
CTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAGATTAATGATAC
AAATGGAAAAT
Found at i:48668055 original size:45 final size:44
Alignment explanation
Indices: 48667946--48668657 Score: 157
Period size: 44 Copynumber: 15.6 Consensus size: 44
48667936 TACAAATGGA
* * * ** *
48667946 AAATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * *
48667990 AAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATCAAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATA-T
* * * ** * *
48668035 GAATCTTATTTCCCTGAAGTTGTAGTGGAATATATCAAGCTACAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAA---A-GA-T-AT
* * * * *
48668085 AAATCCTATAC-CTCTGAAGTTGTAGTA-AGTCGGATCAAATCTACCATT
1 AAATCTTAT-CTCCCTGAAGTTGTAGTAGAG-CAGATCAAA--GA-TA-T
* * * * ** **
48668133 GCGAATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACT
1 --AAATCTTATCTCCCTGAAGTTGTAGTAG-AGCAGATCAAAGATA-T
** * * * *
48668180 -AATCTTATCTCCCTGAAGTTACAGTGGAGCA-ATATAAAAATAAAA
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGAT-CAAAGAT--AT
* * * * * * *
48668225 AAACCTTATCTCCCTGAAGTTGCA-AAGGAGCAGGTTAAAAATAAAAC
1 AAATCTTATCTCCCTGAAGTTGTAGTA-GAGCAGATCAAAGAT---AT
* * * * *
48668272 AAATCTTATCTCTCTGAAGTTGCAGT-GTAGAAGATTGAAGACAGGCTAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAG-AGCAGA-T-CA-A-A-GATAT
* * * ** *
48668321 AAATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * * * ** *
48668365 AAATCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATA-T
** ** * * * *
48668410 AAATCTTATCTATCTGAAGTTACAGTAGAGCAGATTAAGGCTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * * * *
48668454 AAA-CATTATCTCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAGC
1 AAATC-TTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATA-T
* * * * *
48668499 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * * * * * ** * *
48668543 AAACCTTATCTCTCTTAAGTTGCAGTGGAGCGGGTTGAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * ** *
48668587 AAATCTTATCTCCCTGAAGTT-TCAATGGAGTAGATTGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGT-AGTAGAGCAGATCAAAGAT-AT
48668632 AAATCTTATAC-CCCTGAAGTTGTAGT
1 AAATCTTAT-CTCCCTGAAGTTGTAGT
48668658 GGGTTAGTTT
Statistics
Matches: 513, Mismatches: 115, Indels: 79
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.01
44 206 0.40
45 127 0.25
46 39 0.08
47 36 0.07
48 6 0.01
49 35 0.07
50 54 0.11
51 2 0.00
52 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
Found at i:48668199 original size:44 final size:44
Alignment explanation
Indices: 48668136--48668659 Score: 390
Period size: 44 Copynumber: 11.6 Consensus size: 44
48668126 TACCATTGCG
* * ** *
48668136 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGG-AGCAGATTAAAGATACA
* * *
48668180 AATCTTATCTCCCTGAAGTTACAGTGGAGCA-ATATAAAAATAAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGAT--ACA
* ** * *
48668226 AACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGTTAAAAATAAAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT---ACA
* * * * *
48668273 AATCTTATCTCTCTGAAGTTGCAGTGTAGAAGATTGAAGACAGGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A-A-A-GATACA
* * **
48668322 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
48668366 AATCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
** * * * *
48668411 AATCTTATCTATCTGAAGTTACAGTAGAGCAGATTAAGGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
48668455 AA-CATTATCTCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAGCA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
* * * * *
48668500 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * * * * *
48668544 AACCTTATCTCTCTTAAGTTGCAGTGGAGCGGGTTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
48668588 AATCTTATCTCCCTGAAGTTTCAATGGAGTAGATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-ACA
*
48668633 AATCTTATAC-CCCTGAAGTTGTAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
48668660 GTTAGTTTGA
Statistics
Matches: 385, Mismatches: 78, Indels: 33
0.78 0.16 0.07
Matches are distributed among these distances:
43 5 0.01
44 173 0.45
45 97 0.25
46 38 0.10
47 34 0.09
49 35 0.09
50 1 0.00
51 1 0.00
52 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
Found at i:48668293 original size:47 final size:46
Alignment explanation
Indices: 48668180--48668295 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 46
48668170 TGAAGCCACT
* **
48668180 AATCTTATCTCCCTGAAGTTACAGTGGAGCAATATAAAAATAAAAA
1 AATCTTATCTCCCTGAAGTTGCAAAGGAGCAATATAAAAATAAAAA
* *
48668226 AACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGT-TAAAAATAAAACA
1 AATCTTATCTCCCTGAAGTTGCAAAGGAGCA-ATATAAAAATAAAA-A
*
48668273 AATCTTATCTCTCTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
48668296 GTGTAGAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 38 0.62
47 23 0.38
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.27
Consensus pattern (46 bp):
AATCTTATCTCCCTGAAGTTGCAAAGGAGCAATATAAAAATAAAAA
Found at i:48668466 original size:89 final size:88
Alignment explanation
Indices: 48668136--48668607 Score: 389
Period size: 89 Copynumber: 5.2 Consensus size: 88
48668126 TACCATTGCG
* * * * * *
48668136 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACTAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGCTAC-AAACTTATCTCCTTGAAGTT
* * * * **
48668200 ACAGTGGAGCA-ATATAAAAATAAAAA
64 GCAGTGGAGTAGAT-TGAAGAT-AGCA
* * * **
48668226 AACCTTATCTCCCTGAAGTTGCA-AAGGAGCAGGTTAAAAATAAAACAAATCTTATCT-CTCTGA
