Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_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: 2708727
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:734387 original size:22 final size:22
Alignment explanation
Indices: 734362--734404 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
734352 CCATCACGTA
734362 ACTAAAGTGCCTTAGCATTGGT
1 ACTAAAGTGCCTTAGCATTGGT
734384 ACTAAAGTGCCTTAGCATTGG
1 ACTAAAGTGCCTTAGCATTGG
734405 AGGGAGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (22 bp):
ACTAAAGTGCCTTAGCATTGGT
Found at i:737575 original size:28 final size:28
Alignment explanation
Indices: 737526--737587 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
737516 TCGAAATGCT
*
737526 GAAATTGCCCTGACAATATTGTAAGAAG
1 GAAATTACCCTGACAATATTGTAAGAAG
*
737554 GAAATTACCCTGGA-AATGTTGTAAGAAG
1 GAAATTACCCT-GACAATATTGTAAGAAG
737582 GAAATT
1 GAAATT
737588 GAATTATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (28 bp):
GAAATTACCCTGACAATATTGTAAGAAG
Found at i:738753 original size:17 final size:17
Alignment explanation
Indices: 738731--738783 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
738721 AATTAAGAGT
*
738731 TAGTTTGATTAATGCAC
1 TAGTTTGATTAATGAAC
* *
738748 TAGTTTAATGAATGAAC
1 TAGTTTGATTAATGAAC
*
738765 TAGTTTGATTGATGAAC
1 TAGTTTGATTAATGAAC
738782 TA
1 TA
738784 AATGCATGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.40
Consensus pattern (17 bp):
TAGTTTGATTAATGAAC
Found at i:738774 original size:34 final size:33
Alignment explanation
Indices: 738731--738819 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
738721 AATTAAGAGT
* *
738731 TAGTTTGATTAATGCACTAGTTTAATGAATGAAC
1 TAGTTTGATTAATG-ACTAGATGAATGAATGAAC
* * * *
738765 TAGTTTGATTGATGAACTAAATGCATGAATGAAG
1 TAGTTTGATTAATG-ACTAGATGAATGAATGAAC
738799 TAGTTT-ATTAAATGACTAGAT
1 TAGTTTGATT-AATGACTAGAT
738820 ACATAGATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 9 0.20
34 36 0.80
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (33 bp):
TAGTTTGATTAATGACTAGATGAATGAATGAAC
Found at i:743024 original size:17 final size:17
Alignment explanation
Indices: 743002--743071 Score: 79
Period size: 17 Copynumber: 4.1 Consensus size: 17
742992 AATGAAGAGT
*
743002 TAGTTTGATTAATGGAC
1 TAGTTTGATTAATGAAC
* * *
743019 TAGTTTAATGAATAAAC
1 TAGTTTGATTAATGAAC
743036 TAGTTTGATTAATGAAC
1 TAGTTTGATTAATGAAC
*
743053 TAACTTT-ATTAATGAAC
1 T-AGTTTGATTAATGAAC
743070 TA
1 TA
743072 AATGCATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
16 1 0.02
17 39 0.89
18 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (17 bp):
TAGTTTGATTAATGAAC
Found at i:747276 original size:34 final size:34
Alignment explanation
Indices: 747233--747302 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
747223 AATTAAGAGT
747233 TAGTTTGATTAAT-ACACTAA-TTTAATGAATGAAC
1 TAGTTTGATTAATGA-ACTAACTTT-ATGAATGAAC
*
747267 TAGTTTGATTAATGAACTAACTTTATTAATGAAC
1 TAGTTTGATTAATGAACTAACTTTATGAATGAAC
747301 TA
1 TA
747303 AATGCATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
34 29 0.88
35 4 0.12
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (34 bp):
TAGTTTGATTAATGAACTAACTTTATGAATGAAC
Found at i:747303 original size:17 final size:18
Alignment explanation
Indices: 747236--747303 Score: 72
Period size: 17 Copynumber: 3.9 Consensus size: 18
747226 TAAGAGTTAG
747236 TTTGATTAAT-ACACTAA-
1 TTTGATTAATGA-ACTAAC
* * *
747253 TTTAATGAATGAACT-AG
1 TTTGATTAATGAACTAAC
747270 TTTGATTAATGAACTAAC
1 TTTGATTAATGAACTAAC
747288 TTT-ATTAATGAACTAA
1 TTTGATTAATGAACTAA
747304 ATGCATGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
16 1 0.02
17 37 0.86
18 5 0.12
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (18 bp):
TTTGATTAATGAACTAAC
Found at i:753107 original size:18 final size:18
Alignment explanation
Indices: 753084--753126 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
753074 TTTATTTTTA
753084 AAATAAAAGATAAA-AATT
1 AAATAAAAGA-AAATAATT
*
753102 ATATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
753120 AAATAAA
1 AAATAAA
753127 TAAATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Found at i:754808 original size:6 final size:6
Alignment explanation
Indices: 754797--754821 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
754787 AAACTTATCA
754797 AAACAT AAACAT AAACAT AAACAT A
1 AAACAT AAACAT AAACAT AAACAT A
754822 TTTTTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AAACAT
Found at i:773506 original size:25 final size:24
Alignment explanation
Indices: 773454--773500 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
773444 TAGCATGATT
773454 AAAAATAAAACTTAAAATGAAATA
1 AAAAATAAAACTTAAAATGAAATA
773478 AAAAATGAAAACTTGAAAA-GAAA
1 AAAAAT-AAAACTT-AAAATGAAA
773501 AGAAAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.29
25 11 0.52
26 4 0.19
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (24 bp):
AAAAATAAAACTTAAAATGAAATA
Found at i:776799 original size:12 final size:11
Alignment explanation
Indices: 776761--776826 Score: 55
Period size: 12 Copynumber: 5.9 Consensus size: 11
776751 TACCATATTG
776761 AATTTTCTTTT
1 AATTTTCTTTT
*
776772 AAACTTTCTTTTT
1 -AATTTTC-TTTT
776785 AATTTTCATTTT
1 AATTTTC-TTTT
* *
776797 AATCTTCTTTG
1 AATTTTCTTTT
776808 AA--TTCTTTT
1 AATTTTCTTTT
*
776817 TATTTTCTTT
1 AATTTTCTTT
776827 CTTCTATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.16
11 11 0.25
12 22 0.50
13 4 0.09
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.67
Consensus pattern (11 bp):
AATTTTCTTTT
Found at i:776804 original size:24 final size:24
Alignment explanation
Indices: 776761--776806 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
776751 TACCATATTG
776761 AATTTTCTTTTAAACTTTCTTTTT
1 AATTTTCTTTTAAACTTTCTTTTT
*
776785 AATTTTCATTTTAATC-TTCTTT
1 AATTTTC-TTTTAAACTTTCTTT
776807 GAATTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (24 bp):
AATTTTCTTTTAAACTTTCTTTTT
Found at i:776851 original size:19 final size:19
Alignment explanation
Indices: 776814--776852 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
776804 TTTGAATTCT
*
776814 TTTTATTTTCTTTCTTCTA
1 TTTTATTTTCTTTCATCTA
776833 TTTTA-TTTCTCTTCATCTA
1 TTTTATTTTCT-TTCATCTA
776852 T
1 T
776853 AAATCCCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTTTCTTTCATCTA
Found at i:782996 original size:21 final size:21
Alignment explanation
Indices: 782970--783013 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
782960 GGCAATTCTT
782970 TTGTTCTTCGAAATGTGCGGC
1 TTGTTCTTCGAAATGTGCGGC
*
782991 TTGTTCTTTGAAATGTGCGGC
1 TTGTTCTTCGAAATGTGCGGC
783012 TT
1 TT
783014 TTTTGTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (21 bp):
TTGTTCTTCGAAATGTGCGGC
Found at i:791461 original size:55 final size:55
Alignment explanation
Indices: 791393--791826 Score: 426
Period size: 55 Copynumber: 8.0 Consensus size: 55
791383 CTAATGACGA
* * * *
791393 GTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCAAACAATCTTCAGCAAACGT
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGT
* *
791448 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGT
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGT
* * * * * *
791503 GTATGTTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGG
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGT
* * *
791558 GTCCGCTCCCTATTCATTCAGGGAGTAT-AGAACTCGAACAATCTTCATA-AAACGG
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAG-ACTCGAACAATCTTCA-ACAAACGT
* * * * *
791613 GTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTC-AACAACCTTCATA-AAACGG
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAG-ACTCGAACAATCTTCA-ACAAACGT
* * **
791667 GTCCGCTCTCTATTCATTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAATAT
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAACGT
** * * *
791722 GT-TCGCTCCCTATTTC-TTCAGAGAGTATGGGACTTGAACAATCTTAAACAAACTT
1 GTCT-GCTCCCTA-TTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGT
* *
791777 GTCCT-CTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACG
1 GT-CTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACG
791827 AGTTTGCTTC
Statistics
Matches: 338, Mismatches: 31, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
51 14 0.04
54 58 0.17
55 260 0.77
56 5 0.01
57 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (55 bp):
GTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGT
Found at i:791763 original size:164 final size:164
Alignment explanation
Indices: 791397--791813 Score: 464
Period size: 164 Copynumber: 2.5 Consensus size: 164
791387 TGACGAGTCT
* * * ** *
791397 GCTCCCTATTCGTTCAGGGAGTATAAGACTCAAACAATCTTCAGCAAACGTGTCTGCTCCCTATT
1 GCTCCCTATTCATTCAGGGAGTATAGGACTCGAACAATCTTCAAAAAACGTGTCCGCTCCCTATT
* * * * * * * * *
791462 CATTCAGGGAGTATA-AGACTCGAACAATCTTCAGCAAACGTGTATGTTCCCTATTCGTTCAGGG
66 CCTTCAGAGAGTATAGA-ACTC-AACAACCTTCAGAAAACGGGTACGCTCCCTATTCATTCAGAG
* *
791526 AGTATAAGACTCGAACAATCTTCAATAAACGGGTCC
129 AGTATAAGACTCGAACAATCTTCAACAAACAGGTCC
* * * *
791562 GCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATT
1 GCTCCCTATTCATTCAGGGAGTATAGGACTCGAACAATCTTCAAAAAACGTGTCCGCTCCCTATT
* * *
791627 CCTTCAGAGAGTATAGAACTCAACAACCTTCATAAAACGGGTCCGCTCTCTATTCATTCAGAGAG
66 CCTTCAGAGAGTATAGAACTCAACAACCTTCAGAAAACGGGTACGCTCCCTATTCATTCAGAGAG
* * *
791692 TAT-AGAACTCGAACAATCTTCAACAAATATGTTC
131 TATAAG-ACTCGAACAATCTTCAACAAACAGGTCC
* * * * *
791726 GCTCCCTATTTC-TTCAGAGAGTATGGGACTTGAACAATCTT-AAACAAACTTGTCCTCTCCCTA
1 GCTCCCTA-TTCATTCAGGGAGTATAGGACTCGAACAATCTTCAAA-AAACGTGTCCGCTCCCTA
*
791789 TTCCTTCAGAGAGTATAGGACTCAA
64 TTCCTTCAGAGAGTATAGAACTCAA
791814 TCTTCAACAA
Statistics
Matches: 212, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
163 4 0.02
164 131 0.62
165 76 0.36
