Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 110 of 153
Found at i:34466341 original size:19 final size:18
Alignment explanation
Indices: 34466289--34466342 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 18
34466279 TAACAAGTTG
34466289 AATTAGTTTATTAATTTTTT
1 AATTA-TTTATTAA-TTTTT
34466309 ATATT-TTTATTAATTTTT
1 A-ATTATTTATTAATTTTT
34466327 AATTATTTATATAATT
1 AATTATTTAT-TAATT
34466343 ATTGTTGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.10
18 11 0.35
19 13 0.42
20 1 0.03
21 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
AATTATTTATTAATTTTT
Found at i:34466344 original size:26 final size:27
Alignment explanation
Indices: 34466290--34466345 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
34466280 AACAAGTTGA
* * **
34466290 ATTAGTTTATTAATTTTTTATATTTTT
1 ATTAATTTATTAATTATTTATATAATT
34466317 ATTAATTT-TTAATTATTTATATAATT
1 ATTAATTTATTAATTATTTATATAATT
34466343 ATT
1 ATT
34466346 GTTGATCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTAATTTATTAATTATTTATATAATT
Found at i:34468110 original size:3 final size:3
Alignment explanation
Indices: 34468102--34468149 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
34468092 AAGAGCAATT
* * *
34468102 ATA ATA ATA ATG ATA ACA ATA ATA ACA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34468149 A
1 A
34468150 AATTTGCCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:34482988 original size:31 final size:29
Alignment explanation
Indices: 34482935--34482992 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
34482925 ACATGTGTAT
*
34482935 AATTACACTAAATCAAAGTTTATATATCA
1 AATTACACTAAATCAAAATTTATATATCA
*
34482964 AATTACACAGTAAATTAAAATTTATATAT
1 AATTACAC--TAAATCAAAATTTATATAT
34482993 AATTTTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
31 17 0.68
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.36
Consensus pattern (29 bp):
AATTACACTAAATCAAAATTTATATATCA
Found at i:34482996 original size:29 final size:27
Alignment explanation
Indices: 34482932--34482996 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 27
34482922 GTAACATGTG
*
34482932 TATAATTACACTAAATCAAAGTTTATA
1 TATAATTACACTAAATCAAAATTTATA
*
34482959 TATCAAATTACACAGTAAATTAAAATTTATA
1 TAT--AATTACAC--TAAATCAAAATTTATA
34482990 TATAATT
1 TATAATT
34482997 TTGATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.09
29 12 0.38
31 17 0.53
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.38
Consensus pattern (27 bp):
TATAATTACACTAAATCAAAATTTATA
Found at i:34484714 original size:20 final size:21
Alignment explanation
Indices: 34484678--34484716 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34484668 TAGGCGCCAA
34484678 TGAATAAAATAATAATTTTTT
1 TGAATAAAATAATAATTTTTT
34484699 TGAATAAAAT-ATAATTTT
1 TGAATAAAATAATAATTTT
34484717 ATACTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TGAATAAAATAATAATTTTTT
Found at i:34484925 original size:22 final size:21
Alignment explanation
Indices: 34484871--34484924 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
34484861 AAAACAGAAG
*
34484871 AAAGAAGAAAAGGAGGAAGGA
1 AAAGAAGAAAAGAAGGAAGGA
*
34484892 AGCAGAAGAAAAGAAGGAAGGA
1 A-AAGAAGAAAAGAAGGAAGGA
34484914 AAAGAAGAAAA
1 AAAGAAGAAAA
34484925 AAATTAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAAAGAAGGAAGGA
Found at i:34492647 original size:20 final size:21
Alignment explanation
Indices: 34492611--34492649 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34492601 TAGGCGCCAA
34492611 TGAATAAAATAATAATTTTTT
1 TGAATAAAATAATAATTTTTT
34492632 TGAATAAAAT-ATAATTTT
1 TGAATAAAATAATAATTTT
34492650 ATACTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TGAATAAAATAATAATTTTTT
Found at i:34492738 original size:27 final size:27
Alignment explanation
Indices: 34492699--34492799 Score: 184
Period size: 27 Copynumber: 3.7 Consensus size: 27
34492689 GTATTGGCGT
*
34492699 CTATCTGGAAGGCGCCAATGGTGGTGC
1 CTATCTGGGAGGCGCCAATGGTGGTGC
34492726 CTATCTGGGAGGCGCCAATGGTGGTGC
1 CTATCTGGGAGGCGCCAATGGTGGTGC
*
34492753 CTATTTGGGAGGCGCCAATGGTGGTGC
1 CTATCTGGGAGGCGCCAATGGTGGTGC
34492780 CTATCTGGGAGGCGCCAATG
1 CTATCTGGGAGGCGCCAATG
34492800 TGATTTTTCT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.17, C:0.22, G:0.39, T:0.23
Consensus pattern (27 bp):
CTATCTGGGAGGCGCCAATGGTGGTGC
Found at i:34492888 original size:22 final size:22
Alignment explanation
Indices: 34492860--34492915 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
34492850 AACAGAAGAA
34492860 AGAAGAAAAGAAAGAAGGAAGC
1 AGAAGAAAAGAAAGAAGGAAGC
*
34492882 AGAAGAAAAGAAGGAAGGAAGC
1 AGAAGAAAAGAAAGAAGGAAGC
*
34492904 AAAAGAAAAGAA
1 AGAAGAAAAGAA
34492916 TTAGGTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (22 bp):
AGAAGAAAAGAAAGAAGGAAGC
Found at i:34496258 original size:6 final size:6
Alignment explanation
Indices: 34496247--34496271 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34496237 TCTGCCACTC
34496247 GCTCTG GCTCTG GCTCTG GCTCTG G
1 GCTCTG GCTCTG GCTCTG GCTCTG G
34496272 TGCATGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (6 bp):
GCTCTG
Found at i:34497927 original size:16 final size:15
Alignment explanation
Indices: 34497896--34497937 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
34497886 ACAAAATCAA
*
34497896 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
34497911 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
34497927 ATAAAAATTAA
1 ATAAAAGTTAA
34497938 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:34498102 original size:38 final size:38
Alignment explanation
Indices: 34498048--34498121 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
34498038 TAAAAAACCC
34498048 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
*
34498086 AAACTTTTAATGAAATGATTTTTAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAA
34498122 ACTTTATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
Found at i:34498353 original size:27 final size:25
Alignment explanation
Indices: 34498317--34498533 Score: 197
Period size: 22 Copynumber: 8.8 Consensus size: 25
34498307 ATATCCCCAC
34498317 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAA-TA-AAA
34498344 ATTACAATATTCATAC--AA-AAAA
1 ATTACAATATTCATACAAAATAAAA
* *
34498366 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TA-AAA
*
34498393 ATTACAATATTCATAC-AAA-AAAT
1 ATTACAATATTCATACAAAATAAAA
* *
34498416 A-TATAATATTCATATAAAATTACAAA
1 ATTACAATATTCATACAAAA-TA-AAA
34498442 ATTACAATATTCATAC-AAA-AAAA
1 ATTACAATATTCATACAAAATAAAA
* *
34498465 A-TGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAA-TA-AAA
34498491 ATTACAATATTCATAC--AA-AAAA
1 ATTACAATATTCATACAAAATAAAA
* *
34498513 TTTATAATATTCATACAAAAT
1 ATTACAATATTCATACAAAAT
34498534 TACAATATTC
Statistics
Matches: 158, Mismatches: 14, Indels: 38
0.75 0.07 0.18
Matches are distributed among these distances:
22 59 0.37
23 16 0.10
24 6 0.04
25 6 0.04
26 13 0.08
27 58 0.37
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (25 bp):
ATTACAATATTCATACAAAATAAAA
Found at i:34498388 original size:41 final size:41
Alignment explanation
Indices: 34498338--34498634 Score: 172
Period size: 49 Copynumber: 6.7 Consensus size: 41
34498328 CATACAAAAT
*
34498338 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCATACAAAAAAATTACAATATTCA
* *
34498379 TACAAAATTATAATATTACAATATTCATACAAAAAATATATAATATTCATATAAAA
1 TACAAAATTACAATATT-C-ATA--C--A-AAAAAAT-TACAATATTC-------A
* *
34498435 TTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCA
1 -TACAAAATTACAATATTCATACAAAAAAATTACAATATTCA
* *
34498477 TACAAAACTATAATATTACAATATTCATACAAAAAATTTATAATATTCA
1 T-----AC-A-AA-ATTACAATATTCATACAAAAAAATTACAATATTCA
* *
34498526 TACAAAATTACAATATTCATAC-AAAAAATTACTA-ATCCAA
1 TACAAAATTACAATATTCATACAAAAAAATTACAATATTC-A
* * * *
34498566 AACTATAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TAC-A-AAATTACAATA-TTCA-TACAAAAAAATTACAATATTCA
*
34498609 TACAACATTACAATATTCATA-AAAAA
1 TACAAAATTACAATATTCATACAAAAA
34498635 NCACCCGACC
Statistics
Matches: 198, Mismatches: 25, Indels: 67
0.68 0.09 0.23
Matches are distributed among these distances:
39 3 0.02
40 17 0.09
41 46 0.23
42 18 0.09
43 18 0.09
44 5 0.03
45 1 0.01
46 2 0.01
47 2 0.01
48 9 0.05
49 48 0.24
50 6 0.03
51 1 0.01
53 1 0.01
55 3 0.02
56 2 0.01
57 16 0.08
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (41 bp):
TACAAAATTACAATATTCATACAAAAAAATTACAATATTCA
Found at i:34498423 original size:30 final size:27
Alignment explanation
Indices: 34498317--34498542 Score: 213
Period size: 27 Copynumber: 9.1 Consensus size: 27
34498307 ATATCCCCAC
* *
34498317 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTATAAT
34498344 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTATAAT
*
34498366 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
34498393 ATTACAATATTCATAC-AAA--A-AAT
1 ATTACAATATTCATACAAAATTATAAT
* * * *
