Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 56 of 62
Found at i:13102130 original size:19 final size:19
Alignment explanation
Indices: 13102108--13102146 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13102098 TAAACATTAT
13102108 AATTAAAGTTAAAATTAAA
1 AATTAAAGTTAAAATTAAA
** *
13102127 AATTAATTTTATAATTAAA
1 AATTAAAGTTAAAATTAAA
13102146 A
1 A
13102147 CAATTGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTAAAGTTAAAATTAAA
Found at i:13111612 original size:23 final size:23
Alignment explanation
Indices: 13111565--13111613 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13111555 ATGTGCAAAA
* * *
13111565 AAAAACTGATGAAAATGCACTAT
1 AAAAACAGATGAAAACGCACAAT
*
13111588 AAAAACAGATGAAAACGTACAAT
1 AAAAACAGATGAAAACGCACAAT
13111611 AAA
1 AAA
13111614 GATAACATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (23 bp):
AAAAACAGATGAAAACGCACAAT
Found at i:13114925 original size:74 final size:74
Alignment explanation
Indices: 13114804--13114947 Score: 279
Period size: 74 Copynumber: 1.9 Consensus size: 74
13114794 GAGGTCAGGG
*
13114804 GTTCGAGCACTAGCAACTACAATGATGAATGAACATTCATTATTAAATGGTTAAGAGTACTTAGA
1 GTTCGAGCACTAGCAACTACAATGATGAATGAACATTCATTATTAAATGGTTAAAAGTACTTAGA
13114869 ACATACACT
66 ACATACACT
13114878 GTTCGAGCACTAGCAACTACAATGATGAATGAACATTCATTATTAAATGGTTAAAAGTACTTAGA
1 GTTCGAGCACTAGCAACTACAATGATGAATGAACATTCATTATTAAATGGTTAAAAGTACTTAGA
13114943 ACATA
66 ACATA
13114948 TATTGTTTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (74 bp):
GTTCGAGCACTAGCAACTACAATGATGAATGAACATTCATTATTAAATGGTTAAAAGTACTTAGA
ACATACACT
Found at i:13115727 original size:2 final size:2
Alignment explanation
Indices: 13115720--13115768 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
13115710 CGATGATGAT
13115720 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13115762 TA TA TA T
1 TA TA TA T
13115769 TAATATTATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13117411 original size:15 final size:17
Alignment explanation
Indices: 13117377--13117410 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
13117367 TAATGACATG
13117377 TAATATATAATAAAATA
1 TAATATATAATAAAATA
13117394 TAATATA-AATAATAATA
1 TAATATATAATAA-AATA
13117411 ACAAATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATATATAATAAAATA
Found at i:13117665 original size:20 final size:21
Alignment explanation
Indices: 13117625--13117671 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
13117615 TATATTTATA
13117625 TAAAAAAGTATAATAAGATAC
1 TAAAAAAGTATAATAAGATAC
13117646 TAAAAAAGTATAATAA-ATAC
1 TAAAAAAGTATAATAAGATAC
13117666 -AAAAAA
1 TAAAAAA
13117672 CGGAAAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.23
20 4 0.15
21 16 0.62
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (21 bp):
TAAAAAAGTATAATAAGATAC
Found at i:13119472 original size:105 final size:105
Alignment explanation
Indices: 13119278--13119718 Score: 740
Period size: 105 Copynumber: 4.2 Consensus size: 105
13119268 GTATTGTTCC
* * * * * * *
13119278 GAGTCCAATATCCTCCGCTGTGACGTTGAAACTGGTTCTGGAACTGG-GAAATTGCTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATGGAGAAA-TGTTTGTTGACA
*
13119342 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
13119384 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
13119449 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
13119489 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
*
13119554 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
13119594 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
13119659 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
13119699 GAGTCCAATATCCTTCGTTG
1 GAGTCCAATATCCTTCGTTG
13119719 GCACAGGGAT
Statistics
Matches: 319, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
105 281 0.88
106 38 0.12
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:13122105 original size:3 final size:3
Alignment explanation
Indices: 13122097--13122122 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13122087 TATATTTCAA
13122097 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13122123 ATCCAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13122649 original size:17 final size:17
Alignment explanation
Indices: 13122629--13122662 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
13122619 AATGACATGT
13122629 AATATATAATAA-AATAA
1 AATATA-AATAATAATAA
13122646 AATATAAATAATAATAA
1 AATATAAATAATAATAA
13122663 CAAAGGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATAAATAATAATAA
Found at i:13122915 original size:20 final size:21
Alignment explanation
Indices: 13122875--13122921 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
13122865 TATATTTATA
13122875 TAAAAAAGTATAATAAGATAC
1 TAAAAAAGTATAATAAGATAC
13122896 TAAAAAAGTATAATAA-ATAC
1 TAAAAAAGTATAATAAGATAC
13122916 -AAAAAA
1 TAAAAAA
13122922 CGGAAAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.23
20 4 0.15
21 16 0.62
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (21 bp):
TAAAAAAGTATAATAAGATAC
Found at i:13126612 original size:57 final size:58
Alignment explanation
Indices: 13126524--13126640 Score: 173
Period size: 57 Copynumber: 2.0 Consensus size: 58
13126514 GTCTCCGGCA
* *
13126524 ATAGAGTATTACTTTGTTAAGTCCCGACTATTGAAAGTTATAAAA-CATCCCCTAACT
1 ATAGAGTATTACTTTATTAAGTCCCAACTATTGAAAGTTATAAAATCATCCCCTAACT
* * * *
13126581 ATAGAGTGTTGCTTTATTGAGTCCCAACTATTGAAAGTTATAAAATCGTCCCCTAACT
1 ATAGAGTATTACTTTATTAAGTCCCAACTATTGAAAGTTATAAAATCATCCCCTAACT
13126639 AT
1 AT
13126641 TGAAAGCTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 40 0.75
58 13 0.25
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (58 bp):
ATAGAGTATTACTTTATTAAGTCCCAACTATTGAAAGTTATAAAATCATCCCCTAACT
Found at i:13127409 original size:39 final size:39
Alignment explanation
Indices: 13127355--13127446 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
13127345 TAAAAGGACC
*
13127355 AGGAACCTGAAGTGGGACCGGAGGAGAATGTTGAACCGA
1 AGGAACCTGAAGTGGGACCGGAGGAGAATGCTGAACCGA
* *
13127394 AGGAATCTAAAGTGGGACCGGAGGAGAATGCTGAACCGA
1 AGGAACCTGAAGTGGGACCGGAGGAGAATGCTGAACCGA
13127433 AGGAACCTGAAGTG
1 AGGAACCTGAAGTG
13127447 CAACCGAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.35, C:0.15, G:0.37, T:0.13
Consensus pattern (39 bp):
AGGAACCTGAAGTGGGACCGGAGGAGAATGCTGAACCGA
Found at i:13130457 original size:23 final size:22
Alignment explanation
Indices: 13130393--13130458 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
13130383 TAAACTGTAA
* *
13130393 AATTAAAATAACAATAA-AATT
1 AATTTAAATAATAATAATAATT
*
13130414 GATTTAAATCAAATAAT-ATAATT
1 AATTTAAAT--AATAATAATAATT
13130437 AATTTAAATAATAATTAATAAT
1 AATTTAAATAATAA-TAATAAT
13130459 AACATATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 12 0.33
22 2 0.06
23 22 0.61
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTTAAATAATAATAATAATT
Found at i:13131586 original size:249 final size:252
Alignment explanation
Indices: 13131270--13131767 Score: 966
Period size: 249 Copynumber: 2.0 Consensus size: 252
13131260 CGAACATTTC
13131270 TTTTTCTCTCATTCCCAAATTTTAGGTGACGAATCAATTTTTTAGTTTCACTTTCGGGATACACT
1 TTTTTCTCTCATTCCCAAATTTTAGGTGACGAATCAATTTTTTAGTTTCACTTTCGGGATACACT
13131335 TTTATTTTAAAATCATTAAAAGCGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTA
66 TTTATTTTAAAATCATTAAAAGCGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTA
13131400 AATTAAAA-GGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCA
131 AATTAAAAGGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCA
13131464 TGCATATTATGC-AATAATGTCATGCAAAAATTAATT-AAAAAACATTAAAAAACAT
196 TGCATATTATGCAAATAATGTCATGCAAAAATTAATTAAAAAAACATTAAAAAACAT
13131519 TTTTTCTCTCATTCCCAAATTTTAGGTGACGAATCAATTTTTTAGTTTCACTTTCGGGATACACT
1 TTTTTCTCTCATTCCCAAATTTTAGGTGACGAATCAATTTTTTAGTTTCACTTTCGGGATACACT
13131584 TTTATTTTAAAATCATTAAAAGCGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTA
66 TTTATTTTAAAATCATTAAAAGCGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTA
13131649 AATTAAAAGGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCA
131 AATTAAAAGGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCA
13131714 TGCATATTATGCAAAATAATGTCATGCAAAAATTAATTAAAAAAACATTAAAAA
196 TGCATATTATGC-AAATAATGTCATGCAAAAATTAATTAAAAAAACATTAAAAA
13131768 TATCATACAA
Statistics
Matches: 245, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
249 138 0.56
250 68 0.28
252 24 0.10
253 15 0.06
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (252 bp):
TTTTTCTCTCATTCCCAAATTTTAGGTGACGAATCAATTTTTTAGTTTCACTTTCGGGATACACT
TTTATTTTAAAATCATTAAAAGCGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTA
AATTAAAAGGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCA
TGCATATTATGCAAATAATGTCATGCAAAAATTAATTAAAAAAACATTAAAAAACAT
Found at i:13131866 original size:249 final size:243
Alignment explanation
Indices: 13131341--13131839 Score: 623
Period size: 249 Copynumber: 2.0 Consensus size: 243
13131331 CACTTTTATT
*
13131341 TTAAAATCATTAAAAGCGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTAAATTAA
1 TTAAAATCATTAAAAGAGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTAAATTAA
13131406 AAGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCATGCATAT
66 AAGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCATGCATAT
**** ** * **
13131471 TATGCAATAATGTCATGCAAAAATTAATTAAAAAACATTAAAAAACATTTTTTCTCTCATTCCCA
131 TATGCAATAATGTCATGCAAAAATTAATTAAAAAACATTAAAAAACATTACAACTAGCATACAAA
* * * * ** * ** *
13131536 AATTTTAGGTGACGAATCAATTTTTTAGTTTCACTTTCGGGATACACTTTTATT
196 AATTATA-GTGACG-AT-AATATTTTAATTACAAATT---GATAAACTTGCATA
*
13131590 TTAAAATCATTAAAAGCGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTAAATTAA
1 TTAAAATCATTAAAAGAGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTAAATTAA
13131655 AAGGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCATGCATA
66 AA-GGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCATGCATA
13131720 TTATGCAAAATAATGTCATGCAAAAATTAATTAAAAAAACATTAAAAATATCA-TACAACGTAGC
130 TTATGC--AATAATGTCATGCAAAAATTAATT-AAAAAACATTAAAAA-A-CATTACAAC-TAGC
*
13131784 ATACAAAAAATTATA-T-ACG-T-ATATTTTAATTACAAATT-ATAAACTATGCCTA
189 ATAC-AAAAATTATAGTGACGATAATATTTTAATTACAAATTGATAAACT-TGCATA
13131836 TTAA
1 TTAA
13131840 CATACAATGT
Statistics
Matches: 221, Mismatches: 20, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
245 6 0.03
246 6 0.03
249 80 0.36
250 68 0.31
251 1 0.00
252 24 0.11
253 18 0.08
254 4 0.02
255 7 0.03
256 7 0.03
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (243 bp):
TTAAAATCATTAAAAGAGGACCTCAAATCAGTTATGACTGTCCACTTAAAAAAATTTTAAATTAA
AAGGTATTACCCTTAATCTAATTATGTAATATGTCGAGTTATGCAAATGAGGTTATCATGCATAT
TATGCAATAATGTCATGCAAAAATTAATTAAAAAACATTAAAAAACATTACAACTAGCATACAAA
AATTATAGTGACGATAATATTTTAATTACAAATTGATAAACTTGCATA
Found at i:13133913 original size:165 final size:164
Alignment explanation
Indices: 13133705--13134120 Score: 452
Period size: 165 Copynumber: 2.5 Consensus size: 164
13133695 TCCCTTCAGG
* * * *
13133705 GAGTATA-AGACTCGACCAATCTTCAGTAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAG
1 GAGTATAGA-ACTCGAACAATCTTCAATAAACGTGTCCGCTCCCTATTC-TTCAGAGAGTATAAG
* * * * * * *