166 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (164 bp):
GCTCCCTATTCATTCAGGGAGTATAGGACTCGAACAATCTTCAAAAAACGTGTCCGCTCCCTATT
CCTTCAGAGAGTATAGAACTCAACAACCTTCAGAAAACGGGTACGCTCCCTATTCATTCAGAGAG
TATAAGACTCGAACAATCTTCAACAAACAGGTCC
Found at i:791911 original size:37 final size:37
Alignment explanation
Indices: 791834--791911 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
791824 ACGAGTTTGC
* *
791834 TTCACTACTCTTCCGTGAAGGCTTATAGATGATTTGT
1 TTCACTACTCTTCCGTGAAGGCTTATAGATGAATTAT
* *
791871 TTCACTACTCTTTCGTGAAGGCTTA-AGTTTGAATTAT
1 TTCACTACTCTTCCGTGAAGGCTTATAG-ATGAATTAT
791908 TTCA
1 TTCA
791912 AAGGTCCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (37 bp):
TTCACTACTCTTCCGTGAAGGCTTATAGATGAATTAT
Found at i:792363 original size:307 final size:307
Alignment explanation
Indices: 791809--792423 Score: 1149
Period size: 307 Copynumber: 2.0 Consensus size: 307
791799 GAGTATAGGA
* *
791809 CTCAATCTTCAACAAACGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTATAGATGATTTGTTTC
1 CTCAATCTTCAACAAACGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAGATGATTTGCTTC
*
791874 ACTACTCTTTCGTGAAGGCTTAAGTTTGAATTATTTCAAAGGTCCAACCTGAAAATAAAACATTA
66 ACTACTCTTCCGTGAAGGCTTAAGTTTGAATTATTTCAAAGGTCCAACCTGAAAATAAAACATTA
*
791939 CCAATCATTAATGTATGTTTGAAAATATTATACTCAAAAATTTAGAATTTCAGAAAATTTCTGAA
131 CCAATCATTAATGTATGTTTGAAAATATTATACTCAAAAATTTAGAATTTCAGAAAATTTCAGAA
*
792004 AATTCATCTCCATCGCGAAAACTTGTCTGGAAGCCATTGGATACGTGAATCTACTTTGGCTTAGT
196 AATCCATCTCCATCGCGAAAACTTGTCTGGAAGCCATTGGATACGTGAATCTACTTTGGCTTAGT
*
792069 TTTCGTCTAAACATCATTCTTTTCAAGATCTCAAAACTAGTTATCTT
261 TTTCATCTAAACATCATTCTTTTCAAGATCTCAAAACTAGTTATCTT
792116 CTCAATCTTCAACAAACGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAGATGATTTGCTTC
1 CTCAATCTTCAACAAACGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAGATGATTTGCTTC
* *
792181 ACTACTCTTCCGTGAAGGCTTAAGTTTGAATTATTTCGAAGGTCCAACCTGAAAATCAAACATTA
66 ACTACTCTTCCGTGAAGGCTTAAGTTTGAATTATTTCAAAGGTCCAACCTGAAAATAAAACATTA
*
792246 CCAATCATTAATGTATGTTTGAAAATATTATACTCAAAAATTTAGAATTTGAGAAAATTTCAGAA
131 CCAATCATTAATGTATGTTTGAAAATATTATACTCAAAAATTTAGAATTTCAGAAAATTTCAGAA
792311 AATCCATCTCCATCGCGAAAACTTGTCTGGAAGCCATTGGATACGTGAATCTACTTTGGCTTAGT
196 AATCCATCTCCATCGCGAAAACTTGTCTGGAAGCCATTGGATACGTGAATCTACTTTGGCTTAGT
792376 TTTCATCTAAACATCATTCTTTTCAAGATCTCAAAACTAGTTATCTT
261 TTTCATCTAAACATCATTCTTTTCAAGATCTCAAAACTAGTTATCTT
792423 C
1 C
792424 ATCTCAATGC
Statistics
Matches: 299, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
307 299 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (307 bp):
CTCAATCTTCAACAAACGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAGATGATTTGCTTC
ACTACTCTTCCGTGAAGGCTTAAGTTTGAATTATTTCAAAGGTCCAACCTGAAAATAAAACATTA
CCAATCATTAATGTATGTTTGAAAATATTATACTCAAAAATTTAGAATTTCAGAAAATTTCAGAA
AATCCATCTCCATCGCGAAAACTTGTCTGGAAGCCATTGGATACGTGAATCTACTTTGGCTTAGT
TTTCATCTAAACATCATTCTTTTCAAGATCTCAAAACTAGTTATCTT
Found at i:793518 original size:8 final size:8
Alignment explanation
Indices: 793493--793643 Score: 120
Period size: 8 Copynumber: 18.4 Consensus size: 8
793483 CCCTATTATT
793493 TTTTTTC-
1 TTTTTTCA
793500 TTTTTCATCA
1 TTTTT--TCA
793510 TTTTTTCA
1 TTTTTTCA
793518 TTTTTTTC-
1 -TTTTTTCA
*
793526 TCTTTCTTCT
1 T-TTT-TTCA
793536 TTTTTTCA
1 TTTTTTCA
793544 -TTTTTCA
1 TTTTTTCA
793551 TTTTTTTCTTCA
1 ---TTTT-TTCA
793563 TTTTTTTCA
1 -TTTTTTCA
793572 TTTTTTC-
1 TTTTTTCA
793579 TTTTTTC-
1 TTTTTTCA
793586 TTTTCTT--
1 TTTT-TTCA
*
793593 TTTTATCA
1 TTTTTTCA
793601 TTTTTTCA
1 TTTTTTCA
793609 TTTTTTCA
1 TTTTTTCA
793617 TTTTTTCA
1 TTTTTTCA
793625 TTTTTTC-
1 TTTTTTCA
793632 TTTTTTCTA
1 TTTTTTC-A
793641 TTT
1 TTT
793644 CTTCTTTAAG
Statistics
Matches: 124, Mismatches: 3, Indels: 32
0.78 0.02 0.20
Matches are distributed among these distances:
6 1 0.01
7 35 0.28
8 48 0.39
9 22 0.18
10 11 0.09
11 3 0.02
12 4 0.03
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:793522 original size:9 final size:9
Alignment explanation
Indices: 793492--793630 Score: 100
Period size: 9 Copynumber: 15.7 Consensus size: 9
793482 CCCCTATTAT
793492 TTTTTTTC-
1 TTTTTTTCA
*
793500 TTTTTCATCA
1 TTTTT-TTCA
793510 -TTTTTTCA
1 TTTTTTTCA
793518 TTTTTTTC-
1 TTTTTTTCA
*
793526 TCTTTCTTC-
1 T-TTTTTTCA
793535 TTTTTTTCA
1 TTTTTTTCA
793544 --TTTTTCA
1 TTTTTTTCA
793551 TTTTTTTCTTCA
1 --TTTTT-TTCA
793563 TTTTTTTCA
1 TTTTTTTCA
**
793572 TTTTTTCTTT
1 TTTTTT-TCA
793582 TTTCTTTTC-
1 TTT-TTTTCA
793591 TTTTTTATCA
1 TTTTTT-TCA
793601 -TTTTTTCA
1 TTTTTTTCA
793609 -TTTTTTCA
1 TTTTTTTCA
793617 -TTTTTTCA
1 TTTTTTTCA
793625 TTTTTT
1 TTTTTT
793631 CTTTTTTCTA
Statistics
Matches: 109, Mismatches: 7, Indels: 29
0.75 0.05 0.20
Matches are distributed among these distances:
7 7 0.06
8 37 0.34
9 45 0.41
10 10 0.09
11 6 0.06
12 4 0.04
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:793595 original size:54 final size:53
Alignment explanation
Indices: 793493--793646 Score: 169
Period size: 53 Copynumber: 2.9 Consensus size: 53
793483 CCCTATTATT
* *
793493 TTTTTTC-TTTTTCATCATTTTTTCATTTTTT-TCTCTTTCTTCTT-TTTT-TCA
1 TTTTTTCATTTTTCTTCATTTTTTCATTTTTTCT-TTTTTCTT-TTCTTTTATCA
793544 -TTTTTCATTTTTTTCTTCATTTTTTTCATTTTTTCTTTTTTCTTTTCTTTTTTATCA
1 TTTTTTCA--TTTTTCTTCA-TTTTTTCATTTTTTCTTTTTTCTTTTC--TTTTATCA
793601 TTTTTTCA-TTTT-TTCATTTTTTCATTTTTTCTTTTTTCTATTTCTT
1 TTTTTTCATTTTTCTTCATTTTTTCATTTTTTCTTTTTTCT-TTTCTT
793647 CTTTAAGCGA
Statistics
Matches: 90, Mismatches: 2, Indels: 21
0.80 0.02 0.19
Matches are distributed among these distances:
50 6 0.07
52 2 0.02
53 34 0.38
54 29 0.32
55 5 0.06
56 4 0.04
57 3 0.03
58 7 0.08
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (53 bp):
TTTTTTCATTTTTCTTCATTTTTTCATTTTTTCTTTTTTCTTTTCTTTTATCA
Found at i:793606 original size:12 final size:11
Alignment explanation
Indices: 793495--793606 Score: 53
Period size: 11 Copynumber: 10.5 Consensus size: 11
793485 CTATTATTTT
793495 TTTTCTTTTTCA
1 TTTT-TTTTTCA
**
793507 TCATTTTTTCA
1 TTTTTTTTTCA
*
793518 TTTTTTTCTC-
1 TTTTTTTTTCA
793528 TTTCTTCTTTT--
1 TTT-TT-TTTTCA
*
793539 TTTCATTTTTCA
1 TTT-TTTTTTCA
793551 TTTTTTTCTTCA
1 TTTTTTT-TTCA
793563 --TTTTTTTCA
1 TTTTTTTTTCA
*
793572 TTTTTTCTT--
1 TTTTTTTTTCA
*
793581 TTTTCTTTTC-
1 TTTTTTTTTCA
*
793591 -TTTTTTATCA
1 TTTTTTTTTCA
793601 TTTTTT
1 TTTTTT
793607 CATTTTTTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
9 18 0.23
10 12 0.16
11 35 0.45
12 12 0.16
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:793631 original size:53 final size:53
Alignment explanation
Indices: 793493--793651 Score: 177
Period size: 54 Copynumber: 2.9 Consensus size: 53
793483 CCCTATTATT
*
793493 TTTTTTC-TTTTTCATCATTTTTTCATTTTTT-TCTCTTTC--TTCTTTTTT-TCA
1 TTTTTTCATTTTT--TCATTTTTTCATTTTTTCT-TTTTTCTTTTCTTTTTTATCA
793544 -TTTTTCATTTTTTTCTTCATTTTTTTCATTTTTTCTTTTTTCTTTTCTTTTTTATCA
1 TTTTTTCA---TTTT-TTCA-TTTTTTCATTTTTTCTTTTTTCTTTTCTTTTTTATCA
*
793601 TTTTTTCATTTTTTCATTTTTTCATTTTTTCTTTTTTCTATTTCTTCTTTA
1 TTTTTTCATTTTTTCATTTTTTCATTTTTTCTTTTTTCT-TTTCTTTTTTA
793652 AGCGAAATAT
Statistics
Matches: 94, Mismatches: 2, Indels: 21
0.80 0.02 0.18
Matches are distributed among these distances:
50 6 0.06
53 26 0.28
54 37 0.39
55 6 0.06
56 9 0.10
57 3 0.03
58 7 0.07
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (53 bp):
TTTTTTCATTTTTTCATTTTTTCATTTTTTCTTTTTTCTTTTCTTTTTTATCA
Found at i:807452 original size:54 final size:54
Alignment explanation
Indices: 807393--807515 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
807383 TGTTGGGAGC
*
807393 AGGGGTATCGGTACCTGCAGTGTAAAATTCAAATATTTCGA-CAGTTAAATGATT
1 AGGGGTATCAGTACCTGCAGTGTAAAATTCAAATATTTCGATC-GTTAAATGATT
* *
807447 AGGGGTATTAGTACTTGCAGTGTAAAATTCAAATATTTCGATCGTTAAATGATT
1 AGGGGTATCAGTACCTGCAGTGTAAAATTCAAATATTTCGATCGTTAAATGATT
807501 AGGGGTATCAGTACC
1 AGGGGTATCAGTACC
807516 CATAAGGGGG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 62 0.98
55 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (54 bp):
AGGGGTATCAGTACCTGCAGTGTAAAATTCAAATATTTCGATCGTTAAATGATT
Found at i:816807 original size:12 final size:13
Alignment explanation
Indices: 816790--816819 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
816780 GGTTTGGGGT
816790 GTTTGAACAACC-
1 GTTTGAACAACCG
816802 GTTTGAACAACCG
1 GTTTGAACAACCG
816815 GTTTG
1 GTTTG
816820 GAGGGTTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (13 bp):
GTTTGAACAACCG
Found at i:818037 original size:43 final size:42
Alignment explanation
Indices: 817916--818124 Score: 220
Period size: 43 Copynumber: 4.9 Consensus size: 42
817906 ATAGTGGCAT
* * *
817916 TTTTTTCCATAAACGCCGCTAATTTTCTTGTCTTTAGTGGTG
1 TTTTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGTG
* * *
817958 TTTTTGCCACAGACACCGCTAATTCTCTTATCTTTAGTGGTG
1 TTTTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGTG
* * * * *
818000 TTTTCGGCAACAAACGCCTCTAATTTTCTTGTCTTTAGTGGCG
1 TTTT-TGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGTG
* * *
818043 TTTTTTACCACAAACGCCGCTAATTCACTTGTCTTTAGTGGTAT
1 -TTTTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGT-G
* * * * *
818087 TTTTTGCTACAAACGTCGTTAATTCTATTGTTTTTAGT
1 TTTTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGT
818125 TGCATTTGTA
Statistics
Matches: 135, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
42 40 0.30
43 91 0.67
44 4 0.03
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGTG
Found at i:818099 original size:86 final size:85
Alignment explanation
Indices: 817907--818124 Score: 247
Period size: 86 Copynumber: 2.6 Consensus size: 85
817897 TTATGATTTA
* * * * * * *
817907 TAGTGGCATTTTTTTCCATAAACGCCGCTAATTTTCTTGTCTTTAGTGGTGTTTTTGCCACAGAC
1 TAGTGGTATTTTTTGCAACAAACGCCGCTAATTTTCTTGTCTTTAGTGGCGTTTTTACCACAAAC
*
817972 ACCGCTAATTCTCTTATCTT
66 ACCGCTAATTCACTTATCTT