34498416 A-TATAATATTCATATAAAATTACAAA
1 ATTACAATATTCATACAAAATTATAAT
34498442 ATTACAATATTCATACAAAA--A-AA-
1 ATTACAATATTCATACAAAATTATAAT
* *
34498465 A-TGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTATAAT
34498491 ATTACAATATTCATAC-AAA--A-AAT
1 ATTACAATATTCATACAAAATTATAAT
* *
34498514 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTATAAT
34498540 ATT
1 ATT
34498543 CATACAAAAA
Statistics
Matches: 169, Mismatches: 10, Indels: 40
0.77 0.05 0.18
Matches are distributed among these distances:
22 58 0.34
23 19 0.11
24 6 0.04
25 6 0.04
26 18 0.11
27 62 0.37
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.32
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTATAAT
Found at i:34498440 original size:98 final size:98
Alignment explanation
Indices: 34498322--34498538 Score: 398
Period size: 98 Copynumber: 2.2 Consensus size: 98
34498312 CCCACATTAC
* *
34498322 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
34498387 TATAATATTACAATATTCATACAAAAAATATAT
66 TATAATATTACAATATTCATACAAAAAATATAT
*
34498420 AATATTCATATAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
*
34498485 TATAATATTACAATATTCATACAAAAAATTTAT
66 TATAATATTACAATATTCATACAAAAAATATAT
34498518 AATATTCATACAAAATTACAA
1 AATATTCATACAAAATTACAA
34498539 TATTCATACA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.31
Consensus pattern (98 bp):
AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
TATAATATTACAATATTCATACAAAAAATATAT
Found at i:34498541 original size:49 final size:49
Alignment explanation
Indices: 34498264--34498542 Score: 343
Period size: 49 Copynumber: 5.7 Consensus size: 49
34498254 AATTAATTAT
*
34498264 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** * *
34498312 -CCCACATTACAATATTCATACAAAATTACAAAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
34498360 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
34498409 -AAAAAATATATAATATTCATATAAAATTACAAAATTACAATATTCATAC
1 AAAAAAAT-TACAATATTCATACAAAATTACAATATTACAATATTCATAC
* * * *
34498458 AAAAAAAATGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
34498507 AAAAAATTTATAATATTCATACAAAATTACAATATT
1 AAAAAAATTACAATATTCATACAAAATTACAATATT
34498543 CATACAAAAA
Statistics
Matches: 194, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
45 19 0.10
46 1 0.01
47 18 0.09
48 8 0.04
49 142 0.73
50 6 0.03
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:34506346 original size:42 final size:42
Alignment explanation
Indices: 34506175--34506357 Score: 206
Period size: 42 Copynumber: 4.4 Consensus size: 42
34506165 AAAGCTCATG
** * *
34506175 AGAGCTAAACAAAAACCCATAAGGGTTGAACAGAAGCTTGTAA
1 AGAGCTAAACGGAAACCCATAAGGGTTAAACAGAAGCTT-AAA
* * *
34506218 A-AGCTGAACGAAAACCCATAAGGGTTAAATAGAAGCTTAAA
1 AGAGCTAAACGGAAACCCATAAGGGTTAAACAGAAGCTTAAA
* *
34506259 AGAGCTGAACGGAAACCCATAAGGGTTAAACAGAAGCTCAAA
1 AGAGCTAAACGGAAACCCATAAGGGTTAAACAGAAGCTTAAA
* * * * **
34506301 AGAGCTAAACGGAAACTCATATGAGTTAAACAGAATCTTGTA
1 AGAGCTAAACGGAAACCCATAAGGGTTAAACAGAAGCTTAAA
*
34506343 AGAGCTAAACAGAAA
1 AGAGCTAAACGGAAA
34506358 GTAAAACATG
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 3 0.02
42 118 0.97
43 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (42 bp):
AGAGCTAAACGGAAACCCATAAGGGTTAAACAGAAGCTTAAA
Found at i:34506351 original size:21 final size:21
Alignment explanation
Indices: 34506169--34506357 Score: 83
Period size: 21 Copynumber: 9.0 Consensus size: 21
34506159 TGAATAAAAG
* *
34506169 CTCATGAGAGCTAAACAAAAA
1 CTCATAAGAGCTAAACAGAAA
* * * * *
34506190 CCCATAAGGGTTGAACAGAAG
1 CTCATAAGAGCTAAACAGAAA
** * *
34506211 CTTGTAAAAGCTGAAC-GAAAA
1 CTCATAAGAGCTAAACAG-AAA
* * * * *
34506232 CCCATAAGGGTTAAATAGAAG
1 CTCATAAGAGCTAAACAGAAA
* * * *
34506253 CTTAAAAGAGCTGAACGGAAA
1 CTCATAAGAGCTAAACAGAAA
* * * *
34506274 CCCATAAGGGTTAAACAGAAG
1 CTCATAAGAGCTAAACAGAAA
* *
34506295 CTCAAAAGAGCTAAACGGAAA
1 CTCATAAGAGCTAAACAGAAA
* * *
34506316 CTCATATGAGTTAAACAGAAT
1 CTCATAAGAGCTAAACAGAAA
**
34506337 CTTGTAAGAGCTAAACAGAAA
1 CTCATAAGAGCTAAACAGAAA
34506358 GTAAAACATG
Statistics
Matches: 110, Mismatches: 56, Indels: 4
0.65 0.33 0.02
Matches are distributed among these distances:
20 1 0.01
21 108 0.98
22 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
CTCATAAGAGCTAAACAGAAA
Found at i:34514893 original size:2 final size:2
Alignment explanation
Indices: 34514886--34514913 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34514876 TAATATCATT
34514886 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
34514914 TATATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:34520082 original size:29 final size:28
Alignment explanation
Indices: 34520049--34520128 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 28
34520039 TTTTTAAAAA
34520049 AAATATTTATATTATTTGAATTTAATATT
1 AAATATTTATATTATTT-AATTTAATATT
34520078 AAATAATTTA-A-TA-TT--TTT-A-ATT
1 AAAT-ATTTATATTATTTAATTTAATATT
*
34520100 AAAAATTTATATATATTTAATTTAATATT
1 AAATATTTATAT-TATTTAATTTAATATT
34520129 TTTTAATGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 18
0.68 0.02 0.30
Matches are distributed among these distances:
21 5 0.12
22 7 0.17
23 1 0.02
24 5 0.12
25 2 0.05
27 5 0.12
28 3 0.07
29 8 0.20
30 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (28 bp):
AAATATTTATATTATTTAATTTAATATT
Found at i:34520100 original size:22 final size:23
Alignment explanation
Indices: 34520075--34520126 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
34520065 TGAATTTAAT
*
34520075 ATTAAATAATTTA-ATATTTTTA
1 ATTAAATAATTTATATATATTTA
34520097 ATTAAA-AATTTATATATATTTA
1 ATTAAATAATTTATATATATTTA
*
34520119 ATTTAATA
1 ATTAAATA
34520127 TTTTTTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 19 0.73
23 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAAATAATTTATATATATTTA
Found at i:34520222 original size:15 final size:17
Alignment explanation
Indices: 34520190--34520229 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
34520180 TATGTGTTAT
34520190 AAATTACATAATATATA
1 AAATTACATAATATATA
*
34520207 AAATTACATAATATAAA
1 AAATTACATAATATATA
34520224 AAATTA
1 AAATTA
34520230 TAAACTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTACATAATATATA
Found at i:34528263 original size:28 final size:30
Alignment explanation
Indices: 34528232--34528325 Score: 88
Period size: 34 Copynumber: 3.1 Consensus size: 30
34528222 TTGTATTTAG
34528232 AATAAAAATTTAAATTATATTTATATTAAAT
1 AATAAAAATTTAAATTATATTTATATT-AAT
*
34528263 AATAAAATATATTTAAATTAT-TTTGTATT-A-
1 AAT-AAA-A-ATTTAAATTATATTTATATTAAT
* **
34528293 AA-AAAAATTTAAAATATATTTATGCTAAT
1 AATAAAAATTTAAATTATATTTATATTAAT
34528322 AATA
1 AATA
34528326 TTTTTCTCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
26 10 0.20
27 6 0.12
28 4 0.08
29 2 0.04
30 3 0.06
31 4 0.08
32 3 0.06
33 8 0.16
34 11 0.22
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (30 bp):
AATAAAAATTTAAATTATATTTATATTAAT
Found at i:34528375 original size:20 final size:18
Alignment explanation
Indices: 34528351--34528386 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34528341 ATTATATAAT
34528351 ATTTTTTAAATATATTTA
1 ATTTTTTAAATATATTTA
34528369 ATTTTTTAAATATATTTA
1 ATTTTTTAAATATATTTA
34528387 TATCATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTAAATATATTTA
Found at i:34531646 original size:20 final size:20
Alignment explanation
Indices: 34531623--34531674 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
34531613 AACATTTCCT
34531623 TTAATTAATTTAAAAAAAAA
1 TTAATTAATTTAAAAAAAAA
* **
34531643 TTAATTCATTTAATTAAAAA
1 TTAATTAATTTAAAAAAAAA
**
34531663 CCAATTAATTTA
1 TTAATTAATTTA
34531675 CTTGGCTGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATTAATTTAAAAAAAAA
Found at i:34536614 original size:24 final size:24
Alignment explanation
Indices: 34536579--34536632 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
34536569 ATAAAGTTAC
* *
34536579 AATTGCCA-ATTGAGTTTCAGCTT
1 AATTGGCAGATTGAGTTTCAACTT
*
34536602 GATTGGCAGATTGAGTTTCAACTT
1 AATTGGCAGATTGAGTTTCAACTT
34536626 AATTGGC
1 AATTGGC
34536633 TTGGACATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (24 bp):
AATTGGCAGATTGAGTTTCAACTT
Found at i:34538086 original size:32 final size:32
Alignment explanation
Indices: 34538049--34538204 Score: 177
Period size: 32 Copynumber: 4.9 Consensus size: 32
34538039 CATGTTTTAT
* *
34538049 ATATTGCTGAATTGAATTGTATAGGTATAGAC
1 ATATTGCTGAATTGAATTGTATATGTATACAC
* * *
34538081 CTATTGTTGAATTGAATTGTATATATATACAC
1 ATATTGCTGAATTGAATTGTATATGTATACAC
* * ***
34538113 CTATTGCTGAAATGAATTGTATATGTATATTT
1 ATATTGCTGAATTGAATTGTATATGTATACAC
* * *
34538145 ATATTGCCGAATTTAATTGTATAGGTATACAC
1 ATATTGCTGAATTGAATTGTATATGTATACAC
* *
34538177 ATATTGCCGAATTGATTTGTATATGTAT
1 ATATTGCTGAATTGAATTGTATATGTAT
34538205 TTATGTATTG
Statistics
Matches: 102, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 102 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (32 bp):