1 AATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGATTAAAGCT---ACAAA-CTTATCTCCT-TGA
* * *
48668289 AGTTGCAGTGTAGAAGATTGAAGACAGGCTATA
60 AGTTGCAGTGGAGTAGATTGAAGATA-GC---A
* * * *
48668322 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGCCACAAATCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAA-CTTATCTCCTTGAAGTTG
*
48668387 CAATGGAGTAGATTGAAGATAGCA
65 CAGTGGAGTAGATTGAAGATAGCA
** * * *
48668411 AATCTTATCTATCTGAAGTTACAGTAGAGCAGATTAAGGCTACAAACATTATCTCCTTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAAC-TTATCTCCTTGAAGTTG
* *
48668476 CAGTAGAGTAGATTAAAGATAGCA
65 CAGTGGAGTAGATTGAAGATAGCA
* * *
48668500 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCTT-AAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAA-CTTATCTC-CTTGAAGTT
** * *
48668564 GCAGTGGAGCGGGTTGAAGCTA-CA
64 GCAGTGGAGTAGATTGAAGATAGCA
48668588 AATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTT
48668608 TCAATGGAGT
Statistics
Matches: 309, Mismatches: 56, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
88 21 0.07
89 147 0.48
90 33 0.11
92 6 0.02
93 66 0.21
94 4 0.01
96 32 0.10
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAACTTATCTCCTTGAAGTTGC
AGTGGAGTAGATTGAAGATAGCA
Found at i:48668490 original size:133 final size:132
Alignment explanation
Indices: 48668136--48668653 Score: 447
Period size: 133 Copynumber: 3.8 Consensus size: 132
48668126 TACCATTGCG
* * * *
48668136 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAA-GCCACTAATCTTATCTCCCTGAAGT
1 AATCTTATCTCTCTGAAGTTGCAGT-G-AGCAGATTGAAGGCTACAAATCTTATCTCCCTGAAGT
* * * * * * *
48668199 TACAGTGGAGCA-ATATAAAAATAAAAAAACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGTTAA
64 TGCAGTGGAGTAGAT-T--AAAGAAACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAA
*
48668263 AAATAAAACA
126 AGAT---ACA
* *
48668273 AATCTTATCTCTCTGAAGTTGCAGTGTAGAAGATTGAAGACAGGCTATAAATCTTATCTCCCTGA
1 AATCTTATCTCTCTGAAGTTGCAGTG-AGCAGATT---GA-AGGCTACAAATCTTATCTCCCTGA
* * ** * * *
48668338 AGTTGTAGTGGAGAAGATTAAAGCCACAAATCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGA
61 AGTTGCAGTGGAGTAGATTAAAGAAACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAA
48668403 AGATAGCA
126 AGATA-CA
* * * *
48668411 AATCTTATCTATCTGAAGTTACAGTAGAGCAGATT-AAGGCTACAAA-CATTATCTCCTTAAAGT
1 AATCTTATCTCTCTGAAGTTGCAGT-GAGCAGATTGAAGGCTACAAATC-TTATCTCCCTGAAGT
* * * * * *
48668474 TGCAGTAGAGTAGATTAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAG
64 TGCAGTGGAGTAGATTAAAGA-AACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAG
* *
48668539 CTATA
128 ATACA
* * * *
48668544 AACCTTATCTCTCTTAAGTTGCAGTGGAGCGGGTTGAA-GCTACAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGT-GAGCAGATTGAAGGCTACAAATCTTATCTCCCTGAAGTT
* * *
48668608 TCAATGGAGTAGATTGAAGATAACAAATCTTATAC-CCCTGAAGTTG
65 GCAGTGGAGTAGATTAAAGA-AACAAATCTTAT-CTCCCTGAAGTTG
48668654 TAGTGGGTTA
Statistics
Matches: 310, Mismatches: 57, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
132 1 0.00
133 127 0.41
134 41 0.13
136 3 0.01
137 29 0.09
138 32 0.10
139 1 0.00
140 41 0.13
141 1 0.00
142 32 0.10
143 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTATCTCTCTGAAGTTGCAGTGAGCAGATTGAAGGCTACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGTAGATTAAAGAAACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGATA
CA
Found at i:48673099 original size:5 final size:6
Alignment explanation
Indices: 48673083--48673108 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48673073 CCATTCTATT
48673083 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
48673109 CATTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:48673147 original size:18 final size:18
Alignment explanation
Indices: 48673124--48673169 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
48673114 TCTTTCTTTT
*
48673124 TTTCTTCTTCGTTATTTC
1 TTTCTTCTCCGTTATTTC
* *
48673142 TTTCTTCTCCTTTCTTTC
1 TTTCTTCTCCGTTATTTC
48673160 TTTCTTCTCC
1 TTTCTTCTCC
48673170 CTCTTTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTCTTCTCCGTTATTTC
Found at i:48673163 original size:22 final size:22
Alignment explanation
Indices: 48673112--48673165 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
48673102 AAAAATACAT
* *
48673112 TTTCTTTCTTTTTTTCTTCTTC
1 TTTCTTTCTTTTTCTCCTCTTC
* *
48673134 GTTATTTCTTTCTTCTCCT-TTC
1 TTTCTTTCTTT-TTCTCCTCTTC
48673156 TTTCTTTCTT
1 TTTCTTTCTT
48673166 CTCCCTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTCTTTTTCTCCTCTTC
Found at i:48673290 original size:27 final size:27
Alignment explanation
Indices: 48673260--48673332 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
48673250 TAATACCCTG
*
48673260 GTGCCACCTATCAAATAGGGGTCACCA
1 GTGCCGCCTATCAAATAGGGGTCACCA
* *
48673287 GTGCCGCCTACCAAATAAGGGTCACCA
1 GTGCCGCCTATCAAATAGGGGTCACCA
*
48673314 GTGCCGCCTATCAGATAGG
1 GTGCCGCCTATCAAATAGG
48673333 CAACACACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (27 bp):
GTGCCGCCTATCAAATAGGGGTCACCA
Found at i:48694092 original size:21 final size:20
Alignment explanation
Indices: 48694063--48694101 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
48694053 GTGCTTATTC
*
48694063 TATTTATATTAAAATTATTAA
1 TATTCATATT-AAATTATTAA
*
48694084 TATTCATATTTAATTATT
1 TATTCATATTAAATTATT
48694102 TTATATCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTCATATTAAATTATTAA
Found at i:48714221 original size:33 final size:33
Alignment explanation