* ** *
817992 TAGTGGTGTTTTCGGCAACAAACGCCTCTAATTTTCTTGTCTTTAGTGGCGTTTTTTACCACAAA
1 TAGTGGTATTTTTTGCAACAAACGCCGCTAATTTTCTTGTCTTTAGTGGCG-TTTTTACCACAAA
* *
818057 CGCCGCTAATTCACTTGTCTT
65 CACCGCTAATTCACTTATCTT
* * * * * *
818078 TAGTGGTATTTTTTGCTACAAACGTCGTTAATTCTATTGTTTTTAGT
1 TAGTGGTATTTTTTGCAACAAACGCCGCTAATTTTCTTGTCTTTAGT
818125 TGCATTTGTA
Statistics
Matches: 108, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
85 42 0.39
86 66 0.61
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (85 bp):
TAGTGGTATTTTTTGCAACAAACGCCGCTAATTTTCTTGTCTTTAGTGGCGTTTTTACCACAAAC
ACCGCTAATTCACTTATCTT
Found at i:820727 original size:23 final size:23
Alignment explanation
Indices: 820691--820735 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
820681 TAACAAATTT
* *
820691 ATTTAATCACAATAATATATTAA
1 ATTTAATCAAAATAATAAATTAA
*
820714 ATTTAGTCAAAATAATAAATTA
1 ATTTAATCAAAATAATAAATTA
820736 TGTCAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (23 bp):
ATTTAATCAAAATAATAAATTAA
Found at i:821033 original size:197 final size:199
Alignment explanation
Indices: 820676--821098 Score: 552
Period size: 197 Copynumber: 2.1 Consensus size: 199
820666 ATTTGTAACT
*
820676 AATTGTAACAAATTTATTTAATCACAATAATATATTAAATTTAGTCAAAATAATAAATTATGTCA
1 AATTGTAACAAATTTATTTAATCACAATAACATATTAAATTTAGTCAAAATAATAAATTATGTCA
* * *
820741 AATTTATTTAGTCATAATATTTTCTCAAAATAATAAATGATGAAAAAATTATTTAGTCAAAATAA
66 AATTTATTTAGTCACAATATTTTCTCAAAATAAAAAATGATGAAAAAATTATTTAGTCAAAAAAA
*
820806 AAATCAATAACAAAAATTAATTTATCAATATAA-AAATTTACGATAAATAACA-T-TTTTCACAA
131 AAATCAATAACAAAAATTAATTTATCAATATAACAAA-TTACGACAAATAACATTGTTTTCACAA
820868 TAATA
195 TAATA
* * * * *
820873 AATTGAAACAAACTTATTTAGTCACAATACCATATTAAATTTAGTCAAAATAA-AAATTATTTCA
1 AATTGTAACAAATTTATTTAATCACAATAACATATTAAATTTAGTCAAAATAATAAATTATGTCA
* * * * *
820937 AATTTATTTTGTTACAATATTTTCTCAAAATAAAAACAT-TTGACAAATTTATTTAGTCATAATA
66 AATTTATTTAGTCACAATATTTTCTCAAAATAAAAA-ATGATGAAAAAATTATTTAGTCA-AA-A
* ** * * * *
821001 AAAAAAT-TATAACAAATGTTAATTTCTCAATATAACGAATTATGACAAATAATATTGTTTTCAC
128 AAAAAATCAATAACAAAAATTAATTTATCAATATAACAAATTACGACAAATAACATTGTTTTCAC
*
821065 AATAATG
193 AATAATA
*
821072 AATTGTAACAAATTTATTTATTCACAA
1 AATTGTAACAAATTTATTTAATCACAA
821099 AAAAATTTAT
Statistics
Matches: 194, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
196 59 0.30
197 88 0.45
198 10 0.05
199 37 0.19
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.37
Consensus pattern (199 bp):
AATTGTAACAAATTTATTTAATCACAATAACATATTAAATTTAGTCAAAATAATAAATTATGTCA
AATTTATTTAGTCACAATATTTTCTCAAAATAAAAAATGATGAAAAAATTATTTAGTCAAAAAAA
AAATCAATAACAAAAATTAATTTATCAATATAACAAATTACGACAAATAACATTGTTTTCACAAT
AATA
Found at i:821254 original size:19 final size:20
Alignment explanation
Indices: 821214--821254 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
821204 TTTAAGTTAA
* *
821214 TTGTGATAAAATTTACTTTT
1 TTGTGATAAAATTAAATTTT
821234 TTGTGATAAAA-TAAATTTT
1 TTGTGATAAAATTAAATTTT
821253 TT
1 TT
821255 ATTTCAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (20 bp):
TTGTGATAAAATTAAATTTT
Found at i:821689 original size:23 final size:23
Alignment explanation
Indices: 821659--821717 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
821649 TAATTTCAAC
*
821659 GTGATTCATGCCATGCAGCACAA
1 GTGATTCATACCATGCAGCACAA
821682 GTGATTCATACCATGCAGCACAA
1 GTGATTCATACCATGCAGCACAA
821705 GTGATTCATACCA
1 GTGATTCATACCA
821718 AACAAATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (23 bp):
GTGATTCATACCATGCAGCACAA
Found at i:821952 original size:15 final size:15
Alignment explanation
Indices: 821932--821960 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
821922 TTTATTATTA
821932 ATATTTAATGATTTG
1 ATATTTAATGATTTG
821947 ATATTTAATGATTT
1 ATATTTAATGATTT
821961 AGTAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATATTTAATGATTTG
Found at i:821971 original size:21 final size:21
Alignment explanation
Indices: 821916--822055 Score: 77
Period size: 21 Copynumber: 6.9 Consensus size: 21
821906 TCGATACTAC
* *
821916 TAATGATTTATTATTAATATT
1 TAATGATTTAGTAATAATATT
821937 TAATGATTT-G-----ATATT
1 TAATGATTTAGTAATAATATT
821952 TAATGATTTAGTAATAATA--
1 TAATGATTTAGTAATAATATT
*
821971 T-A--ATTTAGTAATAATTACTAA
1 TAATGATTTAGTAATAA-TA-T-T
* *
821992 TAATGATTTATTATTAATATT
1 TAATGATTTAGTAATAATATT
* *
822013 TAATGATTTAATACTAATGATT
1 TAATGATTTAGTAATAAT-ATT
*
822035 TAATAATGATTAGTAATAATA
1 TAATGAT--TTAGTAATAATA
822056 AAATTATAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
15 14 0.15
16 13 0.14
17 2 0.02
18 1 0.01
19 1 0.01
21 29 0.31
22 11 0.12
23 3 0.03
24 19 0.20
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (21 bp):
TAATGATTTAGTAATAATATT
Found at i:822045 original size:11 final size:14
Alignment explanation
Indices: 822013--822039 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
822003 TATTAATATT
822013 TAATGATTTAATAC
1 TAATGATTTAATAC
822027 TAATGATTTAATA
1 TAATGATTTAATA
822040 ATGATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (14 bp):
TAATGATTTAATAC
Found at i:822148 original size:16 final size:16
Alignment explanation
Indices: 822127--822166 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
822117 ATTTAAATCA
*
822127 AATTTATAAATAGTTG
1 AATTTATAAATAGTCG
*
822143 AATTTATAACTAGTCG
1 AATTTATAAATAGTCG
822159 AATTTATA
1 AATTTATA
822167 TTTAACATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (16 bp):
AATTTATAAATAGTCG
Found at i:823272 original size:11 final size:11
Alignment explanation
Indices: 823258--823320 Score: 72
Period size: 11 Copynumber: 5.4 Consensus size: 11
823248 ATATTTAATC
823258 ATTATTAAATA
1 ATTATTAAATA
823269 ATTATTAGTAATA
1 ATTATTA--AATA
823282 ATTATTAAATA
1 ATTATTAAATA
*
823293 ATTATTACTAATC
1 ATTATTA--AATA
*
823306 ATTATTAAATC
1 ATTATTAAATA
823317 ATTA
1 ATTA
823321 GTTGTAACTA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
11 26 0.55
13 21 0.45
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTATTAAATA
Found at i:823280 original size:24 final size:24
Alignment explanation
Indices: 823253--823320 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
823243 TTTAAATATT
*
823253 TAATCATTATTAAATAATTATTAG
1 TAATCATTATTAAATAATTATTAC
*
823277 TAATAATTATTAAATAATTATTAC
1 TAATCATTATTAAATAATTATTAC
*
823301 TAATCATTATTAAATCATTA
1 TAATCATTATTAAATAATTA
823321 GTTGTAACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (24 bp):
TAATCATTATTAAATAATTATTAC
Found at i:823306 original size:48 final size:48
Alignment explanation
Indices: 823253--823370 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 48
823243 TTTAAATATT
823253 TAATCATTATTAAATAATTA-TTAGTAA-TAATTATTAA-ATAATTATTAC
1 TAATCATTATTAAATAATTAGTT-GTAACT-ATTA-TAATATAATTATTAC
* * *
823301 TAATCATTATTAAATCATTAGTTGTAACTATTATAATTTCATTATTAC
1 TAATCATTATTAAATAATTAGTTGTAACTATTATAATATAATTATTAC
* * *
823349 TAATTATTACTAAATTATTAGT
1 TAATCATTATTAAATAATTAGT
823371 ATCAAATCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
47 3 0.05
48 55 0.90
49 3 0.05
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (48 bp):
TAATCATTATTAAATAATTAGTTGTAACTATTATAATATAATTATTAC
Found at i:823356 original size:24 final size:24
Alignment explanation
Indices: 823253--823443 Score: 106
Period size: 24 Copynumber: 7.8 Consensus size: 24
823243 TTTAAATATT
* * *
823253 TAATCATTATTAAATAATTATTAG
1 TAATTATTATTAAATCATTATTAC
* *
823277 TAATAATTATTAAATAATTATTAC
1 TAATTATTATTAAATCATTATTAC
* *
823301 TAATCATTATTAAATCATTAGTT-G
1 TAATTATTATTAAATCATTA-TTAC
* *
823325 TAACTATTA-TAATTTCATTATTAC
1 TAATTATTATTAA-ATCATTATTAC
* * *
823349 TAATTATTACTAAATTATTAGTA-
1 TAATTATTATTAAATCATTATTAC
* * *
823372 TCAA--ATCATTAAAT-ATTAATAA
1 T-AATTATTATTAAATCATTATTAC
*
823394 TAAATTATTATTAACAATCATTATTAAA
1 T-AATTATTATT-A-AATCATTATT-AC
*
823422 TCATATCATTATTAAATCATTA
1 T-A-ATTATTATTAAATCATTA
823444 AATATCAAAT
Statistics
Matches: 133, Mismatches: 21, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
21 6 0.05
22 11 0.08
23 6 0.05
24 75 0.56
25 6 0.05
26 3 0.02
27 13 0.10
28 5 0.04
29 8 0.06
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (24 bp):
TAATTATTATTAAATCATTATTAC
Found at i:823416 original size:13 final size:15
Alignment explanation
Indices: 823400--823441 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
823390 ATAATAAATT
823400 ATTATTAA-CA-ATC
1 ATTATTAATCATATC
823413 ATTATTAAATCATATC
1 ATTATT-AATCATATC
823429 ATTATTAAATCAT
1 ATTATT-AATCAT
823442 TAAATATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.23
14 2 0.08
15 2 0.08
16 16 0.62
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTATTAATCATATC
Found at i:823429 original size:16 final size:16
Alignment explanation
Indices: 823410--823441 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
823400 ATTATTAACA
823410 ATCATTATTAAATCAT
1 ATCATTATTAAATCAT
823426 ATCATTATTAAATCAT
1 ATCATTATTAAATCAT
823442 TAAATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
ATCATTATTAAATCAT
Found at i:823455 original size:15 final size:15
Alignment explanation
Indices: 823435--823463 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
823425 TATCATTATT
823435 AAATCATTAAATATC
1 AAATCATTAAATATC
823450 AAATCATTAAATAT
1 AAATCATTAAATAT
823464 TAATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATCATTAAATATC
Found at i:824142 original size:12 final size:12
Alignment explanation
Indices: 824125--824149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
824115 GAGCCAGAAT
824125 AGCCCGAGGAGC
1 AGCCCGAGGAGC
824137 AGCCCGAGGAGC
1 AGCCCGAGGAGC
824149 A
1 A
824150 AGCACAACAA
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:0.28, C:0.32, G:0.40, T:0.00
Consensus pattern (12 bp):
AGCCCGAGGAGC
Found at i:825064 original size:22 final size:23
Alignment explanation