ATATTGCTGAATTGAATTGTATATGTATACAC
Found at i:34538214 original size:32 final size:32
Alignment explanation
Indices: 34538035--34538215 Score: 132
Period size: 32 Copynumber: 5.7 Consensus size: 32
34538025 TAAATTTAAA
* *
34538035 TGTACATGT-TTTATATATTGCTGAATTGAAT
1 TGTATATGTATTTATATATTGCCGAATTGAAT
* ** ** **
34538066 TGTATAGGTATAGACCTATTGTTGAATTGAAT
1 TGTATATGTATTTATATATTGCCGAATTGAAT
* ** ** * *
34538098 TGTATATATATACACCTATTGCTGAAATGAAT
1 TGTATATGTATTTATATATTGCCGAATTGAAT
*
34538130 TGTATATGTATATT-TATATTGCCGAATTTAAT
1 TGTATATGTAT-TTATATATTGCCGAATTGAAT
* ** * *
34538162 TGTATAGGTATACACATATTGCCGAATTGATT
1 TGTATATGTATTTATATATTGCCGAATTGAAT
*
34538194 TGTATATGTATTTATGTATTGC
1 TGTATATGTATTTATATATTGC
34538216 TGATTTGATT
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
31 7 0.06
32 109 0.94
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (32 bp):
TGTATATGTATTTATATATTGCCGAATTGAAT
Found at i:34541300 original size:20 final size:19
Alignment explanation
Indices: 34541271--34541312 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
34541261 CCTTTTCAGA
34541271 ATATTGTATTAGAATTATAT
1 ATATTGTATTAGAATTA-AT
* *
34541291 ATATTTTATTAGTATTAAT
1 ATATTGTATTAGAATTAAT
34541310 ATA
1 ATA
34541313 CAAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
ATATTGTATTAGAATTAAT
Found at i:34544711 original size:17 final size:17
Alignment explanation
Indices: 34544685--34544730 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
34544675 AATTTTGGAA
*
34544685 TTTT-ATTTTTATTATT
1 TTTTAATTTTTATAATT
34544701 TTTTAATTTTT-TAATT
1 TTTTAATTTTTATAATT
34544717 TTTCTAGATTTTTA
1 TTT-TA-ATTTTTA
34544731 AATGAGGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTAATTTTTATAATT
Found at i:34544919 original size:23 final size:23
Alignment explanation
Indices: 34544891--34544935 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34544881 ATCTTTAAAA
*
34544891 TTTATACATATTTGATAAAAGAG
1 TTTATACATATTTAATAAAAGAG
*
34544914 TTTATATATATTTAATAAAAGA
1 TTTATACATATTTAATAAAAGA
34544936 ACATGTCTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (23 bp):
TTTATACATATTTAATAAAAGAG
Found at i:34551363 original size:21 final size:20
Alignment explanation
Indices: 34551336--34551377 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
34551326 ACACAGGGCC
34551336 TCTTCCGATAGCCCAAGCAT
1 TCTTCCGATAGCCCAAGCAT
*
34551356 TNCTTCCGATCGCCCAAGCAT
1 T-CTTCCGATAGCCCAAGCAT
34551377 T
1 T
34551378 GATGATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.26
Consensus pattern (20 bp):
TCTTCCGATAGCCCAAGCAT
Found at i:34555618 original size:43 final size:43
Alignment explanation
Indices: 34555508--34555671 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
34555498 TTTCTGATAA
* * *
34555508 GTATTTTCATGTAAGACCACGTCTGGGATGATGGAATTGATTT
1 GTATTTTCATGTAAGACCACGTCTGGGACGATGGCATCGATTT
* ** *
34555551 ATATTTTTGTGTAAAACCACGTCTGGGACGATGGCATCGATTT
1 GTATTTTCATGTAAGACCACGTCTGGGACGATGGCATCGATTT
** *
34555594 GTATTTTCGA-GTAAGACCTTGTCTGGGA-TAGTGGCATCGATTT
1 GTATTTTC-ATGTAAGACCACGTCTGGGACGA-TGGCATCGATTT
* * * *
34555637 GCGA-TTACATGTAAGACCATGTCTAGGACGATGGC
1 G-TATTTTCATGTAAGACCACGTCTGGGACGATGGC
34555672 GTTGTATGAA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 93 0.96
44 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
GTATTTTCATGTAAGACCACGTCTGGGACGATGGCATCGATTT
Found at i:34561499 original size:18 final size:18
Alignment explanation
Indices: 34561478--34561520 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
34561468 CATTCTTCTC
* *
34561478 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTACCCCTT
34561496 CCCTTTCCCCTACCCCTT
1 CCCTTTCCCCTACCCCTT
34561514 CCCTTTC
1 CCCTTTC
34561521 TCGTTTCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.02, C:0.58, G:0.00, T:0.40
Consensus pattern (18 bp):
CCCTTTCCCCTACCCCTT
Found at i:34562006 original size:25 final size:25
Alignment explanation
Indices: 34561969--34562023 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
34561959 TTTCTGAATA
34561969 TGTTTAAGGGCCAAAGTCACTTCTT
1 TGTTTAAGGGCCAAAGTCACTTCTT
*
34561994 TGTTTAAGTGCCAAAGTCACTTCTT
1 TGTTTAAGGGCCAAAGTCACTTCTT
34562019 TGTTT
1 TGTTT
34562024 GTACATTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (25 bp):
TGTTTAAGGGCCAAAGTCACTTCTT
Found at i:34563690 original size:20 final size:20
Alignment explanation
Indices: 34563662--34563701 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34563652 ACACAAAAAG
*
34563662 TTCAACAGGCAGATTCTGAC
1 TTCAACAGGCAGATCCTGAC
*
34563682 TTCAGCAGGCAGATCCTGAC
1 TTCAACAGGCAGATCCTGAC
34563702 AGTTCCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.23
Consensus pattern (20 bp):
TTCAACAGGCAGATCCTGAC
Found at i:34564055 original size:20 final size:20
Alignment explanation
Indices: 34564030--34564069 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34564020 AATATTTTCC
*
34564030 AGTAAACCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
* *
34564050 AGTAAAATATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
34564070 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:34564084 original size:34 final size:35
Alignment explanation
Indices: 34564018--34564084 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
34564008 CAAACACCAG
34564018 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
* *
34564053 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAA
34564085 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:34570962 original size:23 final size:23
Alignment explanation
Indices: 34570936--34571033 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
34570926 ATAAGTGCCA
34570936 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34570959 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34570982 CACTGA-ATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34571004 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34571027 CACTGAT
1 CACTGAT
34571034 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34571001 original size:45 final size:46
Alignment explanation
Indices: 34570936--34571033 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
34570926 ATAAGTGCCA
* *
34570936 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
34570982 CACTGA-ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
34571027 CACTGAT
1 CACTGAT
34571034 CAATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (46 bp):
CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:34572235 original size:9 final size:9
Alignment explanation
Indices: 34572221--34572251 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34572211 GTAGTGATTC
34572221 AATTCGGGT
1 AATTCGGGT
34572230 AATTCGGGT
1 AATTCGGGT
*
34572239 AATTCGGTT
1 AATTCGGGT
34572248 AATT
1 AATT
34572252 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:34573625 original size:3 final size:3
Alignment explanation
Indices: 34573617--34573655 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
34573607 ATTTCACAAT
34573617 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34573656 TATTTTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34574918 original size:24 final size:24
Alignment explanation
Indices: 34574876--34574926 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
34574866 AATCAAAGTC
** *
34574876 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
34574900 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
34574924 AAA
1 AAA
34574927 CATCCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:34576971 original size:8 final size:8
Alignment explanation
Indices: 34576919--34576973 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
34576909 TTTTTTGAAG
34576919 TATATTAT
1 TATATTAT
*
34576927 TATTTTAT
1 TATATTAT
*
34576935 TATATT-G
1 TATATTAT
*
34576942 TAAATTATAT
1 TATA-T-TAT
34576952 TATATTAT
1 TATATTAT
34576960 TATATTAT
1 TATATTAT
34576968 TATATT
1 TATATT
34576974 TTAAATAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 3 0.08
8 30 0.79
9 2 0.05
10 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:34577205 original size:13 final size:13
Alignment explanation
Indices: 34577174--34577214 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
34577164 GACGAAACAG
*
34577174 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
34577186 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
34577199 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
34577212 AGA
1 AGA
34577215 GAAAATTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:34578016 original size:45 final size:45
Alignment explanation
Indices: 34577944--34578093 Score: 210
Period size: 45 Copynumber: 3.3 Consensus size: 45
34577934 ATGTGCCAAC
* * * *
34577944 TACTGTTACTGTTACTGATTCGACACTTTGTGTATCGAATACTAT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