13133769 ACTCGATCAATCTTTAATAAACGGGTCCGATCTCTATTCGT-TCAGGGAGTATAGAACTAAAACA
64 ACTCGAACAATCTTCAACAAACGAGTCCGATCCCTATTC-TACCAGAGAGTATAGAACTAAAACA
13133833 ATCTTCATAAAACGGGTCCGCTCTCTATT-ATACCAGA
128 ATCTTCATAAAACGGGTCCGCTCTCTATTCAT-CCAGA
* * * *
13133870 GAGTATAGAACTCGAACAATCTTTAACAAACGAGTCCGCTCCCTATTCTACCAGAGAGTAT-AGA
1 GAGTATAGAACTCGAACAATCTTCAATAAACGTGTCCGCTCCCTATTCT-TCAGAGAGTATAAG-
* * * **
13133934 ACTCGAACAATCTTCACCAAACGAGTCTGCTCCCTATTCTACCAGAGAGTATAGAACTCGAACAA
64 ACTCGAACAATCTTCAACAAACGAGTCCGATCCCTATTCTACCAGAGAGTATAGAACTAAAACAA
* * *
13133999 TCTTCATGAAACGGGTCCGCTCTCTATTCCTTCAGA
129 TCTTCATAAAACGGGTCCGCTCTCTATTCATCCAGA
* * * * * *
13134035 GAGTATAGAACTCAAAAAATCTTCAATGAACTTGTCCGCTCCCTATTCTTTCAGAGAATATAGGA
1 GAGTATAGAACTCGAACAATCTTCAATAAACGTGTCCGCTCCCTATTC-TTCAGAGAGTATAAGA
13134100 CT----CAATCTTCAACAAACGAGT
65 CTCGAACAATCTTCAACAAACGAGT
13134121 TTGCTTCACT
Statistics
Matches: 210, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
161 18 0.09
164 4 0.02
165 184 0.88
166 4 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (164 bp):
GAGTATAGAACTCGAACAATCTTCAATAAACGTGTCCGCTCCCTATTCTTCAGAGAGTATAAGAC
TCGAACAATCTTCAACAAACGAGTCCGATCCCTATTCTACCAGAGAGTATAGAACTAAAACAATC
TTCATAAAACGGGTCCGCTCTCTATTCATCCAGA
Found at i:13134042 original size:55 final size:55
Alignment explanation
Indices: 13133679--13134102 Score: 378
Period size: 55 Copynumber: 7.7 Consensus size: 55
13133669 TCTTCGAATG
* * * *
13133679 ACGGGTCTGCTCCCTATCCCTTCAGGGAGTATA-AGACTCGACCAATCTTCA-GTAA
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATG-AA
* * * * * *
13133734 ACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGATCAATCTTTAAT-AA
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATC-TTCATGAA
* * * * ** *
13133789 ACGGGTCCGATCTCTATTCGTTCAGGGAGTATAGAACTAAAACAATCTTCATAAA
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAA
* * * * **
13133844 ACGGGTCCGCTCTCTATT-ATACCAGAGAGTATAGAACTCGAACAATCTTTAACAA
1 ACGGGTCCGCTCCCTATTCCT-TCAGAGAGTATAGAACTCGAACAATCTTCATGAA
* * **
13133899 ACGAGTCCGCTCCCTATT-CTACCAGAGAGTATAGAACTCGAACAATCTTCACCAA
1 ACGGGTCCGCTCCCTATTCCT-TCAGAGAGTATAGAACTCGAACAATCTTCATGAA
* * *
13133954 ACGAGTCTGCTCCCTATT-CTACCAGAGAGTATAGAACTCGAACAATCTTCATGAA
1 ACGGGTCCGCTCCCTATTCCT-TCAGAGAGTATAGAACTCGAACAATCTTCATGAA
* * *
13134009 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCAAAAAATCTTCAATG-A
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTC-ATGAA
** * * *
13134064 ACTTGTCCGCTCCCTATTCTTTCAGAGAATATAGGACTC
1 ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC
13134103 AATCTTCAAC
Statistics
Matches: 319, Mismatches: 43, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
54 5 0.02
55 305 0.96
56 9 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (55 bp):
ACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAA
Found at i:13135504 original size:17 final size:17
Alignment explanation
Indices: 13135484--13135564 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 17
13135474 TTTCTCTTTT
13135484 TTTTTTTCATTTTTCTC
1 TTTTTTTCATTTTTCTC
13135501 -TTTTTTCATTTTTCAT-
1 TTTTTTTCATTTTTC-TC
**
13135517 TTTTTCTTCCCTTTTC-C
1 TTTTT-TTCATTTTTCTC
* * *
13135534 ATTTTCTCATTTTTTTC
1 TTTTTTTCATTTTTCTC
* *
13135551 TTCTTCTCATTTTT
1 TTTTTTTCATTTTT
13135565 ATTATTATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
16 20 0.40
17 22 0.44
18 8 0.16
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTTCATTTTTCTC
Found at i:13145238 original size:45 final size:46
Alignment explanation
Indices: 13145182--13145279 Score: 153
Period size: 45 Copynumber: 2.1 Consensus size: 46
13145172 CGTTATTCAC
*
13145182 AAAAAAAAACCTAACCGCATGATATCTAATTCGCATGC-TTGTTCG
1 AAAAAAAAACCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* *
13145227 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCATTTATTCG
1 AAAAAAAAACCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
13145274 AAAAAA
1 AAAAAA
13145280 CGAAAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
45 36 0.77
47 11 0.23
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (46 bp):
AAAAAAAAACCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:13149900 original size:16 final size:16
Alignment explanation
Indices: 13149881--13149920 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13149871 ACTAATAAAC
13149881 TAATAATTAA-TAATT
1 TAATAATTAATTAATT
*
13149896 ATAATAATAAATTAATT
1 -TAATAATTAATTAATT
13149913 TAATAATT
1 TAATAATT
13149921 TTCTTTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATAATTAATTAATT
Found at i:13150082 original size:35 final size:35
Alignment explanation
Indices: 13150042--13150157 Score: 88
Period size: 43 Copynumber: 3.0 Consensus size: 35
13150032 CTTAACTATT
13150042 TAACTAACTACAAACTAATTAAATATTTTTATATA
1 TAACTAACTACAAACTAATTAAATATTTTTATATA
*
13150077 TAACTAACGACTAACTAACACACTAATTAATTATTTTTTTAATATA
1 TAACT-A--ACT-AC--A-A-ACTAATTAA--ATATTTTT-ATATA
* * *
13150123 TAACTATCAAACAAACTAATTAAATAATTTTATAT
1 TAACTAAC-TACAAACTAATTAAATATTTTTATAT
13150158 TTATGTATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 23
0.70 0.05 0.25
Matches are distributed among these distances:
35 5 0.08
36 5 0.08
37 6 0.09
38 3 0.05
39 11 0.17
40 1 0.02
41 2 0.03
42 1 0.02
43 12 0.19
45 8 0.12
46 10 0.16
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (35 bp):
TAACTAACTACAAACTAATTAAATATTTTTATATA
Found at i:13150220 original size:21 final size:21
Alignment explanation
Indices: 13150167--13150206 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
13150157 TTTATGTATG
13150167 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
13150188 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
13150207 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:13150287 original size:17 final size:18
Alignment explanation
Indices: 13150258--13150291 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13150248 AACAAACTAA
13150258 TAATTTAAAATAATAAAC
1 TAATTTAAAATAATAAAC
13150276 TAATTT-AAATAATAAA
1 TAATTTAAAATAATAAA
13150292 AACTTACTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATTTAAAATAATAAAC
Found at i:13150521 original size:23 final size:23
Alignment explanation
Indices: 13150462--13150523 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
13150452 CGTGCTGCTG
*
13150462 AAGGACTGCAATAATGCAACAAT
1 AAGGGCTGCAATAATGCAACAAT
*
13150485 AAGGGCTG-ATATAATGCATCAAT
1 AAGGGCTGCA-ATAATGCAACAAT
* *
13150508 AAGTGTTGCAATAATG
1 AAGGGCTGCAATAATG
13150524 TAGCTGAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (23 bp):
AAGGGCTGCAATAATGCAACAAT
Found at i:13150570 original size:105 final size:105
Alignment explanation
Indices: 13150436--13150646 Score: 422
Period size: 105 Copynumber: 2.0 Consensus size: 105
13150426 TTATATCACC
13150436 CTCAAATTATCATTCACGTGCTGCTGAAGGACTGCAATAATGCAACAATAAGGGCTGATATAATG
1 CTCAAATTATCATTCACGTGCTGCTGAAGGACTGCAATAATGCAACAATAAGGGCTGATATAATG
13150501 CATCAATAAGTGTTGCAATAATGTAGCTGAGTTCACGTTG
66 CATCAATAAGTGTTGCAATAATGTAGCTGAGTTCACGTTG
13150541 CTCAAATTATCATTCACGTGCTGCTGAAGGACTGCAATAATGCAACAATAAGGGCTGATATAATG
1 CTCAAATTATCATTCACGTGCTGCTGAAGGACTGCAATAATGCAACAATAAGGGCTGATATAATG
13150606 CATCAATAAGTGTTGCAATAATGTAGCTGAGTTCACGTTG
66 CATCAATAAGTGTTGCAATAATGTAGCTGAGTTCACGTTG
13150646 C
1 C
13150647 ATGAGAGCAG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (105 bp):
CTCAAATTATCATTCACGTGCTGCTGAAGGACTGCAATAATGCAACAATAAGGGCTGATATAATG
CATCAATAAGTGTTGCAATAATGTAGCTGAGTTCACGTTG
Found at i:13150626 original size:23 final size:23
Alignment explanation
Indices: 13150567--13150628 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
13150557 CGTGCTGCTG
*
13150567 AAGGACTGCAATAATGCAACAAT
1 AAGGGCTGCAATAATGCAACAAT
*
13150590 AAGGGCTG-ATATAATGCATCAAT
1 AAGGGCTGCA-ATAATGCAACAAT
* *
13150613 AAGTGTTGCAATAATG
1 AAGGGCTGCAATAATG
13150629 TAGCTGAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (23 bp):
AAGGGCTGCAATAATGCAACAAT
Found at i:13150803 original size:29 final size:29
Alignment explanation
Indices: 13150758--13150814 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
13150748 TCGAATGCCC
* * *
13150758 TGGCGACCTACCGATTGGATGTGCATGGA
1 TGGCGACCTACCCATTGAACGTGCATGGA
13150787 TGGCGACCTACCCATTGAACGTGCATGG
1 TGGCGACCTACCCATTGAACGTGCATGG
13150815 CTCATGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (29 bp):
TGGCGACCTACCCATTGAACGTGCATGGA
Found at i:13150888 original size:29 final size:29
Alignment explanation
Indices: 13150842--13150917 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
13150832 ACAAGTCGCT
*
13150842 CGGATGCCATGGCAACCTCCTAACTCACC
1 CGGATGCCATGGCGACCTCCTAACTCACC
*
13150871 TGGATGCCATGGCGACCTCCTAACTCACC
1 CGGATGCCATGGCGACCTCCTAACTCACC
*
13150900 CGGATGCCATGGTGACCT
1 CGGATGCCATGGCGACCT
13150918 ACGGTTGCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.21, C:0.37, G:0.22, T:0.20
Consensus pattern (29 bp):
CGGATGCCATGGCGACCTCCTAACTCACC
Found at i:13151985 original size:32 final size:34
Alignment explanation
Indices: 13151913--13151990 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 34
13151903 GCCCCACTCG
*
13151913 TGCTCGTTAAAAAAATTTGTTGCTCGATTTGACTCGT
1 TGCTCGTTAAAAAAATTTGTT-CTC-A-TTGACTCAT
13151950 TGCTCGTTAAAAAAATTTGTT-TC-TTGACTCAT
1 TGCTCGTTAAAAAAATTTGTTCTCATTGACTCAT
*
13151982 TGCTTGTTA
1 TGCTCGTTA
13151991 CGCTCTTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 16 0.41
35 2 0.05
37 21 0.54
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (34 bp):
TGCTCGTTAAAAAAATTTGTTCTCATTGACTCAT
Found at i:13153003 original size:16 final size:17
Alignment explanation
Indices: 13152971--13153005 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13152961 TATGTTACAT
13152971 GTATCATAGATATTAAA
1 GTATCATAGATATTAAA
*
13152988 GTATCATGGA-ATTAAA
1 GTATCATAGATATTAAA
13153004 GT
1 GT
13153006 GTATATACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
GTATCATAGATATTAAA
Found at i:13153860 original size:19 final size:19
Alignment explanation
Indices: 13153832--13153869 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13153822 GAAAACCGGT
13153832 TTTGAACGGTCTGAACCGA
1 TTTGAACGGTCTGAACCGA
* *
13153851 TTTGACCGGTCTGACCCGA
1 TTTGAACGGTCTGAACCGA
13153870 CCGACCTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (19 bp):
TTTGAACGGTCTGAACCGA
Found at i:13153880 original size:5 final size:5
Alignment explanation
Indices: 13153863--13153895 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
13153853 TGACCGGTCT
*
13153863 GACCC GA-CC GACCT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC
13153896 ATTGACTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.21, C:0.55, G:0.21, T:0.03
Consensus pattern (5 bp):
GACCC
Found at i:13160806 original size:9 final size:9
Alignment explanation
Indices: 13160792--13160861 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
13160782 TAGCTGGAAA
13160792 ACCGGTTTG
1 ACCGGTTTG
13160801 ACCGGTTTTG
1 ACCGG-TTTG
*
13160811 AATCGGTTTTG
1 -ACCGG-TTTG
13160822 ACCGGTTTG
1 ACCGGTTTG
**
13160831 ACCGGTCTAA
1 ACCGGT-TTG
*
13160841 ACTGGTTTG
1 ACCGGTTTG
*
13160850 ACCGGTCTG
1 ACCGGTTTG
13160859 ACC
1 ACC
13160862 CGGCCGACCC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 26 0.53