Indices: 825039--825082 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
825029 AATTAAGTTT
825039 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
825061 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
825083 CCGTTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:845278 original size:36 final size:35
Alignment explanation
Indices: 845204--845279 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 35
845194 ATTATTCGTT
845204 TATTTGAGTTGTTATTATTTTAGTTCATTATATTAA
1 TATTTGAGTTGTTATTATTTTA-TTCATTATATTAA
* * * *
845240 TATTTTAGTTTTTATTATATTT-TTCTTTATCTTGAA
1 TATTTGAGTTGTTATTAT-TTTATTCATTATATT-AA
845276 TATT
1 TATT
845280 AACAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 9 0.26
36 22 0.65
37 3 0.09
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (35 bp):
TATTTGAGTTGTTATTATTTTATTCATTATATTAA
Found at i:846716 original size:20 final size:20
Alignment explanation
Indices: 846688--846726 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
846678 ATATTAAGCC
*
846688 CTTTCGTATTGATACTAACT
1 CTTTAGTATTGATACTAACT
846708 CTTTAGTATTGATACTAAC
1 CTTTAGTATTGATACTAAC
846727 CCTTCTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (20 bp):
CTTTAGTATTGATACTAACT
Found at i:846740 original size:20 final size:20
Alignment explanation
Indices: 846686--846742 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
846676 CAATATTAAG
* *
846686 CCCTTTCGTATTGATACTAA
1 CCCTTTAGTACTGATACTAA
* *
846706 CTCTTTAGTATTGATACTAA
1 CCCTTTAGTACTGATACTAA
846726 CCCTTCTA-TACTGATAC
1 CCCTT-TAGTACTGATAC
846743 CCACCTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (20 bp):
CCCTTTAGTACTGATACTAA
Found at i:847088 original size:170 final size:170
Alignment explanation
Indices: 846806--847141 Score: 636
Period size: 170 Copynumber: 2.0 Consensus size: 170
846796 AGTGTTGTAA
* *
846806 CAATACTCAAGGAATAATAACAATAGATTCTGAACAGAGTATCAATACTTCCCTGAGTATCAATA
1 CAATACTCAAGGAATAATAACAATAGATTATGAACAGAGTATCAATACTTCCCAGAGTATCAATA
846871 ATCTAAAATAGATTATGATATATTTTAAATGGTTTGAGTGTGTCAAAGCATGTTCATGAACCATA
66 ATCTAAAATAGATTATGATATATTTTAAATGGTTTGAGTGTGTCAAAGCATGTTCATGAACCATA
846936 GGATTGATTGCATGGAAGTTTGGTGGTTTGTTCTTGGTAT
131 GGATTGATTGCATGGAAGTTTGGTGGTTTGTTCTTGGTAT
**
846976 CAATACTCAAGGAATCGTAACAATAGATTATGAACAGAGTATCAATACTTCCCAGAGTATCAATA
1 CAATACTCAAGGAATAATAACAATAGATTATGAACAGAGTATCAATACTTCCCAGAGTATCAATA
847041 ATCTAAAATAGATTATGATATATTTTAAATGGTTTGAGTGTGTCAAAGCATGTTCATGAACCATA
66 ATCTAAAATAGATTATGATATATTTTAAATGGTTTGAGTGTGTCAAAGCATGTTCATGAACCATA
847106 GGATTGATTGCATGGAAGTTTGGTGGTTTGTTCTTG
131 GGATTGATTGCATGGAAGTTTGGTGGTTTGTTCTTG
847142 CATGTTCATA
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 162 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (170 bp):
CAATACTCAAGGAATAATAACAATAGATTATGAACAGAGTATCAATACTTCCCAGAGTATCAATA
ATCTAAAATAGATTATGATATATTTTAAATGGTTTGAGTGTGTCAAAGCATGTTCATGAACCATA
GGATTGATTGCATGGAAGTTTGGTGGTTTGTTCTTGGTAT
Found at i:847213 original size:21 final size:20
Alignment explanation
Indices: 847184--847253 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
847174 AAAATGATCG
*
847184 ATCCCTTTGGAAAAGAATCA
1 ATCCCTTTTGAAAAGAATCA
847204 ATCCCTTTTGAAAA-ATGATCA
1 ATCCCTTTTGAAAAGA--ATCA
*
847225 ATCCGTTTT-AAAAGCAAT-A
1 ATCCCTTTTGAAAAG-AATCA
847244 CATCCCTTTT
1 -ATCCCTTTT
847254 TAATGTTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
19 2 0.05
20 27 0.64
21 12 0.29
22 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCCCTTTTGAAAAGAATCA
Found at i:847249 original size:41 final size:41
Alignment explanation
Indices: 847172--847253 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
847162 GCATTTTCTA
*
847172 GAAAAATGATCGATCCCTTTGGAAAAGAATCAATCCCTTTT
1 GAAAAATGATCAATCCCTTTGGAAAAGAATCAATCCCTTTT
* *
847213 GAAAAATGATCAATCCGTTT-TAAAAGCAAT-ACATCCCTTTT
1 GAAAAATGATCAATCCCTTTGGAAAAG-AATCA-ATCCCTTTT
847254 TAATGTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 6 0.17
41 30 0.83
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (41 bp):
GAAAAATGATCAATCCCTTTGGAAAAGAATCAATCCCTTTT
Found at i:848126 original size:20 final size:20
Alignment explanation
Indices: 848097--848136 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
848087 TAAAATGAAT
848097 AAATAAAT-AATCAAAAAAG
1 AAATAAATAAATCAAAAAAG
*
848116 AAATAAAATAAATGAAAAAAG
1 AAAT-AAATAAATCAAAAAAG
848137 TTAAAAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (20 bp):
AAATAAATAAATCAAAAAAG
Found at i:849337 original size:28 final size:28
Alignment explanation
Indices: 849306--849371 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
849296 TATTGTGTCG
*
849306 ACTTCTTTTCCTTGTAATTTTCAGTAGT
1 ACTTTTTTTCCTTGTAATTTTCAGTAGT
849334 ACTTTTTTTCCTTGTAATTTTCAGTAGT
1 ACTTTTTTTCCTTGTAATTTTCAGTAGT
*
849362 AGTTTTTTTC
1 ACTTTTTTTC
849372 TTTCTCTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.58
Consensus pattern (28 bp):
ACTTTTTTTCCTTGTAATTTTCAGTAGT
Found at i:854263 original size:133 final size:134
Alignment explanation
Indices: 854023--854297 Score: 430
Period size: 133 Copynumber: 2.1 Consensus size: 134
854013 AGTACCTGGT
* * *
854023 AAAACCCAAGAAACAATGTACCTTAGACACATTCTTGGGTGGTTCCCACTCAACTATGATTTGGA
1 AAAACCCAAGAAACAATGTACCTGAGACACATTCTTGGGTGGTTCCCACTCAAATAAGATTTGGA
* * * *
854088 TCTTTTAAGGGTCAATTCAAATGCCATATATTGTTGTTACATGACA-CAAAATAAAACGTCTAAC
66 TCTTTTAAGGGTCAACTCAAATGCCATATATTGTTGTGACATGACATAAAAATAAAACCTCTAAC
854152 AACC
131 AACC
*
854156 AAAACCCAAGAAACAGTGTACC-GAGGACACATTCTTGGGTGGTTCCCACTCAAATACAG-TTTG
1 AAAACCCAAGAAACAATGTACCTGA-GACACATTCTTGGGTGGTTCCCACTCAAATA-AGATTTG
*
854219 GATCTTTTAAGGGTCAACTCAAATGCCATATATTGTTGTGACATGACATAAAAATAAAACCTCTG
64 GATCTTTTAAGGGTCAACTCAAATGCCATATATTGTTGTGACATGACATAAAAATAAAACCTCTA
854284 ACAACC
129 ACAACC
854290 AAAACCCA
1 AAAACCCA
854298 CACTTCCTAT
Statistics
Matches: 130, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
132 1 0.01
133 101 0.78
134 28 0.22
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (134 bp):
AAAACCCAAGAAACAATGTACCTGAGACACATTCTTGGGTGGTTCCCACTCAAATAAGATTTGGA
TCTTTTAAGGGTCAACTCAAATGCCATATATTGTTGTGACATGACATAAAAATAAAACCTCTAAC
AACC
Found at i:864347 original size:16 final size:16
Alignment explanation
Indices: 864331--864362 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
864321 TTATAATAAT
864331 AAAAATAAAATAAAATA
1 AAAAAT-AAATAAAATA
864348 AAAAATAAATAAAAT
1 AAAAATAAATAAAAT
864363 CTCAGACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAATAAAATA
Found at i:864594 original size:53 final size:53
Alignment explanation
Indices: 864527--864731 Score: 302
Period size: 53 Copynumber: 3.9 Consensus size: 53
864517 CTTCGACCAG
*
864527 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGTCTA
1 CGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGTCTA
* * * *
864580 CTGGTTCATTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCCTA
1 CGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGTCTA
* * * * * * *
864633 CGGGTTCGCTCCCTCTTGCTTCGGGGAGTAGAATTTGAATAATCTTCTATTTA
1 CGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGTCTA
864686 CGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
1 CGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
864732 ATGGTGTGAT
Statistics
Matches: 133, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 133 1.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (53 bp):
CGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGTCTA
Found at i:865230 original size:42 final size:41
Alignment explanation
Indices: 865110--865233 Score: 185
Period size: 42 Copynumber: 3.0 Consensus size: 41
865100 GGTCTTATGG
* * * *
865110 ATGACCCGAAGGATTTATCATCTTGCTCGAGAGACTCACAA
1 ATGACCCGAAGGATTTATCATCATGCTCGAAAGACTTACTA
865151 ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTA
1 ATGACCCGAAGGATTT-ATCATCATGCTCGAAAGACTTACTA
*
865193 ATGACCCGAAGGATTTCATCATCATCCTCGAAAGACTTACT
1 ATGACCCGAAGGATTT-ATCATCATGCTCGAAAGACTTACT
865234 GATGGATTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 16 0.21
42 60 0.79
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
ATGACCCGAAGGATTTATCATCATGCTCGAAAGACTTACTA
Found at i:865330 original size:43 final size:43
Alignment explanation
Indices: 865281--865367 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
865271 CAGTTACCCG
**
865281 AAGGATTTGATCATCATACTCGAAAGACTTACTGATGACACTT
1 AAGGATTACATCATCATACTCGAAAGACTTACTGATGACACTT
* * *
865324 AAGGATTACATCATCATGCTTGAAAGACTTACTGATGGCACTT
1 AAGGATTACATCATCATACTCGAAAGACTTACTGATGACACTT
865367 A
1 A
865368 CTGACAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (43 bp):
AAGGATTACATCATCATACTCGAAAGACTTACTGATGACACTT
Found at i:865483 original size:93 final size:92
Alignment explanation
Indices: 865324--865542 Score: 330
Period size: 93 Copynumber: 2.3 Consensus size: 92
865314 GATGACACTT
* *
865324 AAGGATTACATCATCATGCTTGAAAGACTTACTGATGGCACTTACTGACAAATTTACTTCACTAC
1 AAGGATTA-ATCATCATACTCGAAAGACTTACTGATGGCACTTACTGACAAATTTACTTCACTAC
865389 TCTTCCGTGAAGCCTTAAAAATTACCCG
65 TCTTCCGTGAAGCCTTAAAAATTACCCG
* * *
865417 AAGGATTTAATCATCATACTCGAAAGACTTATTGATGGCACTTACTGACAGATTTGCTTCACTAC
1 AAGGA-TTAATCATCATACTCGAAAGACTTACTGATGGCACTTACTGACAAATTTACTTCACTAC
*
865482 TCTTCCGTGAAGGCTTAAAAATTACCCG
65 TCTTCCGTGAAGCCTTAAAAATTACCCG
* * *
865510 AAGGACTTAAGCAACATTCTCGAAAGACTTACT
1 AAGGA-TTAATCATCATACTCGAAAGACTTACT
865543 AAGTGCGAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
93 111 0.97
94 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (92 bp):
AAGGATTAATCATCATACTCGAAAGACTTACTGATGGCACTTACTGACAAATTTACTTCACTACT
CTTCCGTGAAGCCTTAAAAATTACCCG
Found at i:865706 original size:41 final size:43
Alignment explanation
Indices: 865656--865754 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 43