34577989 TACTATTACTGGTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
34578034 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
*
34578079 TACTGTTACTATTAC
1 TACTGTTACTGTTAC
34578094 TGCTACCGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 93 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:34578104 original size:18 final size:19
Alignment explanation
Indices: 34578073--34578111 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
34578063 GTGTGTTGAA
* *
34578073 TACTGTTACTGTTACT-AT
1 TACTGCTACCGTTACTGAT
34578091 TACTGCTACCGTTACTGAT
1 TACTGCTACCGTTACTGAT
34578110 TA
1 TA
34578112 ATGTTTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (19 bp):
TACTGCTACCGTTACTGAT
Found at i:34589961 original size:5 final size:6
Alignment explanation
Indices: 34589939--34589968 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
34589929 CTATTTACAG
34589939 AAAAAT GAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
34589969 CAAATCGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:34596770 original size:1 final size:1
Alignment explanation
Indices: 34596764--34596792 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
34596754 AAATTCCCTT
34596764 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
34596793 AATGCAATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:34602238 original size:23 final size:25
Alignment explanation
Indices: 34602212--34602258 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
34602202 TATCATTCAT
*
34602212 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
34602235 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
34602259 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:34602579 original size:46 final size:46
Alignment explanation
Indices: 34602519--34602735 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
34602509 TTTGACGTGA
* * * * * *
34602519 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
34602565 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
34602611 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
34602657 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
34602703 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
34602736 NNNNNNNNNN
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 153 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:34608412 original size:21 final size:22
Alignment explanation
Indices: 34608388--34608428 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34608378 TGGTGCACTG
*
34608388 ATAA-TGTATTCTTTTTATTCC
1 ATAATTGTACTCTTTTTATTCC
34608409 ATAATTGTACTCTTTTTATT
1 ATAATTGTACTCTTTTTATT
34608429 TCGTAAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATTGTACTCTTTTTATTCC
Found at i:34608489 original size:14 final size:16
Alignment explanation
Indices: 34608465--34608496 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34608455 GCGTCTCTCT
34608465 TTTTTTAAATATT-TA
1 TTTTTTAAATATTATA
34608480 TTTTTT-AATATTATA
1 TTTTTTAAATATTATA
34608495 TT
1 TT
34608497 ATACCTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTAAATATTATA
Found at i:34613203 original size:3 final size:3
Alignment explanation
Indices: 34613195--34613229 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34613185 AAACCAACCT
34613195 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
34613230 ATGAGATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34614470 original size:27 final size:26
Alignment explanation
Indices: 34614419--34614470 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
34614409 CTGATCGATT
*
34614419 TTGATTTGATATATTCTTAATTTAAG
1 TTGATTTGATATATTCTTAAGTTAAG
*
34614445 TTGATATTGATATGATT-TTCAGTTAA
1 TTGAT-TTGATAT-ATTCTTAAGTTAA
34614471 ATGTTTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 5 0.23
27 14 0.64
28 3 0.14
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (26 bp):
TTGATTTGATATATTCTTAAGTTAAG
Found at i:34625750 original size:30 final size:29
Alignment explanation
Indices: 34625716--34625784 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
34625706 AAAATAACAG
*
34625716 TTTAAAAATCTTATATAAGATATAAAATA-T
1 TTTAAAAAT-TTATATAA-ATATAAAAAAGT
* *
34625746 TTTAAAATATTTGTATAAATTTAAAAAAGT
1 TTTAAAA-ATTTATATAAATATAAAAAAGT
34625776 TTTAAAAAT
1 TTTAAAAAT
34625785 ATAAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 10 0.29
30 22 0.65
31 2 0.06
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (29 bp):
TTTAAAAATTTATATAAATATAAAAAAGT
Found at i:34633250 original size:30 final size:30
Alignment explanation
Indices: 34633215--34633276 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
34633205 TCTCTTCTTG
34633215 ATGTAGTAAGGTATGTTTAAATTAAGATAC
1 ATGTAGTAAGGTATGTTTAAATTAAGATAC
34633245 ATGTAGTAAGGTATGTTTAAATTAAGATAC
1 ATGTAGTAAGGTATGTTTAAATTAAGATAC
34633275 AT
1 AT
34633277 AGTGTATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.37
Consensus pattern (30 bp):
ATGTAGTAAGGTATGTTTAAATTAAGATAC
Found at i:34633283 original size:25 final size:27
Alignment explanation
Indices: 34633225--34633284 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
34633215 ATGTAGTAAG
34633225 GTATGTTTAAATTAAGATACATGTAGTAA
1 GTATGTTTAAATTAAGATACA-GTAGT-A
34633254 GGTATGTTTAAATTAAGATACA-TAGT-
1 -GTATGTTTAAATTAAGATACAGTAGTA
34633280 GTATG
1 GTATG
34633285 CTTTGACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 5 0.17
28 4 0.13
30 21 0.70
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (27 bp):
GTATGTTTAAATTAAGATACAGTAGTA
Found at i:34640109 original size:18 final size:18
Alignment explanation
Indices: 34640086--34640128 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
34640076 GTTCAATGTG
34640086 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
34640104 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
34640122 TAATTAA
1 TAATTAA
34640129 AAACCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:34641107 original size:22 final size:22
Alignment explanation
Indices: 34641069--34641136 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
34641059 CCTGAATCAA
* *
34641069 TTGTTTTGCTGCCATTTTGTTG
1 TTGTTTTGCTACTATTTTGTTG
*** *
34641091 TTGTTTTGCTACTATTTCACTA
1 TTGTTTTGCTACTATTTTGTTG
* *
34641113 TTATATTGCTACTATTTTGTTG
1 TTGTTTTGCTACTATTTTGTTG
34641135 TT
1 TT
34641137 ATTGTATAAC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.59
Consensus pattern (22 bp):
TTGTTTTGCTACTATTTTGTTG
Found at i:34642880 original size:26 final size:28
Alignment explanation
Indices: 34642851--34642912 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
34642841 ATTTATAATT
34642851 TTTTTAAAA-T-AAAT-TAATTTATATCA
1 TTTTTAAAATTAAAATATAATTT-TATCA
34642877 TTTTTAAAAATTAAAATATAATTTTATCA
1 TTTTT-AAAATTAAAATATAATTTTATCA
*
34642906 TTATTAA
1 TTTTTAA
34642913 TCTAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
27 4 0.13
28 3 0.10
29 13 0.42
30 6 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (28 bp):
TTTTTAAAATTAAAATATAATTTTATCA
Found at i:34646651 original size:11 final size:10
Alignment explanation
Indices: 34646617--34646649 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
34646607 ATGCGAAAGT
34646617 TTTGAAAAAC
1 TTTGAAAAAC
34646627 TTTGAAAAAC
1 TTTGAAAAAC
*
34646637 TTTGAGAAAC
1 TTTGAAAAAC
34646647 TTT
1 TTT
34646650 TGGGAGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (10 bp):
TTTGAAAAAC
Found at i:34646924 original size:32 final size:32
Alignment explanation
Indices: 34646844--34647071 Score: 276
Period size: 32 Copynumber: 6.8 Consensus size: 32
34646834 TCACTTGTCT
* * *
34646844 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* *
34646878 TTCTGTTGCAGGGAATCTTTCCTGTTCACATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCACATCA
*
34646911 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* * *
34646945 TTTTGTTGCAGGGAACCTCTCCTGTTCACACATTA
1 -TTTCTTGCAGGGAATCTCTCCTGTT--CACATCA
* *
34646980 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
34647013 TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
34647045 TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA
34647072 TGTATTATTT
Statistics
Matches: 175, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
32 80 0.46
33 12 0.07
34 6 0.03
35 75 0.43
37 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (32 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
Found at i:34646952 original size:67 final size:67
Alignment explanation
Indices: 34646844--34647081 Score: 320
Period size: 67 Copynumber: 3.6 Consensus size: 67
34646834 TCACTTGTCT
* * * *
34646844 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
34646909 CA
66 CA
*
34646911 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAACCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTT--CAC
*
34646976 ATTA
64 ATCA
* * * *
34646980 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
34647042 TCA
65 TCA