Indices: 48714184--48714250 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
48714174 TAATGAAAGC
* *
48714184 AGCACTCGTGCTTAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
48714217 AGCACTCATGCATAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
48714250 A
1 A
48714251 CATTTCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (33 bp):
AGCACTCATGCATAGTTTAAACAAATACACAGT
Found at i:48717500 original size:36 final size:37
Alignment explanation
Indices: 48717424--48717501 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
48717414 TAGAATAGTG
*
48717424 AAAATTTGGATTTTAGAGACTAAATTGTAAAAATTAT
1 AAAATTTGGATTTTAGAGACTAAATTGTAAAAACTAT
** *
48717461 AAAATTT-GATTTTCAGAGACTGTATTGT-AAAACTGT
1 AAAATTTGGATTTT-AGAGACTAAATTGTAAAAACTAT
48717497 AAAAT
1 AAAAT
48717502 CTAAAGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 17 0.47
37 19 0.53
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (37 bp):
AAAATTTGGATTTTAGAGACTAAATTGTAAAAACTAT
Found at i:48722556 original size:22 final size:23
Alignment explanation
Indices: 48722508--48722561 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
48722498 GACCCGTTTT
* *
48722508 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAACTATATTGTTA
48722531 TTAAAATTAAAACTA-ATTGTTA
1 TTAAAATTAAAACTATATTGTTA
48722553 TTAAAATTA
1 TTAAAATTA
48722562 TATCAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAAAATTAAAACTATATTGTTA
Found at i:48722570 original size:22 final size:22
Alignment explanation
Indices: 48722508--48722570 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
48722498 GACCCGTTTT
* * *
48722508 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAA-CAAATTGTTA
*
48722531 TTAAAATTAAAACTAATTGTTA
1 TTAAAATTAAAACAAATTGTTA
* *
48722553 TTAAAATTATATCAAATT
1 TTAAAATTAAAACAAATT
48722571 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAAATTAAAACAAATTGTTA
Found at i:48731702 original size:16 final size:16
Alignment explanation
Indices: 48731681--48731715 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
48731671 TCTGAATTAC
48731681 CAGTCCAAACTAAATT
1 CAGTCCAAACTAAATT
**
48731697 CAGTCCAGGCTAAATT
1 CAGTCCAAACTAAATT
48731713 CAG
1 CAG
48731716 ACCCTAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (16 bp):
CAGTCCAAACTAAATT
Found at i:48734891 original size:22 final size:23
Alignment explanation
Indices: 48734866--48734911 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
48734856 CAACCAAATC
48734866 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
48734888 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
48734911 A
1 A
48734912 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:48734917 original size:23 final size:23
Alignment explanation
Indices: 48734873--48734917 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48734863 ATCAATTCAA
*
48734873 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
48734896 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
48734918 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:48739368 original size:19 final size:19
Alignment explanation
Indices: 48739344--48739381 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48739334 TAAACAGTAA
48739344 AGCTCAATAAGTAAGACTC
1 AGCTCAATAAGTAAGACTC
48739363 AGCTCAATAAGTAAGACTC
1 AGCTCAATAAGTAAGACTC
48739382 GAACCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (19 bp):
AGCTCAATAAGTAAGACTC
Found at i:48742671 original size:34 final size:34
Alignment explanation
Indices: 48742570--48742672 Score: 179
Period size: 34 Copynumber: 3.0 Consensus size: 34
48742560 TCATTTTATT
*
48742570 AATAAATCTTTTATGGTTCTTGCCAAATTTTTTG
1 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
48742604 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
1 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
* *
48742638 AATAAATCTTTTATTGTTTTTGCCAAATATTTTG
1 AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
48742672 A
1 A
48742673 CTATCTTGCC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (34 bp):
AATAAATCTTTTATGGTTCTTGCCAAATATTTTG
Found at i:48744376 original size:47 final size:47
Alignment explanation
Indices: 48744312--48744437 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 47
48744302 GAATAATACC
* * ** *
48744312 TTGATGTGGCTACGGGCCATGGTATAGGTATTTTGAAAGGAGCTACA
1 TTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAAAGAAGCTACA
* ** * * *
48744359 TTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGTTACC
1 TTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAAAGAAGCTACA
48744406 TTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TTGATTTGGCTACGGGCCATGGTATAGGTACT
48744438 TATCGATTGT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (47 bp):
TTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAAAGAAGCTACA
Found at i:48752942 original size:21 final size:21
Alignment explanation
Indices: 48752916--48752957 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48752906 TTAGGGTCAT
*
48752916 AAATAAT-TAATTAAAGTATTA
1 AAATAATATAA-TAAAATATTA
48752937 AAATAATATAATAAAATATTA
1 AAATAATATAATAAAATATTA
48752958 TTATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATAATATAATAAAATATTA
Found at i:48754670 original size:81 final size:82
Alignment explanation
Indices: 48754562--48754721 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 82
48754552 AATTTACATT
* * * *
48754562 TTGCCCTTATTTTTCATATTTTACAATTTTACTTCTATTTTCTAAATTTTACAGTTTTTCTCATG