865646 AGGTCTTATG
** * *
865656 GATGGCCCGAAGGACTT-ATCATTTTGCTCTAAAGGCTTAC-A
1 GATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTA
* *
865697 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTA
1 GATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTA
865740 -ATGGCCCGAAGGACT
1 GATGGCCCGAAGGACT
865755 CTAATTGTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 15 0.31
42 32 0.67
43 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
GATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTA
Found at i:872048 original size:21 final size:21
Alignment explanation
Indices: 872008--872048 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
871998 TTCAATACGA
*
872008 AATGGTCTTCGTGTCTTTGTG
1 AATGGTCTTCGTGTCCTTGTG
* *
872029 AATGGTCTTCTTTTCCTTGT
1 AATGGTCTTCGTGTCCTTGT
872049 TATAACTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (21 bp):
AATGGTCTTCGTGTCCTTGTG
Found at i:872556 original size:47 final size:46
Alignment explanation
Indices: 872468--872557 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 46
872458 ACATTAAAAC
*
872468 CCTAACCGCATGATATCTAATTCGCATACTTGTTCGAGAAAAATAAA
1 CCTAACCGCATGATATCTAATTCGCATACTTATTC-AGAAAAATAAA
*
872515 CCTAACCGCATGATATCTAGTTCGCATACATTTATTC-GAAAAA
1 CCTAACCGCATGATATCTAATTCGCATAC--TTATTCAGAAAAA
872558 CAAAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 34 0.87
49 5 0.13
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (46 bp):
CCTAACCGCATGATATCTAATTCGCATACTTATTCAGAAAAATAAA
Found at i:875795 original size:11 final size:11
Alignment explanation
Indices: 875779--875818 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
875769 TTAATATTAT
875779 AATAAAAATAA
1 AATAAAAATAA
875790 AAT-AAAATAA
1 AATAAAAATAA
875800 AA-AATAAAT-A
1 AATAA-AAATAA
875810 AATAAAAAT
1 AATAAAAAT
875819 CCGGACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:875800 original size:16 final size:16
Alignment explanation
Indices: 875779--875818 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
875769 TTAATATTAT
875779 AATAAAAATA-AAATAA
1 AATAAAAATATAAAT-A
875795 AATAAAAA-ATAAATA
1 AATAAAAATATAAATA
875810 AATAAAAAT
1 AATAAAAAT
875819 CCGGACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AATAAAAATATAAATA
Found at i:877037 original size:221 final size:220
Alignment explanation
Indices: 876606--877039 Score: 809
Period size: 221 Copynumber: 2.0 Consensus size: 220
876596 AATCATTGGG
876606 TGCTTCCAAACTGACAAGGATGACTCACGATCGCAATCGGGTTTTGTTTTGTCTTAATGGAGGTG
1 TGCTTCCAAACTGACAAGGATGACTCACGATCGCAATCGGGTTTTGTTTTGTCTTAATGGAGGTG
*
876671 TTGTGAGCTGGAAAAGTTCGAAGCAGACACAATAGCAGATTCTACAACAGAGGCTGAATACATTG
66 TTGTGAGCTGGAAAAGTTCGAAGCAGACACAACAGCAGATTCTACAACAGAGGCTGAATACATTG
876736 CAGCCATTGAAGCAGCAAAAGAGGTTGTTTGGATCAAGAAGTTCATATTGGAATTAGGGGTTGTT
131 CAGCCATTGAAGCAGCAAAAGAGGTTGTTTGGATCAAGAAGTTCATATTGGAATTAGGGGTTGTT
876801 CCCAACATATCAGATGTTCTAGGGT
196 CCCAACATATCAGATGTTCTAGGGT
876826 TGCTTCCAAACTGACAAGGATGACTCACGATCGCAATCGGGTTTTGTGTTTTGTCTTAATGGAGG
1 TGCTTCCAAACTGACAAGGATGACTCACGATCGCAATCGGG-TTT-TGTTTTGTCTTAATGGAGG
*
876891 TGTTGTGAGCTGGAAAAGTTCGAAGCAAGACACAACAGCAGATTCTACAATAGAGGCTGAATACA
64 TGTTGTGAGCTGGAAAAGTTCGAAGC-AGACACAACAGCAGATTCTACAACAGAGGCTGAATACA
876956 TTGCAGCCATTGAAGCAGC-AAA-AGGTTGTTTGGATCAAGAAGTTCATATTGGAATTAGGGGTT
128 TTGCAGCCATTGAAGCAGCAAAAGAGGTTGTTTGGATCAAGAAGTTCATATTGGAATTAGGGGTT
877019 GTTCCCAACATATCAGATGTT
193 GTTCCCAACATATCAGATGTT
877040 GTAGAACTCC
Statistics
Matches: 209, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
220 41 0.20
221 65 0.31
222 48 0.23
223 55 0.26
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (220 bp):
TGCTTCCAAACTGACAAGGATGACTCACGATCGCAATCGGGTTTTGTTTTGTCTTAATGGAGGTG
TTGTGAGCTGGAAAAGTTCGAAGCAGACACAACAGCAGATTCTACAACAGAGGCTGAATACATTG
CAGCCATTGAAGCAGCAAAAGAGGTTGTTTGGATCAAGAAGTTCATATTGGAATTAGGGGTTGTT
CCCAACATATCAGATGTTCTAGGGT
Found at i:891078 original size:55 final size:55
Alignment explanation
Indices: 890994--891104 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
890984 TCTCTTACCT
890994 ACGGTTTAGAGTGGTGTATTCACCTCTGGAAGATTCCTCGCACAGTAATGGTGGG
1 ACGGTTTAGAGTGGTGTATTCACCTCTGGAAGATTCCTCGCACAGTAATGGTGGG
891049 ACGGTTTAGAGTGGTGTATTCACCTCTGGAAGATTCCTCGCACAGTAATGGTGGG
1 ACGGTTTAGAGTGGTGTATTCACCTCTGGAAGATTCCTCGCACAGTAATGGTGGG
891104 A
1 A
891105 AGGTGTCCCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (55 bp):
ACGGTTTAGAGTGGTGTATTCACCTCTGGAAGATTCCTCGCACAGTAATGGTGGG
Found at i:895891 original size:133 final size:133
Alignment explanation
Indices: 895652--896612 Score: 1230
Period size: 133 Copynumber: 7.3 Consensus size: 133
895642 GTGATGAATG
* * * *
895652 AAAATGTCGATCCACCTCCTTCTGTGTTGGAATCAAAACAAGGTGT-G-TGTGCTGATCTACCTC
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATC-GAACGAGATGTCGATGT--TGATCTACCTC
* * *
895715 CTTCTGTGATAGAATTGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATAGATTTGAACG
63 CTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG
895780 AAAATA
128 AAAATA
* * * * * *
895786 AAAATGGCGATCCACCTCATTCTGTGATAGAATCAAACGAGATGTTGTTGTTGATCTACCTCCTT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
* * * * *
895851 CTGCGATAGAATCAAGCTAAAAGTTGATGCTGATTCAACTCCTTCTTCGATGGATTTGAGC-AAA
66 CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
*
895915 GT-
131 ATA
* * * * * * * *
895917 -AAATGTCGATCCACCTCATTCTATGATGGAATCGAATGAGATATCGGTGCTGATCTGCCTCATT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
* * * * ** **
895981 TTGTGATAGAATAGAGCTATAAGTTAACATTGAT-CATACTCCTTCTGCGATTAATTTGAGCGAA
66 CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCA-ACTCCTTCTGCGATGGATTTGAGCGAA
896045 AATA
130 AATA
* * *
896049 AAAATGCCGATCCACCTCATTCTATGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
* * *
896114 CTGTGATAGAATAGACCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
66 CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
896179 ATA
131 ATA
* * * *
896182 AAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACAAGATGTCGGTGCTGATCTACCTCTT
1 AAAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACGAGATGTCGATGTTGATCTACCTCCT
* * * *
896247 TCTGTGATAGAATCGTGCAAAAAGTTGACGCTAATCCAACTCCTTCTACGATGGATTTGAGCGAA
65 TCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA
896312 AATA
130 AATA
*
896316 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCAT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
* * *
896381 CTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACT-C--CTACGATGGATTTGAGTG-AA
66 CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
*
896442 GT-
131 ATA
*
896444 -AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTC-AGTGTTGATCTACCTTCT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGA-TGTTGATCTACCTCCT
*
896507 TCTGTGATAGAA-CGAGGTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA
65 TCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAA
896571 AATA
130 AATA
* * * *
896575 AAAATATCAATCTACCTCCTTCTGTGATGGAAGCGAAC
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAAC
896613 CAAGGTTAAA
Statistics
Matches: 725, Mismatches: 87, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
126 27 0.04
127 72 0.10
129 21 0.03
130 119 0.16
131 4 0.01
132 38 0.05
133 284 0.39
134 157 0.22
135 3 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (133 bp):
AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
ATA
Found at i:896167 original size:263 final size:262
Alignment explanation
Indices: 895653--896612 Score: 1270
Period size: 263 Copynumber: 3.6 Consensus size: 262
895643 TGATGAATGA
* * * *
895653 AAATGTCGATCCACCTCCTTCTGTGTTGGAATCAAAACAAGGTGT-GTGTGCTGATCTACCTCCT
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATC-GAACGAGATGTCG-GTGCTGATCTACCT-CT
* *
895717 TCTGTGATAGAATTGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGAT-AGATTTGAACGA
63 TCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGA-ATTTGAGCGA
* * * * *
895781 AAATAAAAATGGCGATCCACCTCATTCTGTGATAGAATCAAACGAGATGTTGTTGTTGATCTACC
127 AAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACC
* * * * *
895846 TCCTTCTGCGATAGAATCA-AGCTAAAAGTTGATGCTGATTCAACTCCTTCTTCGATGGATTTGA
192 TCCTTCTGTGATAGAAT-AGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTACGATGGATTTGA
895910 GCAAAGT
256 GCAAAGT
* * * * * *
895917 AAATGTCGATCCACCTCATTCTATGATGGAATCGAATGAGATATCGGTGCTGATCTGCCTCATTT
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGTGCTGATCTACCTC-TTC
* * * ** *
895982 TGTGATAGAATAGAGCTATAAGTTAACATTGAT-CATACTCCTTCTGCGATTAATTTGAGCGAAA
65 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCA-ACTCCTTCTGCGATGAATTTGAGCGAAA
* *
896046 ATAAAAATGCCGATCCACCTCATTCTATGATGGAATCGAACGAGATGTCGATGTTGATCTACCTC
129 ATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTC
* *
896111 CTTCTGTGATAGAATAGACCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG
194 CTTCTGTGATAGAATAGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTACGATGGATTTGAGC-
*
896176 AAAAT
258 AAAGT
*
896181 AAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACAAGATGTCGGTGCTGATCTACCTCT
1 --AAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACGAGATGTCGGTGCTGATCTACCTC-
* * * * *
896246 TTCTGTGATAGAATCGTGCAAAAAGTTGACGCTAATCCAACTCCTTCTACGATGGATTTGAGCGA
62 TTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGAATTTGAGCGA
*
896311 AAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACC
127 AAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACC
* *
896376 TCCATCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACT-C--CTACGATGGATTTGAG
192 TCCTTCTGTGATAGAATAGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTACGATGGATTTGAG
**
896438 TGAAGT
257 CAAAGT
* *
896444 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCAGTGTTGATCTACCTTCTTC
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGTGCTGATCTACC-TCTTC
* *
896509 TGTGATAGAA-CGAGGTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
65 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGAATTTGAGCGAAAA
* * * * *
896573 TAAAAATATCAATCTACCTCCTTCTGTGATGGAAGCGAAC
130 TAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAAC
896613 CAAGGTTAAA
Statistics
Matches: 615, Mismatches: 70, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
259 85 0.14
260 40 0.07
261 31 0.05
262 4 0.01
263 192 0.31
264 51 0.08
266 28 0.05
267 182 0.30
268 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (262 bp):
AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGTGCTGATCTACCTCTTCT
GTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGAATTTGAGCGAAAAT
AAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCT
TCTGTGATAGAATAGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTACGATGGATTTGAGCAAA
GT
Found at i:896415 original size:44 final size:44
Alignment explanation
Indices: 895660--896560 Score: 207
Period size: 44 Copynumber: 20.5 Consensus size: 44
895650 TGAAAATGTC
* *
895660 GATCCACCTCCTTCTGTGTTGGAATC-A--AAACAAGGTGTGTGTGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAA-AA-GT-TG-ATGCT
* * * * *
895705 GATCTACCTCCTTCTGTGATAGAATTGAGCTAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * * * ***
895749 GATCCAACTCCTTCTGCGATAGATTTGAACGAAAATA-AAAATGGC-
1 GATCCACCTCCTTCTGTGATGGAATCGAGC-AAAA-AGTTGAT-GCT
* * * * * * * * *
895794 GATCCACCTCATTCTGTGATAGAATCAAACGAGATGTTGTTGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * *
895838 GATCTACCTCCTTCTGCGATAGAATCAAGCTAAAAGTTGATGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * **
895882 GATTCAACTCCTTCT-TCGATGGATTTGAGC--AAAGTAAATG-T
1 GATCCACCTCCTTCTGT-GATGGAATCGAGCAAAAAGTTGATGCT
* * * * * *
895923 CGATCCACCTCATTCTATGATGGAATCGAATG-AGATA-TCGGTGCT
1 -GATCCACCTCCTTCTGTGATGGAATCG-A-GCAAAAAGTTGATGCT
** * * * * * * * ***
895968 GATCTGCCTCATTTTGTGATAGAATAGAGCTATAAGTTAACATT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * *** *
896012 GAT-CATACTCCTTCTGCGAT-TAATTTGAGCGAAAATA-AAAATGCC
1 GATCCA-CCTCCTTCTGTGATGGAA-TCGAGC-AAAA-AGTTGATGCT
* * * * * * * *
896057 GATCCACCTCATTCTATGATGGAATCGAACGAGATGTCGATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * *
896101 GATCTACCTCCTTCTGTGATAGAATAGACCAAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * ***
896145 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATA-AAAATG-T
1 GATCCACCTCCTTCTGTGATGGAATCGAGC-AAAA-AGTTGATGCT
* * * * *
896189 CGATCCACCTCCTTCTGTGATGGAAATCGAACAAGATGTCGGTGCT
1 -GATCCACCTCCTTCTGTGATGG-AATCGAGCAAAAAGTTGATGCT
* * * * *
896235 GATCTACCTCTTTCTGTGATAGAATCGTGCAAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * ** * * ***
896279 AATCCAACTCCTTCTACGATGGATTTGAGCGAAAATA-AAAATG-T
1 GATCCACCTCCTTCTGTGATGGAATCGAGC-AAAA-AGTTGATGCT
* * * * * *
896323 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * *
896368 GATCTACCTCCATCTGTGATAGAATCGAGCAAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * ** **
896412 GATCCAACTCCTAC---GATGGATTTGAG--TGAAGTAAATG-T
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* * * * * *
896450 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATG-TCAGTGTT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGA-TGCT
* * * ** *
896495 GATCTACCTTCTTCTGTGATAGAA-CGAGGTAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
* *
896538 GATCCAACTCCTTCTGCGATGGA
1 GATCCACCTCCTTCTGTGATGGA
896561 TTTGAGCGAA
Statistics
Matches: 587, Mismatches: 224, Indels: 92
0.65 0.25 0.10
Matches are distributed among these distances:
38 1 0.00
39 18 0.03
41 10 0.02
42 38 0.06
43 34 0.06
44 306 0.52
45 157 0.27
46 19 0.03
47 2 0.00
48 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
GATCCACCTCCTTCTGTGATGGAATCGAGCAAAAAGTTGATGCT
Found at i:897107 original size:39 final size:38
Alignment explanation
Indices: 897064--897159 Score: 131
Period size: 38 Copynumber: 2.5 Consensus size: 38
897054 AGAAAAGCCA
* *
897064 TCTCAAGTAAGATAAAATTTCTGGTTTCAAGGGAAACTG
1 TCTCAAGCAAGACAAAATTTCT-GTTTCAAGGGAAACTG
* *
897103 TCTCAAGCGAGACAAATTTTCTGTTTCAAGGGAAACTG
1 TCTCAAGCAAGACAAAATTTCTGTTTCAAGGGAAACTG
897141 TCTCAAG-AGAGACAAAATT
1 TCTCAAGCA-AGACAAAATT
897160 CGCTTCAAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 32 0.64
39 18 0.36
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (38 bp):
TCTCAAGCAAGACAAAATTTCTGTTTCAAGGGAAACTG
Found at i:897129 original size:38 final size:37
Alignment explanation
Indices: 897013--897200 Score: 134
Period size: 36 Copynumber: 5.1 Consensus size: 37
897003 TTTCAAGTTA
* *
897013 TTTCAAGGGAAAACTGTCTCAAGCGAGACGAA-TT-GG
1 TTTCAAGGG-AAACTGTCTCAAGCGAGACAAATTTCTG
* * ** ** *
897049 TTTTAA-GAAAAGCCATCTCAAGTAAGATAAAATTTCTGG
1 TTTCAAGGGAAA-CTGTCTCAAGCGAGA-CAAATTTCT-G
897088 TTTCAAGGGAAACTGTCTCAAGCGAGACAAATTTTCTG
1 TTTCAAGGGAAACTGTCTCAAGCGAGACAAA-TTTCTG
* *
897126 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC-G
1 TTTCAAGGGAAACTGTCTCAAGCGAGACAAATTTCTG
* * * * ** *
897162 CTTCAAGAGACACCGTCTCAAAAGAGACAAACTT-TG
1 TTTCAAGGGAAACTGTCTCAAGCGAGACAAATTTCTG
897198 TTT
1 TTT
897201 TAAAAGAAAC
Statistics
Matches: 119, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
34 3 0.03
35 12 0.10
36 39 0.33
37 5 0.04
38 34 0.29
39 22 0.18
40 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (37 bp):
TTTCAAGGGAAACTGTCTCAAGCGAGACAAATTTCTG
Found at i:897180 original size:36 final size:38
Alignment explanation
Indices: 897089--897192 Score: 113
Period size: 38 Copynumber: 2.8 Consensus size: 38
897079 AATTTCTGGT
* * * * *
897089 TTCAAGGGAAACTGTCTCAAGCGAGACAAATTTTCTGT
1 TTCAAGAGAAACCGTCTCAAGAGAGACAAATATTCTGC
* *
897127 TTCAAGGGAAACTGTCTCAAGAGAGACAAA-ATTC-GC
1 TTCAAGAGAAACCGTCTCAAGAGAGACAAATATTCTGC
* *
897163 TTCAAGAGACACCGTCTCAAAAGAGACAAA
1 TTCAAGAGAAACCGTCTCAAGAGAGACAAA
897193 CTTTGTTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 27 0.46
37 3 0.05
38 29 0.49
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (38 bp):
TTCAAGAGAAACCGTCTCAAGAGAGACAAATATTCTGC
Found at i:897447 original size:41 final size:41
Alignment explanation
Indices: 897384--897479 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
897374 GCCCGAGGGT
* * * *
897384 CTTATGGATGGCGTGAATGACTTA-TCATCTTGC-TCGAAAGA
1 CTTAT-GATGGCCTGAAGGACTTACGCATCCTGCAT-GAAAGA
897425 CTTATAGATGGCCTGAAGGACTTACGCATCCTGCATGAAAGA
1 CTTAT-GATGGCCTGAAGGACTTACGCATCCTGCATGAAAGA
897467 CTTACTGATGGCC
1 CTTA-TGATGGCC
897480 CAAAGAACTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 21 0.45
42 24 0.51
43 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (41 bp):
CTTATGATGGCCTGAAGGACTTACGCATCCTGCATGAAAGA
Found at i:897584 original size:43 final size:43
Alignment explanation
Indices: 897531--897696 Score: 218
Period size: 43 Copynumber: 4.0 Consensus size: 43
897521 AATTTCTTAG
* *
897531 TTGTTATCAAGGAACCCCTACATATCACGTTGGTCCCTCTAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
* * *
897574 TTGTCATCAAGGAACCCCTACATATCACATTGCTCACTTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTC-CCTCAAGC
* *
897618 TTATCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAAC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
897661 TTG----CAA--AACCCCTACATATCACGTTGGTCCCTCAAG
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAG
897697 TTTAGTTTCT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
37 29 0.26
39 3 0.03
43 40 0.36
44 38 0.35
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
Found at i:897634 original size:44 final size:43
Alignment explanation
Indices: 897536--897658 Score: 174
Period size: 44 Copynumber: 2.8 Consensus size: 43
897526 CTTAGTTGTT
* * * *
897536 ATCAAGGAACCCCTACATATCACGTTGGTCCCTCTAGCTTGTC
1 ATCAAGGAACCCCTACATATCACATTGCTCCCTCAAGCTTATC
*
897579 ATCAAGGAACCCCTACATATCACATTGCTCACTTCAAGCTTATC
1 ATCAAGGAACCCCTACATATCACATTGCTC-CCTCAAGCTTATC
* *
897623 ATCAAGGAACCCCTACATATCACGTTGGTCCCTCAA
1 ATCAAGGAACCCCTACATATCACATTGCTCCCTCAA
897659 ACTTGCAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 33 0.46
44 38 0.54
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (43 bp):
ATCAAGGAACCCCTACATATCACATTGCTCCCTCAAGCTTATC
Found at i:899676 original size:12 final size:12
Alignment explanation
Indices: 899659--899683 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
899649 GAATTGATTC
899659 TAGATCTTTGAA
1 TAGATCTTTGAA
899671 TAGATCTTTGAA
1 TAGATCTTTGAA
899683 T
1 T
899684 CGCTCGTCTT
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TAGATCTTTGAA
Found at i:899741 original size:25 final size:25
Alignment explanation
Indices: 899713--899792 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 25
899703 GATCTATCTA
899713 TTTTCTTCTTTCT-TATTTTTCTCTT
1 TTTTCTT-TTTCTATATTTTTCTCTT
* * * *
899738 TTTTCTTTTTATCTCTTTTTCTGTT
1 TTTTCTTTTTCTATATTTTTCTCTT
899763 TTTTCTTTTTTTCTATATATTTTCCTCTT
1 TTTTC--TTTTTCTATAT-TTTT-CTCTT
899792 T
1 T
899793 CTCTCTATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 4 0.09
25 22 0.51
27 8 0.19
28 4 0.09
29 5 0.12
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTTCTATATTTTTCTCTT
Found at i:899746 original size:15 final size:15
Alignment explanation
Indices: 899713--899773 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
899703 GATCTATCTA
* *
899713 TTTTCTTCTTTCTTAT
1 TTTTC-TCTTTTTTCT
899729 TTTTCTCTTTTTTCT
1 TTTTCTCTTTTTTCT
*
899744 TTTTATCTCTTTTTCT
1 TTTTCTCT-TTTTTCT
*
899760 GTTTTTTCTTTTTT
1 -TTTTCTCTTTTTT
899774 TCTATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
15 15 0.38
16 17 0.44
17 7 0.18
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTCTCTTTTTTCT
Found at i:899747 original size:8 final size:8