* *
34647045 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
34647082 CTTTTTGGAC
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
64 25 0.17
65 6 0.04
66 3 0.02
67 80 0.54
68 4 0.03
69 6 0.04
70 25 0.17
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:34647024 original size:102 final size:100
Alignment explanation
Indices: 34646843--34647071 Score: 370
Period size: 102 Copynumber: 2.3 Consensus size: 100
34646833 TTCACTTGTC
* * *
34646843 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
*
34646908 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* * *
34646945 TTTTGTTGCAGGGAACCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
34647010 TCATTTCTTGCAGGGAATCTCTCCTGTTCACATCA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACATCA
34647045 -TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA
34647072 TGTATTATTT
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
99 25 0.21
100 4 0.03
102 89 0.75
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (100 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACATCA
Found at i:34649913 original size:21 final size:22
Alignment explanation
Indices: 34649883--34649927 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
34649873 GAGCAAATTG
34649883 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
34649905 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
34649926 TT
1 TT
34649928 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:34654577 original size:35 final size:33
Alignment explanation
Indices: 34654534--34654707 Score: 217
Period size: 32 Copynumber: 5.2 Consensus size: 33
34654524 TCACTTGTCT
* *
34654534 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
34654568 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCAGCATTA
34654601 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
34654635 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
34654668 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
34654702 TTTCTT
1 TTTCTT
34654708 TTTGGACCTG
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
32 49 0.40
33 10 0.08
34 15 0.12
35 49 0.40
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
Found at i:34654642 original size:67 final size:67
Alignment explanation
Indices: 34654534--34654704 Score: 288
Period size: 67 Copynumber: 2.6 Consensus size: 67
34654524 TCACTTGTCT
* * * *
34654534 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
34654599 CA
66 CA
34654601 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
34654666 CA
66 CA
* *
34654668 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
34654705 CTTTTTGGAC
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 98 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:34655354 original size:20 final size:18
Alignment explanation
Indices: 34655307--34655397 Score: 58
Period size: 17 Copynumber: 5.3 Consensus size: 18
34655297 CATGATAAAA
34655307 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
34655324 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
34655344 ATTAAATTAATA---AA-
1 ATTAAATTAATATTTAAT
*
34655358 A-TACAATTAAGA--TAAGT
1 ATTA-AATTAATATTTAA-T
34655375 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
34655392 ATTAAA
1 ATTAAA
34655398 CTATTAAACT
Statistics
Matches: 61, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
13 2 0.03
14 8 0.13
15 4 0.07
16 1 0.02
17 22 0.36
18 6 0.10
19 3 0.05
20 15 0.25
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:34657992 original size:21 final size:21
Alignment explanation
Indices: 34657952--34658008 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
34657942 TTTTGACTTT
34657952 TTTTCTCTT-GTTCGGTTTTTTC
1 TTTTCTCTTGGTT--GTTTTTTC
34657974 TTTTCTCTTGGTTGTTTTTTC
1 TTTTCTCTTGGTTGTTTTTTC
34657995 TTTTCTCTTGGTTG
1 TTTTCTCTTGGTTG
34658009 GAAAAACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 22 0.65
22 9 0.26
23 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (21 bp):
TTTTCTCTTGGTTGTTTTTTC
Found at i:34661868 original size:10 final size:9
Alignment explanation
Indices: 34661812--34661898 Score: 54
Period size: 10 Copynumber: 9.2 Consensus size: 9
34661802 AATTTCTACT
*
34661812 AAATTCTAA
1 AAATTATAA
34661821 TAAATTA-AA
1 -AAATTATAA
34661830 AACATT-TAA
1 AA-ATTATAA
*
34661839 AATTTATAGA
1 AAATTATA-A
34661849 AAATTCATAA
1 AAATT-ATAA
34661859 AAACTTATAA
1 AAA-TTATAA
34661869 ATAA-TATAA
1 A-AATTATAA
*
34661878 AAATTCTAA
1 AAATTATAA
*
34661887 TAAAATATAA
1 -AAATTATAA
34661897 AA
1 AA
34661899 GTTAGAAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
8 6 0.10
9 23 0.37
10 26 0.42
11 7 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (9 bp):
AAATTATAA
Found at i:34661879 original size:19 final size:19
Alignment explanation
Indices: 34661855--34661898 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34661845 TAGAAAATTC
*
34661855 ATAAAAACTTATAA-ATAAT
1 ATAAAAA-TTATAATAAAAT
*
34661874 ATAAAAATTCTAATAAAAT
1 ATAAAAATTATAATAAAAT
34661893 ATAAAA
1 ATAAAA
34661899 GTTAGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAATTATAATAAAAT
Found at i:34672982 original size:29 final size:29
Alignment explanation
Indices: 34672911--34672986 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
34672901 CACGACTAAG
*
34672911 CACACACTCGTGTGGCTCACACAGCCAGA
1 CACACACTCGTGTGGCTCACACAGCCAAA
* * * * * *
34672940 CAAACGCCCTTGTGGCTTACACGGCCAAA
1 CACACACTCGTGTGGCTCACACAGCCAAA
34672969 CACACACTCGTGTGGCTC
1 CACACACTCGTGTGGCTC
34672987 CGACTGCCAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.25, C:0.37, G:0.21, T:0.17
Consensus pattern (29 bp):
CACACACTCGTGTGGCTCACACAGCCAAA
Found at i:34672995 original size:29 final size:28
Alignment explanation
Indices: 34672911--34672996 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 28
34672901 CACGACTAAG
*
34672911 CACACACTCGTGTGGCTCACACAGCCAGA
1 CACACACTCGTGTGGCTC-CACAGCCAAA
* * * * * *
34672940 CAAACGCCCTTGTGGCTTACACGGCCAAA
1 CACACACTCGTGTGGC-TCCACAGCCAAA
*
34672969 CACACACTCGTGTGGCTCCGACTGCCAA
1 CACACACTCGTGTGGCTCC-ACAGCCAA
34672997 TTTTAGTTTC
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
28 2 0.05
29 39 0.93
30 1 0.02
ACGTcount: A:0.26, C:0.37, G:0.21, T:0.16
Consensus pattern (28 bp):
CACACACTCGTGTGGCTCCACAGCCAAA
Found at i:34675741 original size:16 final size:16
Alignment explanation
Indices: 34675720--34675759 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
34675710 GGCCCATGTT
34675720 TTGGCGAACACTAGCA
1 TTGGCGAACACTAGCA
34675736 TTGGCGAACACTAGCA
1 TTGGCGAACACTAGCA
34675752 TTGGCGAA
1 TTGGCGAA
34675760 TCCTCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.20
Consensus pattern (16 bp):
TTGGCGAACACTAGCA
Found at i:34681040 original size:17 final size:17
Alignment explanation
Indices: 34681018--34681056 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
34681008 TTAAGATAAG
*
34681018 TATTAAATTTAATT-AAA
1 TATTAAATCT-ATTAAAA
34681035 TATTAAATCTATTAAAA
1 TATTAAATCTATTAAAA
34681052 TATTA
1 TATTA
34681057 TTATTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAATCTATTAAAA
Found at i:34696164 original size:41 final size:41
Alignment explanation
Indices: 34695927--34696162 Score: 204
Period size: 41 Copynumber: 5.7 Consensus size: 41
34695917 CTACCTTTTG
* * *
34695927 GGGCTTTAACGGCGTTTTTAAAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGCTCA
** * * *
34695969 GATCTTTAACGGCGTTTTTGAAAAAGCGCTGTTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
** * * * *
34696010 GATCTTTAGCAGCGTTTTTGAAAAGGCGGCGCTAATACTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * * *
34696051 AGGCTTTAGCGGCGTTTTTCAAGAAGTGCCGCTAATGCTC-
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * ** * * **
34696091 GAGGCTTTAGAGCCGTTTTCCAAGAAGCGCCACTAATGCTTG
1 G-GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
34696133 GGGCTTTAGCGGCGGTTTTGAAAAAGCGCC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCC
34696163 ACAAAAACAT
Statistics
Matches: 156, Mismatches: 36, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
41 138 0.88
42 18 0.12
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:34696835 original size:21 final size:21
Alignment explanation
Indices: 34696811--34696853 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34696801 GGGGTTAGTG
*
34696811 GTTAGGGATTTGGGGTTAAGA
1 GTTAGGGATTTAGGGTTAAGA
* *
34696832 GTTAGTGATTTAGGGTTTAGA
1 GTTAGGGATTTAGGGTTAAGA
34696853 G
1 G
34696854 ATTTAGGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
GTTAGGGATTTAGGGTTAAGA
Found at i:34697959 original size:22 final size:22
Alignment explanation
Indices: 34697932--34697996 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
34697922 ATAAAATCTC
*
34697932 CTCCCCCGAAATCCCCAACTTT
1 CTCCCCTGAAATCCCCAACTTT
* *
34697954 CTCCCCTAAAATCCCTAA-TTT
1 CTCCCCTGAAATCCCCAACTTT
*