1 TTGCCCTTATTTTTCAGATTTTACAATTTTACCTCTATTTTCTAAATTTTACAGTTTTTCCCATA
48754627 TTTTCCAGATTTTAAAG
66 TTTTCCAGATTTTAAAG
* * * * *
48754644 TTGCCC-TATTTTTCAGATTTTGCAATTTTGCCTCTATTTTCTAGATTTTATAGTTTTTCCCTTA
1 TTGCCCTTATTTTTCAGATTTTACAATTTTACCTCTATTTTCTAAATTTTACAGTTTTTCCCATA
*
48754708 TTTTTCAGATTTTA
66 TTTTCCAGATTTTA
48754722 CAATTTCCCC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 62 0.91
82 6 0.09
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (82 bp):
TTGCCCTTATTTTTCAGATTTTACAATTTTACCTCTATTTTCTAAATTTTACAGTTTTTCCCATA
TTTTCCAGATTTTAAAG
Found at i:48754733 original size:28 final size:27
Alignment explanation
Indices: 48754510--48754727 Score: 153
Period size: 28 Copynumber: 8.0 Consensus size: 27
48754500 TGGTCGTATG
* *
48754510 TCCCCTATTTTTCAGATTTTATAATTGT
1 TCCCTTATTTTTCAGATTTTACAATT-T
* *
48754538 TCCCTT-TTTTTTAGAATTTAC-ATTT
1 TCCCTTATTTTTCAGATTTTACAATTT
*
48754563 TGCCCTTATTTTTCATATTTTACAATTT
1 T-CCCTTATTTTTCAGATTTTACAATTT
* * * *
48754591 T-ACTTCTATTTTCTAAATTTTACAGTTT
1 TCCCTTAT-TTTTC-AGATTTTACAATTT
* * *
48754619 T-TCTCATGTTTTCCAGATTTTA-AAGTT
1 TCCCTTAT-TTTT-CAGATTTTACAATTT
* *
48754646 GCCC-TATTTTTCAGATTTTGCAATTT
1 TCCCTTATTTTTCAGATTTTACAATTT
* * *
48754672 TGCCTCTA-TTTTCTAGATTTTATAGTTTT
1 TCCCT-TATTTTTC-AGATTTTACA-ATTT
48754701 TCCCTTATTTTTCAGATTTTACAATTT
1 TCCCTTATTTTTCAGATTTTACAATTT
48754728 CCCCCTGCTT
Statistics
Matches: 146, Mismatches: 31, Indels: 27
0.72 0.15 0.13
Matches are distributed among these distances:
25 10 0.07
26 22 0.15
27 42 0.29
28 59 0.40
29 13 0.09
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.56
Consensus pattern (27 bp):
TCCCTTATTTTTCAGATTTTACAATTT
Found at i:48755061 original size:34 final size:34
Alignment explanation
Indices: 48755022--48755086 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
48755012 CTGAGTTGAT
* *
48755022 CTATTATATGCAT-TTTATTTGCTATCGTATTAAA
1 CTATTATAGGCATATTGA-TTGCTATCGTATTAAA
*
48755056 CTATTATAGGCATATTGATTGCTATTGTATT
1 CTATTATAGGCATATTGATTGCTATCGTATT
48755087 GTTTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 24 0.89
35 3 0.11
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (34 bp):
CTATTATAGGCATATTGATTGCTATCGTATTAAA
Found at i:48755461 original size:138 final size:138
Alignment explanation
Indices: 48755234--48755505 Score: 393
Period size: 138 Copynumber: 2.0 Consensus size: 138
48755224 AGTGGCAATT
* *
48755234 TTTATCCTTTAACTGCAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATGCAAATAT
1 TTTATCCTTTAACTACAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATACAAATAT
*
48755299 GTTGTCCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACA-CGCTA
66 ATTGTCCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACAGC-CTA
48755363 GTGGCGGTG
130 GTGGCGGTG
* * * * *
48755372 TTTATCTTTTAACTATAAATATGTTTTACATCTACAACCCATCGACAGCTTTTACCTACAAATAT
1 TTTATCCTTTAACTACAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATACAAATAT
* ** * * * *
48755437 ATTGTGCATCTACTTCCCAGTGGCATATTTTATTTGTGATATTTTGCTGTGTACCCACAGCCTAG
66 ATTGTCCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACAGCCTAG
48755502 TGGC
131 TGGC
48755506 AGGTTTCATC
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
138 117 0.99
139 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (138 bp):
TTTATCCTTTAACTACAAATATGTTGTACATCTACAACCCATCGACAACTTTTACATACAAATAT
ATTGTCCATCTACAGCCCAGTGGCAGATTTTATCTGCGATATTTTGCTGTGCACCCACAGCCTAG
TGGCGGTG
Found at i:48756588 original size:87 final size:86
Alignment explanation
Indices: 48756481--48756645 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 86
48756471 TACATGCATA
* * * *
48756481 AGGTTGAGTTCTTTCTCTTAATGAATTCATATCCTA-AAGTTTGGGTGGTACTATTGAGACGGAC
1 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCTAGAA-TTTGGGTGGTACTACTAAGACGAAC
*
48756545 TTGATGAATTCACCAATATGTG
65 TTGATGAATACACCAATATGTG
* * *
48756567 AGGTTGAGTTTCTTACTCTTAATGAGTTCATATTCTAGAATTTGGGTGGTTCTACTAAGACGAAC
1 AGGTTGAG-TTCTTACTCTTAATGAATTCATATCCTAGAATTTGGGTGGTACTACTAAGACGAAC
48756632 TTGATGAATACACC
65 TTGATGAATACACC
48756646 GAACTTAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 8 0.12
87 59 0.86
88 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (86 bp):
AGGTTGAGTTCTTACTCTTAATGAATTCATATCCTAGAATTTGGGTGGTACTACTAAGACGAACT
TGATGAATACACCAATATGTG
Found at i:48757186 original size:37 final size:37
Alignment explanation
Indices: 48757123--48757198 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
48757113 TTTAGAATTT
*
48757123 TTTAAGTTGAGGAAAATCCTTTGACTATTGTAGAATA
1 TTTAAGTTGAGGAAAATCCTTTGACTATTGCAGAATA
48757160 TTTATAGTTGAGG-AAATCCTTTGACTATTGCAGAATA
1 TTTA-AGTTGAGGAAAATCCTTTGACTATTGCAGAATA
48757197 TT
1 TT
48757199 AATCCACTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
37 29 0.78
38 8 0.22
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (37 bp):
TTTAAGTTGAGGAAAATCCTTTGACTATTGCAGAATA
Found at i:48759086 original size:18 final size:18
Alignment explanation
Indices: 48759065--48759105 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
48759055 CTTTTATGAT
48759065 TTTTAAAATT-TTTTAATA
1 TTTTAAAATTATTTTAA-A
48759083 TTTTAAAATTATTTTAAA
1 TTTTAAAATTATTTTAAA
48759101 TTTTA
1 TTTTA
48759106 TTTAAGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAAAATTATTTTAAA
Found at i:48764559 original size:16 final size:17
Alignment explanation
Indices: 48764538--48764576 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
48764528 TAAAAGTCAA
*
48764538 ATTGAGAAAGATGTA-G