10 14 0.29
11 9 0.18
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.33
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:13163490 original size:9 final size:9
Alignment explanation
Indices: 13163476--13163508 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
13163466 TTAACTATTG
13163476 TTTATTTAT
1 TTTATTTAT
13163485 TTTATTTAT
1 TTTATTTAT
13163494 TTTA-TTAT
1 TTTATTTAT
13163502 TTCTATT
1 TT-TATT
13163509 ATTCGATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.27
9 15 0.68
10 1 0.05
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:13163668 original size:138 final size:136
Alignment explanation
Indices: 13163438--13163914 Score: 538
Period size: 142 Copynumber: 3.4 Consensus size: 136
13163428 TATTTCAAGT
* * *
13163438 TAACTACTGACTTCTATATTATTGCACTTTAA-CTATTGTTTATTTATTTTATTTA-T-TTTATT
1 TAACTACT-AATTTTATTTTATTGCACTTTAATC-ATTGTTTATTTA-TTTATTTATTATTTATT
* * * * * *
13163500 ATTTCTATTATTCGATTTGGTATTGTGGTGACCCGATCTAGGGTATAATCTGCATTATTATGGTT
63 GTTTCTAATATTCAATTAGG-CTTGTGGTGACCCGATCTGGGGTATAATCTGCATTATTATGGTT
13163565 CAGACTCTGC
127 CAGACTCTGC
* *
13163575 TAACTACTATATTTTATTATATTGCACTTTATTCATTG-TTATTTATTTATTTATGTATTTATTG
1 TAACTACTA-ATTTTATTTTATTGCACTTTAATCATTGTTTATTTATTTATTTAT-TATTTATTG
* * * *
13163639 TTTCTAATATTCAATTCGGCGTTGTGGTGATCCGATCTGGGGTATGATCCGCATTATTATGGTT-
64 TTTCTAATATTCAATTAGGC-TTGTGGTGACCCGATCTGGGGTATAATCTGCATTATTATGGTTC
13163703 AGGACTCTGC
128 A-GACTCTGC
* *
13163713 TAACTACTAACTTTTATTTTATTGCACTTTAATCATT-TTTATTTGTTTGTTTGTTTATGTATTT
1 TAACTACTAA-TTTTATTTTATTGCACTTTAATCATTGTTTA----TTTATTTATTTAT-TATTT
* *
13163777 ATTGTTTCTAATATTCAATTAGGTCTTGTGGTGACCCGATCCGGGGTATTAT-TCGCATTATTAT
60 ATTGTTTCTAATATTCAATTAGG-CTTGTGGTGACCCGATCTGGGGTATAATCT-GCATTATTAT
*
13163841 GGTTCGGACTCTGC
123 GGTTCAGACTCTGC
* *
13163855 TAACCACTGAATTTTATTTTATTGCA-TTCTAACCATTGTTTATTTATTTATTTATTATTT
1 TAACTACT-AATTTTATTTTATTGCACTT-TAATCATTGTTTATTTATTTATTTATTATTT
13163915 CTAATATTTG
Statistics
Matches: 293, Mismatches: 28, Indels: 37
0.82 0.08 0.10
Matches are distributed among these distances:
135 8 0.03
136 8 0.03
137 32 0.11
138 111 0.38
139 11 0.04
141 2 0.01
142 114 0.39
143 7 0.02
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (136 bp):
TAACTACTAATTTTATTTTATTGCACTTTAATCATTGTTTATTTATTTATTTATTATTTATTGTT
TCTAATATTCAATTAGGCTTGTGGTGACCCGATCTGGGGTATAATCTGCATTATTATGGTTCAGA
CTCTGC
Found at i:13164099 original size:19 final size:19
Alignment explanation
Indices: 13164077--13164119 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
13164067 ATTTTAAGTT
13164077 TTTTATTTACTTTTTACTA
1 TTTTATTTACTTTTTACTA
*
13164096 TTTTATTTATTTTTTACTA
1 TTTTATTTACTTTTTACTA
13164115 TTTTA
1 TTTTA
13164120 AGTTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTACTTTTTACTA
Found at i:13164118 original size:28 final size:28
Alignment explanation
Indices: 13164087--13164145 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
13164077 TTTTATTTAC
* *
13164087 TTTTTACTATTTTATTTATTTTTTACTA
1 TTTTAACTATTTTATTTATTTTTTACCA
* *
13164115 TTTTAAGTTTTTTATTTATTTTTTACCA
1 TTTTAACTATTTTATTTATTTTTTACCA
13164143 TTT
1 TTT
13164146 AGTTCCCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (28 bp):
TTTTAACTATTTTATTTATTTTTTACCA
Found at i:13165731 original size:29 final size:30
Alignment explanation
Indices: 13165694--13165750 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13165684 TGACTAATCA
13165694 TTTCAACTAAC-TTGATTCTTTTTGTCTTG
1 TTTCAACTAACATTGATTCTTTTTGTCTTG
* *
13165723 TTTCTACTAACATTGATTTTTTTTGTCT
1 TTTCAACTAACATTGATTCTTTTTGTCT
13165751 GGTCTTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.58
Consensus pattern (30 bp):
TTTCAACTAACATTGATTCTTTTTGTCTTG
Found at i:13167503 original size:168 final size:168
Alignment explanation
Indices: 13167225--13167562 Score: 676
Period size: 168 Copynumber: 2.0 Consensus size: 168
13167215 GTTTTTCATG
13167225 TAAATAAGGTTAATCCTAAATACTTGTCCCCCTAGGGATACTTCTTTTATAAAGACTTCCATGTA
1 TAAATAAGGTTAATCCTAAATACTTGTCCCCCTAGGGATACTTCTTTTATAAAGACTTCCATGTA
13167290 TGAGATGATGAACAACTTTGTTTCATTTATCCTTTCAAAAATATGTATATATATATATATATCCC
66 TGAGATGATGAACAACTTTGTTTCATTTATCCTTTCAAAAATATGTATATATATATATATATCCC
13167355 TTGTTGTCCCCTTTTGAGCCTATAATTTTGTTTCTTCT
131 TTGTTGTCCCCTTTTGAGCCTATAATTTTGTTTCTTCT
13167393 TAAATAAGGTTAATCCTAAATACTTGTCCCCCTAGGGATACTTCTTTTATAAAGACTTCCATGTA
1 TAAATAAGGTTAATCCTAAATACTTGTCCCCCTAGGGATACTTCTTTTATAAAGACTTCCATGTA
13167458 TGAGATGATGAACAACTTTGTTTCATTTATCCTTTCAAAAATATGTATATATATATATATATCCC
66 TGAGATGATGAACAACTTTGTTTCATTTATCCTTTCAAAAATATGTATATATATATATATATCCC
13167523 TTGTTGTCCCCTTTTGAGCCTATAATTTTGTTTCTTCT
131 TTGTTGTCCCCTTTTGAGCCTATAATTTTGTTTCTTCT
13167561 TA
1 TA
13167563 TGTAACCCTA
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 170 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (168 bp):
TAAATAAGGTTAATCCTAAATACTTGTCCCCCTAGGGATACTTCTTTTATAAAGACTTCCATGTA
TGAGATGATGAACAACTTTGTTTCATTTATCCTTTCAAAAATATGTATATATATATATATATCCC
TTGTTGTCCCCTTTTGAGCCTATAATTTTGTTTCTTCT
Found at i:13167795 original size:20 final size:21
Alignment explanation
Indices: 13167758--13167907 Score: 80
Period size: 20 Copynumber: 7.6 Consensus size: 21
13167748 ACATAGAGAG
13167758 AAAGAAGAAAAGATATAGCAAAA
1 AAAGAAGAAAAGA-ATAG-AAAA
13167781 AAAGAAG-AAAG-ATAGAAAAA
1 AAAGAAGAAAAGAATAG-AAAA
* * * *
13167801 AAAAAAAAAAAAAAAATGAAAA
1 AAAGAAGAAAAGAATA-GAAAA
*
13167823 AATGAA-AAAAGAA-A-AAAA
1 AAAGAAGAAAAGAATAGAAAA
13167841 AAA-AA-AAAA-AA-A-AAAA
1 AAAGAAGAAAAGAATAGAAAA
13167857 AAAGAA-AAAAGAA-A-AAAA
1 AAAGAAGAAAAGAATAGAAAA
*
13167875 GAAA-AAGAAAA-AAGAGAGAAA
1 -AAAGAAGAAAAGAATAGA-AAA
13167896 AAAGAA-AAAAGA
1 AAAGAAGAAAAGA
13167908 GAAGAAAGAA
Statistics
Matches: 106, Mismatches: 9, Indels: 26
0.75 0.06 0.18
Matches are distributed among these distances:
16 10 0.09
17 12 0.11
18 17 0.16
19 8 0.08
20 22 0.21
21 15 0.14
22 14 0.13
23 8 0.08
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (21 bp):
AAAGAAGAAAAGAATAGAAAA
Found at i:13167823 original size:42 final size:40
Alignment explanation
Indices: 13167777--13167925 Score: 176
Period size: 41 Copynumber: 3.6 Consensus size: 40
13167767 AAGATATAGC
13167777 AAAAAAAGAAGAAAGATAGAAAAAAAAAAAAAAAAAAAAATG
1 AAAAAAAGAAGAAAGA-AGAAAAAAAAAAAAAAAAAAAAA-G
* * * *
13167819 AAAAAATGAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAGAAGAAAGAAGAAAAAAAAAAAAAAAAAAAAAG
* *
13167859 AGAAAAAAGAA-AAA-AAGAAAAAGAAAAAAGAGAGAAAAAAG
1 A-AAAAAAGAAGAAAGAAGAAAAA-AAAAAA-AAAAAAAAAAG
13167900 AAAAAAGAGAAGAAAGAAGAAAAAAA
1 AAAAAA-AGAAGAAAGAAGAAAAAAA
13167926 TGATCAAATA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 7 0.08
40 15 0.16
41 43 0.47
42 19 0.21
43 8 0.09
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (40 bp):
AAAAAAAGAAGAAAGAAGAAAAAAAAAAAAAAAAAAAAAG
Found at i:13167888 original size:7 final size:7
Alignment explanation
Indices: 13167778--13167922 Score: 127
Period size: 7 Copynumber: 19.9 Consensus size: 7
13167768 AGATATAGCA
13167778 AAAAAAG
1 AAAAAAG
*
13167785 AAGAAAG
1 AAAAAAG
13167792 ATAGAAAA-
1 A-A-AAAAG
13167800 AAAAAA-
1 AAAAAAG
13167806 AAAAAA-
1 AAAAAAG
*
13167812 AAAAATG
1 AAAAAAG
13167819 AAAAAATG
1 AAAAAA-G
13167827 AAAAAAG
1 AAAAAAG
13167834 AAAAAA-
1 AAAAAAG
*
13167840 AAAAAAA
1 AAAAAAG
*
13167847 AAAAAAA
1 AAAAAAG
13167854 AAAAAAG
1 AAAAAAG
13167861 AAAAAAG
1 AAAAAAG
13167868 AAAAAAAG
1 -AAAAAAG
*
13167876 AAAAAGAA
1 AAAAA-AG
13167884 AAAAGAGAG
1 AAAA-A-AG
13167893 AAAAAAG
1 AAAAAAG
13167900 AAAAAAG
1 AAAAAAG
13167907 AGAAGAAAG
1 A-AA-AAAG
13167916 AAGAAAA
1 AA-AAAA
13167923 AAATGATCAA
Statistics
Matches: 120, Mismatches: 7, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
6 21 0.17
7 55 0.46
8 28 0.23
9 16 0.13
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:13167905 original size:1 final size:1
Alignment explanation
Indices: 13167796--13167887 Score: 103
Period size: 1 Copynumber: 92.0 Consensus size: 1
13167786 AGAAAGATAG
** ** * *
13167796 AAAAAAAAAAAAAAAAAAAAATGAAAAAATGAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
13167861 AAAAAAGAAAAAAAGAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
13167888 GAGAGAAAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.90, C:0.00, G:0.08, T:0.02
Consensus pattern (1 bp):
A
Found at i:13167912 original size:5 final size:4
Alignment explanation
Indices: 13167781--13167921 Score: 65
Period size: 4 Copynumber: 37.8 Consensus size: 4
13167771 TATAGCAAAA
* * * *
13167781 AAAG -AAG AAAG ATAG AAA- AAA- AAAA AAAA AAAA AAATG AAA- AAATG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA-G AAAG AAA-G
* * * * * *
13167827 AAA- AAAG AAA- AAAA AAAA AAAA AAAA AAAA AAAG AAA- AAAG AAAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
*
13167872 AAAG -AA- AAAG AAA- AAAG AGAG AAA- AAAG AAA- AAAG AGAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAAG
13167916 -AAG AAA
1 AAAG AAA
13167922 AAAATGATCA
Statistics
Matches: 114, Mismatches: 8, Indels: 30
0.75 0.05 0.20
Matches are distributed among these distances:
3 37 0.32
4 67 0.59
5 10 0.09
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:13167916 original size:48 final size:48
Alignment explanation
Indices: 13167778--13167923 Score: 168
Period size: 50 Copynumber: 3.0 Consensus size: 48
13167768 AGATATAGCA
* * * *
13167778 AAAAAAGAAGAAAGATAGAAAAAAAAAAAAAAAAAAAAATGAAAAAATG
1 AAAAAAGAAAAAAGAAAGAAAAAAAAAAAAAAGAAAAAA-GAAAAAAAG
* *
13167827 AAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAAG
1 AAAAAAG-AAAAAAGAAAGAAAAAAAAAAAAAAGAAAAAAGAAAAAAAG
* * *
13167876 -AAAAAGAAAAAAGAGAGAAAAAAGAAAAAAGAGAAGAAAGAAGAAAAA
1 AAAAAAGAAAAAAGAAAGAAAAAA-AAAAAAAAGAAAAAAGAA-AAAAA
13167924 AATGATCAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
47 14 0.17
48 22 0.27
49 20 0.24
50 27 0.33
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (48 bp):
AAAAAAGAAAAAAGAAAGAAAAAAAAAAAAAAGAAAAAAGAAAAAAAG
Found at i:13167922 original size:18 final size:18
Alignment explanation
Indices: 13167778--13167923 Score: 86
Period size: 16 Copynumber: 8.7 Consensus size: 18
13167768 AGATATAGCA
*
13167778 AAAAAAGAAGAAAGA-TAG
1 AAAAAAGAA-AAAGAGAAG
*
13167796 AAAAAA-AAAAA-A-AAA
1 AAAAAAGAAAAAGAGAAG
*
13167811 AAAAAATG-AAAA-A-ATG
1 AAAAAA-GAAAAAGAGAAG
*
13167827 AAAAAAGAAAAA-A-AAA
1 AAAAAAGAAAAAGAGAAG
* * *
13167843 AAAAAAAAAAAAAAAAAG
1 AAAAAAGAAAAAGAGAAG
13167861 AAAAAAG-AAAA-A-AAG
1 AAAAAAGAAAAAGAGAAG
13167876 -AAAAAGAAAAA-AGAGAG
1 AAAAAAGAAAAAGAGA-AG
13167893 AAAAAAGAAAAAAGAGAAG
1 AAAAAAG-AAAAAGAGAAG
*
13167912 AAAGAAGAAAAA
1 AAAAAAGAAAAA
13167924 AATGATCAAA
Statistics
Matches: 107, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
14 6 0.06
15 17 0.16
16 34 0.32
17 9 0.08
18 25 0.23
19 13 0.12
20 3 0.03
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAAAGAGAAG
Found at i:13168604 original size:27 final size:28
Alignment explanation
Indices: 13168553--13168605 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
13168543 TGCAAGAAGC
*
13168553 TAACCTGAAACACATTACCTCCCCAAAT
1 TAACATGAAACACATTACCTCCCCAAAT
*
13168581 TAACATGAAAC-CATTACCTTCCCAA
1 TAACATGAAACACATTACCTCCCCAA
13168606 GTCAGCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.40, C:0.34, G:0.04, T:0.23
