Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 7 of 240
Found at i:2786480 original size:18 final size:18
Alignment explanation
Indices: 2786459--2786496 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2786449 TATCATCTCT
* *
2786459 TTCATCTTCATCTTCGCC
1 TTCAGCTTCATCTTCACC
2786477 TTCAGCTTCATCTTCACC
1 TTCAGCTTCATCTTCACC
2786495 TT
1 TT
2786497 TCGTGGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.37, G:0.05, T:0.45
Consensus pattern (18 bp):
TTCAGCTTCATCTTCACC
Found at i:2793146 original size:22 final size:19
Alignment explanation
Indices: 2793118--2793168 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
2793108 TTATGAAAAT
2793118 ATATATAATATTTTTTATGA
1 ATATATAATATTTTTTAT-A
*
2793138 ATAAGTATATTA-TTTTTATA
1 AT-A-TATAATATTTTTTATA
2793158 ATATATAATAT
1 ATATATAATAT
2793169 GAAGTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 6 0.23
19 1 0.04
20 5 0.19
21 8 0.31
22 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
ATATATAATATTTTTTATA
Found at i:2793232 original size:13 final size:13
Alignment explanation
Indices: 2793214--2793262 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
2793204 AATAAATATA
2793214 TTATAATATTATT
1 TTATAATATTATT
*
2793227 TTATAATATTTTT
1 TTATAATATTATT
* *
2793240 TTAATATTATAATT
1 TT-ATAATATTATT
2793254 TTATAATAT
1 TTATAATAT
2793263 GTATATTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATAATATTATT
Found at i:2793275 original size:19 final size:18
Alignment explanation
Indices: 2793232--2793280 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
2793222 TTATTTTATA
2793232 ATATT-TTTT-TAATATT
1 ATATTATTTTATAATATT
2793248 ATA--ATTTTATAATATGT
1 ATATTATTTTATAATAT-T
2793265 ATATTATTTTATAATA
1 ATATTATTTTATAATA
2793281 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 9 0.32
17 4 0.14
19 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATATTATTTTATAATATT
Found at i:2793288 original size:14 final size:14
Alignment explanation
Indices: 2793191--2793292 Score: 57
Period size: 14 Copynumber: 7.1 Consensus size: 14
2793181 ATATTTGGCC
2793191 ATAA-TTTTTTATAA
1 ATAATTTTTTTAT-A
* * *
2793205 ATAAATATATTATA
1 ATAATTTTTTTATA
*
2793219 AT-ATTATTTTATA
1 ATAATTTTTTTATA
2793232 AT-ATTTTTTTAATA
1 ATAATTTTTTT-ATA
* *
2793246 TTATAATTTTATAATA
1 --ATAATTTTTTTATA
* *
2793262 TGTATATTATTTTATA
1 -ATA-ATTTTTTTATA
2793278 ATAATTTTTTTATA
1 ATAATTTTTTTATA
2793292 A
1 A
2793293 ATTCCAAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
13 18 0.26
14 21 0.30
15 11 0.16
16 13 0.19
17 6 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (14 bp):
ATAATTTTTTTATA
Found at i:2793450 original size:88 final size:89
Alignment explanation
Indices: 2793357--2793542 Score: 338
Period size: 89 Copynumber: 2.1 Consensus size: 89
2793347 ACACAAATTA
*
2793357 TTTTATAACATGCATTTTTAAGATTTAT-ATATATATTTTTGCTATAATCATCTTAAGCACTCGT
1 TTTTATAACATGCATTTTTAAGATTTATAATATATATTTTTGCTATAATCATCTTAAACACTCGT
*
2793421 ATGTATTCATGTTTGTAATATGTT
66 ATGTATTCATGTTTGTAAAATGTT
2793445 TTTTATAACATGCATTTTTAAGATTTATAATATATATTTTTGCTATAATCATCTTAAACACTCGT
1 TTTTATAACATGCATTTTTAAGATTTATAATATATATTTTTGCTATAATCATCTTAAACACTCGT
2793510 ATGTATTCATGTTTGTAAAATGTT
66 ATGTATTCATGTTTGTAAAATGTT
*
2793534 TGTTATAAC
1 TTTTATAAC
2793543 TTTTATAAAA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 28 0.30
89 66 0.70
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (89 bp):
TTTTATAACATGCATTTTTAAGATTTATAATATATATTTTTGCTATAATCATCTTAAACACTCGT
ATGTATTCATGTTTGTAAAATGTT
Found at i:2798375 original size:87 final size:84
Alignment explanation
Indices: 2798270--2798598 Score: 254
Period size: 87 Copynumber: 3.8 Consensus size: 84
2798260 GGCAGTGAAT
* * * ** * * * *
2798270 AGCTCGGCCGAGAAGATGAAGAACGAGATGGCCATGACAGTAAATAGCTCCA-CTGAGGAGATGA
1 AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACT-CAGCTGAGAAGATG-
* *
2798334 AAAGAGAGACAACTTCAATAAAG
64 -AAGAAAGA-AACATCAATAAAG
* *
2798357 AGCTCAGCGGAGAAGATGAACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATGAA
1 AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGAA
* *
2798422 GAAAGAAACATCATTAAAT
66 GAAAGAAACATCAATAAAG
* * * *** *
2798441 AGCTCAGCTGAGAAGATGAGAC-AAGAGACAG-C-TGCAGA-AAATGGTTCAGCTGAAAAGATGA
1 AGCTCAGCCGAGAAGATGA-ACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGA
* * *
2798502 AGAAAGAGACAGCCTTGACAGTAAAT
65 AGAAAGA-A-A--CAT--CAATAAAG
* * * *
2798528 ATCTCAGCTGAGAAGATGAACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATGAA
1 AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGAA
*
2798593 CAAAGA
66 GAAAGA
2798599 GATGGCCAGG
Statistics
Matches: 197, Mismatches: 33, Indels: 21
0.78 0.13 0.08
Matches are distributed among these distances:
81 26 0.13
82 5 0.03
83 2 0.01
84 37 0.19
85 11 0.06
86 4 0.02
87 83 0.42
88 1 0.01
89 3 0.02
90 25 0.13
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.15
Consensus pattern (84 bp):
AGCTCAGCCGAGAAGATGAACAAAGAGACAGCCATGAAAATAAATAACTCAGCTGAGAAGATGAA
GAAAGAAACATCAATAAAG
Found at i:2798415 original size:45 final size:45
Alignment explanation
Indices: 2798243--2798821 Score: 466
Period size: 45 Copynumber: 13.2 Consensus size: 45
2798233 TGAGAAGGCA
** * * * * *
2798243 AACAAAGAGATGGCCTCGGCAGTGAATAGCTCGGCCGAGAAGATG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* * ** * *
2798288 AAGAACGAGATGGCCATGACAGTAAATAGCTCCA-CTGAGGAGATG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCT-CAGCTGAGAAGATG
* * * *
2798333 AA-AAGAGAGACA-ACTT--CAATAAAGAGCTCAGCGGAGAAGATG
1 AACAA-AGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* * *
2798375 AACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* * *
2798420 AAGAAAGA-A-A--CAT--CATTAAATAGCTCAGCTGAGAAGATG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* * * *
2798459 AGAC-AAGAGACAG-C-TG-CAGAAAATGGTTCAGCTGAAAAGATG
1 A-ACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* *
2798501 AAGAAAGAGACAGCCTTGACAGTAAATATCTCAGCTGAGAAGATG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* *
2798546 AACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAGAAGATG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
** ** *
2798591 AACAAAGAGATGGCCAGGACAGTGAATAGCTCAGCTGAGAAGATG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* *
2798636 AGAC-AAGAGACAG-C-T-ACAGTAAATGGCTCGGCTGAGAAGATG
1 A-ACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* * * * *
2798678 AAGAAAGAGACGGCCTTGACAGTAAAGAGCTCGAAC-GAGAAGGTG
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTC-AGCTGAGAAGATG
* * * * *
2798723 AAGAAAGAAACAGCCTTGACAGTAAATAACTC-GCTGAGAAGGTT
1 AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
* * * *
2798767 AAGAAAGAGATC-G-CTTCACAGTGAATGGCTCAGCTGAGAAGATG
1 AACAAAGAGA-CAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
*
2798811 AAAAAAGAGAC
1 AACAAAGAGAC
2798822 CACTGTGGCA
Statistics
Matches: 432, Mismatches: 77, Indels: 52
0.77 0.14 0.09
Matches are distributed among these distances:
39 28 0.06
40 2 0.00
41 8 0.02
42 93 0.22
43 24 0.06
44 46 0.11
45 227 0.53
46 4 0.01
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.15
Consensus pattern (45 bp):
AACAAAGAGACAGCCTTGACAGTAAATAGCTCAGCTGAGAAGATG
Found at i:2798468 original size:126 final size:126
Alignment explanation
Indices: 2798310--2798553 Score: 316
Period size: 126 Copynumber: 1.9 Consensus size: 126
2798300 GCCATGACAG
* * *
2798310 TAAATAGCTCCACTGAGGAGATGAAAAGAGAGACAACTTCA-ATAAA-GAGCTCAGCGGAGAAGA
1 TAAATAGCTCCACTGAGAAGATGAAAAGAGAGACAACTGCAGA-AAATG-GCTCAGCGGAAAAGA
*
2798373 TGAACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATGAAGAAAGAAACATCAT
64 TGAACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATGAACAAAGAAACATCAT
* * * *
2798436 TAAATAGCT-CAGCTGAGAAGATGAGACA-AGAGACAGCTGCAGAAAATGGTTCAGCTGAAAAGA
1 TAAATAGCTCCA-CTGAGAAGATGA-AAAGAGAGACAACTGCAGAAAATGGCTCAGCGGAAAAGA
* * * *
2798499 TGAAGAAAGAGACAGCCTTGACAGTAAATATCTCAGCTGAGAAGATGAACAAAGA
64 TGAACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATGAACAAAGA
2798554 GACAGCCTTG
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
125 2 0.02
126 96 0.94
127 4 0.04
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.16
Consensus pattern (126 bp):
TAAATAGCTCCACTGAGAAGATGAAAAGAGAGACAACTGCAGAAAATGGCTCAGCGGAAAAGATG
AACAAAGAGACAGCCTTGAAAATAAATAACTCAGCTGAGAAGATGAACAAAGAAACATCAT
Found at i:2798655 original size:132 final size:133
Alignment explanation
Indices: 2798262--2798821 Score: 458
Period size: 132 Copynumber: 4.3 Consensus size: 133
2798252 ATGGCCTCGG
* * * * ** * *
2798262 CAGTGAATAGCTCGGCCGAGAAGATGAAGAACGAGATGGCCATGACAGTAAATAGCTCCA-CTGA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAGCT-CAGCTGA
* * * * * * *
2798326 GGAGATGAA-AAGAGAGACA-ACT-TCAATAAAGAGCTCAGCGGAGAAGATGAACAAAGAGACAG
65 GAAGATGAACAA-AGAGACAGCCTGACAGTAAATAGCTCAGCTGAGAAGATG-AGAAAGAGACAG
2798388 CCTTGA
128 CCTTGA
* * * * *
2798394 AAATAAATAACTCAGCTGAGAAGATGAAGAAAGA-A-A--CAT--CATTAAATAGCTCAGCTGAG
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAGCTCAGCTGAG
* * * *
2798453 AAGATGAGAC-AAGAGACAG-CTG-CAGAAAATGGTTCAGCTGAAAAGATGAAGAAAGAGACAGC
66 AAGATGA-ACAAAGAGACAGCCTGACAGTAAATAGCTCAGCTGAGAAGATG-AGAAAGAGACAGC
2798515 CTTGA
129 CTTGA
* * *
2798520 CAGTAAATATCTCAGCTGAGAAGATGAACAAAGAGACAGCCTTGACAATAAATAACTCAGCTGAG
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAGCTCAGCTGAG
** * *
2798585 AAGATGAACAAAGAGATGGCCAGGACAGTGAATAGCTCAGCTGAGAAGATGAGACAAGAGACAG-
66 AAGATGAACAAAGAGACAGCC-TGACAGTAAATAGCTCAGCTGAGAAGATGAGA-AAGAGACAGC
2798649 C-T-A
129 CTTGA
* * * * * *
2798652 CAGTAAATGGCTCGGCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAAGAGCTCGAAC-GA
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAGCTC-AGCTGA
* * * * * *
2798716 GAAGGTGAAGAAAGAAACAGCCTTGACAGTAAATAACTC-GCTGAGAAGGTTAAGAAAGAGATC-
65 GAAGATGAACAAAGAGACAGCC-TGACAGTAAATAGCTCAGCTGAGAA-GATGAGAAAGAGA-CA
*
2798779 G-CTTCA
127 GCCTTGA
* * *
2798785 CAGTGAATGGCTCAGCTGAGAAGATGAAAAAAGAGAC
1 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGAC
2798822 CACTGTGGCA
Statistics
Matches: 351, Mismatches: 56, Indels: 41
0.78 0.12 0.09
Matches are distributed among these distances:
125 2 0.01
126 98 0.28
127 3 0.01
128 4 0.01
130 2 0.01
131 19 0.05
132 149 0.42
133 39 0.11
134 5 0.01
135 30 0.09
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.15
Consensus pattern (133 bp):
CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACAGCCTTGACAATAAATAGCTCAGCTGAG
AAGATGAACAAAGAGACAGCCTGACAGTAAATAGCTCAGCTGAGAAGATGAGAAAGAGACAGCCT
TGA
Found at i:2807220 original size:104 final size:106
Alignment explanation
Indices: 2807031--2807229 Score: 278
Period size: 104 Copynumber: 1.9 Consensus size: 106
2807021 TTTTTATAAA
* *
2807031 AATTAATGATAAAATTTAACTAAAATAATAATAAAAGCTAAATGAAAAAAAAAAAGTACAAGTTA
1 AATTAATGATAAAATTTAACTAAAATAAAAATAAAAGCTAAATG-AAAAAAAAAAGTACAAATTA
* **
2807096 AGGGTTAAATTTACCCTTATACCAATTTTTCTTTATAAAAAT
65 AAGACTAAATTTACCCTTATACCAATTTTTCTTTATAAAAAT
* *