1 ATTGAGAAAGATGCAGG
48764554 ATTGAGAAAGATGCAGG
1 ATTGAGAAAGATGCAGG
48764571 ATTGAG
1 ATTGAG
48764577 TACGTTCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.41, C:0.03, G:0.33, T:0.23
Consensus pattern (17 bp):
ATTGAGAAAGATGCAGG
Found at i:48764752 original size:34 final size:35
Alignment explanation
Indices: 48764674--48764755 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
48764664 ATAAAGAAAA
* * * *
48764674 CCATACTGAATGGTGAAACGTAGGTATGACATTTC
1 CCATACTGAGTTGCGAAACATAGGTATGACATTTC
**
48764709 CCATACTGAGTTGCGAAACATAGGTATGGTATTT-
1 CCATACTGAGTTGCGAAACATAGGTATGACATTTC
48764743 CCATACTGAGTTG
1 CCATACTGAGTTG
48764756 TGAATTGTGG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 13 0.32
35 28 0.68
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (35 bp):
CCATACTGAGTTGCGAAACATAGGTATGACATTTC
Found at i:48765619 original size:102 final size:102
Alignment explanation
Indices: 48765436--48765647 Score: 298
Period size: 102 Copynumber: 2.1 Consensus size: 102
48765426 CGTGTGTCTA
* * * * *
48765436 GGCCGTGTGTGACACACGGTCTGCCCCACGGGTATGTGATCTAGCTGTGTGTCCCCTGCATTTTA
1 GGCCGTGTATGACACAAGGTCTGCACCACGGGTATGTGATATAGCTGTGTGTCCCCTGCATATTA
48765501 AATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
66 AATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
* *
48765538 GGCCGTGTATGACACAAGGTCTGCACCATGGGTATGTGATATGGCTGTGTGTCCCCTGCATATTA
1 GGCCGTGTATGACACAAGGTCTGCACCACGGGTATGTGATATAGCTGTGTGTCCCCTGCATATTA
* * * * * *
48765603 AATTTTTGTTTTGAATTGTCCACATGGGTAGAGACAC
66 AATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
*
48765640 AGCCGTGT
1 GGCCGTGT
48765648 GGAGGATACG
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (102 bp):
GGCCGTGTATGACACAAGGTCTGCACCACGGGTATGTGATATAGCTGTGTGTCCCCTGCATATTA
AATTTTAGCTTCGAATTGACCACACGGATAGAGACAC
Found at i:48784761 original size:27 final size:25
Alignment explanation
Indices: 48784729--48784778 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 25
48784719 AAAAGTACTT
48784729 AAAT-AAAATAGATAAAGATAAAAGTGA
1 AAATAAAAATA-AT-AA-ATAAAAGTGA
48784756 AAATAAAAATAATAAATAAAAGT
1 AAATAAAAATAATAAATAAAAGT
48784779 TTTTAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.36
26 2 0.09
27 6 0.27
28 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (25 bp):
AAATAAAAATAATAAATAAAAGTGA
Found at i:48790704 original size:16 final size:16
Alignment explanation
Indices: 48790683--48790713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48790673 AGCAAATCTC
48790683 GAAATGCCGAAAAGCT
1 GAAATGCCGAAAAGCT
*
48790699 GAAATGTCGAAAAGC
1 GAAATGCCGAAAAGC
48790714 CGGAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
GAAATGCCGAAAAGCT
Found at i:48790964 original size:28 final size:28
Alignment explanation
Indices: 48790932--48791029 Score: 109
Period size: 28 Copynumber: 3.7 Consensus size: 28
48790922 ATTGCATGTC
* *
48790932 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGAGATTGGGCCTGATGGGCCA
48790960 TATGAA--AGA---GGCCTGATGGGCCA
1 TATGAATGAGATTGGGCCTGATGGGCCA
* *
48790983 TATGAATGTGATTGGG-CTCGGTGGGCCA
1 TATGAATGAGATTGGGCCT-GATGGGCCA
48791011 TATGAATGAGATTGGGCCT
1 TATGAATGAGATTGGGCCT
48791030 AAAGGGGCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
23 19 0.33
25 2 0.03
26 2 0.03
27 2 0.03
28 31 0.53
29 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (28 bp):
TATGAATGAGATTGGGCCTGATGGGCCA
Found at i:48812768 original size:24 final size:24
Alignment explanation
Indices: 48812736--48812783 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48812726 CCCTTGACTA
48812736 AGAATTTCAGATCAGGACTGATGG
1 AGAATTTCAGATCAGGACTGATGG
48812760 AGAATTTCAGATCAGGACTGATGG
1 AGAATTTCAGATCAGGACTGATGG
48812784 TTGTTTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (24 bp):
AGAATTTCAGATCAGGACTGATGG
Found at i:48817139 original size:56 final size:55
Alignment explanation
Indices: 48817052--48817305 Score: 337
Period size: 56 Copynumber: 4.5 Consensus size: 55
48817042 CATGACATAG
* * *
48817052 GATTCCGATATGTGATGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGT
1 GATT-CGATATATG-TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGT
* * *
48817109 GATTCCGATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATCGATATGT
1 GATT-CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGT
* * * * * *
48817165 CACTTCAATATATGTGTGCGAGTAAAACCACGTTTAATACATTAGCATTAATATGT
1 GA-TTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGT
*
48817221 GATTTCGATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCAATATGT
1 GA-TTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGT
48817277 GACTTCGATATATGTGTGCGAGTAAGACC
1 GA-TTCGATATATGTGTGCGAGTAAGACC
48817306 CTGTCTTGGA
Statistics
Matches: 174, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
56 159 0.91
57 15 0.09
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (55 bp):
GATTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGT
Found at i:48817325 original size:112 final size:112
Alignment explanation
Indices: 48817067--48817336 Score: 321
Period size: 112 Copynumber: 2.4 Consensus size: 112
48817057 CGATATGTGA
* * * * ** *
48817067 TGTGCGAGTAAGACCACATTTAATAC-GTTGGCATCGATATGTGATTCCGATATATGTGTGTGAG
1 TGTGCGAGTAAAACCACGTTTAAGACAG-TAGCATTAATATGTGATTCCGATATATGTGTGCGAG
* *
48817131 TAAGACCACGTTTAATATGTTGGCATCGATATGTCACTTCAATATATG
65 TAAGACCACGTTTAATACGTTGGCATCAATATGTCACTTCAATATATG
* * *
48817179 TGTGCGAGTAAAACCACGTTTAATACATTAGCATTAATATGTGATTTCGATATATGTGTGCGAGT