Consensus pattern (28 bp):
TAACATGAAACACATTACCTCCCCAAAT
Found at i:13170651 original size:132 final size:132
Alignment explanation
Indices: 13170413--13171560 Score: 1361
Period size: 132 Copynumber: 8.7 Consensus size: 132
13170403 AAGAGCTTGT
* * ** * *
13170413 TCAACTTTTTGCTCGATTCTATCACAGAAAGAGGTAGACCAGTACCGACATCTCGTTTGATTCTA
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCGTTCGATTCCA
* * ** * * *
13170478 TCACAAAAGGAGACGAATCAACATTTTCGTTTCACTCAAATCTAGTGCATAAGGAGTTGGATCAA
66 TCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGTGCATAAGGAGTTGGATCAA
*
13170543 TA
131 CA
* * * * *
13170545 TCAACTTTTTGCTCGATTCTTTCATAGAAGGAGATAGATCAGCATCGACATCTCGTTCGATTCCA
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCGTTCGATTCCA
* * *
13170610 TCAAAGAATGAGGTGGATTAACATTTTCATTTCACTTAAATCCAGTGCATAAGGAGTTGGATCAA
66 TCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGTGCATAAGGAGTTGGATCAA
13170675 CA
131 CA
* **
13170677 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAAACACCGACATTTTATTCGATTCC
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATC-AACACCGACATCTCGTTCGATTCC
* * * * * *
13170742 ATCACAGAA-GTAGGTGGATCAACATTTTTATTTCGCTCAGATCCATTGCATAAGAAGTAGGATC
65 ATCACAGAATG-AGGTGGATCAACATTTTCATTTCACTCAAATCCAGTGCATAAGGAGTTGGATC
13170806 AACA
129 AACA
* * * * *
13170810 TCAACTTTTTGTTCGATTCTATCACAGAATGAGGTAGATCAACACTGAAATCTCGTTCGATTCCT
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCGTTCGATTCCA
* * * * * * *
13170875 TTACAAAATGAGATGGATCAACATTTTCATTTCACTTAAATCCAGGGCATAAGGAGATAGATCAA
66 TCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGTGCATAAGGAGTTGGATCAA
13170940 CA
131 CA
* * ** *
13170942 TCAACTTTTTGCTTGATTCTATCATAGAATAAGGTAGATCAAACACCGACATTTCGTTCGATTCC
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATC-AACACCGACATCTCGTTCGATTCC
* * * *
13171007 ATCACAGAAAGAGGTGGATCAACATTTTTATTTCGCTC-AATCCA-TCGCATAAGGAGTTAGATC
65 ATCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGT-GCATAAGGAGTTGGATC
13171070 AACA
129 AACA
* ** * *
13171074 TCAAC-TTTTGCTCGATTCTATCACAAAATAAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCGTTCGATTCCA
* *
13171138 TCACAGAAGGAGGTGGATCAACATTTTCATTTCACTCAAATCCA-T-CATATAAGTAGTTGGATC
66 TCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGTGC--ATAAGGAGTTGGATC
13171201 AACA
129 AACA
* * * *
13171205 TCAACTTTTTGCTCGATTCTATCATAGAAGGAGGTAGATTAACATCGACA-----TTCGAATCCA
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCGTTCGATTCCA
*
13171265 TCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGCGCATAAGGAGTTGGATCAA
66 TCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGTGCATAAGGAGTTGGATCAA
13171330 CA
131 CA
* * * *
13171332 TCAAC-TTTTGCTCGATTCTATCACAAAAGGAGGTAGATCAAACATCGACATTTCATTCGATTCC
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATC-AACACCGACATCTCGTTCGATTCC
* * * * * * * *
13171396 ATCATAGAAGGAGGTAGATCAACATTTTTATTTCGCTCAAATCCA-TCGTATAAGGAGTAGGATG
65 ATCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGT-GCATAAGGAGTTGGATC
13171460 AACA
129 AACA
* * ** * *
13171464 TCAACTTTTTTCTCGATTCTATCACAGAAGGAGGTAGATCAGCACTAAAAATAT-GTTCGATTCC
1 TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACAC-CGACATCTCGTTCGATTCC
* *
13171528 ATCACAGAATGAGGTGGATCAATATTGTCATTT
65 ATCACAGAATGAGGTGGATCAACATTTTCATTT
13171561 TTGCTAGATT
Statistics
Matches: 870, Mismatches: 126, Indels: 40
0.84 0.12 0.04
Matches are distributed among these distances:
126 31 0.04
127 85 0.10
129 2 0.00
130 56 0.06
131 60 0.07
132 434 0.50
133 202 0.23
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (132 bp):
TCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCGTTCGATTCCA
TCACAGAATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGTGCATAAGGAGTTGGATCAA
CA
Found at i:13170708 original size:44 final size:44
Alignment explanation
Indices: 13170528--13171549 Score: 389
Period size: 44 Copynumber: 23.3 Consensus size: 44
13170518 TCTAGTGCAT
* * * ** *
13170528 AAGGAGTTGGATCAATATCAACTTTTTGCTCGATTCTTTCATAG
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * * * * * *
13170572 AAGGAGATAGATCAGCATCGACATCTCGTTCGATTCCATCAAAG
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * *** ** ** * * *
13170616 AATGAGGTGGATTAACATTTTCATTTCACTTAAATCCAGT-GCAT
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCA-TCACAG
* * *
13170660 AAGGAGTTGGATCAACATCAACTTTTTGCTCGATTCTATCACAG
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * **
13170704 AAGGAGGTAGATCAAACACCGACATTTTATTCGATTCCATCACAG
1 AAGGAGGTGGATC-AACATCAACATTTTGCTCGATTCCATCACAG
* **** * ** *
13170749 AAGTAGGTGGATCAACATTTTTATTTCGCTCAGA-TCCATTGCAT
1 AAGGAGGTGGATCAACATCAACATTTTGCTC-GATTCCATCACAG
* * * *
13170793 AA-GAAGTAGGATCAACATCAACTTTTTGTTCGATTCTATCACAG
1 AAGGAGGT-GGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * * * * * * *
13170837 AATGAGGTAGATCAACACTGAA-ATCTCGTTCGATTCCTTTACAA
1 AAGGAGGTGGATCAACA-TCAACATTTTGCTCGATTCCATCACAG
* * *** ** ** * *** *
13170881 AATGAGATGGATCAACATTTTCATTTCACTTAAATCCAGGGCAT
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * * * *
13170925 AAGGAGATAGATCAACATCAACTTTTTGCTTGATTCTATCATAG
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
** * * * * *
13170969 AATAAGGTAGATCAAACACCGACATTTCGTTCGATTCCATCACAG
1 AAGGAGGTGGATC-AACATCAACATTTTGCTCGATTCCATCACAG
* **** * * * *
13171014 AAAGAGGTGGATCAACATTTTTATTTCGCTC-AATCCATCGCAT
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * *
13171057 AAGGAGTTAGATCAACATCAAC-TTTTGCTCGATTCTATCACAA
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
** * * * * * *
13171100 AATAAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAG
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
*** ** * * * *
13171144 AAGGAGGTGGATCAACATTTTCATTTCACTCAAATCCATCATAT
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * * *
13171188 AAGTAGTTGGATCAACATCAACTTTTTGCTCGATTCTATCATAG
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * *
13171232 AAGGAGGTAGATTAACATCGACA---T--TCGAATCCATCACAG
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* *** ** * * * * *
13171271 AATGAGGTGGATCAACATTTTCATTTCACTCAAATCCAGCGCAT
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * *
13171315 AAGGAGTTGGATCAACATCAAC-TTTTGCTCGATTCTATCACAA
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * *** *
13171358 AAGGAGGTAGATCAAACATCGACATTTCATTCGATTCCATCATAG
1 AAGGAGGTGGATC-AACATCAACATTTTGCTCGATTCCATCACAG
* **** * * * ** *
13171403 AAGGAGGTAGATCAACATTTTTATTTCGCTCAAATCCATCGTAT
1 AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * *
13171447 AAGGA-GTAGGATGAACATCAACTTTTTTCTCGATTCTATCACAG
1 AAGGAGGT-GGATCAACATCAACATTTTGCTCGATTCCATCACAG
* * * * * *
13171491 AAGGAGGTAGATCAGCA-CTAAAAATATGTTCGATTCCATCACAG
1 AAGGAGGTGGATCAACATC-AACATTTTGCTCGATTCCATCACAG
*
13171535 AATGAGGTGGATCAA
1 AAGGAGGTGGATCAA
13171550 TATTGTCATT
Statistics
Matches: 684, Mismatches: 272, Indels: 44
0.68 0.27 0.04
Matches are distributed among these distances:
39 29 0.04
41 1 0.00
42 7 0.01
43 83 0.12
44 455 0.67
45 109 0.16
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (44 bp):
AAGGAGGTGGATCAACATCAACATTTTGCTCGATTCCATCACAG
Found at i:13172814 original size:18 final size:18
Alignment explanation
Indices: 13172783--13172836 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
13172773 CTGAAAAATT
* *
13172783 TGTCCAGAAAGACCACTA
1 TGTCCCGAAGGACCACTA
13172801 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
13172819 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
13172837 ATAATCCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:13173539 original size:35 final size:35
Alignment explanation
Indices: 13173500--13173568 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
13173490 TCGTTCAAGA
*
13173500 TGGTATCGATACCATCCTGAAGGTATCGATACCCT
1 TGGTATCGATACCATCCTCAAGGTATCGATACCCT
* * *
13173535 TGGTATCGATACTATTCTCCAGGTATCGATACCC
1 TGGTATCGATACCATCCTCAAGGTATCGATACCC
13173569 CTTGAATTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (35 bp):
TGGTATCGATACCATCCTCAAGGTATCGATACCCT
Found at i:13174561 original size:21 final size:21
Alignment explanation
Indices: 13174537--13174680 Score: 67
Period size: 21 Copynumber: 6.8 Consensus size: 21
13174527 ACGTAGAATT
13174537 TGTCCCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
* * * *
13174558 TGTCGCGAAAGACCGCATAGAAA
1 TGTCCCGAAGGACCACAT--ATA
* *
13174581 TGTCCCAAAGGACCACATACA
1 TGTCCCGAAGGACCACATATA
* * * **
13174602 TATTCC-AATGGACCAAATAGG
1 TGTCCCGAA-GGACCACATATA
* * *
13174623 TGTACCGAAGTACCGCATATA
1 TGTCCCGAAGGACCACATATA
* **
13174644 TGT-TCGAAAGGATTACATATA
1 TGTCCCG-AAGGACCACATATA
* *
13174665 TATCCCGAATGACCAC
1 TGTCCCGAAGGACCAC
13174681 GTAGAACCCT
Statistics
Matches: 86, Mismatches: 31, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
20 4 0.05
21 62 0.72
22 4 0.05
23 16 0.19
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:13177620 original size:142 final size:142
Alignment explanation
Indices: 13177202--13177623 Score: 605
Period size: 142 Copynumber: 3.0 Consensus size: 142
13177192 ACTCTAACTA
* * **
13177202 TTGTTTATTTATTTATTGTTTCTATTATTCGATTCGGCCTTGTGGTGAAGCGATCCGGGGTATGA
1 TTGTTTATGTATTTATTGTTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGA
*
13177267 TCCGCATTATTATGGTTCAGACTCTGCTAACTACTAACTTTTATTTTATTGCACTTTAATCATTG
66 TCCGCATTATTATGGTTCGGACTCTGCTAACTACTAACTTTTATTTTATTGCACTTTAATCATTG
*
13177332 CTATTTATTTAT
131 TTATTTATTTAT
* ** * *
13177344 TTATTTATGTATTTATTGTTTCTAATATTCGATTCGGTATTGTGGTTACCCAATCCGGGGTATGA
1 TTGTTTATGTATTTATTGTTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGA
* * * * * *
13177409 TCTGCATTATTATGGTTTGGATTCTGGTAACCACTAAATTTTATTTTATTGCACTTTAATCATTG
66 TCCGCATTATTATGGTTCGGACTCTGCTAACTACTAACTTTTATTTTATTGCACTTTAATCATTG
13177474 TTATTTATTTAT
131 TTATTTATTTAT
**
13177486 TTGTTTATGTATTTATTGTTTCTAATACACGATTCGGCCTTGTGGTGACCCGATCC-GGGTATGA
1 TTGTTTATGTATTTATTGTTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGA
* * * *
13177550 TCCACATTATTATGGTTCGGACTCTACTAACTACTGACTTTTATTTTATTGCA-TTATAACCATT
66 TCCGCATTATTATGGTTCGGACTCTGCTAACTACTAACTTTTATTTTATTGCACTT-TAATCATT
13177614 GTTTATTTAT
130 G-TTATTTAT
13177624 CATTTATAAT
Statistics
Matches: 244, Mismatches: 34, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
140 2 0.01
141 60 0.25
142 182 0.75
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.47
Consensus pattern (142 bp):
TTGTTTATGTATTTATTGTTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGA
TCCGCATTATTATGGTTCGGACTCTGCTAACTACTAACTTTTATTTTATTGCACTTTAATCATTG
TTATTTATTTAT
Found at i:13178403 original size:134 final size:129
Alignment explanation
Indices: 13178228--13178557 Score: 341
Period size: 125 Copynumber: 2.5 Consensus size: 129
13178218 TTAGTCCCCA
* * * *
13178228 AACTACTATA-TTTTATTTTATTGCACTTTATTCATTGTTATTTATTTATGTATTTATTGTTTCT
1 AACTACTA-ACTTTTATTTTATTGCACTTTAATCATTTTTATTTATTTGTTTATTTATTGTTTCT
** * *
13178292 AATATTCTATTCGGCGTTGTGATGATCCAATCTAG-GGTATGATCCGCATTATTATGGTTAGGAC
65 AATATTCTA-T---C-TAATGATGACCCAATC-AGAGGTATGATCCGCATTATTATGGTTAGAAC
13178356 TCTGCT
124 TCTGCT
* * *
13178362 AACTACTAACTTTTATTTTATTTCACTTTAATCATTTTTATTTATTTGTTTGTTTA-TGTAT-T-