2807138 AATTAATGATCAAATTTAACT-AAATAAAAATAAAAGTTAAAATG-AAAAAAAAA-TACAAATTA
1 AATTAATGATAAAATTTAACTAAAATAAAAATAAAAGCT-AAATGAAAAAAAAAAGTACAAATTA
* *
2807200 AAGACTAAATTTATCTTTATACCAATTTTT
65 AAGACTAAATTTACCCTTATACCAATTTTT
2807230 TTCCCTATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
104 33 0.40
105 9 0.11
106 15 0.18
107 25 0.30
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (106 bp):
AATTAATGATAAAATTTAACTAAAATAAAAATAAAAGCTAAATGAAAAAAAAAAGTACAAATTAA
AGACTAAATTTACCCTTATACCAATTTTTCTTTATAAAAAT
Found at i:2808812 original size:21 final size:22
Alignment explanation
Indices: 2808765--2808813 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2808755 TTTACAAATA
2808765 ATTTTAAAAAATTATTATGTAT
1 ATTTTAAAAAATTATTATGTAT
*
2808787 TTTTTAAAAATATT-TTAT-TAT
1 ATTTTAAAAA-ATTATTATGTAT
2808808 ATTTTA
1 ATTTTA
2808814 TAAGATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 13 0.54
23 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTAAAAAATTATTATGTAT
Found at i:2814319 original size:23 final size:23
Alignment explanation
Indices: 2814261--2814322 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
2814251 TAATATAATA
* *
2814261 AATACTATAATATAATGTATTTTT
1 AATAATAT-ATATAATGTAATTTT
* *
2814285 TAGAGATA-ATATAATGTAATTTT
1 AATA-ATATATATAATGTAATTTT
2814308 AATAATATATATAAT
1 AATAATATATATAAT
2814323 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.10
23 23 0.77
24 2 0.07
25 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (23 bp):
AATAATATATATAATGTAATTTT
Found at i:2814324 original size:18 final size:18
Alignment explanation
Indices: 2814290--2814336 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2814280 TTTTTTAGAG
*
2814290 ATAATATAATGTAATTTTA
1 ATAATAT-ATATAATTTTA
*
2814309 ATAATATATATAATTTTT
1 ATAATATATATAATTTTA
*
2814327 ATAAAATATA
1 ATAATATATA
2814337 ACATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATAATATATATAATTTTA
Found at i:2814434 original size:17 final size:16
Alignment explanation
Indices: 2814403--2814437 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2814393 TTCCACATGT
2814403 TATTAAAAACCAATTA
1 TATTAAAAACCAATTA
*
2814419 TATTATAAAACGAATTA
1 TATTA-AAAACCAATTA
2814436 TA
1 TA
2814438 ATAGCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (16 bp):
TATTAAAAACCAATTA
Found at i:2819099 original size:13 final size:13
Alignment explanation
Indices: 2819083--2819112 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2819073 TAGACCAAGC
2819083 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
2819096 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
2819109 TTTT
1 TTTT
2819113 TTGCAGCACT
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:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:2821264 original size:16 final size:15
Alignment explanation
Indices: 2821237--2821289 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
2821227 TCCATTTTTG
*
2821237 TAAATTAGATTAATA
1 TAAATTAAATTAATA
2821252 TACAATTAAATTAAATA
1 TA-AATTAAATT-AATA
*
2821269 TAAATTAGAGTTAATA
1 TAAATTA-AATTAATA
2821285 TAAAT
1 TAAAT
2821290 GTTATTGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 22 0.67
17 9 0.27
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (15 bp):
TAAATTAAATTAATA
Found at i:2827495 original size:21 final size:21
Alignment explanation
Indices: 2827466--2827508 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2827456 ATTTCTTTTA
2827466 ATATACAAG-AATCATAAATAT
1 ATATACAAGCAATCA-AAATAT
* *
2827487 ATATTCAAGCAATTAAAATAT
1 ATATACAAGCAATCAAAATAT
2827508 A
1 A
2827509 AATTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
ATATACAAGCAATCAAAATAT
Found at i:2833223 original size:95 final size:101
Alignment explanation
Indices: 2833115--2833321 Score: 363
Period size: 95 Copynumber: 2.1 Consensus size: 101
2833105 CACAAAATTT
2833115 GTATAATTAAATTATTTAATTTCAAAATTAATTTATTATACTTTTATTTTGAATAAATA-TT-T-
1 GTATAATT-AATTATTTAATTTCAAAATTAATTTATTATACTTTTATTTTGAATAAATATTTATA
2833177 A-TAT-TT-GATTAATTTGATGATGAAGAAATATTGA
65 ATTATATTCGATTAATTTGATGATGAAGAAATATTGA
2833211 GTATAATTAATTATTTAATTTCAAAATTAATTTATTATACTTTTATTTTGAATAAATATTTATAA
1 GTATAATTAATTATTTAATTTCAAAATTAATTTATTATACTTTTATTTTGAATAAATATTTATAA
2833276 TTATATTCGATTAATTTGATGATGAAGAAATATTGA
66 TTATATTCGATTAATTTGATGATGAAGAAATATTGA
2833312 GTATAATTAA
1 GTATAATTAA
2833322 CATCCTCAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
95 50 0.48
96 10 0.10
97 1 0.01
98 1 0.01
99 3 0.03
100 2 0.02
101 38 0.36
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.48
Consensus pattern (101 bp):
GTATAATTAATTATTTAATTTCAAAATTAATTTATTATACTTTTATTTTGAATAAATATTTATAA
TTATATTCGATTAATTTGATGATGAAGAAATATTGA
Found at i:2838204 original size:101 final size:101
Alignment explanation
Indices: 2838088--2838284 Score: 313
Period size: 101 Copynumber: 2.0 Consensus size: 101
2838078 AAAAAAATAA
* * **
2838088 TTTAAAATATATTTTAAATTTAAATTTTTATTATTTATTTTGGATTTCTTGAATTATATGCATAG
1 TTTAAAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTCTTGAACAATATGCATAG
2838153 CATGAGATAATATTATTATTTAATTTATGAAGTAAC
66 CATGAGATAATATTATTATTTAATTTATGAAGTAAC
*
2838189 TTTAAAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTGTTGAACAATATGCATAG
1 TTTAAAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTCTTGAACAATATGCATAG
* * * *
2838254 TATGGGATGATATTGTTATTTAATTTATGAA
66 CATGAGATAATATTATTATTTAATTTATGAA
2838285 ATATTTTTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 87 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.50
Consensus pattern (101 bp):
TTTAAAATATATTTTAAAATTAAATTTTTATCATTTATTTTGGATTTCTTGAACAATATGCATAG
CATGAGATAATATTATTATTTAATTTATGAAGTAAC
Found at i:2841417 original size:72 final size:71
Alignment explanation
Indices: 2841288--2841429 Score: 221
Period size: 72 Copynumber: 2.0 Consensus size: 71
2841278 CTCGGATTTG
*
2841288 AAAAAGGAATCATGCCCAATAAGTTAGGACATGATCTTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAGGAATCATGCCCAATAAGTTAGGACATGATCTCTTCTTAATTCCTGAGATCGTTTAAAAC
2841353 TTGAGA
66 TTGAGA
* * * * *
2841359 AAAAAGGGGATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTGATTCCTGATATCGTTTAATA
1 AAAAA-GGAATCATGCCCAATAAGTTAGGACATGATCTCTTCTTAATTCCTGAGATCGTTTAAAA
2841424 CTTGAG
65 CTTGAG
2841430 TTTTAAAAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
71 5 0.08
72 59 0.92
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (71 bp):
AAAAAGGAATCATGCCCAATAAGTTAGGACATGATCTCTTCTTAATTCCTGAGATCGTTTAAAAC
TTGAGA
Found at i:2842359 original size:72 final size:72
Alignment explanation
Indices: 2842242--2842375 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
2842232 TCTTTTCAAA
*
2842242 CTCAATTATTAAACGATATCGAGAATCAAGAAGAGATCATGTCCTAACTTACTGGGCATGATCCC
1 CTCAATTATTAAACGATATCGAGAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGATCCC
2842307 CTTTTTT
66 CTTTTTT
* * * *
2842314 CTCAAGTT-TTAAACGATCTC-AGGAATTAAGAAAAGATCGTGTCCTAACTTATTGGGCATGAT
1 CTCAA-TTATTAAACGATATCGA-GAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGAT
2842376 TCATTTTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
71 1 0.02
72 52 0.95
73 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
CTCAATTATTAAACGATATCGAGAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGATCCC
CTTTTTT
Found at i:2851085 original size:19 final size:21
Alignment explanation
Indices: 2851063--2851102 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
2851053 TTATCGAAAA
2851063 CAAATTT-TATTTC-ATTTAT
1 CAAATTTGTATTTCAATTTAT
*
2851082 CAAATTTGTTTTTCAATTTAT
1 CAAATTTGTATTTCAATTTAT
2851103 AAAAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (21 bp):
CAAATTTGTATTTCAATTTAT
Found at i:2865258 original size:23 final size:23
Alignment explanation
Indices: 2865223--2865297 Score: 56
Period size: 23 Copynumber: 3.6 Consensus size: 23
2865213 CGGATATGTT
**
2865223 TTAAATTTTTTTTGTGTTTTATA
1 TTAAATTAATTTTGTGTTTTATA
** *
2865246 TTAAATTAA-TTT-T-TAAT-TC
1 TTAAATTAATTTTGTGTTTTATA
2865265 TT-AATT--TTTTGTGTTTTATA
1 TTAAATTAATTTTGTGTTTTATA
2865285 TTAAATTAATTTT
1 TTAAATTAATTTT
2865298 AAATTTAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 5 0.14
20 5 0.14
21 5 0.14
22 3 0.08
23 11 0.30
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.65
Consensus pattern (23 bp):
TTAAATTAATTTTGTGTTTTATA
Found at i:2868632 original size:12 final size:12
Alignment explanation
Indices: 2868615--2868640 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2868605 AGCCCCTTCC
2868615 CTCCCTCTCTCT
1 CTCCCTCTCTCT
2868627 CTCCCTCTCTCT
1 CTCCCTCTCTCT
2868639 CT
1 CT
2868641 TAACCATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (12 bp):
CTCCCTCTCTCT
Found at i:2876647 original size:17 final size:17
Alignment explanation
Indices: 2876610--2876648 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2876600 TTATTTATTC
*
2876610 TATTGTTGGAATTGAAT
1 TATTGTTGGAATTGAAA
2876627 TATTGTTGGAATT-ATAA
1 TATTGTTGGAATTGA-AA
2876644 TATTG
1 TATTG
2876649 AATTGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TATTGTTGGAATTGAAA
Found at i:2876827 original size:19 final size:21
Alignment explanation
Indices: 2876786--2876833 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
2876776 CGTGTTTTAC
2876786 TTTCTGTTCAGCTCTTACGAG
1 TTTCTGTTCAGCTCTTACGAG
2876807 TTTCTGTTCAGCT-TT-CGAG
1 TTTCTGTTCAGCTCTTACGAG
*
2876826 TTTATGTT
1 TTTCTGTT
2876834 GGCGTATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 11 0.42
20 2 0.08
21 13 0.50
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (21 bp):
TTTCTGTTCAGCTCTTACGAG
Found at i:2882047 original size:32 final size:32
Alignment explanation
Indices: 2882009--2882079 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
2881999 AATTATATAT
*
2882009 ATAATAAAA-AAATTCAAATAATAGTTAAAAA-
1 ATAATAAAATAAATT-AAATAATAATTAAAAAG
* *
2882040 ATTAATAAAATATATTAAATTATAATTAAAAAG
1 A-TAATAAAATAAATTAAATAATAATTAAAAAG
2882073 ATAATAA
1 ATAATAA
2882080 TATTATTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 1 0.03
32 28 0.82
33 5 0.15
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (32 bp):
ATAATAAAATAAATTAAATAATAATTAAAAAG
Found at i:2887765 original size:34 final size:36
Alignment explanation
Indices: 2887720--2887798 Score: 144
Period size: 34 Copynumber: 2.2 Consensus size: 36
2887710 TATTTGTGTG
2887720 ATTTAAAATTTAAAGTACAATTTGTTTCAAA-AAAA
1 ATTTAAAATTTAAAGTACAATTTGTTTCAAATAAAA
2887755 A-TTAAAATTTAAAGTACAATTTGTTTCAAATAAAA
1 ATTTAAAATTTAAAGTACAATTTGTTTCAAATAAAA
2887790 ATTTAAAAT
1 ATTTAAAAT
2887799 AAAATTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
34 29 0.69
35 6 0.14
36 7 0.17
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (36 bp):
ATTTAAAATTTAAAGTACAATTTGTTTCAAATAAAA
Found at i:2891213 original size:19 final size:20
Alignment explanation
Indices: 2891175--2891214 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2891165 GAACTTTTTT
*
2891175 TTAATATTCAAATTACAATTA
1 TTAATATT-AAATTAAAATTA
2891196 TTAATATT-AATTAAAATTA