1 TGTGCGAGTAAAACCACGTTTAAGACAGTAGCATTAATATGTGATTCCGATATATGTGTGCGAGT
* * *
48817244 AAGACCATGTTTAATACGTTGGCATCAATATGTGACTTCGATATATG
66 AAGACCACGTTTAATACGTTGGCATCAATATGTCACTTCAATATATG
* * * *
48817291 TGTGCGAGTAAGACC-CTGTCTT-GGACAGTGGCATTGATATGTGATT
1 TGTGCGAGTAAAACCAC-GT-TTAAGACAGTAGCATTAATATGTGATT
48817337 ACATGTAAGA
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
111 1 0.01
112 133 0.98
113 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (112 bp):
TGTGCGAGTAAAACCACGTTTAAGACAGTAGCATTAATATGTGATTCCGATATATGTGTGCGAGT
AAGACCACGTTTAATACGTTGGCATCAATATGTCACTTCAATATATG
Found at i:48824613 original size:55 final size:53
Alignment explanation
Indices: 48824471--48824664 Score: 181
Period size: 54 Copynumber: 3.6 Consensus size: 53
48824461 TTACTATTTT
* *
48824471 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTTTGAACTCACCATTAT
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTTTGAACTCACCAATAC
* * * * ** * * *
48824524 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATTGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-TTG-AACTCACCAATAC
* * ** * *
48824579 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-TTGAACTCACCAATAC
* * *
48824633 CATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGTATCCTT
48824665 AGACCCTAAT
Statistics
Matches: 111, Mismatches: 28, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 33 0.30
54 40 0.36
55 38 0.34
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTTTGAACTCACCAATAC
Found at i:48826454 original size:27 final size:28
Alignment explanation
Indices: 48826370--48826467 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
48826360 CATGAGATTG
* * * *
48826370 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48826399 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48826427 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48826454 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48826468 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48826478 original size:27 final size:27
Alignment explanation
Indices: 48826398--48826480 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48826388 TAAATTGTAC
* *
48826398 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
48826426 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
48826453 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
48826480 A
1 A
48826481 TTTTAGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:48826481 original size:29 final size:27
Alignment explanation
Indices: 48826370--48826481 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
48826360 CATGAGATTG
** * *
48826370 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
48826399 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
48826427 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
48826454 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
48826482 TTTAGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:48836221 original size:12 final size:12
Alignment explanation
Indices: 48836204--48836230 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48836194 ATTCCGAAGT
48836204 ATATATATATAC
1 ATATATATATAC
48836216 ATATATATATAC
1 ATATATATATAC
48836228 ATA
1 ATA
48836231 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:48836759 original size:27 final size:28
Alignment explanation
Indices: 48836678--48836772 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
48836668 GAGATTGGCG
* * * *
48836678 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
48836707 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
48836735 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
48836762 CTGAGTGTGCG
1 CTAAGTGTGCG
48836773 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:48836786 original size:29 final size:27
Alignment explanation
Indices: 48836703--48836786 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48836693 TAAATTGTAC
* *
48836703 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
48836731 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
48836758 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
48836787 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:48839937 original size:16 final size:16
Alignment explanation
Indices: 48839916--48839946 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48839906 GACTATATGA
48839916 GATTTACAACCGAGAT
1 GATTTACAACCGAGAT
48839932 GATTTACAACCGAGA
1 GATTTACAACCGAGA
48839947 GTTGTTAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (16 bp):
GATTTACAACCGAGAT
Found at i:48840514 original size:23 final size:23
Alignment explanation
Indices: 48840484--48840531 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
48840474 CTCAAAATGA
*
48840484 TTATCAATACCCTATCTCCAGAG
1 TTATCAATACCCTATCTCCAAAG
48840507 TTATCAATACCCTATCTCCAAAG
1 TTATCAATACCCTATCTCCAAAG
48840530 TT
1 TT
48840532 GAACAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.33
Consensus pattern (23 bp):
TTATCAATACCCTATCTCCAAAG
Found at i:48844454 original size:39 final size:39
Alignment explanation
Indices: 48844406--48844484 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
48844396 CCTTCTGTTC
*
48844406 TATTTCAATCTGTTGTCAATTCTCGATATTTTGCTTCTT
1 TATTTCAATCTGTTGTCAATTCTCAATATTTTGCTTCTT
48844445 TATTTCAATCTGTTGTCAATTCTCAATATTTTGCTTCTT
1 TATTTCAATCTGTTGTCAATTCTCAATATTTTGCTTCTT
48844484 T
1 T
48844485 GTTTTCCCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.54