1 AACTACTAACTTTTATTTTATTGCACTTTAATCATTTTTATTTATTTGTTTATTTATTGTTTCTA
* * * * *
13178424 -TATTGTATCTAATGGTGACCCGATCCGAGGTATGATCCGCATTATTATGGTTCGAACTCTGCT
66 ATATTCTATCTAATGATGACCCAATCAGAGGTATGATCCGCATTATTATGGTTAGAACTCTGCT
* * * * *
13178487 AAATATTGACTTTTATTTTATTGCA-TTCTAACCATTGTTTATTTATTTGTTTATTTATTATTTC
1 AACTACTAACTTTTATTTTATTGCACTT-TAATCATT-TTTATTTATTTGTTTATTTATTGTTTC
13178551 TAATATT
64 TAATATT
13178558 TGAGTCGACC
Statistics
Matches: 164, Mismatches: 24, Indels: 20
0.79 0.12 0.10
Matches are distributed among these distances:
124 3 0.02
125 72 0.44
126 20 0.12
127 3 0.02
128 1 0.01
129 1 0.01
130 10 0.06
132 1 0.01
133 5 0.03
134 48 0.29
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (129 bp):
AACTACTAACTTTTATTTTATTGCACTTTAATCATTTTTATTTATTTGTTTATTTATTGTTTCTA
ATATTCTATCTAATGATGACCCAATCAGAGGTATGATCCGCATTATTATGGTTAGAACTCTGCT
Found at i:13178538 original size:12 final size:12
Alignment explanation
Indices: 13178521--13178545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13178511 ATTCTAACCA
13178521 TTGTTTATTTAT
1 TTGTTTATTTAT
13178533 TTGTTTATTTAT
1 TTGTTTATTTAT
13178545 T
1 T
13178546 ATTTCTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTGTTTATTTAT
Found at i:13183381 original size:20 final size:20
Alignment explanation
Indices: 13183356--13183395 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13183346 CCGTTAGACA
13183356 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
*
13183376 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
13183396 AACAATCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCCTG
Found at i:13183786 original size:24 final size:24
Alignment explanation
Indices: 13183741--13183812 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
13183731 CTCCCCCTTA
**
13183741 CTTTAACA-CTTCTCACTTCTCCC
1 CTTTAACACCTTAACACTTCTCCC
13183764 CTTTAACACCTTAACACTTCTCCC
1 CTTTAACACCTTAACACTTCTCCC
13183788 CTTTAACACCTTAACACTTCTCCC
1 CTTTAACACCTTAACACTTCTCCC
13183812 C
1 C
13183813 CTTTTTGTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 8 0.17
24 38 0.83
ACGTcount: A:0.22, C:0.43, G:0.00, T:0.35
Consensus pattern (24 bp):
CTTTAACACCTTAACACTTCTCCC
Found at i:13184881 original size:19 final size:20
Alignment explanation
Indices: 13184838--13184885 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13184828 TCTAAATCAA
*
13184838 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
13184858 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
13184877 TTTTCAAAA
1 TTTTCAAAA
13184886 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:13186190 original size:20 final size:20
Alignment explanation
Indices: 13186165--13186205 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
13186155 CCGTTAGACA
13186165 GGGGGAATC-GATACCCCCTG
1 GGGGGAATCTG-TACCCCCTG
13186185 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
13186205 G
1 G
13186206 ACAATCTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:13189225 original size:23 final size:23
Alignment explanation
Indices: 13189194--13189262 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
13189184 CACAACAGCT
*
13189194 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
13189217 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
13189240 CGTAGAATTACACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
13189263 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:13189449 original size:103 final size:103
Alignment explanation
Indices: 13189278--13189495 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
13189268 TAATGTCCAT
* * *
13189278 AAGGACCACATATCATTCCTTAAGAATCATATACACATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACACATACCAAGGATCAAGTATGTATCTCACCA
13189343 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
13189381 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTATCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACACATACCAAGGATCAAGTATGTATCTCACCA
13189446 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
13189484 AAGGACCACATA
1 AAGGACCACATA
13189496 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACACATACCAAGGATCAAGTATGTATCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:13194841 original size:2 final size:2
Alignment explanation
Indices: 13194834--13194871 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13194824 GTTAGTAAAC
13194834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13194872 AAATGCTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13198108 original size:29 final size:30
Alignment explanation
Indices: 13198076--13198138 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
13198066 ATTTTCACAG
13198076 TTAAAATTT-TGAAAATTA-T-AAAATAATTA
1 TTAAAATTTAT-AAAATTACTAAAAAT-ATTA
*
13198105 TT-AAATTTATCAAATTACTAAAAATATTA
1 TTAAAATTTATAAAATTACTAAAAATATTA
13198134 TTAAA
1 TTAAA
13198139 TTATAGTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
28 12 0.41
29 10 0.34
30 7 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (30 bp):
TTAAAATTTATAAAATTACTAAAAATATTA
Found at i:13203715 original size:29 final size:29
Alignment explanation
Indices: 13203672--13203746 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
13203662 AAAAAGATAT
* * *
13203672 AATAAAATAATTAATTATAATTTAAAAA-G
1 AATAAAATAAATAATAATAA-ATAAAAAGG
13203701 AATAAAATAAATAATAATAAATAAAAAGGG
1 AATAAAATAAATAATAATAAATAAAAA-GG
13203731 AA-AATAATAAATAATA
1 AATAA-AATAAATAATA
13203747 GTAGTAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 6 0.15
29 20 0.50
30 14 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (29 bp):
AATAAAATAAATAATAATAAATAAAAAGG
Found at i:13203809 original size:18 final size:18
Alignment explanation
Indices: 13203786--13203830 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
13203776 GTTGTTTTTT
13203786 TTAAATAAAAGATAAA-AA
1 TTAAATAAAAGA-AAATAA
13203804 TTAAATAAAAGAAAATAA
1 TTAAATAAAAGAAAATAA
13203822 TTAAATAAA
1 TTAAATAAA
13203831 TAATCTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
TTAAATAAAAGAAAATAA
Found at i:13206196 original size:20 final size:20
Alignment explanation
Indices: 13206171--13206218 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
13206161 TGTTTAGAGA
13206171 AAAATAAAATAAATTAAAAT-
1 AAAATAAAATAAA-TAAAATG
*
13206191 AAAATAAAATAAATAGAATG
1 AAAATAAAATAAATAAAATG
13206211 AAAATAAA
1 AAAATAAA
13206219 GTTTGCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (20 bp):
AAAATAAAATAAATAAAATG
Found at i:13206238 original size:5 final size:5
Alignment explanation
Indices: 13206171--13206218 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
13206161 TGTTTAGAGA
* *
13206171 AAAAT AAAAT AAATT AAAAT AAAAT AAAAT -AAAT AGAAT GAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
13206219 GTTTGCTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.11
5 29 0.78
6 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:13209341 original size:19 final size:19
Alignment explanation
Indices: 13209317--13209355 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13209307 TCGAATGCAT
13209317 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
13209336 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
13209355 T
1 T
13209356 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:13215281 original size:20 final size:21
Alignment explanation
Indices: 13215252--13215307 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
13215242 TTTGTGCTTC
*
13215252 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
13215272 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
13215294 ATGCATCGATGCAT
1 ATGCATCGATGCAT
13215308 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:13216885 original size:21 final size:21
Alignment explanation
Indices: 13216843--13216886 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13216833 GCCCCGGGAG
*
13216843 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
13216864 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
13216885 CT
1 CT
13216887 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:13217930 original size:19 final size:19
Alignment explanation
Indices: 13217906--13217944 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13217896 TCGAATGCAT
13217906 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
13217925 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
13217944 T
1 T
13217945 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:13228840 original size:24 final size:24
Alignment explanation
Indices: 13228793--13228841 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
13228783 AATTTTCAAC
* *
13228793 TATTATTATTATATTATTATAAAA
1 TATTATTATTATATTAATACAAAA
13228817 TATTATTATTAT-TTACATACAAAA
1 TATTATTATTATATTA-ATACAAAA
13228841 T
1 T
13228842 CGGGCCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTATTATTATATTAATACAAAA
Found at i:13235978 original size:21 final size:21
Alignment explanation
Indices: 13235907--13236072 Score: 104
Period size: 21 Copynumber: 7.8 Consensus size: 21
13235897 TCGAGGGTTC
* **
13235907 TATGTGGTCATTCTAGACATA
1 TATGTGGTCTTTCGGGACATA
* * * *
13235928 TATGTGATCCTTT-GGAATATG
1 TATGTGGT-CTTTCGGGACATA
*
13235949 TATGCGGTCTTTCGGGACATA
1 TATGTGGTCTTTCGGGACATA
* *
13235970 TATTTGGTCCTTT-GGAACATA
1 TATGTGGT-CTTTCGGGACATA
* * *
13235991 TATGTGGT-TCGTAGGGACAATTT
1 TATGTGGTCT-TTCGGGAC-A-TA
* * *
13236014 TATGTTGTCATTCGGGACATT
1 TATGTGGTCTTTCGGGACATA
*
13236035 TATGTGGTCCTTCGGGACATA
1 TATGTGGTCTTTCGGGACATA
*
13236056 TATGTGGTCATTCGGGA
1 TATGTGGTCTTTCGGGA
13236073 AAATTCTACT
Statistics
Matches: 110, Mismatches: 27, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
19 1 0.01
20 5 0.05
21 81 0.74
22 9 0.08
23 14 0.13
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.39
Consensus pattern (21 bp):
TATGTGGTCTTTCGGGACATA
Found at i:13236040 original size:44 final size:42
Alignment explanation
Indices: 13235962--13236072 Score: 114
Period size: 44 Copynumber: 2.6 Consensus size: 42
13235952 GCGGTCTTTC
* * * * *
13235962 GGGACATATATTTGGTCCTTTGGAACATATATGTGGTTCGTA
1 GGGACATATATGTGGTCATTCGGGACATATATGTGGTCCGTA
* * * * *
13236004 GGGACAATTTTATGTTGTCATTCGGGACATTTATGTGGTCCTTC
1 GGGAC-A-TATATGTGGTCATTCGGGACATATATGTGGTCCGTA
13236048 GGGACATATATGTGGTCATTCGGGA
1 GGGACATATATGTGGTCATTCGGGA
13236073 AAATTCTACT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 22 0.40
43 2 0.04
44 31 0.56
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (42 bp):
GGGACATATATGTGGTCATTCGGGACATATATGTGGTCCGTA
Found at i:13236072 original size:42 final size:42
Alignment explanation
Indices: 13235907--13236070 Score: 130
Period size: 42 Copynumber: 3.9 Consensus size: 42
13235897 TCGAGGGTTC
* ** * * * * *
13235907 TATGTGGTCATTCTAGACATATATGTGATCCTTTGGAATATG
1 TATGTGGTCCTTCGGGACATATATGTGGTCATTCGGAACATA
* * * * *
13235949 TATGCGGTCTTTCGGGACATATATTTGGTCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATATATGTGGTCATTCGGAACATA
* * * * * * *
13235991 TATGTGGTTCGTAGGGACAATTTTATGTTGTCATTCGGGACATT
1 TATGTGGTCCTTCGGGAC-A-TATATGTGGTCATTCGGAACATA
13236035 TATGTGGTCCTTCGGGACATATATGTGGTCATTCGG
1 TATGTGGTCCTTCGGGACATATATGTGGTCATTCGG