1 TTAATATTAAATTAAAATTA
2891215 AATATGGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATATTAAATTAAAATTA
Found at i:2891584 original size:23 final size:24
Alignment explanation
Indices: 2891541--2891591 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
2891531 AAGTTCGTTC
2891541 CTATTTTTAATGATTAAAATT-AA
1 CTATTTTTAATGATTAAAATTCAA
**
2891564 CTATTTTTAA-GATTTTTAATTCAA
1 CTATTTTTAATGA-TTAAAATTCAA
2891588 CTAT
1 CTAT
2891592 GAAATAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 16 0.67
24 6 0.25
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (24 bp):
CTATTTTTAATGATTAAAATTCAA
Found at i:2896563 original size:153 final size:152
Alignment explanation
Indices: 2896259--2896559 Score: 394
Period size: 153 Copynumber: 2.0 Consensus size: 152
2896249 TTAGAAAAAG
* **
2896259 TTTTGAACTAACAAAAATAATATTTATTTTTATCATATTATTAACTTTACATTTAAAATAATTAT
1 TTTTGAACTAACAAAAATAACATTTATTTTTATCATATTATTAAAATTACATTTAAAATAATTAT
* * * * *
2896324 AATTTAATAAAAATTATGGTAATTACAAATTTAAAAATAATTGAAACTTAAATTGCAATTATTAA
66 AAATTAAT-AAAATTACGATAATTACAAATTTAAAAATAATTGAAACTTAAATTACAATTATCAA
2896389 TTAAAAATTGTGCTAATTTAAAC
130 TTAAAAATTGTGCTAATTTAAAC
*
2896412 TTTTGAACT-ATAAAAATAACATTTATTTTTCATCATATTATTAAAATTACATTTAAAATAATTA
1 TTTTGAACTAACAAAAATAACATTTATTTTT-ATCATATTATTAAAATTACATTTAAAATAATTA
* * *
2896476 TAAATTAAT-AAATTGCGATAATTA-AGAATTTAAGAATAATT-ATAATTTAAATTACAATTATC
65 TAAATTAATAAAATTACGATAATTACA-AATTTAAAAATAATTGA-AACTTAAATTACAATTATC
** *
2896538 GGTTAAAAAATTGTGTTAATTT
128 AATT-AAAAATTGTGCTAATTT
2896560 TAAAATAGAG
Statistics
Matches: 129, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
150 2 0.02
151 44 0.34
152 35 0.27
153 48 0.37
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (152 bp):
TTTTGAACTAACAAAAATAACATTTATTTTTATCATATTATTAAAATTACATTTAAAATAATTAT
AAATTAATAAAATTACGATAATTACAAATTTAAAAATAATTGAAACTTAAATTACAATTATCAAT
TAAAAATTGTGCTAATTTAAAC
Found at i:2897796 original size:30 final size:30
Alignment explanation
Indices: 2897762--2897832 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
2897752 CATAATTTAA
* *
2897762 TTTTAATT-TTTATGTTATGTACATTCTATG
1 TTTT-ATTATTTATGTTACGTACATACTATG
*
2897792 TTTTATTATTTATGTTACGTGCATACTATG
1 TTTTATTATTTATGTTACGTACATACTATG
*
2897822 TCTTATTATTT
1 TTTTATTATTT
2897833 TATTATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.59
Consensus pattern (30 bp):
TTTTATTATTTATGTTACGTACATACTATG
Found at i:2897864 original size:15 final size:16
Alignment explanation
Indices: 2897824--2897865 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2897814 ATACTATGTC
2897824 TTATTATTT-TATTAT
1 TTATTATTTATATTAT
*
2897839 TTATGTTTTTAT-TTAT
1 TTAT-TATTTATATTAT
2897855 TTATTATTTAT
1 TTATTATTTAT
2897866 GTTGTGTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 12 0.52
17 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTATTTATATTAT
Found at i:2898050 original size:17 final size:17
Alignment explanation
Indices: 2898030--2898064 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2898020 GTTTATGAAA
*
2898030 AAATAAAATACGAAAAT
1 AAATAAAAAACGAAAAT
2898047 AAATAAAAAACGAAAAT
1 AAATAAAAAACGAAAAT
2898064 A
1 A
2898065 GTATATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (17 bp):
AAATAAAAAACGAAAAT
Found at i:2898254 original size:158 final size:157
Alignment explanation
Indices: 2898042--2898517 Score: 620
Period size: 147 Copynumber: 3.1 Consensus size: 157
2898032 ATAAAATACG
* ** * * *
2898042 AAAATAAATAAAAAACGAAAATAGTATATTTACTAAAAGTAATAAAATCCGAAAA-AATAAAAAT
1 AAAAT-AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAAT
*
2898106 ACGAATAAAGGGCCAAAATAATGATTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATA
65 ACGAACAAA-GGCCAAAATAATGATTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATA
2898171 CATTTCAAACATTATGTACGAAAATAATAT
129 CATTTCAAACATTATGTAC-AAAATAATAT
* *
2898201 AAAATAATAAAATATGAAAATAGTATCTTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATA
2898266 CGAACAAAGGCCAAAATAATGAGTTTTTTTACTAAATTTATAT--AAAAA-ACACTAAAATAATA
66 CGAACAAAGGCCAAAATAATGA--TTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATA
2898328 CATTTCAAACATTATGTAC-------TA-
129 CATTTCAAACATTATGTACAAAATAATAT
2898349 AAAAT-ATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA-TCTGAAAATAAGAAAAAT
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTC-GAAAATAAGAAAAAT
** * * * *
2898412 ACGAACAAATAACCAAAATAACAGTTTTTTTTACTAAATTTATATAAAAAAACACACCAAATTAA
65 ACGAACAAA-GGCCAAAATAA-TG-ATTTTTTACTAAATTTATATAAAAAAACACACTAAAATAA
2898477 TACATTTCAAACATTATGTACTAAAATAATAT
127 TACATTTCAAACATTATGTAC-AAAATAATAT
*
2898509 AAATTAATA
1 AAAATAATA
2898518 CATTTCCAGC
Statistics
Matches: 279, Mismatches: 18, Indels: 38
0.83 0.05 0.11
Matches are distributed among these distances:
146 2 0.01
147 62 0.22
148 33 0.12
149 3 0.01
150 5 0.02
151 31 0.11
157 33 0.12
158 61 0.22
159 23 0.08
160 23 0.08
161 3 0.01
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (157 bp):
AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATA
CGAACAAAGGCCAAAATAATGATTTTTTACTAAATTTATATAAAAAAACACACTAAAATAATACA
TTTCAAACATTATGTACAAAATAATAT
Found at i:2899231 original size:3 final size:3
Alignment explanation
Indices: 2899225--2899259 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2899215 ATTTAACCAC
2899225 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2899260 GTTTTGTACT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2899358 original size:76 final size:76
Alignment explanation
Indices: 2899268--2899408 Score: 203
Period size: 76 Copynumber: 1.9 Consensus size: 76
2899258 TAGTTTTGTA
2899268 CTAAAAATAATACTAACTAACAATAAGAATTAGGG-TTTTACTAAAAATAATAACTAACAATAAT
1 CTAAAAATAATACTAACTAA-AATAAGAATTAGGGTTTTTACTAAAAATAATAACTAACAATAAT
2899332 ATAGTGTAAACG
65 ATAGTGTAAACG
* * * *** *
2899344 CTAACAATCATACTAACTAAAATAATAATTAGGGTTTTTACTAATCCTAATAACTAACCATAATA
1 CTAAAAATAATACTAACTAAAATAAGAATTAGGGTTTTTACTAAAAATAATAACTAACAATAATA
2899409 ATAATATTAG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 13 0.23
76 44 0.77
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (76 bp):
CTAAAAATAATACTAACTAAAATAAGAATTAGGGTTTTTACTAAAAATAATAACTAACAATAATA
TAGTGTAAACG
Found at i:2900050 original size:16 final size:16
Alignment explanation
Indices: 2900012--2900051 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2900002 AATATGTGAA
2900012 TAATATTATTTAAAAT
1 TAATATTATTTAAAAT
*
2900028 TATTATT-TTTAAAACT
1 TAATATTATTTAAAA-T
2900044 TAATATTA
1 TAATATTA
2900052 AAATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATATTATTTAAAAT
Found at i:2900064 original size:18 final size:19
Alignment explanation
Indices: 2900037--2900072 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2900027 TTATTATTTT
2900037 TAAAACTT-AATATTAAAA
1 TAAAACTTAAATATTAAAA
*
2900055 TAAAATTTAAATATTAAA
1 TAAAACTTAAATATTAAA
2900073 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAACTTAAATATTAAAA
Found at i:2901100 original size:23 final size:22
Alignment explanation
Indices: 2901073--2901124 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2901063 CCATAAAAAA
*
2901073 AATTTCTAACTTAAAACAGTTTT
1 AATTT-TAACTTAAAAAAGTTTT
* *
2901096 AATTTTTATTTAAAAAAGTTTT
1 AATTTTAACTTAAAAAAGTTTT
2901118 AATTTTA
1 AATTTTA
2901125 TTAAATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (22 bp):
AATTTTAACTTAAAAAAGTTTT
Found at i:2902832 original size:22 final size:22
Alignment explanation
Indices: 2902802--2902855 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2902792 CAAATTATGA
*
2902802 ATTAAAATTTAA-ACTATAAAAT
1 ATTAAAATTAAATACT-TAAAAT
* *
2902824 ATTATAATTAAATACTTAAAGT
1 ATTAAAATTAAATACTTAAAAT
*
2902846 ATTAATATTA
1 ATTAAAATTA
2902856 TTTTGACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTAAAATTAAATACTTAAAAT
Found at i:2902842 original size:29 final size:28
Alignment explanation
Indices: 2902795--2902856 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2902785 GAGTTATCAA
*
2902795 ATTATGAATTAAAATTTAAACTATAAAAT
1 ATTATGAATTAAAACTTAAACTAT-AAAT
* *
2902824 ATTAT-AATTAAATACTTAAAGTATTAAT
1 ATTATGAATTAAA-ACTTAAACTATAAAT
2902852 ATTAT
1 ATTAT
2902857 TTTGACCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (28 bp):
ATTATGAATTAAAACTTAAACTATAAAT
Found at i:2907676 original size:16 final size:15
Alignment explanation
Indices: 2907621--2907674 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
2907611 TGTGTTTAGT
2907621 ATTATTTTT-AATAA
1 ATTATTTTTAAATAA
2907635 A-TATTTTTGAAATAAA
1 ATTATTTTT-AAAT-AA
*
2907651 AGTATTTTTAAATAA
1 ATTATTTTTAAATAA
2907666 ATTATTTTT
1 ATTATTTTT
2907675 TAGAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 7 0.20
14 1 0.03
15 13 0.37
16 7 0.20
17 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (15 bp):
ATTATTTTTAAATAA
Found at i:2907691 original size:17 final size:16
Alignment explanation
Indices: 2907633--2907692 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
2907623 TATTTTTAAT
2907633 AAATATTTTT-GAAATA
1 AAATATTTTTAGAAA-A
*
2907649 AAAGTATTTTTA-AATA
1 AAA-TATTTTTAGAAAA
*
2907665 AATTATTTTTTAGAAAA
1 AAATA-TTTTTAGAAAA
2907682 AAATAATTTTT
1 AAAT-ATTTTT
2907693 CCAAACCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
15 2 0.06
16 12 0.34
17 20 0.57
18 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
AAATATTTTTAGAAAA
Found at i:2909793 original size:14 final size:14
Alignment explanation
Indices: 2909774--2909810 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
2909764 TTTGTTTTGA
2909774 TTTCATCTTT-ATTT
1 TTTCAT-TTTCATTT
2909788 TTTCATTTTCATTT
1 TTTCATTTTCATTT
2909802 TTTCATTTT
1 TTTCATTTT
2909811 TGTAAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCATTTTCATTT
Found at i:2913343 original size:18 final size:19
Alignment explanation
Indices: 2913320--2913367 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
2913310 AAATATATTT
2913320 ATTTTTTAAAAATTTT-AA
1 ATTTTTTAAAAATTTTAAA
**
2913338 ATTTTTT-TTAATTTTAAA
1 ATTTTTTAAAAATTTTAAA
2913356 ATATTTTTAAAA
1 AT-TTTTTAAAA
2913368 TACTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 6 0.26
18 11 0.48
19 5 0.22
20 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTTAAAAATTTTAAA
Found at i:2913350 original size:17 final size:17
Alignment explanation
Indices: 2913330--2913392 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
2913320 ATTTTTTAAA
2913330 AATTTTAAATTTTTTTT
1 AATTTTAAATTTTTTTT
* *
2913347 AATTTTAAAATATTTTT
1 AATTTTAAATTTTTTTT
** **
2913364 AA-AATACTTTTTTTTT
1 AATTTTAAATTTTTTTT
*
2913380 ATTTTTAAATTTT
1 AATTTTAAATTTT
2913393 AAAATATTTT
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTTAAATTTTTTTT
Found at i:2913393 original size:40 final size:39
Alignment explanation
Indices: 2913341--2913427 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 39
2913331 ATTTTAAATT
* * *
2913341 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
1 TTTTTAAATTTTAAAATATTTTAAAAATAC-TTTTTTTAA
2913381 TTTTTAAATTTTAAAATATTTTAAAAATACTTTTTTTAA