34697975 C-CCCCTTGAAACCCCCAACTTT
1 CTCCCC-TGAAATCCCCAACTTT
34697997 ACAAACATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 13 0.37
22 18 0.51
ACGTcount: A:0.25, C:0.46, G:0.03, T:0.26
Consensus pattern (22 bp):
CTCCCCTGAAATCCCCAACTTT
Found at i:34697975 original size:21 final size:21
Alignment explanation
Indices: 34697940--34697996 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
34697930 TCCTCCCCCG
34697940 AAATCCCCAACTTTCTCCCCTA
1 AAATCCCCAACTTTC-CCCCTA
* *
34697962 AAATCCCTAA-TTTCCCCCTTG
1 AAATCCCCAACTTTCCCCC-TA
*
34697983 AAACCCCCAACTTT
1 AAATCCCCAACTTT
34697997 ACAAACATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 13 0.45
22 12 0.41
ACGTcount: A:0.28, C:0.42, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATCCCCAACTTTCCCCCTA
Found at i:34706454 original size:5 final size:5
Alignment explanation
Indices: 34706440--34706469 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
34706430 GTAAGTTTCT
34706440 AAAA- AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
34706470 GCATTGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:34707388 original size:41 final size:42
Alignment explanation
Indices: 34707289--34707442 Score: 131
Period size: 41 Copynumber: 3.7 Consensus size: 42
34707279 TGCATTTTCG
* * *
34707289 TGTAAGACCAC-GTCTGGGACGTTGGCATCGACT-TGTG-TATACG
1 TGTAAGACC-CTGTTTGGGACATTGGCAT-GA-TATGTGAT-TACA
* * *
34707332 TGTAAGACCATGTTTGGGACATTGGCATCG-TATTTGATT-TA
1 TGTAAGACCCTGTTTGGGACATTGGCAT-GATATGTGATTACA
*
34707373 TGTAAGACCCTGTTTGGGACAGTGGCATGATATGTGATTACA
1 TGTAAGACCCTGTTTGGGACATTGGCATGATATGTGATTACA
* *
34707415 TGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TGTAAGACC-CTGTTTGGGACATTGGCAT
34707443 TGTACGAGCC
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.01
41 35 0.38
42 28 0.30
43 28 0.30
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (42 bp):
TGTAAGACCCTGTTTGGGACATTGGCATGATATGTGATTACA
Found at i:34707632 original size:16 final size:17
Alignment explanation
Indices: 34707603--34707634 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34707593 TGAATTGATG
34707603 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
34707620 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
34707635 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:34710659 original size:16 final size:17
Alignment explanation
Indices: 34710630--34710661 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34710620 TGAATTGATG
34710630 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
34710647 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
34710662 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:34712640 original size:23 final size:23
Alignment explanation
Indices: 34712608--34712661 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
34712598 AATATGTTCG
*
34712608 ATTGAGCTTTGATGTATGTTTAA
1 ATTGAACTTTGATGTATGTTTAA
34712631 ATTGAACTTTGATGTATGTTTAA
1 ATTGAACTTTGATGTATGTTTAA
34712654 ATTGAACT
1 ATTGAACT
34712662 AGTTTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.46
Consensus pattern (23 bp):
ATTGAACTTTGATGTATGTTTAA
Found at i:34715869 original size:15 final size:15
Alignment explanation
Indices: 34715849--34715884 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
34715839 TATGTACCTA
34715849 CATTCAAATCATGCC
1 CATTCAAATCATGCC
34715864 CATTCAAATCATGCC
1 CATTCAAATCATGCC
34715879 CATTCA
1 CATTCA
34715885 GTTGGTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.28
Consensus pattern (15 bp):
CATTCAAATCATGCC
Found at i:34717606 original size:27 final size:27
Alignment explanation
Indices: 34717526--34717661 Score: 139
Period size: 28 Copynumber: 4.9 Consensus size: 27
34717516 TCGTGTGTCT
* *
34717526 CCTATTTTTCAAATTTTATAGTTTTGCC
1 CCTATTTTT-AGATTTTACAGTTTTGCC
* * * * *
34717554 ACTGTTTTTTAGATTTTATAATTTTTCC
1 CCT-ATTTTTAGATTTTACAGTTTTGCC
34717582 CCTGATTTTTAGATTTTACAGTTTTGCC
1 CCT-ATTTTTAGATTTTACAGTTTTGCC
*
34717610 CCTATTTTCAGATTTTACAGTTTT-CC
1 CCTATTTTTAGATTTTACAGTTTTGCC
* *
34717636 CCTATTTTGCACATTTTACAGTTTTG
1 CCTATTTT-TAGATTTTACAGTTTTG
34717662 ACCCAAAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.11
27 35 0.38
28 43 0.46
29 5 0.05
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.53
Consensus pattern (27 bp):
CCTATTTTTAGATTTTACAGTTTTGCC
Found at i:34725033 original size:97 final size:97
Alignment explanation
Indices: 34724867--34725060 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
34724857 TTGCCTGGCA
*
34724867 ACCAAGGGTGCGATGATCATTGATTTTTAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
1 ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
34724932 CGCATCAGGTGTGTAAACACCCCACTGTAACT
66 CGCATCAGGTGTGTAAACACCCCACTGTAACT
34724964 ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
1 ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
34725029 CGCATCAGGTGTGTAAACACCCCACTGTAACT
66 CGCATCAGGTGTGTAAACACCCCACTGTAACT
34725061 GTAGAACGGC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (97 bp):
ACCAAGGGTGCGATGATCATTGATTTTCAGAATAAAAGTGTTTGGAACGAAGAGAATCTGCAAAT
CGCATCAGGTGTGTAAACACCCCACTGTAACT
Found at i:34725604 original size:28 final size:27
Alignment explanation
Indices: 34725492--34725630 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
34725482 AAAATAAGGA
* * *
34725492 AAAATAACCGAAATACCCTCATAGGGA
1 AAAATGACCGAAATACCCCCATAGGGT
* * *
34725519 AAAATGACCAAAATACCTCCATAAGGT
1 AAAATGACCGAAATACCCCCATAGGGT
34725546 AAAATGACCGAAATA--CCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
*
34725571 AGAATGACCGAAATACCCCCTATAGGGT
1 AAAATGACCGAAATACCCCC-ATAGGGT
34725599 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
34725626 AAAAT
1 AAAAT
34725631 AACTGTTATG
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.22
27 50 0.51
28 26 0.27
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCATAGGGT
Found at i:34727459 original size:20 final size:22
Alignment explanation
Indices: 34727430--34727471 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
34727420 TATAGAACTG
34727430 AAAAAGATATAA-AAT-TATAA
1 AAAAAGATATAATAATATATAA
*
34727450 AAAAATATATAATAATATATAA
1 AAAAAGATATAATAATATATAA
34727472 TACAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAAGATATAATAATATATAA
Found at i:34731966 original size:59 final size:57
Alignment explanation
Indices: 34731842--34731977 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 57
34731832 TTTAATTCAT
* * * * *
34731842 ATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTTTATTTA
1 ATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTAATAAAATATATTTA
* *
34731900 ATAATAATTATGTTAAAATATGATTAAATTATTTATTATTTTTTAATAAAATATATTTA
1 ATAATAATTATATTAAAATATGATTAAATTATATATTA--TTTTAATAAAATATATTTA
*
34731959 ATAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
34731978 TTAATAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 19 0.28
58 15 0.22
59 33 0.49
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTAAATTATATATTATTTTAATAAAATATATTTA
Found at i:34732143 original size:16 final size:16
Alignment explanation
Indices: 34732099--34732150 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
34732089 CAAGAATGCT
34732099 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
* *
34732115 ATTACAACTCTATTCC
1 ATTATAGCTCTATTCC
* *
34732131 ATTATAGCCCTATTCA
1 ATTATAGCTCTATTCC
34732147 ATTA
1 ATTA
34732151 CAGTGAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:34732381 original size:35 final size:35
Alignment explanation
Indices: 34732335--34732406 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
34732325 GTTAAAATGA
*
34732335 TAATGAAAATAATGGCGTGGCTTTTTTCTAACTGG
1 TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
34732370 TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
1 TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
34732405 TA
1 TA
34732407 TAATAACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (35 bp):
TAATGAAAATAATGGCATGGCTTTTTTCTAACTGG
Found at i:34734680 original size:193 final size:191
Alignment explanation
Indices: 34734299--34734681 Score: 445
Period size: 193 Copynumber: 2.0 Consensus size: 191
34734289 TTTTAAAATC
34734299 TTTTTATGATATATCATCATTTGCTTTAGCAATGAAGAATAAAATTATACAATGTAAGTGCATCA
1 TTTTTATGATATATCATCATTTGCTTTA-CAATGAAGAATAAAATTATACAATGTAAGTGCATCA
* * * * * * * *
34734364 AATATTAATTGATTTGTGAAAACTCAATTCCCAAAAGCTTCAAACAACGTTACAAAATTCAAATT
65 AATATTAATTCATTTGTAAAAACTCAATTCCAAAAAACTTCAAACAAAGTAAAAAAAATCAAATT
* * * * * *
34734429 ATTTTCTGATTTTATTATTGAAATATAGAATTTTCACATTGGAAAAAACATTTTTTTTAATTT
130 ATTTCCAGATTTTATTATTGAAATATAGAAATTCCAAATT-GAAAAAACATATTTTTTAATTT
* * * *
34734492 TTTTTATGATATATCATCATTTGC-TT-CAATGATGATAAGTAAAATTATTA-AGTGTTATTGCA
1 TTTTTATGATATATCATCATTTGCTTTACAATGA--AGAA-TAAAATTA-TACAATGTAAGTGCA
*
34734554 TCAAATATTGATTCATTCT-TAAAAACTCAATTCCAAAAAACTTCAAAACAAAGTAAAAAAAATC