13236071 GAAAATTCTA
Statistics
Matches: 95, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 62 0.65
43 2 0.02
44 31 0.33
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (42 bp):
TATGTGGTCCTTCGGGACATATATGTGGTCATTCGGAACATA
Found at i:13236597 original size:9 final size:10
Alignment explanation
Indices: 13236567--13236601 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
13236557 CTTGAATTTA
13236567 TTCAAAGTTT
1 TTCAAAGTTT
13236577 TTCAAAGTTT
1 TTCAAAGTTT
*
13236587 TTCGAAG-TT
1 TTCAAAGTTT
13236596 TTCAAA
1 TTCAAA
13236602 AATAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (10 bp):
TTCAAAGTTT
Found at i:13238281 original size:12 final size:12
Alignment explanation
Indices: 13238248--13238288 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
13238238 GGAAAATGAT
13238248 GAAGAAAAGAAG
1 GAAGAAAAGAAG
*
13238260 GACA-AGAAGAAG
1 GA-AGAAAAGAAG
13238272 GAAGAAAAGAA-
1 GAAGAAAAGAAG
13238283 GAAGAA
1 GAAGAA
13238289 GTAGGCAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 17 0.68
13 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (12 bp):
GAAGAAAAGAAG
Found at i:13243743 original size:20 final size:20
Alignment explanation
Indices: 13243718--13243787 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
13243708 TTTGGTCTAG
13243718 GTATCGATACTGGATGAGCA
1 GTATCGATACTGGATGAGCA
13243738 GTATCGATACTGGATGAGCA
1 GTATCGATACTGGATGAGCA
*
13243758 GTATCGATAATGGATGAGCA
1 GTATCGATACTGGATGAGCA
13243778 GTATCGATAC
1 GTATCGATAC
13243788 CATAAGGTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (20 bp):
GTATCGATACTGGATGAGCA
Found at i:13244670 original size:21 final size:21
Alignment explanation
Indices: 13244638--13244726 Score: 99
Period size: 21 Copynumber: 4.2 Consensus size: 21
13244628 AGGATTCTAC
* *
13244638 GTGGTCTTTTGGGACATATAT
1 GTGGTCCTTTGGAACATATAT
*
13244659 GTGATCCTTTGGAACATATAT
1 GTGGTCCTTTGGAACATATAT
*
13244680 GTGGCCCTTTAGGAA-ATATAT
1 GTGGTCCTTT-GGAACATATAT
* * *
13244701 TTGGTCATTCGGAACATATAT
1 GTGGTCCTTTGGAACATATAT
13244722 GTGGT
1 GTGGT
13244727 TCATAGGGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 4 0.07
21 48 0.86
22 4 0.07
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (21 bp):
GTGGTCCTTTGGAACATATAT
Found at i:13244760 original size:44 final size:42
Alignment explanation
Indices: 13244653--13244760 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 42
13244643 CTTTTGGGAC
* * *
13244653 ATATATGTGATCCTTTGGAACATATATGTGGCCCTTTAGGAA
1 ATATATTTGGTCCTTTGGAACATATATGTGGCCCTATAGGAA
* * **
13244695 ATATATTTGGTCATTCGGAACATATATGTGGTTC-ATAGGGACA
1 ATATATTTGGTCCTTTGGAACATATATGTGGCCCTATA-GGA-A
*
13244738 ATTCTATTTGGTCCTTTGGAACA
1 A-TATATTTGGTCCTTTGGAACA
13244761 ATTTTATATG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 31 0.58
43 2 0.04
44 18 0.34
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (42 bp):
ATATATTTGGTCCTTTGGAACATATATGTGGCCCTATAGGAA
Found at i:13245947 original size:19 final size:17
Alignment explanation
Indices: 13245923--13245959 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
13245913 CCTTTTACAA
13245923 TTGCATTTTGCATCTGTAT
1 TTGCA-TTTGCAT-TGTAT
13245942 TTGCATTTGCATTGTAT
1 TTGCATTTGCATTGTAT
13245959 T
1 T
13245960 AATTTAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 7 0.39
19 5 0.28
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (17 bp):
TTGCATTTGCATTGTAT
Found at i:13248955 original size:3 final size:3
Alignment explanation
Indices: 13248935--13249028 Score: 95
Period size: 3 Copynumber: 32.3 Consensus size: 3
13248925 TTTCATTTTG
* * * *
13248935 ATT ATT -TT ATT ATT -TT ATT ATT ATA AAT ATT ATT ATT ATT ACT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
13248981 ATT ATT ATT ACT ATT ATT AAT ATT ACT ATT ATT ATT -TT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13249028 A
1 A
13249029 AATTATAAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
2 6 0.08
3 69 0.92
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13248969 original size:15 final size:15
Alignment explanation
Indices: 13248935--13249016 Score: 105
Period size: 15 Copynumber: 5.6 Consensus size: 15
13248925 TTTCATTTTG
13248935 ATTATT-TTATTA-T
1 ATTATTATTATTACT
* * *
13248948 TTTATTATTATAAAT
1 ATTATTATTATTACT
13248963 ATTATTATTATTACT
1 ATTATTATTATTACT
*
13248978 ACTATTATTATTACT
1 ATTATTATTATTACT
*
13248993 ATTATTAATATTACT
1 ATTATTATTATTACT
13249008 ATTATTATT
1 ATTATTATT
13249017 TTTTTATTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
13 5 0.09
14 5 0.09
15 48 0.83
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATTATTATTACT
Found at i:13250643 original size:22 final size:25
Alignment explanation
Indices: 13250594--13250640 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
13250584 CTGGTATTTT
13250594 AAAAATAATAAATATCATGCTTATA
1 AAAAATAATAAATATCATGCTTATA
*
13250619 AAAAAT-ATATATATCATGCTTA
1 AAAAATAATAAATATCATGCTTA
13250641 AAAGATAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (25 bp):
AAAAATAATAAATATCATGCTTATA
Found at i:13250730 original size:2 final size:2
Alignment explanation
Indices: 13250723--13250825 Score: 206
Period size: 2 Copynumber: 51.5 Consensus size: 2
13250713 ATAAAAACCT
13250723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13250765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13250807 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
13250826 TAAAATTTAT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 101 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13253798 original size:20 final size:20
Alignment explanation
Indices: 13253775--13253836 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
13253765 TTTTTCATTA
*
13253775 CATTTGCATTTTTATGTTTG
1 CATTTGCATTTTTATATTTG
*
13253795 CATTTGCATTTTTATATTTT
1 CATTTGCATTTTTATATTTG
* *
13253815 CATTTTC-GTTTTATATTTG
1 CATTTGCATTTTTATATTTG
13253834 CAT
1 CAT
13253837 CTTTTCATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 13 0.35
20 24 0.65
ACGTcount: A:0.18, C:0.11, G:0.10, T:0.61
Consensus pattern (20 bp):
CATTTGCATTTTTATATTTG
Found at i:13259539 original size:22 final size:22
Alignment explanation
Indices: 13259489--13259543 Score: 87
Period size: 20 Copynumber: 2.6 Consensus size: 22
13259479 ATATCTACAT
*
13259489 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
13259511 T-TT-AAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
13259531 TCTTCAAAGATGA
1 TCTTCAAAGATGA
13259544 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 17 0.57
21 4 0.13
22 9 0.30
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:13260294 original size:45 final size:45
Alignment explanation
Indices: 13260229--13260912 Score: 1048
Period size: 45 Copynumber: 15.2 Consensus size: 45
13260219 CTATTTCCCA
* * *
13260229 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAATCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
13260274 TATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
13260319 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
13260364 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
13260409 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
13260454 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
13260499 CATCTGTAAGCCCTTCAGTGCATGGTGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * ** * *
13260544 CATCTATAAGACCTTCAGTATAGGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
13260589 TATCTGTAAGCCCTTCAGTTCAGGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
13260634 CATATGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
** *
13260679 CATCTGTAAGAGCTTCAGTGCATGATGTTTTTAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
13260724 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
13260769 CATTTGTAGGCCCTTCAGTGCACGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
13260814 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
13260859 CATCTGTAAGACCTTTAGTGCATGATG-TTT-AAAATCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGT
13260903 CATCTGTAAG
1 CATCTGTAAG
13260913 ACCTGCATGC
Statistics
Matches: 585, Mismatches: 53, Indels: 3
0.91 0.08 0.00
Matches are distributed among these distances:
43 4 0.01
44 22 0.04
45 559 0.96
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:13261001 original size:42 final size:44
Alignment explanation
Indices: 13260229--13261001 Score: 579
Period size: 45 Copynumber: 17.3 Consensus size: 44
13260219 CTATTTCCCA
* * *
13260229 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAATCCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTTAAAATCCTTCGGGT
* * * * * *
13260274 TATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTTAAAATCCTTCGGGT
* * * *
13260319 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-ACTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* * *
13260364 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAA-CCTTTGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* * * *
13260409 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTTAAAATCCTTCGGGT
* * * *
13260454 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTTGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* * * *
13260499 CATCTGTAAGCCCTTCAGTGCATGGTGTTTTCAAAA-CCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* * ** * *
13260544 CATCTATAAGACCTTCAGTATAGGATGTTTTCAAAA-CCTTTGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* * * * *
13260589 TATCTGTAAGCCCTTCAGTTCAGGATGTTTTCAAAA-CCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* * * *
13260634 CATATGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* * *
13260679 CATCTGTAAGAGCTTCAGTGCATGATGTTTTTAAAA-CCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG--TTTAAAATCCTTCGGGT
* * * * *
13260724 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTTAAAATCCTTCGGGT
* * * * *
13260769 CATTTGTAGGCCCTTCAGTGCACGATGTTTTCAAAA-CCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
* *
13260814 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATG-TTT-AAAATCCTTCGGGT
** *
13260859 CATCTGTAAGACCTTTAGTGCATGATGTTTAAAATCCTTCGGGT
1 CATCTGTAAGACCTCCAGTGCAAGATGTTTAAAATCCTTCGGGT
* * * *
13260903 CATCTGTAAGACCTGCA-TGCCAAGATG-TT-AAATCCTCCAGGC
1 CATCTGTAAGACCTCCAGTG-CAAGATGTTTAAAATCCTTCGGGT
** * *
13260945 CATCCATAAAACCTCCAGTGCAAGATG-TT-AAATCCTTCGGGC
1 CATCTGTAAGACCTCCAGTGCAAGATGTTTAAAATCCTTCGGGT
13260987 CATTCT-TAAGACCTC
1 CA-TCTGTAAGACCTC
13261002 TGGACAGAAT
Statistics
Matches: 653, Mismatches: 65, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
42 53 0.08
43 12 0.02
44 43 0.07
45 532 0.81
46 13 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (44 bp):
CATCTGTAAGACCTCCAGTGCAAGATGTTTAAAATCCTTCGGGT
Found at i:13261150 original size:3 final size:3
Alignment explanation
Indices: 13261144--13261254 Score: 172
Period size: 3 Copynumber: 37.3 Consensus size: 3
13261134 TTTCATTTTG
* * *
13261144 ATT ATT ATT -TT -TT ATT ATT ATA AAT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13261190 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13261238 ATT ATTT ATT ATT ATT A
1 ATT A-TT ATT ATT ATT A
13261255 AATTATAAAT
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