1 TTTTTAAATTTTAAAATATTTTAAAAATACTTTTTTTAA
2913420 TTTTTAAA
1 TTTTTAAA
2913428 ATAAATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.36
40 28 0.64
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTAAATTTTAAAATATTTTAAAAATACTTTTTTTAA
Found at i:2913436 original size:21 final size:21
Alignment explanation
Indices: 2913398--2913437 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2913388 ATTTTAAAAT
**
2913398 ATTTTAAAAATACTTTTTTTA
1 ATTTTAAAAATAAATTTTTTA
*
2913419 ATTTTTAAAATAAATTTTT
1 ATTTTAAAAATAAATTTTT
2913438 GGTTTTTATT
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTAAAAATAAATTTTTTA
Found at i:2917787 original size:16 final size:16
Alignment explanation
Indices: 2917754--2917787 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2917744 AATTGAATCA
*
2917754 TTTTTAATTCTTATAT
1 TTTTTAATTCTTAAAT
*
2917770 TTTTTAATTTTTAAAT
1 TTTTTAATTCTTAAAT
2917786 TT
1 TT
2917788 CTTCATTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTAATTCTTAAAT
Found at i:2924335 original size:21 final size:21
Alignment explanation
Indices: 2924304--2924350 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
2924294 TGTTAATTTC
2924304 ATGAAATATATA-ATGTA-TG
1 ATGAAATATATATATGTATTG
*
2924323 ATGAAATATATATATTTATTG
1 ATGAAATATATATATGTATTG
2924344 ATGAAAT
1 ATGAAAT
2924351 GAGAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.48
20 4 0.16
21 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGAAATATATATATGTATTG
Found at i:2924663 original size:46 final size:46
Alignment explanation
Indices: 2924596--2924709 Score: 219
Period size: 46 Copynumber: 2.5 Consensus size: 46
2924586 TTTGAGTACT
2924596 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
2924642 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
*
2924688 TCTGATCAAGTGAGAAAGTGAT
1 TCTGATCAAGTGATAAAGTGAT
2924710 TTATCTGATC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
Found at i:2924719 original size:25 final size:25
Alignment explanation
Indices: 2924685--2924734 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2924675 TTAGCTACAC
2924685 TTATCTGATCAAGTGAGAAAGTGAT
1 TTATCTGATCAAGTGAGAAAGTGAT
2924710 TTATCTGATCAAGTGAGAAAGTGAT
1 TTATCTGATCAAGTGAGAAAGTGAT
2924735 AAGTGGTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (25 bp):
TTATCTGATCAAGTGAGAAAGTGAT
Found at i:2924755 original size:71 final size:72
Alignment explanation
Indices: 2924639--2924940 Score: 374
Period size: 71 Copynumber: 4.0 Consensus size: 72
2924629 TTAGCTACAC
*
2924639 TTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAA
1 TTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAA
2924704 AGTGAT-
66 AGTGATA
2924710 TTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAA
1 TTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAA
2924775 AGTGATAA
66 AGTGAT-A
* *
2924783 GTGGTAGCT-ATAAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGA
1 -T--TATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGA
* *
2924847 TAAGTGGTAGCATTAGCTACA
63 GAA-----AG---T-G--ATA
* * *
2924868 CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGATA
1 -TTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGA
2924933 AAGTGATA
65 AAGTGATA
2924941 AGTGGTAGCC
Statistics
Matches: 203, Mismatches: 11, Indels: 32
0.83 0.04 0.13
Matches are distributed among these distances:
71 70 0.34
73 2 0.01
74 1 0.00
75 57 0.28
76 5 0.02
79 2 0.01
80 2 0.01
83 5 0.02
84 56 0.28
85 2 0.01
86 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (72 bp):
TTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAA
AGTGATA
Found at i:2924891 original size:46 final size:46
Alignment explanation
Indices: 2924841--2925125 Score: 486
Period size: 46 Copynumber: 6.3 Consensus size: 46
2924831 TTATCTGATC
*
2924841 AAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
*
2924887 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGATA
1 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
2924933 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
**
2924979 AAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
**
2925025 AAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
*
2925071 AAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATC-AGGGAC-
1 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
2925114 AAGTGATAAGTG
1 AAGTGATAAGTG
2925126 ATCATAAGTA
Statistics
Matches: 231, Mismatches: 8, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
43 12 0.05
44 5 0.02
45 19 0.08
46 195 0.84
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACA
Found at i:2925035 original size:138 final size:136
Alignment explanation
Indices: 2924795--2925125 Score: 523
Period size: 138 Copynumber: 2.5 Consensus size: 136
2924785 GGTAGCTATA
* *
2924795 AAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTG---A-T--CAAGTGATAAGTGG
1 AAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGG
2924854 TAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTAT
66 TAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTAT
2924919 CTGATC
131 CTGATC
*
2924925 AAGTGATAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 AAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC-AGTGAC-AAGTGATAAGT
** **
2924990 GGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTT
64 GGTAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTT
2925055 ATCTGATC
129 ATCTGATC
*
2925063 AAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATCAGGGACAAGTGATAAGTG
1 AAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTG
2925126 ATCATAAGTA
Statistics
Matches: 185, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
130 41 0.22
134 1 0.01
135 13 0.07
136 5 0.03
137 20 0.11
138 105 0.57
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (136 bp):
AAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGG
TAGCATTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTAT
CTGATC
Found at i:2929796 original size:33 final size:33
Alignment explanation
Indices: 2929746--2929903 Score: 125
Period size: 33 Copynumber: 4.7 Consensus size: 33
2929736 AATTTCCCCA
*
2929746 AGGGGTTCCTAAGTGCTGATTCCCCGAATTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATT
* *
2929779 AGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGT
1 AGGGGTTGCTAAGTGCTGATTCC-CCG-A-ATT--AT-T
2929818 GAAGGGGGTTGCTAAGTGCTGATTTCCCC-----A--
1 --A-GGGGTTGCTAAGTGCTGA-TTCCCCGAATTATT
*
2929848 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATT
2929881 -GGTGGTTGCTAAGTGCTGATTCC
1 AGG-GGTTGCTAAGTGCTGATTCC
2929904 ACCATATCTT
Statistics
Matches: 103, Mismatches: 4, Indels: 36
0.72 0.03 0.25
Matches are distributed among these distances:
26 6 0.06
27 18 0.17
28 1 0.01
31 1 0.01
32 2 0.02
33 42 0.41
34 3 0.03
35 1 0.01
36 2 0.02
38 2 0.02
39 1 0.01
41 1 0.01
42 19 0.18
43 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (33 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATTATT
Found at i:2929858 original size:27 final size:26
Alignment explanation
Indices: 2929822--2929872 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
2929812 AAATGTGAAG
2929822 GGGGTTGCTAAGTGCTGATTTCCCCAA
1 GGGGTTGCTAAGTGCTGA-TTCCCCAA
2929849 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
2929873 GAATCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:2929893 original size:102 final size:103
Alignment explanation
Indices: 2929717--2929948 Score: 360
Period size: 102 Copynumber: 2.3 Consensus size: 103
2929707 ATTGAATATA
* * * *
2929717 AAGGGGATTGCTATGTGCTAATTTCCCCAAGGGGTTCCTAAGTGCTGATTCCCCGAATTATTAGT
1 AAGGGGGTTGCTAAGTGCTGATTTCCCCAAGGGGTTCCTAAGTGCTGATTCCCCGAATCATTAGT
*
2929782 GGTTGCTAAGTGCTGATTCCACCGTAT-TTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATATCTTTAAATGTG
* *
2929819 AAGGGGGTTGCTAAGTGCTGATTTCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTTCCCCAAGGGGTTCCTAAGTGCTGATTCCCCGAATCATTAGT
*
2929884 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATATCTTTAAATGTG
* *
2929922 AAAGGGGTTGCTAAGTGTTGA-TTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTTCCCC
2929949 GAATCACTGG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
102 91 0.76
103 28 0.24
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (103 bp):
AAGGGGGTTGCTAAGTGCTGATTTCCCCAAGGGGTTCCTAAGTGCTGATTCCCCGAATCATTAGT
GGTTGCTAAGTGCTGATTCCACCATATCTTTAAATGTG
Found at i:2932852 original size:18 final size:17
Alignment explanation
Indices: 2932798--2932866 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 17
2932788 ATAATTATTT
2932798 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
2932815 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
2932836 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
2932854 TAAATTATATATT
1 TAAATTATATATT
2932867 ATTTTTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.21
18 14 0.33
19 6 0.14
20 6 0.14
21 5 0.12
22 3 0.07
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:2932865 original size:17 final size:18
Alignment explanation
Indices: 2932829--2932866 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2932819 ATATATTATG
2932829 ATTTTAGTAAATTCATAT
1 ATTTTAGTAAATTCATAT
*
2932847 ATTTTATTAAATT-ATAT
1 ATTTTAGTAAATTCATAT
2932864 ATT
1 ATT
2932867 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTTTAGTAAATTCATAT
Found at i:2932874 original size:21 final size:21
Alignment explanation
Indices: 2932816--2932881 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
2932806 ATTTTATAGT
*
2932816 ATTATATATTATGATTTTAGTAA
1 ATTATATATTAT--TTTTATTAA
*
2932839 ATT-CATA-TA-TTTTATTAA
1 ATTATATATTATTTTTATTAA
2932857 ATTATATATTATTTTTATTAA
1 ATTATATATTATTTTTATTAA
2932878 ATTA
1 ATTA
2932882 AGCTTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 11 0.30
19 3 0.08
20 2 0.05
21 15 0.41
22 3 0.08
23 3 0.08
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTATATATTATTTTTATTAA
Found at i:2932879 original size:39 final size:40
Alignment explanation
Indices: 2932803--2932880 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
2932793 TATTTTAAAT
*
2932803 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAGAATTATATATTAT-ATTTTAGTAAATTCA
*
2932844 TATATTTTATTA-AATTATATATTAT-TTTTATTAAATT
1 TATATTTTA-TAGAATTATATATTATATTTTAGTAAATT
2932881 AAGCTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 11 0.32
41 21 0.62
42 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (40 bp):
TATATTTTATAGAATTATATATTATATTTTAGTAAATTCA
Found at i:2932888 original size:20 final size:21
Alignment explanation
Indices: 2932848--2932889 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2932838 AATTCATATA
*
2932848 TTTTATTAAATTATATATTAT
1 TTTTATTAAATTATAGATTAT
*
2932869 TTTTATTAAATTA-AGCTTAT
1 TTTTATTAAATTATAGATTAT
2932889 T
1 T
2932890 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTATTAAATTATAGATTAT
Found at i:2933020 original size:39 final size:40
Alignment explanation
Indices: 2932975--2933079 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 40