Consensus pattern (39 bp):
TATTTCAATCTGTTGTCAATTCTCAATATTTTGCTTCTT
Found at i:48851533 original size:15 final size:15
Alignment explanation
Indices: 48851513--48851543 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48851503 ACACCAGTTC
48851513 AAAGTAAATGGACAG
1 AAAGTAAATGGACAG
48851528 AAAGTAAATGGACAG
1 AAAGTAAATGGACAG
48851543 A
1 A
48851544 GGTTGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.26, T:0.13
Consensus pattern (15 bp):
AAAGTAAATGGACAG
Found at i:48856736 original size:18 final size:18
Alignment explanation
Indices: 48856724--48856758 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
48856714 ATATAAGTCT
48856724 CCTTTAGTATATAATCGG
1 CCTTTAGTATATAATCGG
48856742 CCTTTAGTATATAATCG
1 CCTTTAGTATATAATCG
48856759 ATGATGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (18 bp):
CCTTTAGTATATAATCGG
Found at i:48857093 original size:39 final size:39
Alignment explanation
Indices: 48857035--48857182 Score: 226
Period size: 39 Copynumber: 3.8 Consensus size: 39
48857025 AATATGCATG
*
48857035 ATAT-CTGGAATTATATCCGGACTTAAGGTCTGCAGGCT
1 ATATGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
*
48857073 ATATGCTGGAATTATATCCGGACTTAAGGTCCACAGGCT
1 ATATGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
*
48857112 ATATGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT
1 ATATGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
* * * *
48857151 ATATGTTGGAAATATATCCGGGCTTAATGTCC
1 ATATGCTGGAATTATATCCGGACTTAAGGTCC
48857183 CGAAGGCTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 4 0.04
39 96 0.96
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (39 bp):
ATATGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
Found at i:48858939 original size:30 final size:30
Alignment explanation
Indices: 48858904--48858963 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48858894 ATTTAATACG
**
48858904 AACTTTGGCAAAATTACTTTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
48858934 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
48858964 GACTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:48866426 original size:30 final size:30
Alignment explanation
Indices: 48866392--48866451 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48866382 CTTTAATACG
*
48866392 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48866422 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48866452 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48869561 original size:26 final size:25
Alignment explanation
Indices: 48869477--48869560 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
48869467 TTGGAGGCCT
*
48869477 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
48869502 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
48869527 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
48869552 AGCCCTTTT
1 AGCCCTTTT
48869561 TGCACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
24 7 0.13
25 35 0.65
26 12 0.22
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:48869631 original size:20 final size:20
Alignment explanation
Indices: 48869608--48869664 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
48869598 TTATGAATAC
*
48869608 ATCATGTGCAGATCATACAT
1 ATCATGTGCATATCATACAT
48869628 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48869648 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
48869665 TCATGTATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48869639 original size:11 final size:11
Alignment explanation
Indices: 48869608--48869663 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48869598 TTATGAATAC
*
48869608 ATCATGTGCAG
1 ATCATGTGCAT
*
48869619 ATCA--TACAT
1 ATCATGTGCAT
48869628 ATCATGTGCAT
1 ATCATGTGCAT
*
48869639 ATCA--TACAT
1 ATCATGTGCAT
48869648 ATCATGTGCAT
1 ATCATGTGCAT
48869659 ATCAT
1 ATCAT
48869664 ATCATGTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:48869666 original size:5 final size:5
Alignment explanation
Indices: 48869619--48869668 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
48869609 TCATGTGCAG
* *
48869619 ATCAT A-CAT ATCAT GTGCAT ATCAT A-CAT ATCAT GTGCAT ATCAT ATCAT
1 ATCAT ATCAT ATCAT AT-CAT ATCAT ATCAT ATCAT AT-CAT ATCAT ATCAT
48869669 GTATACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 8 0.22
5 21 0.57
6 8 0.22
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (5 bp):
ATCAT
Found at i:48878286 original size:177 final size:177
Alignment explanation
Indices: 48877990--48878338 Score: 689
Period size: 177 Copynumber: 2.0 Consensus size: 177
48877980 CCAAATGCAT
48877990 CTTTGACAATTTAAACCACACAACTCAAATTCTTACAATTTAAGCTTAGAAATTTCTATTCATGT
1 CTTTGACAATTTAAACCACACAACTCAAATTCTTACAATTTAAGCTTAGAAATTTCTATTCATGT
48878055 AAATTTTAGCAACATGGAGTCCATTAAACACTCCAAAATTCCATTTGAACAACAATTGTTCAACC
66 AAATTTTAGCAACATGGAGTCCATTAAACACTCCAAAATTCCATTTGAACAACAATTGTTCAACC
48878120 TTCTAGCATAATTTCAATCTGGACAGCAAGCATTATTTAACATTCAG
131 TTCTAGCATAATTTCAATCTGGACAGCAAGCATTATTTAACATTCAG
48878167 CTTTGACAATTTAAACCACACAACTCAAATTCTTACAATTTAAGCTTAGAAATTTCTATTCATGT
1 CTTTGACAATTTAAACCACACAACTCAAATTCTTACAATTTAAGCTTAGAAATTTCTATTCATGT
*
48878232 AAATTTTAGCAACATGGAGTCCATTAAACACTCCATAATTCCATTTGAACAACAATTGTTCAACC
66 AAATTTTAGCAACATGGAGTCCATTAAACACTCCAAAATTCCATTTGAACAACAATTGTTCAACC
48878297 TTCTAGCATAATTTCAATCTGGACAGCAAGCATTATTTAACA
131 TTCTAGCATAATTTCAATCTGGACAGCAAGCATTATTTAACA
48878339 ACCATTGTTT