2 4 0.04
3 93 0.93
4 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13262911 original size:20 final size:19
Alignment explanation
Indices: 13262882--13262929 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
13262872 TTTGCTTTAA
*
13262882 TTTTATTATTTTAATCATGT
1 TTTTAATATTTTAATCAT-T
* *
13262902 TTTTAATA-TTTATTTATT
1 TTTTAATATTTTAATCATT
13262920 TTTTAATATT
1 TTTTAATATT
13262930 AAGAAAGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
19 8 0.33
20 7 0.29
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTAATATTTTAATCATT
Found at i:13263014 original size:2 final size:2
Alignment explanation
Indices: 13263007--13263040 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13262997 TAAAAACCTA
13263007 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13263041 TAAAGATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13265054 original size:133 final size:134
Alignment explanation
Indices: 13264840--13265291 Score: 570
Period size: 133 Copynumber: 3.4 Consensus size: 134
13264830 AATCAAACTT
* * * * * * * *
13264840 GATTCAATCTTCCCTAAAGAATAGTGGAATTAATAAATATTTCTAGATCTAATTTTCCCTCAATA
1 GATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTTAAGA
** * * *
13264905 AGCATTGGAACGTATCCCTCTTTTTCCAGATTTGATCTTTCTTGAGAAACAGTGGAACTAGTCTT
66 AGCAGCGGAACATATCCCTCTTTTTCCAGATTTGATCTTTCTTGAGGAACAGTGGAACTAGTCTG
13264970 CCTC
131 CCTC
* * * * *
13264974 CATTCAATCTTTCCTGAAGAACAGTGGAATTAATCAACATTTCCAGATATGA-TTTCCCTTAAGA
1 GATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTTAAGA
* *
13265038 AGCAGCGGAACATATCCCTCTTTTTCCATATTTGATATTT-TCTGAGGAACAGTGGAA-TAAGTC
66 AGCAGCGGAACATATCCCTCTTTTTCCAGATTTGATCTTTCT-TGAGGAACAGTGGAACT-AGTC
13265101 TGCCTC
129 TGCCTC
* * * *
13265107 GATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAAAATTTTCC-TATCTGATTTTTCCATAAG
1 GATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACA-TTTCCAGATCTGATTTTCCCTTAAG
* * * * *
13265171 AAGTAGCAGAACATATCCCTCTTTTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTC
65 AAGCAGCGGAACATATCCCTC-TTTTTCCAGATTTGATCTTTCTTGAGGAACAGTGGAACTAGTC
13265236 TGCCTC
129 TGCCTC
*
13265242 GATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCTAGATCT
1 GATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCT
13265292 CTTTTCAGAC
Statistics
Matches: 273, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
132 2 0.01
133 107 0.39
134 80 0.29
135 84 0.31
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (134 bp):
GATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTTAAGA
AGCAGCGGAACATATCCCTCTTTTTCCAGATTTGATCTTTCTTGAGGAACAGTGGAACTAGTCTG
CCTC
Found at i:13265494 original size:3 final size:3
Alignment explanation
Indices: 13265480--13265517 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
13265470 GTCCTGACAC
*
13265480 TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13265518 ATTTGTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:13268008 original size:23 final size:23
Alignment explanation
Indices: 13267990--13268050 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
13267980 CTCGTATAGA
13267990 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
13268013 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
13268036 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
13268051 TATAAAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:13273017 original size:23 final size:23
Alignment explanation
Indices: 13272991--13273051 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
13272981 CTCGTATAAA
13272991 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
13273014 TGCACCGAAATGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
13273037 TGCACTGAAGTGCCA
1 TGCACCGAAGTGCCA
13273052 TATAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:13278428 original size:2 final size:2
Alignment explanation
Indices: 13278421--13278454 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13278411 CAAAATAAAT
13278421 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13278455 ATACAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13283107 original size:17 final size:17
Alignment explanation
Indices: 13283085--13283123 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
13283075 AACGGTCAAC
13283085 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
13283102 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
13283119 GGTCA
1 GGTCA
13283124 GACTGGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:13290385 original size:17 final size:17
Alignment explanation
Indices: 13290363--13290401 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
13290353 AACGGTCAAC
*
13290363 GGTCAACGGTCTGGTCG
1 GGTCAACGGTCGGGTCG
13290380 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
13290397 GGTCA
1 GGTCA
13290402 GACCGGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.21
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:13296739 original size:32 final size:32
Alignment explanation
Indices: 13296703--13296768 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13296693 TGGATGATAC
13296703 GAAAAATTGACATTAACAATGCTTTTCTGAAT
1 GAAAAATTGACATTAACAATGCTTTTCTGAAT
*
13296735 GAAAAATTGACATTAACAATGCTTTTTTGAAT
1 GAAAAATTGACATTAACAATGCTTTTCTGAAT
13296767 GA
1 GA
13296769 CGAATTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (32 bp):
GAAAAATTGACATTAACAATGCTTTTCTGAAT
Found at i:13297834 original size:2 final size:2
Alignment explanation
Indices: 13297827--13297855 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13297817 TAGAAAAATA
13297827 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13297856 GAAAAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13302639 original size:20 final size:20
Alignment explanation
Indices: 13302575--13302639 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
13302565 ACATCCTGCT
* * *
13302575 CGAAGGACTTATGGATGGCA
1 CGAAAGACTTATAGATTGCA
*
13302595 CGAAAGACTTATA-ATCTTGCT
1 CGAAAGACTTATAGA--TTGCA
*
13302616 CGAAAGACTTATAGATTGCC
1 CGAAAGACTTATAGATTGCA
13302636 CGAA
1 CGAA
13302640 GGATTTAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 19 0.51
21 16 0.43
22 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (20 bp):
CGAAAGACTTATAGATTGCA
Found at i:13303236 original size:39 final size:39
Alignment explanation
Indices: 13302728--13303228 Score: 695
Period size: 39 Copynumber: 12.9 Consensus size: 39
13302718 TAGTTTATTT
* * * *
13302728 AAATCTTTTGTTTTGAGTGAAACTATCTCAAGTGAGAT-
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
13302766 AAATCTTCTGTTTCGAGTGAAACTATCTTAAGTGAGAT-
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
13302804 AAATATTCTGTTTCGAGTGAAACTATCTCAAGCGAGAAA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
13302843 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCAAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
13302882 AAA-CTAT-TGTTTCGAGTGAAACTATCTCAAGCGAGATA
1 AAATCT-TCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* **
13302920 AAATATTCTGTTTCGAGGGAAACTATCTCAAATGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * * *
13302959 AAATATTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
13302998 AAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
13303037 AAATCTTCTGTTTCGAGGGAAATTATCTCAAGCGAGAAA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
13303076 AAATCTTATGTTTGGAGGGAAACTATCTCAAGCAAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
13303115 AAATCTTCTATTTCGAGGGAAACTATCTCAAACGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
13303154 AAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
13303193 AAATCTTTTGTTTCGAGTGAAACTATCTCAAGCGAG
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
13303229 GCAAAATCCT
Statistics
Matches: 415, Mismatches: 44, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
38 104 0.25
39 311 0.75
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (39 bp):
AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
Found at i:13303322 original size:76 final size:76
Alignment explanation
Indices: 13303218--13303556 Score: 422
Period size: 76 Copynumber: 4.5 Consensus size: 76
13303208 AGTGAAACTA
* * * * *
13303218 TCTCAAGCGAGGCAAAATCCTGTTTTAAGAAAAACAGTC-TGTAATGAAATGAAATGTTTTGTTT
1 TCTCAAGCGAGACAAAGT-CTGTTTTAAGAAAAACAATCTTG-AATGAAATGAAATGTCTTCTTT
** * *
13303282 TAAGTAAAAACTA
64 CGAGTAAAAATTG
* * * *
13303295 TCTCAAGCGAGACAAAGTATGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATATATTCTTTCG
1 TCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAACAATCTTGAATGAAATGAAATGTCTTCTTTCG
13303360 AGTAAAAATTG
66 AGTAAAAATTG
* * * *
13303371 TCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAA---T--ATGTAATGAAATGTCTTGTTTCG
1 TCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAACAATCTTGAATGAAATGAAATGTCTTCTTTCG
13303431 AGTAAAAATTG
66 AGTAAAAATTG
* * *
13303442 TCTCAAACGAGACAAAGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCG
1 TCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAACAATCTTGAATGAAATGAAATGTCTTCTTTCG
13303507 AGT-AAAATTG
66 AGTAAAAATTG
13303517 TCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAAACAATCT
1 TCTCAAGCGAGACAAAGTCTGTTTTAAG-AAAAACAATCT
13303557 CAAGTAAAGT
Statistics
Matches: 229, Mismatches: 26, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
71 63 0.28
73 1 0.00
74 1 0.00
75 33 0.14
76 113 0.49
77 18 0.08
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (76 bp):
TCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAACAATCTTGAATGAAATGAAATGTCTTCTTTCG
AGTAAAAATTG
Found at i:13303467 original size:147 final size:147
Alignment explanation
Indices: 13303203--13303554 Score: 472
Period size: 147 Copynumber: 2.4 Consensus size: 147
13303193 AAATCTTTTG
* * * * * ** *
13303203 TTTCGAGTGAAACTATCTCAAGCGAGGCAAAATCCTGTTTTAAGAAAAACAGTCTGTAATGAAAT
1 TTTCGAGTAAAATTGTCTCAAGCGAGACAAAGT-CTGTTTTAAGAAAAA-A--CAAT-ATGTAAT
* * *
13303268 GAAATGTTTTGTTTTAAGTAAAAACTATCTCAAGCGAGACAAAGTATGTTTTAAGAAAAACAATC
61 GAAATGTCTTGTTTCAAGTAAAAACTATCTCAAACGAGACAAAGTATGTTTTAAGAAAAACAATC
13303333 TTGAGTGAAATGAAATATATTC
126 TTGAGTGAAATGAAATATATTC
* *
13303355 TTTCGAGTAAAAATTGTCTCAAGTGAGACAAAGTTTGTTTTAAG-AAAAACAATATGTAATGAAA
1 TTTCGAGT-AAAATTGTCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAAACAATATGTAATGAAA
* * * *
13303419 TGTCTTGTTTCGAGTAAAAATTGTCTCAAACGAGACAAAGTTTGTTTTAAGAAAAACAATCTTGA
65 TGTCTTGTTTCAAGTAAAAACTATCTCAAACGAGACAAAGTATGTTTTAAGAAAAACAATCTTGA
* *
13303484 GTGAAATGAAATGTCTTC
130 GTGAAATGAAATATATTC
13303502 TTTCGAGTAAAATTGTCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAAACAAT
1 TTTCGAGTAAAATTGTCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAAACAAT
13303555 CTCAAGTAAA
Statistics
Matches: 177, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
146 33 0.19
147 101 0.57
148 2 0.01
150 1 0.01
151 4 0.02
152 17 0.10
153 19 0.11
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (147 bp):
TTTCGAGTAAAATTGTCTCAAGCGAGACAAAGTCTGTTTTAAGAAAAAACAATATGTAATGAAAT
GTCTTGTTTCAAGTAAAAACTATCTCAAACGAGACAAAGTATGTTTTAAGAAAAACAATCTTGAG
TGAAATGAAATATATTC
Found at i:13305055 original size:16 final size:17