2932965 TTTCCTTATG
* *
2932975 CTATTACACCTCTATTCCATTCAACCAAACACAAGAATAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATAC
*
2933015 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATAC
2933059 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
2933080 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
39 13 0.23
40 6 0.11
44 23 0.41
45 14 0.25
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATAC
Found at i:2933074 original size:45 final size:44
Alignment explanation
Indices: 2932992--2933081 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
2932982 ACCTCTATTC
*
2932992 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
*
2933036 CATTCAACCAAACAAAAGATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATACC-ATTACGCCTCTATTCCATTA
2933081 C
1 C
2933082 GCATCTATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 22 0.51
45 21 0.49
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
Found at i:2933082 original size:16 final size:16
Alignment explanation
Indices: 2933061--2933113 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
2933051 AAGATTACCT
2933061 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
2933077 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
2933093 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
2933109 ATTAC
1 ATTAC
2933114 AGCCAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:2935247 original size:19 final size:21
Alignment explanation
Indices: 2935212--2935261 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
2935202 CGATCTTGGT
2935212 TTAATAAT-TAAATTT-AAGA
1 TTAATAATATAAATTTAAAGA
*
2935231 TTAATAATATATA-TTAAAGA
1 TTAATAATATAAATTTAAAGA
*
2935251 -CAATAATATAA
1 TTAATAATATAA
2935262 TTTCGTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAATAATATAAATTTAAAGA
Found at i:2936565 original size:110 final size:110
Alignment explanation
Indices: 2936327--2936647 Score: 518
Period size: 110 Copynumber: 2.9 Consensus size: 110
2936317 GAAATTCAAG
* * * *
2936327 AAGATATTTGGCTATTTGGTTAAATGATAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTC
1 AAGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTC
* * *
2936392 GAATTTCCAAA-AGCAAAACATTGCATTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* * * *
2936436 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATAGACACCCAGCACATTAGGGCATGTTTTCTC
1 AAGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTC
2936501 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAA
*
2936546 AAGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AAGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTC
*
2936611 GAATTTCCAAACGGCAAAACATTACCTTATTTTGAAA
66 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAA
2936648 AATTTTCCTT
Statistics
Matches: 194, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
109 68 0.35
110 126 0.65
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (110 bp):
AAGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTC
GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAA
Found at i:2944362 original size:58 final size:61
Alignment explanation
Indices: 2944271--2944404 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 61
2944261 TTGAATTTGT
* *
2944271 AATTATTCT-CA-TATTGGGGTTTGAA-TT-TTTTTTGTCCAAATTAGA-CCCTAAAATTGAC
1 AATTATTCTACACT-TTGGGGCTTGAACTTCTTTTGTGTCCAAATTA-ATCCCTAAAATTGAC
* *
2944329 AATTATT-TACACTTTGGGGCTTGAACTTCTTTTGTGTCCAAGTTAATCCCTAAACTTGAC
1 AATTATTCTACACTTTGGGGCTTGAACTTCTTTTGTGTCCAAATTAATCCCTAAAATTGAC
*
2944389 AATTATTCTAGACTTT
1 AATTATTCTACACTTT
2944405 AAGGTTTTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
57 1 0.02
58 20 0.31
59 4 0.06
60 33 0.51
61 7 0.11
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (61 bp):
AATTATTCTACACTTTGGGGCTTGAACTTCTTTTGTGTCCAAATTAATCCCTAAAATTGAC
Found at i:2946222 original size:14 final size:15
Alignment explanation
Indices: 2946203--2946231 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2946193 ATATAAAAAA
2946203 ATTAAT-TTGATCAT
1 ATTAATATTGATCAT
2946217 ATTAATATTGATCAT
1 ATTAATATTGATCAT
2946232 TAAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
ATTAATATTGATCAT
Found at i:2947481 original size:62 final size:63
Alignment explanation
Indices: 2947376--2947672 Score: 283
Period size: 62 Copynumber: 4.9 Consensus size: 63
2947366 TTGAATGCTG
* * *
2947376 GCTCCTGTTGA-GAGTCGCGGAAGGTCCCGGTGCTGTTATACTGTAATGTATGGTAAGAGGTT
1 GCTCCTGTTGAGGAGTCGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
* * * * * * *
2947438 GGTCCTGTTGAGGAGTC-TGGAAGGTCCTGATGCTGCTACACTGTAATGCATGGCCTGAGGTT
1 GCTCCTGTTGAGGAGTCGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
* * **
2947500 GTTCCTGTTGAGGAGTTGCCGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
1 GCTCCTGTTGAGGAGTCGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
* * ** * * *
2947563 GCT-CTGGTTGAGGAGCCGTGGAAGGTCCC-G-G-AGCTACGCT-TAGTGTATGGACTGAGGTT
1 GCTCCT-GTTGAGGAGTCGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
* * *
2947622 GCTCTTGTTGATGAGTCACT-GAAGGT-CC--TGCTGCTATACTGTAATGTATGG
1 GCTCCTGTTGAGGAGTC-GTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGG
2947673 CCGAGATCGT
Statistics
Matches: 188, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
58 3 0.02
59 40 0.21
60 17 0.09
61 1 0.01
62 64 0.34
63 63 0.34
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (63 bp):
GCTCCTGTTGAGGAGTCGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
Found at i:2950484 original size:21 final size:21
Alignment explanation
Indices: 2950455--2950494 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2950445 CCCCATGAAT
* *
2950455 TTTTTAAAATCTTCATTAGAC
1 TTTTAAAAATCTTAATTAGAC
*
2950476 TTTTAAAAATTTTAATTAG
1 TTTTAAAAATCTTAATTAG
2950495 GTCCCTCAAC
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:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTAAAAATCTTAATTAGAC
Found at i:2959084 original size:63 final size:62
Alignment explanation
Indices: 2959001--2959194 Score: 232
Period size: 63 Copynumber: 3.1 Consensus size: 62
2958991 GTGATGCCTT
* ** * *
2959001 CTGTTGAGGAGTTGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTC
1 CTGTTGAGGAGTAGCAGAAGGT-CCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
* * * **
2959064 CTGTTGAGGAGTCGCAGAAGGTCC--TGGTGCTAAACTGTAATGTATGGCCTGAGGTTGCTC
1 CTGTTGAGGAGTAGCAGAAGGTCCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
* *
2959124 CTGTTGAGGAGTAGCCGAAGGTGCTGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCT-
1 CTGTTGAGGAGTAGCAGAAGGT-CCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
2959186 CTGGTTGAG
1 CT-GTTGAG
2959195 TCATGGAAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
60 50 0.45
61 1 0.01
62 4 0.04
63 56 0.50
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.30
Consensus pattern (62 bp):
CTGTTGAGGAGTAGCAGAAGGTCCGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCTC
Found at i:2959124 original size:60 final size:58
Alignment explanation
Indices: 2959001--2959287 Score: 229
Period size: 60 Copynumber: 4.7 Consensus size: 58
2958991 GTGATGCCTT
* * * *
2959001 CTGTTGAGGAGTTGTGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTC
1 CTGTTGAGGAG-TG-CGAAGGTCCC-G-G-TGCTATACTGTAATGTATGGCATGAGGTTGCTC
* * *
2959064 CTGTTGAGGAGTCGCAGAAGGTCCTGGTGCTAAACTGTAATGTATGGCCTGAGGTTGCTC
1 CTGTTGAGGAGT-GC-GAAGGTCCCGGTGCTATACTGTAATGTATGGCATGAGGTTGCTC
** *
2959124 CTGTTGAGGAGTAGCCGAAGGTGCTGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCT-
1 CTGTTGAGGAGT-G-CGAAGGT-CCCG-G-TGCTATACTGTAATGTATGGCATGAGGTTGCTC
* * * * * * **
2959186 CTGGTTGAGTCA-TG-GAAAGTCCCGATGCTACACTGTAATGTATAGCCTGAGGTCCCTC
1 CT-GTTGAG-GAGTGCGAAGGTCCCGGTGCTATACTGTAATGTATGGCATGAGGTTGCTC
* *
2959244 CTGTTGAAGAGTTGCTGAAGGTCCCGCTGCTATACTGTAATGTA
1 CTGTTGAGGAG-TGC-GAAGGTCCCGGTGCTATACTGTAATGTA
2959288 CAGCCCGAGG
Statistics
Matches: 182, Mismatches: 29, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
56 1 0.01
57 31 0.17
58 4 0.02
59 2 0.01
60 77 0.42
61 4 0.02
62 6 0.03
63 56 0.31
64 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (58 bp):
CTGTTGAGGAGTGCGAAGGTCCCGGTGCTATACTGTAATGTATGGCATGAGGTTGCTC
Found at i:2959264 original size:120 final size:120
Alignment explanation
Indices: 2959001--2959287 Score: 325
Period size: 123 Copynumber: 2.4 Consensus size: 120
2958991 GTGATGCCTT
2959001 CTGTTGAGGAGTTG-TGGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCC
1 CTGTTGAGGAGTTGCT-GAAGGT--CGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCC
* * * * * **
2959065 TGTTGAGGAGTCGCAGAAGGTCCTGGTGCTAAACTGTAATGTATGGCCTGAGGTTGCTC
63 TGTTGAGCAGTCG-AGAAAGTCCCGATGCTAAACTGTAATGTATAGCCTGAGGTCCCTC
* * * *
2959124 CTGTTGAGGAGTAGCCGAAGGTGCTGGTGCTGCTATACTGTAATGTATGGTATGAGGTTGCT-CT
1 CTGTTGAGGAGTTGCTGAAGGT-C-GGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCT
*
2959188 GGTTGAGTCA-T-G-GAAAGTCCCGATGCTACACTGTAATGTATAGCCTGAGGTCCCTC
64 -GTTGAG-CAGTCGAGAAAGTCCCGATGCTAAACTGTAATGTATAGCCTGAGGTCCCTC
* **
2959244 CTGTTGAAGAGTTGCTGAAGGTC-CCGCTGCTATACTGTAATGTA
1 CTGTTGAGGAGTTGCTGAAGGTCGGTGCTGCTATACTGTAATGTA
2959288 CAGCCCGAGG
Statistics
Matches: 142, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
117 19 0.13
119 1 0.01
120 56 0.39
122 4 0.03
123 61 0.43
124 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (120 bp):
CTGTTGAGGAGTTGCTGAAGGTCGGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCTGT
TGAGCAGTCGAGAAAGTCCCGATGCTAAACTGTAATGTATAGCCTGAGGTCCCTC
Found at i:2966566 original size:173 final size:173
Alignment explanation
Indices: 2966271--2966624 Score: 699
Period size: 173 Copynumber: 2.0 Consensus size: 173
2966261 CAATGCCATC
2966271 TTGTATTTCTGCTTTTGTTTTGCTGCTTTAGACTGTGTCATGTATTGTGTTTTAAGGATGTTGCC
1 TTGTA-TTCTGCTTTTGTTTTGCTGCTTTAGACTGTGTCATGTATTGTGTTTTAAGGATGTTGCC
2966336 AAAGATTAAAAGAAAGTTGAAATGTAGCCTTTATTTTAGATTTCAAAAGTTCTGATTCAGAAATG
65 AAAGATTAAAAGAAAGTTGAAATGTAGCCTTTATTTTAGATTTCAAAAGTTCTGATTCAGAAATG
2966401 TTTATGTTTTTGTCGTTTACAACATCGATACGCCCTTCTAAATT
130 TTTATGTTTTTGTCGTTTACAACATCGATACGCCCTTCTAAATT
2966445 TTGTATTCTGCTTTTGTTTTGCTGCTTTAGACTGTGTCATGTATTGTGTTTTAAGGATGTTGCCA
1 TTGTATTCTGCTTTTGTTTTGCTGCTTTAGACTGTGTCATGTATTGTGTTTTAAGGATGTTGCCA
2966510 AAGATTAAAAGAAAGTTGAAATGTAGCCTTTATTTTAGATTTCAAAAGTTCTGATTCAGAAATGT
66 AAGATTAAAAGAAAGTTGAAATGTAGCCTTTATTTTAGATTTCAAAAGTTCTGATTCAGAAATGT
2966575 TTATGTTTTTGTCGTTTACAACATCGATACGCCCTTCTAAATT
131 TTATGTTTTTGTCGTTTACAACATCGATACGCCCTTCTAAATT
2966618 TTGTATT
1 TTGTATT
2966625 TCTGTGATGT
Statistics
Matches: 180, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
173 175 0.97
174 5 0.03
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (173 bp):
TTGTATTCTGCTTTTGTTTTGCTGCTTTAGACTGTGTCATGTATTGTGTTTTAAGGATGTTGCCA
AAGATTAAAAGAAAGTTGAAATGTAGCCTTTATTTTAGATTTCAAAAGTTCTGATTCAGAAATGT
TTATGTTTTTGTCGTTTACAACATCGATACGCCCTTCTAAATT
Found at i:2969408 original size:23 final size:22
Alignment explanation