62 TCAAATATTAATTCATT-TGTAAAAACTCAATTCCAAAAAACTTC-AAACAAAGTAAAAAAAATC
* *
34734618 AAATTATTTCCAGATTTTATTGTTGAAATATGGAAATTCCAAATT-AAAAAATTCA-ATTTTTTA
125 AAATTATTTCCAGATTTTATTATTGAAATATAGAAATTCCAAATTGAAAAAA--CATATTTTTTA
34734681 A
188 A
34734682 ATCCCTTTCT
Statistics
Matches: 161, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
190 6 0.04
192 11 0.07
193 86 0.53
194 58 0.36
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (191 bp):
TTTTTATGATATATCATCATTTGCTTTACAATGAAGAATAAAATTATACAATGTAAGTGCATCAA
ATATTAATTCATTTGTAAAAACTCAATTCCAAAAAACTTCAAACAAAGTAAAAAAAATCAAATTA
TTTCCAGATTTTATTATTGAAATATAGAAATTCCAAATTGAAAAAACATATTTTTTAATTT
Found at i:34735564 original size:36 final size:36
Alignment explanation
Indices: 34735524--34735594 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
34735514 AGAAGATATA
* * *
34735524 ATTATGGAATCTTAGAGTTCTAATTGTATATAGCTG
1 ATTATGGAAGCTTAGAGTTCTAATTATATACAGCTG
*
34735560 ATTATGTAAGCTTAGAGTTCTAATTATATACAGCT
1 ATTATGGAAGCTTAGAGTTCTAATTATATACAGCT
34735595 TTTAATTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (36 bp):
ATTATGGAAGCTTAGAGTTCTAATTATATACAGCTG
Found at i:34735894 original size:48 final size:48
Alignment explanation
Indices: 34735819--34735914 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
34735809 TAAGGGAATT
** * * *
34735819 CTGTTGAATCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCACTACAAGTTAAGCTCACTTAGGCGTTTTTA
* *
34735867 CTGTTGAATCCTTTATCACTACAAGTTAGGCTCACTTAGGTGTTTTTA
1 CTGTTGAATCCTTTATCACTACAAGTTAAGCTCACTTAGGCGTTTTTA
34735915 AGCAAAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCACTACAAGTTAAGCTCACTTAGGCGTTTTTA
Found at i:34749719 original size:36 final size:36
Alignment explanation
Indices: 34749679--34749749 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
34749669 AGAAGATATA
* *
34749679 ATTATGGAATCTTAGAGTTCTAATTGTATATAGCTG
1 ATTATGGAAGCTTAGAGTTCTAATTGTATACAGCTG
*
34749715 ATTATGTAAGCTTAGAGTTCTAATTGTATACAGCT
1 ATTATGGAAGCTTAGAGTTCTAATTGTATACAGCT
34749750 TTTAATTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (36 bp):
ATTATGGAAGCTTAGAGTTCTAATTGTATACAGCTG
Found at i:34750049 original size:48 final size:48
Alignment explanation
Indices: 34749976--34750069 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
34749966 AGGGAATTCT
* ** *
34749976 GTTGACTCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTACC
1 GTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTACC
*
34750024 GTTGAATCCTTTATCACTGCAAGTTAGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
34750070 AGCAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (48 bp):
GTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTACC
Found at i:34751682 original size:59 final size:61
Alignment explanation
Indices: 34751612--34751727 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 61
34751602 TCACTATAAT
* * * * *
34751612 ATTAAATTAATATAATATTTA-T-CAAGATAAATATTATATTAAATTTAATATTAAATCTC
1 ATTAAAATAATAGAATATTTACTACAAGATAAACACTAAATTAAATTTAATATTAAATCTC
*
34751671 ATTAAAATAATAGAATATTTATCTACAAGATAAACACTAAATTTAATTTAATATTAA
1 ATTAAAATAATAGAATATTTA-CTACAAGATAAACACTAAATTAAATTTAATATTAA
34751728 GATAATCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (61 bp):
ATTAAAATAATAGAATATTTACTACAAGATAAACACTAAATTAAATTTAATATTAAATCTC
Found at i:34755482 original size:44 final size:44
Alignment explanation
Indices: 34755434--34755521 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
34755424 GTTCCTTTTA
*
34755434 GATATCTTACAAATATGCACAATTTTGTCCATGCATTCAACTTC
1 GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
34755478 GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
1 GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
34755522 TTTTCATCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (44 bp):
GATATCTTACAAACATGCACAATTTTGTCCATGCATTCAACTTC
Found at i:34759386 original size:25 final size:25
Alignment explanation
Indices: 34759350--34759397 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
34759340 TTGTAAATCA
34759350 GGAAAATATCTTTAGA-AATTTTTT
1 GGAAAATATCTTTAGAGAATTTTTT
*
34759374 GGAATAATCTCTTTAGAGAATTTT
1 GGAA-AATATCTTTAGAGAATTTT
34759398 CTCTTTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (25 bp):
GGAAAATATCTTTAGAGAATTTTTT
Found at i:34759919 original size:19 final size:19
Alignment explanation
Indices: 34759895--34759935 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
34759885 CGGTCTCGAT
*
34759895 TTTAGGCTCTCAAGCCCAA
1 TTTAGGATCTCAAGCCCAA
* *
34759914 TTTAGGATCTCAGGTCCAA
1 TTTAGGATCTCAAGCCCAA
34759933 TTT
1 TTT
34759936 TCAAGTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (19 bp):
TTTAGGATCTCAAGCCCAA
Found at i:34763675 original size:40 final size:40
Alignment explanation
Indices: 34763577--34763879 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
34763567 TCCTCGTTCA
* * * * *
34763577 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34763616 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
34763656 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34763696 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34763736 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34763776 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
34763816 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34763856 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34763880 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 39 0.16
40 193 0.80
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34771750 original size:40 final size:40
Alignment explanation
Indices: 34771568--34771790 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
34771558 TCCTCGTTCA
* * * * *
34771568 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34771607 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34771647 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34771687 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
34771727 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34771767 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34771791 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34771799 original size:41 final size:41
Alignment explanation
Indices: 34771722--34771799 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34771712 TTAGTATCTC
* * *
34771722 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34771763 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34771800 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34774311 original size:4 final size:4
Alignment explanation
Indices: 34774302--34774328 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
34774292 TTGGTTATTA
34774302 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
34774329 AATTTGGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:34776051 original size:22 final size:24
Alignment explanation
Indices: 34776025--34776068 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34776015 GAAAATTGTT
34776025 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
34776047 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
34776069 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:34776198 original size:59 final size:60
Alignment explanation
Indices: 34776135--34776261 Score: 220
Period size: 59 Copynumber: 2.1 Consensus size: 60
34776125 TCAAGTTTAT
*
34776135 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAAT-ACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAACAATTAATAATTTGATAAA
* *
34776194 TTTACTAATCAAATGTTAGATTTTATTACAACAATTATTAACAATTAATAATTTGATAAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAACAATTAATAATTTGATAAA
34776254 TTTACTAA
1 TTTACTAA
34776262 CAATTAATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
59 37 0.58
60 27 0.42
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (60 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAACAATTAATAATTTGATAAA
Found at i:34776271 original size:16 final size:16
Alignment explanation
Indices: 34776250--34776291 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
34776240 AATAATTTGA
*
34776250 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
34776266 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
34776282 TAGTTTTAAT
1 TAATTTTAAT
34776292 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:34777389 original size:126 final size:129
Alignment explanation
Indices: 34777127--34777382 Score: 439
Period size: 126 Copynumber: 2.0 Consensus size: 129
34777117 CAAACCTATA
*
34777127 CACTATTTCTTTTTCCCTCTTATTGTAAAACAAGAACTAAAAAAGAAAAAGACAGGTTGCTTCCA
1 CACTCTTTCTTTTTCCCTCTTATTGTAAAACAAGAAC-AAAAAAGAAAAAGACAGGTTGCTTCCA
34777192 CCATTCACTGTACATGGCAATGACCCAAGTATACATTTTTCTCAAAACCCACATCATTATATGCC
65 CCATTCACTGTACATGGCAATGACCCAAGTATACATTTTTCTCAAAACCCACATCATTATATGCC
* *
34777257 CACTCTTTCTTTTTCCCTCTTATTGTGAAACAAG-A-AAAAAA-AAAAGGACAGGTTTG-TTCCA