Alignment explanation
Indices: 899721--899776 Score: 67
Period size: 8 Copynumber: 6.6 Consensus size: 8
899711 TATTTTCTTC
899721 TTTCTTATT
1 TTTCTT-TT
899730 TTTCTCTTT
1 TTTCT-TTT
899739 TTTCTTTT
1 TTTCTTTT
* *
899747 TATCTCTT
1 TTTCTTTT
899755 TTTCTGTTT
1 TTTCT-TTT
899764 TTTCTTTT
1 TTTCTTTT
899772 TTTCT
1 TTTCT
899777 ATATATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 21 0.51
9 19 0.46
10 1 0.02
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTCTTTT
Found at i:899754 original size:17 final size:17
Alignment explanation
Indices: 899716--899776 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
899706 CTATCTATTT
*
899716 TCTTCTTTCTTATTTTTC
1 TCTTTTTTCTT-TTTTTC
*
899734 TCTTTTTTCTTTTTATC
1 TCTTTTTTCTTTTTTTC
899751 TC-TTTTTCTGTTTTTTC
1 TCTTTTTTCT-TTTTTTC
899768 T-TTTTTTCT
1 TCTTTTTTCT
899777 ATATATTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 7 0.18
17 21 0.55
18 10 0.26
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (17 bp):
TCTTTTTTCTTTTTTTC
Found at i:905027 original size:47 final size:45
Alignment explanation
Indices: 904957--905082 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
904947 TATAAAATCT
*
904957 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
905002 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
905049 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
905083 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:911962 original size:47 final size:45
Alignment explanation
Indices: 911892--912017 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
911882 TATAAAATCT
*
911892 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
911937 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
911984 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
912018 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:915406 original size:62 final size:62
Alignment explanation
Indices: 915316--915452 Score: 172
Period size: 62 Copynumber: 2.2 Consensus size: 62
915306 CATAAATGTT
* *
915316 AATGGAATTCAATGTCCATTGTTTAAATGTCGGT-GATAGTGAAACATAAGGT-TATCAT-TACC
1 AATGGAATTCATTGTCCATTGTTTAAATGTCGGTAG-TAGTGAAACATAA-ATATATC-TCTACC
* * * *
915378 AATTGAATTCATTGTCGATTTTTTAAATGTCGGTAGTAGTTAAACATAAATATATCTCTACC
1 AATGGAATTCATTGTCCATTGTTTAAATGTCGGTAGTAGTGAAACATAAATATATCTCTACC
915440 AATGGAATTCATT
1 AATGGAATTCATT
915453 TGGTAACAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
61 2 0.03
62 62 0.95
63 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (62 bp):
AATGGAATTCATTGTCCATTGTTTAAATGTCGGTAGTAGTGAAACATAAATATATCTCTACC
Found at i:920474 original size:14 final size:14
Alignment explanation
Indices: 920457--920488 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
920447 TTGAAATACT
920457 GAAATTTTAAGTTA
1 GAAATTTTAAGTTA
920471 GAAATTTTAAGTTA
1 GAAATTTTAAGTTA
920485 GAAA
1 GAAA
920489 GTTGATAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (14 bp):
GAAATTTTAAGTTA
Found at i:924467 original size:82 final size:80
Alignment explanation
Indices: 924330--924491 Score: 290
Period size: 82 Copynumber: 2.0 Consensus size: 80
924320 TCCTCATTCG
924330 GCCACGTTTTGCCAATCACAAAAACATGAAAAGTTATGCCGTCTGGCGCTTAAAAAAC-GGCTTG
1 GCCACGTTTTGCCAATCACAAAAACATGAAAAGTTATGCCGTCTGGCGCTT-AAAAACGGGC-TG
924394 AAAAGGGTATGATTGATT
64 AAAAGGGTATGA-TGATT
924412 GCCACGTTTTGCCAATCACAAAAACATGAAAAGTTATGCCGTCTGGCGCTTAAAAACGGGCTGAA
1 GCCACGTTTTGCCAATCACAAAAACATGAAAAGTTATGCCGTCTGGCGCTTAAAAACGGGCTGAA
924477 AAGGGTATGATGATT
66 AAGGGTATGATGATT
924492 ACAAGTAATC
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
80 5 0.06
81 20 0.25
82 54 0.68
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (80 bp):
GCCACGTTTTGCCAATCACAAAAACATGAAAAGTTATGCCGTCTGGCGCTTAAAAACGGGCTGAA
AAGGGTATGATGATT
Found at i:926067 original size:56 final size:55
Alignment explanation
Indices: 925958--926063 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 55
925948 TGAAAGAGGT
925958 CGGATATGTTATTTACATTTAATCGATACAATTACATAAGTGTCGATACTTTATAC
1 CGGATATGTTATTTACATTTAATCGATACAATTACATAAG-GTCGATACTTTATAC
*
926014 CGGATATGTTATTTATATTTAATCGATACAATTACATAA-GTCGATACTTT
1 CGGATATGTTATTTACATTTAATCGATACAATTACATAAGGTCGATACTTT
926064 TTATGTTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
54 11 0.22
56 38 0.78
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (55 bp):
CGGATATGTTATTTACATTTAATCGATACAATTACATAAGGTCGATACTTTATAC
Found at i:926222 original size:20 final size:20
Alignment explanation
Indices: 926176--926222 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
926166 ACCGGTAGCG
*
926176 CTTTATCGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
926196 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
926217 -TTTACC
1 CTTTACC
926223 TATTATATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.51
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:926411 original size:179 final size:177
Alignment explanation
Indices: 926183--926783 Score: 747
Period size: 179 Copynumber: 3.4 Consensus size: 177
926173 GCGCTTTATC
* * * * * * **
926183 GGTTTTGTCATTTCGATACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATATG
1 GGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACA
* *
926248 TTT-TCATAAAGTATCGACACTTTTTAGGCGTTATA-TTTTTCTCTTTTAAATTACGAAAGTGTC
66 TTTGT-ATAAAGTATCGACACTTTTTAGGCGCTATACTTCTTCTCTTTTAAATTACGAAAGTGTC
* *
926311 GATACTTATATTAATTTATCAACACTTTCAATATATCTAGCATCTTTTACG
130 -ATACTTATATTAATTTATCGACACTTTCAATATATCTAGC-T-TTTTACA
* *
926362 GGTTTTATCATTTCGAGACCTATTTTATCATATTATTACCTGTTATATTGCTATGGATCGATACA
1 GGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACA
*
926427 TTTGTAT-AAGTATCGACAC-TTTTAGGTGCTATTACTTCTTCTCTTTTAAATTACGAAAGTGTC
66 TTTGTATAAAGTATCGACACTTTTTAGGCGCTA-TACTTCTTCTCTTTTAAATTACGAAAGTGTC
* *
926490 ATACTTATATTAATGTATCGACA-TTTTAATATATCTGTAGCTTTTTACA
130 ATACTTATATTAATTTATCGACACTTTCAATATATC--TAGCTTTTTACA
*
926539 GG-TTTATCATTTCGAGACCTGTTTTGTC--ATTATTACATGTTATATTGCTATGGATCGATACA
1 GGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACA
*
926601 TTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTC
66 TTTGTATAAAGTATCGACACTTTTTAGGCGCTAT-ACTTCTTCTCTTTTAAATTACGAAAGTGTC
** *
926666 AATACTTATATTAATTTATCGACACTTTCAATATATCTGGTAGCGGTTTACC
130 -ATACTTATATTAATTTATCGACACTTTCAATATATC---TAGCTTTTTACA
* * * * * * *
926718 GGTTTCATCATAAT-GACACC-GGTTTATCATATTTTTACCT-ATATATTGCTATGGATCGATAC
1 GGTTTTATCAT-TTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATAC
926780 ATTT
65 ATTT
926784 TTCATTTGTA
Statistics
Matches: 371, Mismatches: 36, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
174 40 0.11
175 13 0.04
176 64 0.17
177 51 0.14
178 47 0.13
179 109 0.29
180 38 0.10
181 9 0.02
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (177 bp):
GGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACA
TTTGTATAAAGTATCGACACTTTTTAGGCGCTATACTTCTTCTCTTTTAAATTACGAAAGTGTCA
TACTTATATTAATTTATCGACACTTTCAATATATCTAGCTTTTTACA
Found at i:931612 original size:14 final size:14
Alignment explanation
Indices: 931588--931648 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
931578 ACATAACAAA
931588 AAAAATCAATAAAAG
1 AAAAAT-AATAAAAG
*
931603 AAAAATAATACAAG
1 AAAAATAATAAAAG
* *
931617 AATAA-AA-GAAAG
1 AAAAATAATAAAAG
*
931629 AAAAGAAAATAAAAG
1 AAAA-ATAATAAAAG
931644 AAAAA
1 AAAAA
931649 GAAAAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
12 6 0.16
13 3 0.08
14 14 0.38
15 14 0.38
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAAATAATAAAAG
Found at i:931620 original size:22 final size:19
Alignment explanation
Indices: 931595--931662 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
931585 AAAAAAAATC
931595 AATAAAAGAAAAATAATACAA
1 AATAAAAGAAAAA-AA-ACAA
* *
931616 GAATAAAAGAAAGAAAAGAA
1 -AATAAAAGAAAAAAAACAA
*
931636 AATAAAAGAAAAAGAAAAAA
1 AATAAAAGAAAAA-AAACAA
931656 AATAAAA
1 AATAAAA
931663 TTAATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.29
20 15 0.37
21 2 0.05
22 12 0.29
ACGTcount: A:0.79, C:0.01, G:0.10, T:0.09
Consensus pattern (19 bp):
AATAAAAGAAAAAAAACAA
Found at i:931657 original size:15 final size:15
Alignment explanation
Indices: 931620--931662 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
931610 ATACAAGAAT
*
931620 AAAAGAAAG-AAAAG
1 AAAAAAAAGAAAAAG
931634 AAAATAAAAGAAAAAG
1 AAAA-AAAAGAAAAAG
*
931650 AAAAAAAATAAAA
1 AAAAAAAAGAAAA
931663 TTAATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 12 0.48
16 9 0.36
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:931706 original size:2 final size:2
Alignment explanation
Indices: 931699--931741 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
931689 GTGAAAGCAA
931699 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
931740 AT
1 AT
931742 GTACACTAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:931770 original size:2 final size:2
Alignment explanation
Indices: 931763--931787 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
931753 AGACAAAATA
931763 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
931788 AGAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:931816 original size:23 final size:23
Alignment explanation
Indices: 931775--931833 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
931765 ATATATATAT
*
931775 ATATATATATATAAG-AAAATAATA
1 ATATATATATAAAAGTAAAA-AA-A
931799 ATA-ATA-ATAAAAGTAAAAAAA
1 ATATATATATAAAAGTAAAAAAA
931820 ATATATATATAAAA
1 ATATATATATAAAA
931834 AAGTATAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.13
22 11 0.35
23 13 0.42
24 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (23 bp):
ATATATATATAAAAGTAAAAAAA
Found at i:931913 original size:9 final size:9
Alignment explanation
Indices: 931892--931934 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