Indices: 2969382--2969426 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2969372 ATAAATAATT
* *
2969382 TAAAATTTAAAAAAATTTAAAAA
1 TAAAATAT-AAAAAATATAAAAA
2969405 TAAAATATAAAAAATATAAAAA
1 TAAAATATAAAAAATATAAAAA
2969427 AATTCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATATAAAAAATATAAAAA
Found at i:2969427 original size:23 final size:23
Alignment explanation
Indices: 2969382--2969429 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2969372 ATAAATAATT
* *
2969382 TAAAATTTAAAAAAATTTAAAAA
1 TAAAATATAAAAAAATTAAAAAA
*
2969405 TAAAATATAAAAAATATAAAAAAA
1 TAAAATATAAAAAA-ATTAAAAAA
2969429 T
1 T
2969430 TCAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAATATAAAAAAATTAAAAAA
Found at i:2969438 original size:9 final size:10
Alignment explanation
Indices: 2969383--2969441 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
2969373 TAAATAATTT
*
2969383 AAAATTTAAA
1 AAAATATAAA
*
2969393 AAAATTTAAA
1 AAAATATAAA
*
2969403 AATAAAATATAA
1 AA-AATATA-AA
2969415 AAAATATAAA
1 AAAATATAAA
*
2969425 AAAAT-TCAA
1 AAAATATAAA
2969434 AAAATATA
1 AAAATATA
2969442 TATGAAGTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 8 0.20
10 20 0.49
11 9 0.22
12 4 0.10
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATATAAA
Found at i:2969595 original size:29 final size:31
Alignment explanation
Indices: 2969535--2969599 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
2969525 AAAAATAATA
** *
2969535 TTAATTTTTTTTTGAAAAATTGATGGTTAATT
1 TTAATTTTTTTTT-AAAAATTGACAGTAAATT
2969567 TTAA-TTTTTTTT-AAAATTGACAGTAAATT
1 TTAATTTTTTTTTAAAAATTGACAGTAAATT
2969596 TTAA
1 TTAA
2969600 CTAATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 18 0.60
31 8 0.27
32 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (31 bp):
TTAATTTTTTTTTAAAAATTGACAGTAAATT
Found at i:2973205 original size:59 final size:58
Alignment explanation
Indices: 2973114--2973237 Score: 239
Period size: 59 Copynumber: 2.1 Consensus size: 58
2973104 CCATTTACTC
2973114 AAAAAAAGGCAAATTAGTCCCTACACATTAGATCAAAGAGCAAGTTGATCCTTTTGTT
1 AAAAAAAGGCAAATTAGTCCCTACACATTAGATCAAAGAGCAAGTTGATCCTTTTGTT
2973172 AAAAAATAGGCAAATTAGTCCCTACACATTAGATCAAAGAGCAAGTTGATCCTTTTGTT
1 AAAAAA-AGGCAAATTAGTCCCTACACATTAGATCAAAGAGCAAGTTGATCCTTTTGTT
2973231 AAAAAAA
1 AAAAAAA
2973238 TTATCTATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 7 0.11
59 58 0.89
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (58 bp):
AAAAAAAGGCAAATTAGTCCCTACACATTAGATCAAAGAGCAAGTTGATCCTTTTGTT
Found at i:2975912 original size:176 final size:176
Alignment explanation
Indices: 2975618--2975939 Score: 473
Period size: 176 Copynumber: 1.8 Consensus size: 176
2975608 GCTTTCCCAA
* * *
2975618 AGCGCCACAAAGGTTTTTACCGAACGACGCCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
1 AGCGCCACAAAAGATTTTACCGAACGACACCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
**** * **
2975683 CTTTCTTTAAAGCGCCGCTGAAGTCAATCATTAGCGGCGCTGCAGAGGAAGCGCCGAAAAAAGTT
66 CTTTAAAGAAAGCGCCGCTGAAGTCAACCATTAGCGGCAATGCAGAGGAAGCGCCGAAAAAAGTT
*
2975748 TTAAGCGTACGCCGTCTTAGGGACAATAGTGGCGGTGCTTCCCTGG
131 TTAAGCATACGCCGTCTTAGGGACAATAGTGGCGGTGCTTCCCTGG
* * *
2975794 AGCGCCACAAAAGATTTTACCGAACGACATCGTTTTCTTGTTGAGTTTTAGACACCATAGTGGCG
1 AGCGCCACAAAAGATTTTACCGAACGACACCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
* *** *
2975859 CTTTAAAGAAATCGCCGCTGAAGTCAACCATTAGCGGCAATTTGGAGGAAGCGCCGCAAAAAGTT
66 CTTTAAAGAAAGCGCCGCTGAAGTCAACCATTAGCGGCAATGCAGAGGAAGCGCCGAAAAAAGTT
2975924 TTAAGCATACGCCGTC
131 TTAAGCATACGCCGTC
2975940 GTTTTCTGTT
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
176 127 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (176 bp):
AGCGCCACAAAAGATTTTACCGAACGACACCATTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
CTTTAAAGAAAGCGCCGCTGAAGTCAACCATTAGCGGCAATGCAGAGGAAGCGCCGAAAAAAGTT
TTAAGCATACGCCGTCTTAGGGACAATAGTGGCGGTGCTTCCCTGG
Found at i:2976481 original size:39 final size:39
Alignment explanation
Indices: 2976422--2976505 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
2976412 TAAGGGTTGA
* * *
2976422 GGTTTAAGGTTTATAGTTTATATATGTTTTATGATTTAG
1 GGTTTAAGATTTATAGTTTATATATATTCTATGATTTAG
2976461 GGTTTAAGATTTA-AGATTTATATATATTCTATGATTTAG
1 GGTTTAAGATTTATAG-TTTATATATATTCTATGATTTAG
2976500 GGTTTA
1 GGTTTA
2976506 GGGAATATGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.05
39 39 0.95
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (39 bp):
GGTTTAAGATTTATAGTTTATATATATTCTATGATTTAG
Found at i:2976810 original size:14 final size:14
Alignment explanation
Indices: 2976788--2976843 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
2976778 TCTAGGTCAA
*
2976788 TTTAGGGTTAAGGG
1 TTTAAGGTTAAGGG
*
2976802 TTTAAGGTTAAAGG
1 TTTAAGGTTAAGGG
2976816 -TTAATGGTTTAA-GG
1 TTTAA-GG-TTAAGGG
2976830 TTTAAGGTCTAAGG
1 TTTAAGGT-TAAGG
2976844 AATAGAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 5 0.14
14 21 0.60
15 9 0.26
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.38
Consensus pattern (14 bp):
TTTAAGGTTAAGGG
Found at i:2976818 original size:21 final size:21
Alignment explanation
Indices: 2976793--2976843 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2976783 GTCAATTTAG
2976793 GGTTAAGGGTTTAAGGTTAAA
1 GGTTAAGGGTTTAAGGTTAAA
* *
2976814 GGTTAATGGTTTAAGGTTTAA
1 GGTTAAGGGTTTAAGGTTAAA
2976835 GGTCTAAGG
1 GGT-TAAGG
2976844 AATAGAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.35
Consensus pattern (21 bp):
GGTTAAGGGTTTAAGGTTAAA
Found at i:2976837 original size:7 final size:7
Alignment explanation
Indices: 2976795--2976843 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
2976785 CAATTTAGGG
2976795 TTAAGGGT
1 TTAA-GGT
2976803 TTAAGGT
1 TTAAGGT
*
2976810 TAAAGG-
1 TTAAGGT
2976816 TTAATGGT
1 TTAA-GGT
2976824 TTAAGGT
1 TTAAGGT
2976831 TTAAGGT
1 TTAAGGT
*
2976838 CTAAGG
1 TTAAGG
2976844 AATAGAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 3 0.08
7 25 0.69
8 8 0.22
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.37
Consensus pattern (7 bp):
TTAAGGT
Found at i:2981211 original size:12 final size:12
Alignment explanation
Indices: 2981194--2981227 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2981184 GACACGCTAT
*
2981194 AAATATTTCTAA
1 AAATATTTATAA
*
2981206 AAATATTTATAG
1 AAATATTTATAA
2981218 AAATATTTAT
1 AAATATTTAT
2981228 GGCTCGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:2981651 original size:9 final size:9
Alignment explanation
Indices: 2981637--2981992 Score: 319
Period size: 9 Copynumber: 40.4 Consensus size: 9
2981627 TTCAAATTAA
2981637 ATAACTTAC
1 ATAACTTAC
2981646 ATAACTTAC
1 ATAACTTAC
*
2981655 ATATAACCTAC
1 --ATAACTTAC
2981666 ATAACTTAC
1 ATAACTTAC
2981675 ATAACTTAC
1 ATAACTTAC
* *
2981684 ATAAATTAA
1 ATAACTTAC
2981693 ATAACTTAC
1 ATAACTTAC
*
2981702 ATAACTTAA
1 ATAACTTAC
2981711 ATAACTTAC
1 ATAACTTAC
2981720 ATAACTTAC
1 ATAACTTAC
2981729 ATAA--TAC
1 ATAACTTAC
2981736 ATAACCTT-C
1 ATAA-CTTAC
*
2981745 CTAACTTAC
1 ATAACTTAC
* *
2981754 ATTATTTAC
1 ATAACTTAC
2981763 ATAA--TAC
1 ATAACTTAC
2981770 ATAACTTAGTAC
1 ATAAC-T--TAC
2981782 ATAACTTAC
1 ATAACTTAC
*
2981791 ATAA-TT-T
1 ATAACTTAC
* ** *
2981798 TTTTC-TAA
1 ATAACTTAC
2981806 ATAACTTAC
1 ATAACTTAC
* *
2981815 ATAAATTAA
1 ATAACTTAC
2981824 ATAACTTAC
1 ATAACTTAC
2981833 ATAACTTAC
1 ATAACTTAC
2981842 ATAACTTAC
1 ATAACTTAC
* *
2981851 ATAAATTAA
1 ATAACTTAC
2981860 ATAACTTAC
1 ATAACTTAC
* *
2981869 ATAAATTAA
1 ATAACTTAC
*
2981878 ATAACTTAA
1 ATAACTTAC
2981887 ATAACTTAC
1 ATAACTTAC
2981896 ATAA--TAC
1 ATAACTTAC
2981903 ATAACTCT-C
1 ATAACT-TAC
*
2981912 CTAACTTAC
1 ATAACTTAC
* *
2981921 ATTATTTAC
1 ATAACTTAC
2981930 ATAA--TAC
1 ATAACTTAC
*
2981937 ATAGCTTAC
1 ATAACTTAC
2981946 ATAACTTAC
1 ATAACTTAC
*
2981955 ATAACTCAC
1 ATAACTTAC
2981964 ATAA--TAC
1 ATAACTTAC
*
2981971 ACAACTTAC
1 ATAACTTAC
2981980 ATAACTTAC
1 ATAACTTAC
2981989 ATAA
1 ATAA
2981993 TACATAAAAA
Statistics
Matches: 280, Mismatches: 45, Indels: 44
0.76 0.12 0.12
Matches are distributed among these distances:
7 34 0.12
8 8 0.03
9 219 0.78
10 2 0.01
11 9 0.03
12 8 0.03
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:2986140 original size:21 final size:21
Alignment explanation
Indices: 2986091--2986140 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
2986081 GGATAAAAAT
2986091 TTAT-AATGAAATTATTCAAA
1 TTATAAATGAAATTATTCAAA
* *
2986111 TAAATAAATGTAATTATTCAAA
1 T-TATAAATGAAATTATTCAAA
2986133 TTATAAAT
1 TTATAAAT
2986141 TAAACCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 8 0.32
22 16 0.64
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
TTATAAATGAAATTATTCAAA
Found at i:2988235 original size:28 final size:28
Alignment explanation
Indices: 2988193--2988256 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
2988183 GGGTCCAAAA
* *
2988193 TCTAGAGTCTGTGGTCCAAGGTTTAAGG
1 TCTAGAGTCTCTGGTCCAAAGTTTAAGG
* * *
2988221 TTTAGAGTCTCTGGTCTAAAGTTTAGGG
1 TCTAGAGTCTCTGGTCCAAAGTTTAAGG
2988249 TCTAGAGT
1 TCTAGAGT
2988257 TCGTAATCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (28 bp):
TCTAGAGTCTCTGGTCCAAAGTTTAAGG
Found at i:2994207 original size:22 final size:23
Alignment explanation
Indices: 2994154--2994209 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
2994144 CCCGTTTTTA
* * *
2994154 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
2994177 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
2994199 ATTAAAATTAA
1 ATTAAAATTAA
2994210 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:2994222 original size:16 final size:16
Alignment explanation
Indices: 2994185--2994224 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2994175 TTAATAAAAT
* *
2994185 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
2994201 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
2994217 TAAAATTA
1 TAAAATTA
2994225 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:2994333 original size:68 final size:68
Alignment explanation
Indices: 2994213--2994423 Score: 315
Period size: 68 Copynumber: 3.1 Consensus size: 68
2994203 AAATTAATTG
*
2994213 TTAGTAAAATTATCAAATTATTAA--TTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTTTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
2994276 TGA
66 TGA
2994279 TTAGTAAAATTATCAAATTATTAATTTTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTTTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
2994344 TGA
66 TGA
* ** *
2994347 TTAGTAAAA-TA--AACTTGATTTTTTATTATTATTTTGTATTAATTGTTGTAACAAAATCTAAC
1 TTAGTAAAATTATCAAATT-ATTAATT-TTATTA-ATTGTATTAATTGTTGTAACAAAATCTAAC
2994409 ATTTGA
63 ATTTGA
2994415 TTAGTAAAA
1 TTAGTAAAA
2994424 CAAACTTGAT
Statistics
Matches: 135, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
65 4 0.03
66 29 0.21
67 8 0.06
68 94 0.70
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (68 bp):
TTAGTAAAATTATCAAATTATTAATTTTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
TGA
Found at i:2994429 original size:68 final size:68
Alignment explanation
Indices: 2994244--2994471 Score: 295