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 171 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (177 bp):
CTTTGACAATTTAAACCACACAACTCAAATTCTTACAATTTAAGCTTAGAAATTTCTATTCATGT
AAATTTTAGCAACATGGAGTCCATTAAACACTCCAAAATTCCATTTGAACAACAATTGTTCAACC
TTCTAGCATAATTTCAATCTGGACAGCAAGCATTATTTAACATTCAG
Found at i:48880875 original size:31 final size:31
Alignment explanation
Indices: 48880840--48880903 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
48880830 CCTTTTCATA
48880840 TTTCATACTTCATAACACTGGGCCGAAGCCT
1 TTTCATACTTCATAACACTGGGCCGAAGCCT
* ** *
48880871 TTTCATATTTCATATTATTGGGCCGAAGCCT
1 TTTCATACTTCATAACACTGGGCCGAAGCCT
48880902 TT
1 TT
48880904 ACCATTACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATACTTCATAACACTGGGCCGAAGCCT
Found at i:48883970 original size:31 final size:31
Alignment explanation
Indices: 48883935--48883998 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
48883925 CCTTTTCATA
48883935 TTTCATACTTCATAACACTGGGCCGAAGCCT
1 TTTCATACTTCATAACACTGGGCCGAAGCCT
* ** *
48883966 TTTCATATTTCATATTATTGGGCCGAAGCCT
1 TTTCATACTTCATAACACTGGGCCGAAGCCT
48883997 TT
1 TT
48883999 ACTGTAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATACTTCATAACACTGGGCCGAAGCCT
Found at i:48884245 original size:24 final size:25
Alignment explanation
Indices: 48884207--48884280 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 25
48884197 CTAGAGGCCT
*
48884207 AGCCTATTTTA-ATAACTGGGGCAAA
1 AGCCTTTTTTATA-AACTGGGGCAAA
48884232 AGCCTTTTTTATAAACTGGGGCAAA
1 AGCCTTTTTTATAAACTGGGGCAAA
** *
48884257 AGCCCTTTTTGGTAAACTCGGGCA
1 AG-CCTTTTTTATAAACTGGGGCA
48884281 CAGCCCTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 24 0.56
26 19 0.44
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCCTTTTTTATAAACTGGGGCAAA
Found at i:48884272 original size:26 final size:26
Alignment explanation
Indices: 48884220--48884292 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 26
48884210 CTATTTTAAT
*
48884220 AACTGGGGCAAAAG-CCTTTTTTATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
*
48884245 AACTGGGGCAAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* *
48884271 AACTCGGGC-ACAGCCCTTTTTG
1 AACTGGGGCAAAAGCCCTTTTTG
48884293 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 26 0.60
26 17 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTTGATA
Found at i:48884361 original size:20 final size:20
Alignment explanation
Indices: 48884338--48884394 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
48884328 TTAGGAATAC
*
48884338 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
48884358 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48884378 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
48884395 TCATGTATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48884369 original size:11 final size:11
Alignment explanation
Indices: 48884338--48884393 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
48884328 TTAGGAATAC
48884338 ATCATGTGCAT
1 ATCATGTGCAT
*
48884349 ATCA--TCCAT
1 ATCATGTGCAT
48884358 ATCATGTGCAT
1 ATCATGTGCAT
*
48884369 ATCA--TACAT
1 ATCATGTGCAT
48884378 ATCATGTGCAT
1 ATCATGTGCAT
48884389 ATCAT
1 ATCAT
48884394 ATCATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:48886157 original size:13 final size:13
Alignment explanation
Indices: 48886141--48886170 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48886131 ACTTCACATG
48886141 CCCTCGGCACACA
1 CCCTCGGCACACA
*
48886154 CCCTCGGCACACG
1 CCCTCGGCACACA
48886167 CCCT
1 CCCT
48886171 TGTCCCTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.57, G:0.17, T:0.10
Consensus pattern (13 bp):
CCCTCGGCACACA
Found at i:48887288 original size:42 final size:43
Alignment explanation
Indices: 48887136--48887289 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 43
48887126 TGTCATTTCT
* ** *
48887136 CAGATATGGTCTTACATG-GGATCTCATATCGATGCCAATAGCC
1 CAGATATGGTCTTACACGATAATCTCATATCGATGCC-ATATCC
* * *
48887179 CAGCTATGGTCTTACACGAT--TCTCATATCGACGCCATGTCC
1 CAGATATGGTCTTACACGATAATCTCATATCGATGCCATATCC
* *
48887220 CAGACATGGTCCTACACGA-AATCTCATAAT-GATGCCATATCC
1 CAGATATGGTCTTACACGATAATCTCAT-ATCGATGCCATATCC
*
48887262 CAGATATGGTCTTACAC-ATAAACTCATA
1 CAGATATGGTCTTACACGATAATCTCATA
48887290 GGCCTAATGT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 22 0.24
42 52 0.57
43 18 0.20
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
CAGATATGGTCTTACACGATAATCTCATATCGATGCCATATCC
Found at i:48887629 original size:52 final size:52
Alignment explanation
Indices: 48887550--48887653 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
48887540 ATCTGTAATA
48887550 GCAAAGTTAGTTCATTTAACTACCACATTGTTAAAATTAGTCCAAAAACCAT
1 GCAAAGTTAGTTCATTTAACTACCACATTGTTAAAATTAGTCCAAAAACCAT
*
48887602 GCAAAGTTAGTTCATTTAACTATCACATTGTTAAAATTAGTCCAAAAACCAT
1 GCAAAGTTAGTTCATTTAACTACCACATTGTTAAAATTAGTCCAAAAACCAT
48887654 ACTTCGGCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (52 bp):
GCAAAGTTAGTTCATTTAACTACCACATTGTTAAAATTAGTCCAAAAACCAT
Found at i:48888585 original size:37 final size:37
Alignment explanation
Indices: 48888526--48888627 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
48888516 AGCTCAGACG
* *
48888526 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
48888563 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
48888600 TAATCTCCACACGTAGTCATCTGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
48888628 TAATCCCAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Done.