1 CACTCTTTCTTTTTCCCTCTTATTGTAAAACAAGAACAAAAAAGAAAAAGACAGG-TTGCTTCCA
34777318 CCATTCACTGTACATGGCAATGACCCAAGTATACATTTTTCTCAAAACCCACATCATTATATGCC
65 CCATTCACTGTACATGGCAATGACCCAAGTATACATTTTTCTCAAAACCCACATCATTATATGCC
34777383 ACCTCTTCTC
Statistics
Matches: 122, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
126 80 0.66
127 9 0.07
129 1 0.01
130 32 0.26
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (129 bp):
CACTCTTTCTTTTTCCCTCTTATTGTAAAACAAGAACAAAAAAGAAAAAGACAGGTTGCTTCCAC
CATTCACTGTACATGGCAATGACCCAAGTATACATTTTTCTCAAAACCCACATCATTATATGCC
Found at i:34783109 original size:17 final size:18
Alignment explanation
Indices: 34783072--34783109 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
34783062 AATTACAAAA
*
34783072 AAATTTAAAATAATTTTT
1 AAATTTAAAATAATTTCT
*
34783090 AAATTTTAAA-AATTTCT
1 AAATTTAAAATAATTTCT
34783107 AAA
1 AAA
34783110 AAATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTTAAAATAATTTCT
Found at i:34791268 original size:10 final size:10
Alignment explanation
Indices: 34791251--34791290 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
34791241 TCGAAAATAG
34791251 TTAAAATTAA
1 TTAAAATTAA
*
34791261 TCAAAATTAA
1 TTAAAATTAA
34791271 TTATAGAATTAA
1 TTA-A-AATTAA
34791283 TTAAAATT
1 TTAAAATT
34791291 CATTCTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 15 0.58
11 2 0.08
12 9 0.35
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:34793206 original size:33 final size:29
Alignment explanation
Indices: 34793161--34793243 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 29
34793151 AGAATCAATC
*
34793161 TGGGCCTGAGCCCTATACAGTATAAGTACAGTG
1 TGGGCCTTAGCCC-ATACAGTAT-A--ACAGTG
34793194 TGGGCCTTAGCCCATTACAG--TAACAGTG
1 TGGGCCTTAGCCCA-TACAGTATAACAGTG
*
34793222 TGAGCCTTAGCCCAATACAGTA
1 TGGGCCTTAGCCC-ATACAGTA
34793244 ACAATATGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
28 23 0.52
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 17 0.39
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (29 bp):
TGGGCCTTAGCCCATACAGTATAACAGTG
Found at i:34793228 original size:28 final size:28
Alignment explanation
Indices: 34793188--34793272 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
34793178 CAGTATAAGT
* *
34793188 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGAGCCTTAGCCCAATACAGTA
34793216 ACAGTGTGAGCCTTAGCCCAATACAGTA
1 ACAGTGTGAGCCTTAGCCCAATACAGTA
* * * * *
34793244 ACAATATGGGCATTAGCCCAAAACAGTA
1 ACAGTGTGAGCCTTAGCCCAATACAGTA
34793272 A
1 A
34793273 TCGGTACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTGTGAGCCTTAGCCCAATACAGTA
Found at i:34793394 original size:26 final size:26
Alignment explanation
Indices: 34793356--34793435 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 26
34793346 GCCAACACAC
* *
34793356 CAATATCGAAGCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
* *
34793382 TAATAACGTAGCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
* *
34793408 CAGTAACGCAACAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
34793434 CA
1 CA
34793436 TTATATGTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.15
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTGCCAGTAA
Found at i:34793717 original size:27 final size:27
Alignment explanation
Indices: 34793631--34793931 Score: 370
Period size: 27 Copynumber: 11.1 Consensus size: 27
34793621 TATAATGGTC
* *
34793631 ATTTTACCCTTTCGAGGGTATTTCGATC
1 ATTTTACCC-TTCGAGGGTATTTCGGTA
** *
34793659 ATTTTACCCCTTCGAGGGTATTTCAATC
1 ATTTTA-CCCTTCGAGGGTATTTCGGTA
* * *
34793687 ATTTTACCATTCAAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
34793714 ATTTTACCCTTCAAGAGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
34793741 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
34793768 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
34793795 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
34793822 ATTTTACCCTT-TAGGGTTATTTCGATA
1 ATTTTACCCTTCGAGGG-TATTTCGGTA
* *
34793849 ATTTTACCCTTTGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * **
34793876 ATTGTACCATTCGAGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
34793903 ATTTTACCCCTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
34793930 AT
1 AT
34793932 CTTCGGTCCA
Statistics
Matches: 244, Mismatches: 26, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.02
27 204 0.84
28 33 0.14
29 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:34815841 original size:278 final size:272
Alignment explanation
Indices: 34815350--34815871 Score: 794
Period size: 278 Copynumber: 1.9 Consensus size: 272
34815340 GTTCACTTTA
* * *
34815350 ATATTAAATTAATATAATATCTATCTGTAGGATAAATATTTAATTTAATTTAATATTAAATCTAT
1 ATATTAAATTAATAGAATATCTATCTATAAGATAAATATTTAATTTAATTTAATATTAAATCTAT
* * * * *
34815415 TAAAATATTTTTGGGACAGTTAATTTGAAATCAAATTATCTGGTAGAGTTCCAATAGGAGTGTGA
66 TAAAATATTTTTGGAACAATTAATTTGAAATCAAATTATCCGGTAGAGTCCCAATAGGAATGTGA
* * * *
34815480 TTCCTCCATTGCTCAACGGTCGAAGAACCACCCACCGGCCACCGGAATGTCGCCGCTGGCACCGT
131 TTCATCAATTGCTCAACGGCCGAAGAACCACCCACCGGCCACCGGAATGTCACCGCTGGCACCGT
**
34815545 CATGCTCGGCGGTGCCATCACAGGTGTGAGACCCTCACGGCACCCCAAGCTGAATTAGATTATAT
196 CATGCTCGGCGGTGCCATCACAGGTGCAAGACCCTCACGGCACCCCAAGCTGAATTAGATTATAT
34815610 TTAATATTAAAT
261 TTAATATTAAAT
*
34815622 ATATTAAATTAATAGAATATTTATCTATAAGATAAATATTTAATTTAATTTAATATTAAATCTAT
1 ATATTAAATTAATAGAATATCTATCTATAAGATAAATATTTAATTTAATTTAATATTAAATCTAT
* *
34815687 TAAAATAATATTATTTTTGGAATAATTAATTTGAAATCAAATTATCCGGTAGAGTCCCAGTAGGA
66 T---A-AA-A-TATTTTTGGAACAATTAATTTGAAATCAAATTATCCGGTAGAGTCCCAATAGGA
*
34815752 ATGTGATTCATCAATTGCTCAACGGCCGAAGAACCACCCACTGGCCACCGGAATGTCACCG-TCG
125 ATGTGATTCATCAATTGCTCAACGGCCGAAGAACCACCCACCGGCCACCGGAATGTCACCGCT-G
* *
34815816 GCACCGTCGTGCTCGGCGGTGCCATCACAGGTGCAAGACCCTTACGGCACCCCAAG
189 GCACCGTCATGCTCGGCGGTGCCATCACAGGTGCAAGACCCTCACGGCACCCCAAG
34815872 TCGATTCAAT
Statistics
Matches: 223, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
272 62 0.28
275 1 0.00
276 2 0.01
277 2 0.01
278 156 0.70
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (272 bp):
ATATTAAATTAATAGAATATCTATCTATAAGATAAATATTTAATTTAATTTAATATTAAATCTAT
TAAAATATTTTTGGAACAATTAATTTGAAATCAAATTATCCGGTAGAGTCCCAATAGGAATGTGA
TTCATCAATTGCTCAACGGCCGAAGAACCACCCACCGGCCACCGGAATGTCACCGCTGGCACCGT
CATGCTCGGCGGTGCCATCACAGGTGCAAGACCCTCACGGCACCCCAAGCTGAATTAGATTATAT
TTAATATTAAAT
Found at i:34818679 original size:26 final size:26
Alignment explanation
Indices: 34818065--34818681 Score: 490
Period size: 26 Copynumber: 23.6 Consensus size: 26
34818055 TACTTTCAAT
*
34818065 TAACAGCTCGCACACATGCATTGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* * * *
34818091 TAACAACTCACATACATGCAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* * *
34818117 TAACAGCTCGCATACATGTAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* *
34818143 TAACAACTTGCACACATGCATGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* * ** * *
34818169 TAAAATCTCATATACATGCAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* ** * *
34818195 TAAAAATTTGCACACATGCATGGCAA
1 TAACAGCTCGCACACATGCATGGTAA
* * *
34818221 TAATAGCTCACACACATGTATGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
** * *
34818247 TAACAGCTCATACACATACAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
*
34818273 TAACAGCTCGCACACATGCATGGGAA
1 TAACAGCTCGCACACATGCATGGTAA
* * ** *
34818299 TAATAGCTCACATTCATGCAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* * * * *
34818325 TAAAAACTCGTATACATGCAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
*
34818351 TAACAGCTCGC-GACATGCATGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* * ** *
34818376 TAATAGCAT-ACATTCATGCAAGGTAA
1 TAACAGC-TCGCACACATGCATGGTAA
* * * *
34818402 TGATAGCTTGCACACATGCAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
*
34818428 TAACAACTCAG-ACACATGCATGGTAA
1 TAACAGCTC-GCACACATGCATGGTAA
* * * *
34818454 TAACAGCTCACATACATGCAAGTTAA
1 TAACAGCTCGCACACATGCATGGTAA
* * *
34818480 TAATAGCTCGCATACATGCAAGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
* * *
34818506 CAATAG-TCCGCACGCATGCATGGTAA
1 TAACAGCT-CGCACACATGCATGGTAA
* *
34818532 TAACAGCTCACATACATGC-TAGGTAA
1 TAACAGCTCGCACACATGCAT-GGTAA
34818558 TAACAGCTCGCACACATGCATGGTAA
1 TAACAGCTCGCACACATGCATGGTAA
** * *
34818584 TAACAAATCGCAAACATGCATGTTAA
1 TAACAGCTCGCACACATGCATGGTAA
34818610 TAACAGCTCGCATACATGCATGGCATGGTAA
1 TAACAGCTCGC--ACA--CAT-GCATGGTAA
*
34818641 T-ACTAGCTGGCACACATGCATGGTAA
1 TAAC-AGCTCGCACACATGCATGGTAA
*
34818667 TAACAGCTAGCACAC
1 TAACAGCTCGCACAC
34818682 CTTCCTCTCT
Statistics
Matches: 471, Mismatches: 104, Indels: 32
0.78 0.17 0.05
Matches are distributed among these distances:
25 22 0.05
26 416 0.88
27 8 0.02
28 2 0.00
29 3 0.01
30 5 0.01
31 15 0.03
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (26 bp):
TAACAGCTCGCACACATGCATGGTAA
Done.