Period size: 68 Copynumber: 3.3 Consensus size: 68
2994234 TAATTGTTAA
**
2994244 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATTATCAAA-TT-ATTAATT-T
1 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGT-AAA--A-CAAACTTGATTTTTTAT
*
2994306 TATTA-A
62 TATTATT
*
2994312 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATTTTTTATTATT
1 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATTTTTTATTATT
2994377 ATT
66 ATT
* *
2994380 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTCTT
1 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATTTTTTATTATT
2994445 ATT
66 ATT
*
2994448 TTATTATTATTATT-TTGTAACAAA
1 TT-GTATTA--ATTGTTGTAACAAA
2994472 CTTGATTGTA
Statistics
Matches: 145, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
64 3 0.02
65 3 0.02
66 5 0.03
67 9 0.06
68 107 0.74
69 5 0.03
70 10 0.07
71 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (68 bp):
TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATTTTTTATTATT
ATT
Found at i:2994721 original size:54 final size:54
Alignment explanation
Indices: 2994662--2994808 Score: 154
Period size: 65 Copynumber: 2.6 Consensus size: 54
2994652 TAAAAAAAAT
2994662 TTAAAATAAAAAACTATTATAATTTAAAAATAAGGAAATGAAAGTAAATGAAAC
1 TTAAAATAAAAAACTATTATAATTTAAAAATAAGGAAATGAAAGTAAATGAAAC
***
2994716 TTAAAATAAAAAACTATTAGTTGGATAAATTAGTTGGCCAATAAGGAAATGAAAGTAAATGAAAC
1 TTAAAATAAAAAAC---TA-TT--AT-AA-T--TT-AAAAATAAGGAAATGAAAGTAAATGAAAC
2994781 TT-AAATAAAAAACTATTAT-ATTTAAAAA
1 TTAAAATAAAAAACTATTATAATTTAAAAA
2994809 ATATATATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 24
0.72 0.06 0.23
Matches are distributed among these distances:
52 2 0.03
53 2 0.03
54 14 0.18
55 1 0.01
56 1 0.01
57 2 0.03
58 4 0.05
60 4 0.05
61 4 0.05
62 1 0.01
64 13 0.17
65 28 0.37
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.28
Consensus pattern (54 bp):
TTAAAATAAAAAACTATTATAATTTAAAAATAAGGAAATGAAAGTAAATGAAAC
Found at i:2994808 original size:17 final size:15
Alignment explanation
Indices: 2994786--2994820 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
2994776 GAAACTTAAA
2994786 TAAAAAACTATTATATT
1 TAAAAAA-TA-TATATT
2994803 TAAAAAATATATATT
1 TAAAAAATATATATT
2994818 TAA
1 TAA
2994821 TATATTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 2 0.11
17 7 0.39
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAATATATATT
Found at i:3013392 original size:13 final size:13
Alignment explanation
Indices: 3013374--3013398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3013364 TTTTAGGTGC
3013374 CTAAAATGAAAAT
1 CTAAAATGAAAAT
3013387 CTAAAATGAAAA
1 CTAAAATGAAAA
3013399 CTTTTTATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
CTAAAATGAAAAT
Found at i:3015747 original size:18 final size:18
Alignment explanation
Indices: 3015706--3015749 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3015696 CGCAACCGTG
* *
3015706 ATAGGGAACGTGATCGAG
1 ATAGGGAACGGGATCGAC
* *
3015724 ACAGGGATCGGGATCGAC
1 ATAGGGAACGGGATCGAC
3015742 ATAGGGAA
1 ATAGGGAA
3015750 GACAAAGACA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.39, T:0.14
Consensus pattern (18 bp):
ATAGGGAACGGGATCGAC
Found at i:3024976 original size:6 final size:6
Alignment explanation
Indices: 3024967--3024998 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
3024957 GGCTCTGGCA
3024967 AAAAAG AAAAAG -AAAAG -AAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
3024999 TGCAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3024989 original size:16 final size:16
Alignment explanation
Indices: 3024968--3024998 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3024958 GCTCTGGCAA
3024968 AAAAGAAAAAGAAAAG
1 AAAAGAAAAAGAAAAG
3024984 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
3024999 TGCAAAACAA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAG
Found at i:3029136 original size:33 final size:33
Alignment explanation
Indices: 3029099--3029283 Score: 280
Period size: 33 Copynumber: 5.6 Consensus size: 33
3029089 AGGGCCAGGA
3029099 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
* *
3029132 GCTCCTCCACCAGGAGGTGGTGGCAGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
3029165 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
*
3029198 GCTCCTCCACCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
* * *
3029231 GCTCCTCCTCCTGGAGGTGGTGGTGGCGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
* ** *
3029264 GGTCCAACTCCAAGAGGTGG
1 GCTCCTCCTCCAGGAGGTGG
3029284 CGTTGGAAGT
Statistics
Matches: 138, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 138 1.00
ACGTcount: A:0.11, C:0.24, G:0.44, T:0.21
Consensus pattern (33 bp):
GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
Found at i:3029296 original size:33 final size:33
Alignment explanation
Indices: 3029259--3029328 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
3029249 GGTGGTGGCG
* *
3029259 GTGGTGGTCCAACTCCAAGAGGTGGCGTTGGAA
1 GTGGTGGTCCAACTCCAAGAGGCGGCGGTGGAA
* * *
3029292 GTGGTGGTTCAATTCCAAGAGGCGGCGGTGGAG
1 GTGGTGGTCCAACTCCAAGAGGCGGCGGTGGAA
3029325 GTGG
1 GTGG
3029329 CGGTACCCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.44, T:0.21
Consensus pattern (33 bp):
GTGGTGGTCCAACTCCAAGAGGCGGCGGTGGAA
Found at i:3029800 original size:81 final size:81
Alignment explanation
Indices: 3029701--3029862 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
3029691 TCGATGGGGA
* * * * *
3029701 AGGAGGTTGGGTGTTAGATGTTGATGGGGGCGGTGGAGATGGA-GGAGGTGGGGCACTAGTCGTC
1 AGGAGGTGGGGTGCTAGATATTGATGGGGGCGGTGGAGATGGAGGGA-GTAGGGCACTAGTCATC
*
3029765 AAAGTGGTTGGTGAAGG
65 AAAGTAGTTGGTGAAGG
*
3029782 AGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGAGGGAGTAGGGCACTAGTCATCA
1 AGGAGGTGGGGTGCTAGATATTGATGGGGGCGGTGGAGATGGAGGGAGTAGGGCACTAGTCATCA
*
3029847 AAGTATTTGGTGAAGG
66 AAGTAGTTGGTGAAGG
3029863 TGAAGGAGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 69 0.96
82 3 0.04
ACGTcount: A:0.22, C:0.06, G:0.48, T:0.23
Consensus pattern (81 bp):
AGGAGGTGGGGTGCTAGATATTGATGGGGGCGGTGGAGATGGAGGGAGTAGGGCACTAGTCATCA
AAGTAGTTGGTGAAGG
Found at i:3029872 original size:198 final size:199
Alignment explanation
Indices: 3029613--3030399 Score: 835
Period size: 198 Copynumber: 3.9 Consensus size: 199
3029603 GACACCAATT
* * * * *
3029613 GGGGTGGTGGAGATGGAGG-TG-A-GGCACTAGTTGA-AAAAGTGGTTGATAAAGGTGAAGGAGG
1 GGGGTGGTGGAGATGGAGGAGGTAGGGCACTAG-TCATCAAAGTGGTTGGTGAAGGTGAAGGAGG
* * * *
3029674 AAGTGAAGCACTAGACATCGATG-GGGAAGGAGGTTGGGTGTTAGATGTTGATGGGGGCGGTGGA
65 AAGTGAAGCACTAGACATCGATGAGGGAAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGA
3029738 GATGGAGGAGGTGGGGCACTAGTCGTCAAAGTGGTTGGTGAAGGAGGAGGTGGGGTGCTAGATAT
130 GATGGAGGAGGTGGGGCACTAGTCGTCAAAGTGGTTGGTGAAGGAGGAGGTGGGGTGCTAGATAT
3029803 TGATG
195 TGATG
**
3029808 GGGGTGGTGGAGATGGAGG-GAGTAGGGCACTAGTCATCAAAGTATTTGGTGAAGGTGAAGGAGG
1 GGGGTGGTGGAGATGGAGGAG-GTAGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAAGGAGG
*
3029872 AATTGAAGCACTAGACATCGATGAGGG-AGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGA
65 AAGTGAAGCACTAGACATCGATGAGGGAAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGA
* * *
3029936 GATGGAGGAGGTGGGGTACTAGTCATCGAAGTGGTTGGTGAAGGAGGAGGTGGGGTGCTAGATAT
130 GATGGAGGAGGTGGGGCACTAGTCGTCAAAGTGGTTGGTGAAGGAGGAGGTGGGGTGCTAGATAT
*
3030001 TGACG
195 TGATG
* ** * *
3030006 AGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTTGTCAAAGTGGTTGGTGAAGGAGAACGAGGA
1 GGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAAGGAGGA
* * * * *
3030071 ATTGAAGCACTAGACATCGATGAGGGAA-GAGGTTGGATGCTAGATATTGATAGGGGTGATGGAG
66 AGTGAAGCACTAGACATCGATGAGGGAAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAG
*** * * *
3030135 ACAAAAGAGGTGGGGCACTAGTCGTTGCAGAG-GG-TGGTGAAGATGGAGGAGGAAGTGGG-GCA
131 ATGGAGGAGGTGGGGCACTAGTCG-T-CAAAGTGGTTGGTG-A-A-GGAGGAGG-TG-GGGTGC-
3030197 GTAGACATCAATGTGGGA-G
188 -TAG--AT--AT-T--GATG
* * * *
3030216 GTGGAGATGGTAGTGAAGGTGAAGGAGGTGGGGCACTAGTCATCAAAGTGGTTGGCGAAGGTGAA
1 G-GG-G-TGGT-G-G-AGATGGAGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAA
* * * * * * * *
3030281 AGAGGAAGTGGAGCACTAGATACCGACG-GGGGAGGAAGTGGGGTGTTAGATATTGATGGGGGTG
60 GGAGGAAGTGAAGCACTAGACATCGATGAGGGAAGGAGGTGGGGTGCTAGATATTGATGGGGGTG
* * * *
3030345 GTGGAGATGGAGGAGGTGGGGCACTAGTTGTCAAAGAGGGTGGTGAAGGTGGAGG
125 GTGGAGATGGAGGAGGTGGGGCACTAGTCGTCAAAGTGGTTGGTGAAGGAGGAGG
3030400 AGGAAACGAG
Statistics
Matches: 496, Mismatches: 64, Indels: 46
0.82 0.11 0.08
Matches are distributed among these distances:
195 19 0.04
196 1 0.00
197 3 0.01
198 288 0.58
199 9 0.02
200 4 0.01
201 8 0.02
202 3 0.01
203 3 0.01
204 3 0.01
206 2 0.00
208 2 0.00
209 1 0.00
210 1 0.00
211 4 0.01
212 1 0.00
213 11 0.02
214 6 0.01
215 9 0.02
216 118 0.24
ACGTcount: A:0.27, C:0.07, G:0.46, T:0.20
Consensus pattern (199 bp):
GGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGTGAAGGTGAAGGAGGA
AGTGAAGCACTAGACATCGATGAGGGAAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAG
ATGGAGGAGGTGGGGCACTAGTCGTCAAAGTGGTTGGTGAAGGAGGAGGTGGGGTGCTAGATATT
GATG
Found at i:3029943 original size:39 final size:39
Alignment explanation
Indices: 3029900--3030024 Score: 119
Period size: 39 Copynumber: 3.1 Consensus size: 39
3029890 CGATGAGGGA
* *
3029900 GGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGAT
1 GGAGGTGGGGTGCTAGATATTGAAGAGGGTGGTGGAGAT
* * * * *
3029939 GGAGGAGGTGGGGTACTAG-TCATCGAAGTGGTTGGTGAAGGA-
1 ---GGAGGTGGGGTGCTAGAT-ATTGAAGAGGGTGGTGGA-GAT
*
3029981 GGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGAT
1 GGAGGTGGGGTGCTAGATATTGAAGAGGGTGGTGGAGAT
3030020 GGAGG
1 GGAGG
3030025 AGGTAGGGCA
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
38 2 0.03
39 33 0.49
40 1 0.01
41 1 0.01
42 28 0.42
43 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.52, T:0.22
Consensus pattern (39 bp):
GGAGGTGGGGTGCTAGATATTGAAGAGGGTGGTGGAGAT
Found at i:3029943 original size:42 final size:42
Alignment explanation
Indices: 3029897--3030028 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 42
3029887 CATCGATGAG
* *
3029897 GGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGAT
1 GGAGGAGGTGGGGTGCTAGATATTGAAGAGGGTGGTGGAGAT
* * * *
3029939 GGAGGAGGTGGGGTACTAG-TCATCGAAGTGGTTGGT-GA-A-
1 GGAGGAGGTGGGGTGCTAGAT-ATTGAAGAGGGTGGTGGAGAT
*
3029978 GGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGAT
1 GGAGGAGGTGGGGTGCTAGATATTGAAGAGGGTGGTGGAGAT
3030020 GGAGGAGGT
1 GGAGGAGGT
3030029 AGGGCACTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
39 29 0.39
40 4 0.05
41 4 0.05
42 38 0.51
ACGTcount: A:0.21, C:0.05, G:0.52, T:0.22
Consensus pattern (42 bp):
GGAGGAGGTGGGGTGCTAGATATTGAAGAGGGTGGTGGAGAT
Found at i:3029989 original size:81 final size:81
Alignment explanation
Indices: 3029897--3030062 Score: 269
Period size: 81 Copynumber: 2.0 Consensus size: 81
3029887 CATCGATGAG
* * * *
3029897 GGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGAGGAGGTGGGGTACTAGTCAT
1 GGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCAT
*
3029962 CGAAGTGGTTGGTGAA
66 CAAAGTGGTTGGTGAA
**
3029978 GGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTTGT
1 GGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCAT
3030043 CAAAGTGGTTGGTGAA
66 CAAAGTGGTTGGTGAA
3030059 GGAG
1 GGAG
3030063 AACGAGGAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.22, C:0.05, G:0.50, T:0.22
Consensus pattern (81 bp):
GGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCAT
CAAAGTGGTTGGTGAA
Found at i:3030056 original size:42 final size:42
Alignment explanation
Indices: 3029897--3030056 Score: 146
Period size: 42 Copynumber: 3.9 Consensus size: 42
3029887 CATCGATGAG
* * * * * *
3029897 GGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGAT
1 GGAGGAGGTGGGGTACTAGTTATCGAAGTGGTTGGTGGAGAT
*
3029939 GGAGGAGGTGGGGTACTAGTCATCGAAGTGGTTGGT-GA-A-
1 GGAGGAGGTGGGGTACTAGTTATCGAAGTGGTTGGTGGAGAT
* * * * * *
3029978 GGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGAT
1 GGAGGAGGTGGGGTACTAGTTATCGAAGTGGTTGGTGGAGAT
* * * *
3030020 GGAGGAGGTAGGGCACTAGTTGTCAAAGTGGTTGGTG
1 GGAGGAGGTGGGGTACTAGTTATCGAAGTGGTTGGTG
3030057 AAGGAGAACG
Statistics
Matches: 91, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
39 29 0.32
40 3 0.03
41 3 0.03
42 56 0.62
ACGTcount: A:0.21, C:0.06, G:0.50, T:0.23
Consensus pattern (42 bp):
GGAGGAGGTGGGGTACTAGTTATCGAAGTGGTTGGTGGAGAT
Found at i:3030400 original size:216 final size:216
Alignment explanation
Indices: 3030022--3030471 Score: 553
Period size: 216 Copynumber: 2.1 Consensus size: 216
3030012 GTGGAGATGG
** * * *
3030022 AGGAGGTAGGGCACTAGTTGTCAAAGTGGTTGGTGAAGGAGAACGAGGAATTGAAGCACTAGACA
1 AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGCGAAGGAGAAAGAGGAAGTGAAGCACTAGACA
* * * *
3030087 TCGATGAGGGAAGAGGTTGGATGCTAGATATTGATAGGGGTGATGGAGACAAAAGAGGTGGGGCA
66 CCGACGAGGGAAGAAGTGGGATGCTAGATATTGATAGGGGTGATGGAGACAAAAGAGGTGGGGCA
*** ** *
3030152 CTAGTCGTTGCAGAGGGTGGTGAAGATGGAGGAGGAAGTGGGGCAGTAGACATCAAT-GTGGGAG
131 CTAGTCGTCAAAGAGGGTGGTGAAGATGGAGGAGGAAACGAGGCAGTAGACATCAATAG-GGGAG
*
3030216 GTGGAGATGGTAGT-GAAGGTGA
195 GTGGAGATAGTAGTGGAA-GTGA
* * * *
3030238 AGGAGGTGGGGCACTAGTCATCAAAGTGGTTGGCGAAGGTGAAAGAGGAAGTGGAGCACTAGATA
1 AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGCGAAGGAGAAAGAGGAAGTGAAGCACTAGACA
* * * * * * *** *
3030303 CCGACGGGGGAGGAAGTGGGGTGTTAGATATTGATGGGGGTGGTGGAGATGGAGGAGGTGGGGCA
66 CCGACGAGGGAAGAAGTGGGATGCTAGATATTGATAGGGGTGATGGAGACAAAAGAGGTGGGGCA
* *
3030368 CTAGTTGTCAAAGAGGGTGGTGAAGGTGGAGGAGGAAACGAGGCAGTAGACATCAATAGGGGAGG
131 CTAGTCGTCAAAGAGGGTGGTGAAGATGGAGGAGGAAACGAGGCAGTAGACATCAATAGGGGAGG
* *
3030433 TGGAGATAGTGGTGGAATTGA
196 TGGAGATAGTAGTGGAAGTGA
*
3030454 AGGAGGTAAGGCACTAGT
1 AGGAGGTAGGGCACTAGT
3030472 AACTGAAGAA
Statistics
Matches: 196, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
216 192 0.98
217 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.44, T:0.19
Consensus pattern (216 bp):
AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGCGAAGGAGAAAGAGGAAGTGAAGCACTAGACA
CCGACGAGGGAAGAAGTGGGATGCTAGATATTGATAGGGGTGATGGAGACAAAAGAGGTGGGGCA
CTAGTCGTCAAAGAGGGTGGTGAAGATGGAGGAGGAAACGAGGCAGTAGACATCAATAGGGGAGG
TGGAGATAGTAGTGGAAGTGA
Found at i:3030585 original size:84 final size:85
Alignment explanation
Indices: 3030477--3030756 Score: 347
Period size: 84 Copynumber: 3.3 Consensus size: 85
3030467 CTAGTAACTG
* * * * * * *
3030477 AAGAAGGTGGTGAAGGTGGAGGAAGTGAAGCACTAGACATTGATGGGAGTTGTGGAGCTGGAGGA
1 AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGGTGGAGATGGAGGA
* *
3030542 GATG-GGACAATATTAG-TCA
66 GACGAGG-CAATAGTAGTTCA
*
3030561 AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGGGTGGTGGAGATGGAGGA
1 AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGGTGGAGATGGAGGA
*
3030626 GACGAGGCAATAGTAGTTGA
66 GACGAGGCAATAGTAGTTCA
**
3030646 AA-AGGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGT-GGAGGTGGTGGAGATGGAGG
1 AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGA-GTGGTGGAGATGGAGG
*
3030709 AGACGAGGCAATAGTAGTTGA
65 AGACGAGGCAATAGTAGTTCA
**
3030730 AA-AATGTGGTG-AGGTTGGAGGAAGTGG
1 AAGAGGGTGGTGAAGG-TGGAGGAAGTGG
3030757 GACAGTAGTC
Statistics
Matches: 174, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
83 3 0.02
84 165 0.95
85 6 0.03
ACGTcount: A:0.31, C:0.06, G:0.44, T:0.20
Consensus pattern (85 bp):
AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGGTGGAGATGGAGGA
GACGAGGCAATAGTAGTTCA
Found at i:3030611 original size:42 final size:42
Alignment explanation
Indices: 3030565--3030709 Score: 125
Period size: 42 Copynumber: 3.5 Consensus size: 42
3030555 TAGTCAAAGA
*
3030565 GGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGG
1 GGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGG
* * * * * ****
3030607 GGGTGGTGGAGATGGAGGAGACGAGGCAATAGT--A-GTTGAAAA
1 GGGTGGTGAAGATGGAGGA-A-GTGG-AGTACTACACATTGGTGG
*
3030649 GGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGG
1 GGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGG
* *
3030691 AGGTGGTGGAGATGGAGGA
1 GGGTGGTGAAGATGGAGGA
3030710 GACGAGGCAA
Statistics
Matches: 74, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
39 4 0.05
40 3 0.04
41 2 0.03
42 56 0.76
43 2 0.03
44 3 0.04
45 4 0.05
ACGTcount: A:0.28, C:0.06, G:0.47, T:0.19
Consensus pattern (42 bp):
GGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGG
Found at i:3030739 original size:42 final size:42
Alignment explanation
Indices: 3030608--3030740 Score: 110
Period size: 42 Copynumber: 3.2 Consensus size: 42
3030598 CATTGGTGGG
*
3030608 GGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAG
1 GGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAA
* * * * * * ****
3030650 GGTGGTGAAAATGGAGGA-A-GTGG-AGTACTACACATTGGTGGA
1 GGTGGTGGAGATGGAGGAGACGAGGCAATAGT--A-GTTGAAAAA
3030692 GGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAA
1 GGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAA
*
3030734 TGTGGTG
1 GGTGGTG
3030741 AGGTTGGAGG
Statistics
Matches: 63, Mismatches: 22, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
39 4 0.06
40 3 0.05
41 2 0.03
42 45 0.71
43 2 0.03
44 3 0.05
45 4 0.06
ACGTcount: A:0.32, C:0.05, G:0.44, T:0.20
Consensus pattern (42 bp):
GGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAA
Found at i:3030780 original size:84 final size:83
Alignment explanation
Indices: 3030607--3030872 Score: 239
Period size: 84 Copynumber: 3.1 Consensus size: 83
3030597 ACATTGGTGG
***
3030607 GGGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAGGGTGGTGAAAATGGAGGAAGTG
1 GGGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAGGGTGGTGAGGTTGGAGGAAGTG
** * **
3030672 GAGTAC-TACACATTGGTG-
66 G-G-ACATAGTCGTTGAAGA
**
3030690 GAGGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAATGTGGTGAGGTTGGAGGAAGT
1 G-GGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAGGGTGGTGAGGTTGGAGGAAGT
3030755 GGGACAGTAGTCGTTGAAGA
65 GGGACA-TAGTCGTTGAAGA
* * * * * * * *
3030775 GGGTGGTGAAGGTGGAGGAGGATGTGGGGCAATAGTTGCTGAAGAGGGTGGTGAAGGTGGAGGAG
1 GGGTGGTGGAGATGGAGGA-GA--CGAGGCAATAGTAGTTGAAAAGGGTGGTG-AGGT--TGGAG
*
3030840 GAAGTGGGACACTAGTTGTTGAAGA
60 GAAGTGGGACA-TAGTCGTTGAAGA
*
3030865 GGATGGTG
1 GGGTGGTG
3030873 AAGGCGGAGA
Statistics
Matches: 150, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
82 2 0.01
83 2 0.01
84 83 0.55
85 3 0.02
87 22 0.15
88 4 0.03
90 34 0.23
ACGTcount: A:0.29, C:0.05, G:0.47, T:0.20
Consensus pattern (83 bp):
GGGTGGTGGAGATGGAGGAGACGAGGCAATAGTAGTTGAAAAGGGTGGTGAGGTTGGAGGAAGTG
GGACATAGTCGTTGAAGA
Found at i:3030818 original size:45 final size:45
Alignment explanation
Indices: 3030746--3030887 Score: 203
Period size: 45 Copynumber: 3.2 Consensus size: 45
3030736 TGGTGAGGTT
* *
3030746 GGAGGAAGTGGGACAGTAGTCGTTGAAGAGGGTGGTGAAGGTGGA
1 GGAGGAAGTGGGACAATAGTTGTTGAAGAGGGTGGTGAAGGTGGA
* * *
3030791 GGAGGATGTGGGGCAATAGTTGCTGAAGAGGGTGGTGAAGGTGGA
1 GGAGGAAGTGGGACAATAGTTGTTGAAGAGGGTGGTGAAGGTGGA
* * *
3030836 GGAGGAAGTGGGACACTAGTTGTTGAAGAGGATGGTGAAGGCGGA
1 GGAGGAAGTGGGACAATAGTTGTTGAAGAGGGTGGTGAAGGTGGA
*
3030881 GAAGGAA
1 GGAGGAA
3030888 TTAGGGAACT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.28, C:0.05, G:0.49, T:0.18
Consensus pattern (45 bp):
GGAGGAAGTGGGACAATAGTTGTTGAAGAGGGTGGTGAAGGTGGA
Found at i:3032459 original size:54 final size:54
Alignment explanation
Indices: 3032377--3032488 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
3032367 TTGGAGAGCC
* *
3032377 TGAAGGCTTTGTAAGGTCAACCTTCTGACCTTTTTGCTCGGATGAAAAATCCTT
1 TGAAGGCTTTGTAACGTCAACCTTCTGACATTTTTGCTCGGATGAAAAATCCTT
* * * *
3032431 TGAAGTCTTTGTATCGTCAACCTTCTGACATTTTTGCTTGGATGAAACATCCTT
1 TGAAGGCTTTGTAACGTCAACCTTCTGACATTTTTGCTCGGATGAAAAATCCTT
3032485 TGAA
1 TGAA
3032489 ATCACGGCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (54 bp):
TGAAGGCTTTGTAACGTCAACCTTCTGACATTTTTGCTCGGATGAAAAATCCTT
Found at i:3033260 original size:93 final size:93
Alignment explanation
Indices: 3033127--3033407 Score: 463
Period size: 93 Copynumber: 3.0 Consensus size: 93
3033117 CTTGAATTCT
*
3033127 ATGGGGATCTACATCTTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
1 ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
* *
3033192 TGTCATAATCCACCTTTCCATCCAGTGC
66 TGTCGTAATCCACCTTTCCATCCAGCGC
** *
3033220 ATGGGGATCTACATCCTCCCTTGAGATATCTTTCTGCTCTGGCTTGTTTTCATGGACTATCTGAC
1 ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
* **
3033285 TGTTGTAATCCACCTTTCCATCCAGCAA
66 TGTCGTAATCCACCTTTCCATCCAGCGC
* *
3033313 ATGGGAATCTACATCCTCTCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
1 ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
3033378 TGTCGTAATCCACCTTTCCATCCAGCGC
66 TGTCGTAATCCACCTTTCCATCCAGCGC
3033406 AT
1 AT
3033408 CGACTTTTCC
Statistics
Matches: 171, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 171 1.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (93 bp):
ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
TGTCGTAATCCACCTTTCCATCCAGCGC
Found at i:3033416 original size:21 final size:21
Alignment explanation
Indices: 3033389--3033453 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
3033379 GTCGTAATCC
*
3033389 ACCTTTCCATCCAGCGCATCG
1 ACCTTTCCATCCAGCGCATCA
* *
3033410 ACTTTTCCATCCAGCACATCA
1 ACCTTTCCATCCAGCGCATCA
* *
3033431 ACCTTTCCCTCCACCGCATCA
1 ACCTTTCCATCCAGCGCATCA
3033452 AC
1 AC
3033454 TGCATTGCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.45, G:0.08, T:0.25
Consensus pattern (21 bp):
ACCTTTCCATCCAGCGCATCA
Found at i:3038620 original size:42 final size:42
Alignment explanation
Indices: 3038544--3038626 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
3038534 GCAACCTCCG
* * *
3038544 GTGATATTGGGATTCCAGAACTATTGTGGAATGTTATAATGA
1 GTGATATTGGGATTCCAAAACTACTCTGGAATGTTATAATGA
3038586 GTGATATTGGGATTCCAAAAC-AGCTCT-GAGATGTTATAATG
1 GTGATATTGGGATTCCAAAACTA-CTCTGGA-ATGTTATAATG
3038627 CATTGTGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (42 bp):
GTGATATTGGGATTCCAAAACTACTCTGGAATGTTATAATGA
Done.