Alignment explanation
Indices: 13305027--13305098 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 17
13305017 TCTATTTTGT
*
13305027 TCTTTATTC-TTTCTTC
1 TCTTTTTTCTTTTCTTC
*
13305043 TCTTTTTT-TTTTCTTT
1 TCTTTTTTCTTTTCTTC
* * *
13305059 TTTTTTTTCTTTTTTTA
1 TCTTTTTTCTTTTCTTC
*
13305076 TGTTTTTTCTTTT-TTC
1 TCTTTTTTCTTTTCTTC
13305092 -CTTTTTT
1 TCTTTTTT
13305099 TTCCTTTATC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
15 6 0.13
16 22 0.48
17 18 0.39
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.82
Consensus pattern (17 bp):
TCTTTTTTCTTTTCTTC
Found at i:13305059 original size:7 final size:7
Alignment explanation
Indices: 13305021--13305182 Score: 66
Period size: 7 Copynumber: 22.3 Consensus size: 7
13305011 AATCTGTCTA
13305021 TTTTGTTC
1 TTTT-TTC
*
13305029 TTTATTC
1 TTTTTTC
*
13305036 TTTCTTC
1 TTTTTTC
*
13305043 TCTTTT-
1 TTTTTTC
13305049 TTTTTTC
1 TTTTTTC
13305056 TTTTTT-
1 TTTTTTC
*
13305062 TTTTTCTT
1 TTTTT-TC
*
13305070 TTTTTATG
1 TTTTT-TC
13305078 TTTTTTC
1 TTTTTTC
13305085 TTTTTTCC
1 TTTTTT-C
13305093 TTTTTT-
1 TTTTTTC
13305099 TTCCTTTATCC
1 TT--TTT-T-C
* *
13305110 TTTATCC
1 TTTTTTC
* *
13305117 TTCTTTA
1 TTTTTTC
*
13305124 TTTTTTG
1 TTTTTTC
*
13305131 TGTTTTC
1 TTTTTTC
*
13305138 -TCTTTC
1 TTTTTTC
13305144 TTTTCTATC
1 TTTT-T-TC
13305153 TTTCTTTC
1 TTT-TTTC
13305161 -TTTTTC
1 TTTTTTC
13305167 -TTTTTC
1 TTTTTTC
13305173 TTTTCTTC
1 TTTT-TTC
13305181 TT
1 TT
13305183 ATGTATGTTT
Statistics
Matches: 118, Mismatches: 21, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
6 26 0.22
7 48 0.41
8 32 0.27
9 9 0.08
10 1 0.01
11 2 0.02
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTTTC
Found at i:13305061 original size:8 final size:8
Alignment explanation
Indices: 13305043--13305099 Score: 64
Period size: 8 Copynumber: 7.1 Consensus size: 8
13305033 TTCTTTCTTC
13305043 TCTTTTTT
1 TCTTTTTT
13305051 T-TTTCTTT
1 TCTTT-TTT
13305059 T-TTTTTT
1 TCTTTTTT
13305066 TCTTTTTT
1 TCTTTTTT
*
13305074 TATGTTTTT
1 TCT-TTTTT
13305083 TCTTTTTT
1 TCTTTTTT
*
13305091 CCTTTTTT
1 TCTTTTTT
13305099 T
1 T
13305100 TCCTTTATCC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
7 7 0.17
8 28 0.67
9 7 0.17
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.86
Consensus pattern (8 bp):
TCTTTTTT
Found at i:13305071 original size:17 final size:17
Alignment explanation
Indices: 13305045--13305179 Score: 66
Period size: 17 Copynumber: 7.8 Consensus size: 17
13305035 CTTTCTTCTC
13305045 TTTTTT-TTTTCTTTTT
1 TTTTTTCTTTTCTTTTT
*
13305061 TTTTTTCTTTT-TTTATG
1 TTTTTTCTTTTCTTT-TT
13305078 TTTTTTCTTTT-TTCCTTT
1 TTTTTTCTTTTCTT--TTT
* *
13305096 TTTTTCCTTTATC-CTTT
1 TTTTTTCTTT-TCTTTTT
* **
13305113 ATCCTTCTTTAT-TTTTT
1 TTTTTTCTTT-TCTTTTT
*
13305130 GTGTTTTCTCTTTCTTTTCT
1 -TTTTTTCT-TTTCTTTT-T
* *
13305150 ATCTTTC-TTTCTTTTT
1 TTTTTTCTTTTCTTTTT
*
13305166 CTTTTTCTTTTCTT
1 TTTTTTCTTTTCTT
13305180 CTTATGTATG
Statistics
Matches: 89, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
16 15 0.17
17 46 0.52
18 15 0.17
19 12 0.13
20 1 0.01
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTTCTTTTCTTTTT
Found at i:13305099 original size:16 final size:16
Alignment explanation
Indices: 13305033--13305099 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
13305023 TTGTTCTTTA
*
13305033 TTCTTTCTTCTCTTTTT
1 TTCTTTTTTC-CTTTTT
*
13305050 TT-TTTCTTT-TTTTTT
1 TTCTTT-TTTCCTTTTT
**
13305065 TTCTTTTTTTATGTTTT
1 TTCTTTTTTCCT-TTTT
13305082 TTCTTTTTTCCTTTTT
1 TTCTTTTTTCCTTTTT
13305098 TT
1 TT
13305100 TCCTTTATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 10 0.24
16 13 0.32
17 18 0.44
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.84
Consensus pattern (16 bp):
TTCTTTTTTCCTTTTT
Found at i:13305149 original size:29 final size:29
Alignment explanation
Indices: 13305117--13305179 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
13305107 TCCTTTATCC
*
13305117 TTCTTTATTT-TTTGTGTTTTCTCTTTCTT
1 TTCTTTATTTCTTTCT-TTTTCTCTTTCTT
* * *
13305146 TTCTATCTTTCTTTCTTTTTCTTTTTCTT
1 TTCTTTATTTCTTTCTTTTTCTCTTTCTT
13305175 TTCTT
1 TTCTT
13305180 CTTATGTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (29 bp):
TTCTTTATTTCTTTCTTTTTCTCTTTCTT
Found at i:13305181 original size:24 final size:24
Alignment explanation
Indices: 13305026--13305182 Score: 61
Period size: 24 Copynumber: 6.8 Consensus size: 24
13305016 GTCTATTTTG
13305026 TTCTTTATTC-TTTCTTC--TCTTT
1 TTCTTT-TTCTTTTCTTCTTTCTTT
* *
13305048 TT-TTTTTCTTTTTTTTTTTCTTT
1 TTCTTTTTCTTTTCTTCTTTCTTT
* *
13305071 TT-TTATGTT-TTTTCTTTTTTCCTT
1 TTCTT-T-TTCTTTTCTTCTTTCTTT
* * **
13305095 TT-TTTTCCTTTATC--CTTTATCC
1 TTCTTTTTCTTT-TCTTCTTTCTTT
* *
13305117 TTCTTTATT-TTTTGTGT-TTTCTCT
1 TTCTTT-TTCTTTTCT-TCTTTCTTT
*
13305141 TTC-TTTTC-TATCTTTCTTTCTTT
1 TTCTTTTTCTTTTC-TTCTTTCTTT
13305164 TTCTTTTTCTTTTCTTCTT
1 TTCTTTTTCTTTTCTTCTT
13305183 ATGTATGTTT
Statistics
Matches: 100, Mismatches: 18, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
20 3 0.03
21 8 0.08
22 14 0.14
23 31 0.31
24 39 0.39
25 5 0.05
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (24 bp):
TTCTTTTTCTTTTCTTCTTTCTTT
Found at i:13308124 original size:21 final size:21
Alignment explanation
Indices: 13308081--13308124 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13308071 AGATGAACTA
* *
13308081 TGGCTTTGTAACAGTGTTGCT
1 TGGCTTTGTAACAATGTTCCT
13308102 TGGCTTTGTAACAAAT-TTCCT
1 TGGCTTTGTAAC-AATGTTCCT
13308123 TG
1 TG
13308125 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (21 bp):
TGGCTTTGTAACAATGTTCCT
Found at i:13316306 original size:13 final size:13
Alignment explanation
Indices: 13316288--13316312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13316278 CGTTAGATTG
13316288 ATTTTGGGGTTTT
1 ATTTTGGGGTTTT
13316301 ATTTTGGGGTTT
1 ATTTTGGGGTTT
13316313 AAGGTAGTTG
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:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (13 bp):
ATTTTGGGGTTTT
Found at i:13327279 original size:181 final size:181
Alignment explanation
Indices: 13326973--13327303 Score: 475
Period size: 181 Copynumber: 1.8 Consensus size: 181
13326963 TATTAAATTC
* ** *
13326973 TCTTGTAAGATGCATGAACCAAGTGACATCAATAGTTAAAGGGATAGTTGCTATTTCTAGAGGTC
1 TCTTGTAAGATGCACGAACCAAGTGACATCAATAGTTAAAGAAATAATTGCTATTTCTAGAGGTC
* * * * *
13327038 TCGAGTTCAAGCACCAGCAAATATCAATGTGTTTTAGCATTCATTATCAAATGGTTGAGAGTCTT
66 TCGAGTTCAAGCACCAACAAATATCAAGGTATTTGAGCATTCATTATCAAATGATTGAGAGTCTT
13327103 TAGAACAAATACTTCTACTTTTAATTACTTTAGATTCATTAAAAAAAGTCT
131 TAGAACAAATACTTCTACTTTTAATTACTTTAGATTCATTAAAAAAAGTCT
* * ** * *
13327154 TCTTGTAAGATGCACGAACCTAGTGACCTCGGTGGTTAAAGAAATAATTGTTATTTCTAGAGGTC
1 TCTTGTAAGATGCACGAACCAAGTGACATCAATAGTTAAAGAAATAATTGCTATTTCTAGAGGTC
* * * *
13327219 TC-AGGTTCGAGCACCAACAAATGTCAGGGTATTTGAGCATTCATTGTCAAATGATTGAGAGTCT
66 TCGA-GTTCAAGCACCAACAAATATCAAGGTATTTGAGCATTCATTATCAAATGATTGAGAGTCT
13327283 TTAGAACAAATACTTCTACTT
130 TTAGAACAAATACTTCTACTT
13327304 GTGATTACCC
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
180 1 0.01
181 129 0.99
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (181 bp):
TCTTGTAAGATGCACGAACCAAGTGACATCAATAGTTAAAGAAATAATTGCTATTTCTAGAGGTC
TCGAGTTCAAGCACCAACAAATATCAAGGTATTTGAGCATTCATTATCAAATGATTGAGAGTCTT
TAGAACAAATACTTCTACTTTTAATTACTTTAGATTCATTAAAAAAAGTCT
Found at i:13327330 original size:181 final size:180
Alignment explanation
Indices: 13326971--13327344 Score: 471
Period size: 181 Copynumber: 2.1 Consensus size: 180
13326961 GATATTAAAT
* ** *
13326971 TCTCTTGTAAGATGCATGAACCAAGTGACATCAATAGTTAAAGGGATAGTTGCTATTTCTAGAGG
1 TCTCTTGTAAGATGCACGAACCAAGTGACATCAATAGTTAAAGAAATAATTGCTATTTCTAGAGG
* * * * *
13327036 TCTCGAGTTCAAGCACCAGCAAATATCAATGTGTTTTAGCATTCATTATCAAATGGTTGAGAGTC
66 TCTCGAGTTCAAGCACCAACAAATATCAAGGTATTTGAGCATTCATTATCAAATGATTGAGAGTC
* ** **
13327101 TTTAGAACAAATACTTCTACTTTTAATTACTTTAGATTCATTAAAAAAAG
131 TTTAGAACAAATACTTCTACTTGTAATTACCCTAGATTCAAAAAAAAAAG
* * ** * *
13327151 TCTTCTTGTAAGATGCACGAACCTAGTGACCTCGGTGGTTAAAGAAATAATTGTTATTTCTAGAG
1 TC-TCTTGTAAGATGCACGAACCAAGTGACATCAATAGTTAAAGAAATAATTGCTATTTCTAGAG
* * * *
13327216 GTCTC-AGGTTCGAGCACCAACAAATGTCAGGGTATTTGAGCATTCATTGTCAAATGATTGAGAG
65 GTCTCGA-GTTCAAGCACCAACAAATATCAAGGTATTTGAGCATTCATTATCAAATGATTGAGAG
* * *
13327280 TCTTTAGAACAAATACTTCTACTTGTGATTACCCTATATTCAAAAAAAAAAT
129 TCTTTAGAACAAATACTTCTACTTGTAATTACCCTAGATTCAAAAAAAAAAG
*
13327332 TCTCTTCTAAGAT
1 TCTCTTGTAAGAT
13327345 AGTAGGATTC
Statistics
Matches: 164, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
180 13 0.08
181 151 0.92
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (180 bp):
TCTCTTGTAAGATGCACGAACCAAGTGACATCAATAGTTAAAGAAATAATTGCTATTTCTAGAGG
TCTCGAGTTCAAGCACCAACAAATATCAAGGTATTTGAGCATTCATTATCAAATGATTGAGAGTC
TTTAGAACAAATACTTCTACTTGTAATTACCCTAGATTCAAAAAAAAAAG
Found at i:13331100 original size:18 final size:18
Alignment explanation
Indices: 13331067--13331101 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13331057 TTTCAAATAT
* *
13331067 ATATTTTAATATTAATTA
1 ATATTTTAAAAATAATTA
13331085 ATATTTTAAAAATAATT
1 ATATTTTAAAAATAATT
13331102 GGTGGGGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTTAAAAATAATTA
Found at i:13331442 original size:33 final size:33
Alignment explanation
Indices: 13331372--13331443 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
13331362 TAGCTCCACG
* * ***
13331372 AACCTCCAAGTATGCAAACATACGACTTGTGTG
1 AACCTCCAAGTATGCAAACATAAGACTTATACA
*
13331405 AACCTCCAAGTATGCGAACATAAGACTTATACA
1 AACCTCCAAGTATGCAAACATAAGACTTATACA
13331438 AACCTC
1 AACCTC
13331444 TAGACAGGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (33 bp):
AACCTCCAAGTATGCAAACATAAGACTTATACA
Found at i:13334197 original size:65 final size:64
Alignment explanation
Indices: 13334064--13334198 Score: 173
Period size: 65 Copynumber: 2.1 Consensus size: 64
13334054 CACCCTATTT
* * * * *
13334064 CGAATGCATGTTGTGTACCGATGCACAACCATGCATCGATGCACTCTTGAATTTATTGAAACAT
1 CGAATGCATGTTGTATACCGATGCAAAACCATGAATCGATGCACTCATGAATTTATTGAAACAA
* **
13334128 CGAATGCATTTTGTATACCGATGCATAAACCATGAATCGATGCACTCATGGCTCTT-TTGAAACA
1 CGAATGCATGTTGTATACCGATGCA-AAACCATGAATCGATGCACTCATGAAT-TTATTGAAACA
13334192 A
64 A
13334193 CGAATG
1 CGAATG
13334199 TAATTAGTGT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 23 0.38
65 36 0.59
66 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (64 bp):
CGAATGCATGTTGTATACCGATGCAAAACCATGAATCGATGCACTCATGAATTTATTGAAACAA
Found at i:13334217 original size:65 final size:65
Alignment explanation
Indices: 13334090--13334217 Score: 141
Period size: 65 Copynumber: 2.0 Consensus size: 65
13334080 ACCGATGCAC
* * * * * *
13334090 AACCATGCATCGATGCACTCTTGAATTTATTGAAACATCGAATGCATTTTGTATACCGATGCATA
1 AACCATGAATCGATGCACTCATGAATTTATTGAAACAACGAATGCAATTAGTATACCAATGCATA
** * * *
13334155 AACCATGAATCGATGCACTCATGGCTCTT-TTGAAACAACGAATGTAATTAGTGTAGCAATGCA
1 AACCATGAATCGATGCACTCATGAAT-TTATTGAAACAACGAATGCAATTAGTATACCAATGCA
13334218 CCTCAGTGTA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
65 49 0.96
66 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (65 bp):
AACCATGAATCGATGCACTCATGAATTTATTGAAACAACGAATGCAATTAGTATACCAATGCATA
Done.