931882 ATGAACAAAT
931892 AAAATAA-A
1 AAAATAATA
*
931900 AAAATGATA
1 AAAATAATA
931909 AAAATAATA
1 AAAATAATA
*
931918 AAAAAAAGTA
1 AAAATAA-TA
931928 AAAATAA
1 AAAATAA
931935 AAGGATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 6 0.21
9 15 0.52
10 8 0.28
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (9 bp):
AAAATAATA
Found at i:931929 original size:19 final size:20
Alignment explanation
Indices: 931894--931934 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
931884 GAACAAATAA
*
931894 AATAAAAAAATGATAAAAAT
1 AATAAAAAAAAGATAAAAAT
931914 AATAAAAAAAAG-TAAAAAT
1 AATAAAAAAAAGATAAAAAT
931933 AA
1 AA
931935 AAGGATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (20 bp):
AATAAAAAAAAGATAAAAAT
Found at i:935414 original size:18 final size:18
Alignment explanation
Indices: 935375--935458 Score: 75
Period size: 17 Copynumber: 4.8 Consensus size: 18
935365 ATTTTTATAA
*
935375 TAAAAT-ATATAAATTTT
1 TAAAATAATTTAAATTTT
* *
935392 AAAAATAATTTAATTTTT
1 TAAAATAATTTAAATTTT
**
935410 TAAAAT-ATTTTTATTTT
1 TAAAATAATTTAAATTTT
* *
935427 TAAACTAA-TTAAATATT
1 TAAAATAATTTAAATTTT
*
935444 AAAAATAATTTAAAT
1 TAAAATAATTTAAAT
935459 ATTCATAATT
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
17 30 0.59
18 21 0.41
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAAATAATTTAAATTTT
Found at i:942603 original size:13 final size:14
Alignment explanation
Indices: 942587--942619 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
942577 CACATTAACG
*
942587 TTTTAAATTATTT-
1 TTTTAAAATATTTA
942600 TTTTAAAATATTTA
1 TTTTAAAATATTTA
942614 TTTTAA
1 TTTTAA
942620 CTTCAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAAATATTTA
Found at i:951130 original size:2 final size:2
Alignment explanation
Indices: 951119--951163 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
951109 TTTGTCAATC
951119 TA TA -A 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
951160 TA TA
1 TA TA
951164 AATTCTGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:951270 original size:85 final size:80
Alignment explanation
Indices: 951173--951480 Score: 293
Period size: 85 Copynumber: 3.7 Consensus size: 80
951163 AAATTCTGAA
* * * *
951173 ATAAAATTATGACACACGAACATTTGTCGTCTTTTTAAATGATGTGTGCTTCAATGACACGCAAT
1 ATAAATTTATGACACAC-AA-ATTTGTCGTCTTTTT--ATGACGGGGGCTTCAATGAC-CGCAAT
951238 GTAAGTCATATATGCGTGTC
61 GTAAGTCATATATGCGTGTC
** *
951258 ATAAATTTATG--ACACAAATGTATGTCAAG-CAGATTTATGACGGGGGCTTCAATG--GGCAAT
1 ATAAATTTATGACACACAAAT-T-TGTC--GTC-TTTTTATGACGGGGGCTTCAATGACCGCAAT
*
951318 GTAAGTCATACATGCGTGTC
61 GTAAGTCATATATGCGTGTC
* * *
951338 ATAAATTTATGACGCACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGTGCAAT
1 ATAAATTTATGACACACAAAT-T-TGTCGTCTT--TTTATGACGGGGGCTTCAATGAC-CGCAAT
*
951403 GTAAGTCATATATACGTGTC
61 GTAAGTCATATATGCGTGTC
*
951423 ATAAATTTATGACACACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGAC
1 ATAAATTTATGACACACAAAT-T-TGTCGTCTT--TTTATGACGGGGGCTTCAATGAC
951481 AGACAATTGC
Statistics
Matches: 193, Mismatches: 17, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
80 35 0.18
81 3 0.02
82 37 0.19
83 23 0.12
84 1 0.01
85 94 0.49
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (80 bp):
ATAAATTTATGACACACAAATTTGTCGTCTTTTTATGACGGGGGCTTCAATGACCGCAATGTAAG
TCATATATGCGTGTC
Found at i:956224 original size:28 final size:28
Alignment explanation
Indices: 956182--956235 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
956172 TTTTTAATGG
956182 TTTTGTTATTTTTTTACTGTAGATGATA
1 TTTTGTTATTTTTTTACTGTAGATGATA
956210 TTTT-TTATTTGTTTTACTGTAGATGA
1 TTTTGTTATTT-TTTTACTGTAGATGA
956236 CGATGGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (28 bp):
TTTTGTTATTTTTTTACTGTAGATGATA
Found at i:956437 original size:3 final size:3
Alignment explanation
Indices: 956422--956531 Score: 193
Period size: 3 Copynumber: 36.7 Consensus size: 3
956412 TGGTTTGTAA
*
956422 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
956470 AAT AAT AAT AAT AAT AAT AAT AAT AAT TAT AAT TAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
956518 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
956532 AGGTTGGATA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:957096 original size:79 final size:79
Alignment explanation
Indices: 956965--957176 Score: 309
Period size: 79 Copynumber: 2.7 Consensus size: 79
956955 ATTAAAATTG
* * * *
956965 TTGATCCACCTCCTTCTGTGATGGAATCGGGCAAAGATTGAACAAGTTCTTCTCATCATGAACTT
1 TTGATCCACCTCATTTTGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATCATGAACTT
957030 CTTCACTGGAAATA
66 CTTCACTGGAAATA
* * *
957044 TTGATCTACCTCATTTTGTGATGGAATCAAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
1 TTGATCCACCTCATTTTGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATCATGAACTT
* *
957109 CTTCACTGGATATG
66 CTTCACTGGAAATA
**
957123 TTGATCCACCTCATTCTT-TGATAAAATCGAGCAAAGGTTGAACAAGTTCTTCTC
1 TTGATCCACCTCATT-TTGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTC
957177 CCTCATCGAC
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
79 117 0.98
80 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (79 bp):
TTGATCCACCTCATTTTGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATCATGAACTT
CTTCACTGGAAATA
Found at i:957841 original size:23 final size:23
Alignment explanation
Indices: 957815--957863 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
957805 AAAAAAGGTG
957815 AAAAAGTTTGATG-AAGAAGTTTT
1 AAAAAGTTTGATGAAAGAA-TTTT
* *
957838 AAAATGTTTTATGAAAGAATTTT
1 AAAAAGTTTGATGAAAGAATTTT
957861 AAA
1 AAA
957864 TAATGAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (23 bp):
AAAAAGTTTGATGAAAGAATTTT
Found at i:958889 original size:27 final size:27
Alignment explanation
Indices: 958834--958915 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
958824 ATTGATTTGT
*
958834 TTTCTTTATTCAT-TATTTTTTTTTCTTTC
1 TTTCTTTATTC-TCT-TTTTATTTT-TTTC
958863 TTTCTTT-TCTCTCTTTTTATTTTTTTC
1 TTTCTTTAT-TCTCTTTTTATTTTTTTC
* * *
958890 TTTGTTTATTTTCTTTTGATTTTTTT
1 TTTCTTTATTCTCTTTTTATTTTTTT
958916 AATCTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 25 0.54
28 11 0.24
29 10 0.22
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTCTTTATTCTCTTTTTATTTTTTTC
Found at i:958915 original size:14 final size:14
Alignment explanation
Indices: 958874--958915 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
958864 TTCTTTTCTC
*
958874 TCTTTTTATTTTTT
1 TCTTTTGATTTTTT
958888 TC-TTTG-TTTATTT
1 TCTTTTGATTT-TTT
958901 TCTTTTGATTTTTT
1 TCTTTTGATTTTTT
958915 T
1 T
958916 AATCTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
12 3 0.12
13 8 0.33
14 10 0.42
15 3 0.12
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.81
Consensus pattern (14 bp):
TCTTTTGATTTTTT
Found at i:959559 original size:32 final size:34
Alignment explanation
Indices: 959487--959567 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 34
959477 TGGCTTTATT
*
959487 CCTCAAAGAGAGGTA-AATATATGAATTTGGGTG
1 CCTCAAAGAGAGGTAGAATATATGAATTTGGATG
*
959520 CCTCAAAGAGAGGTAGCA-ATATGAATTT-GATG
1 CCTCAAAGAGAGGTAGAATATATGAATTTGGATG
959552 CCTCAAAGAGAGGTAG
1 CCTCAAAGAGAGGTAG
959568 TGTTAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 19 0.42
33 25 0.56
34 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.23
Consensus pattern (34 bp):
CCTCAAAGAGAGGTAGAATATATGAATTTGGATG
Found at i:959784 original size:33 final size:32
Alignment explanation
Indices: 959747--959828 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
959737 GTGACTTTAT
*
959747 TGCCTCAAAGAGAGGTAAAAGTATGGATTTGAG
1 TGCCTCAAAGAGAGGTAAAAGTATGAATTTG-G
* **
959780 TGCCTCAATGAGAGGTAGTAGTATGAATTTGG
1 TGCCTCAAAGAGAGGTAAAAGTATGAATTTGG
* *
959812 TGTCTCGAAGAGAGGTA
1 TGCCTCAAAGAGAGGTA
959829 GTGTCAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 15 0.36
33 27 0.64
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (32 bp):
TGCCTCAAAGAGAGGTAAAAGTATGAATTTGG
Found at i:959924 original size:261 final size:261
Alignment explanation
Indices: 959460--959985 Score: 806
Period size: 261 Copynumber: 2.0 Consensus size: 261
959450 GGTTTTCTGT
* *
959460 ATGAGAAGATGAGGGTGTGGCTTTATTCCTCAAAGAGAGGTAAATATATGAATTTGGGTGCCTCA
1 ATGAGAAGATGAGGGTGTGACTTTATTCCTCAAAGAGAGGTAAATATATGAATTTGAGTGCCTCA
*
959525 AAGAGAGGTAGCAATATGAATTTGATGCCTCAAAGAGAGGTAGTGTTAAAATTTAGTTTTTGGTA
66 AAGAGAGGTAGCAATATGAATTTGATGCCTCAAAGAGAGGTAGTGTCAAAATTTAGTTTTTGGTA
* * * * *
959590 GTAGTCATGAATTATATAGGGTAAAGAATCGAGTGTTTATATTTTCGCTTCAGACAAGATACAAA
131 GTAATCATAAATTATATAGGGTAAAGAATCAAGTGATTATATTTTCGCTTCAGACAAAATACAAA
* *
959655 AGGTATAATTTTGACACATGTCAAAAATCTATAATTCTTGAAAAATTAAAAGAATATTTAATTCA
196 AGGTATAATTTTGACACATGTAAAAAATCTATAATTCTTGAAAAATTAAAAGAATATTTAATTAA
959720 A
261 A
*
959721 ATGAGAAG-TCGAGGGTGTGACTTTATTGCCTCAAAGAGAGGTAAA-AGTATGGATTTGAGTGCC
1 ATGAGAAGAT-GAGGGTGTGACTTTATT-CCTCAAAGAGAGGTAAATA-TATGAATTTGAGTGCC
* * * * * *
959784 TCAATGAGAGGTAGTAGTATGAATTTGGTGTCTCGAAGAGAGGTAGTGTCAAAATTT-GTTTTTG
63 TCAAAGAGAGGTAGCAATATGAATTTGATGCCTCAAAGAGAGGTAGTGTCAAAATTTAGTTTTTG
* * *
959848 GTAGTAATTATAAATTATATAGGGTAAAGAATCAAGTGATTGTATTTTGGCTTCAGACAAAATAC
128 GTAGTAATCATAAATTATATAGGGTAAAGAATCAAGTGATTATATTTTCGCTTCAGACAAAATAC
* *
959913 AAAAGGTATAATTTTGTCACATGTAAAAAATCTATAATTCTTGAAAAATTAAAAGAATCTTTAAT
193 AAAAGGTATAATTTTGACACATGTAAAAAATCTATAATTCTTGAAAAATTAAAAGAATATTTAAT
959978 TAAA
258 TAAA
959982 ATGA
1 ATGA
959986 TATTCAAAGA
Statistics
Matches: 240, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
260 1 0.00
261 158 0.66
262 81 0.34
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (261 bp):
ATGAGAAGATGAGGGTGTGACTTTATTCCTCAAAGAGAGGTAAATATATGAATTTGAGTGCCTCA
AAGAGAGGTAGCAATATGAATTTGATGCCTCAAAGAGAGGTAGTGTCAAAATTTAGTTTTTGGTA
GTAATCATAAATTATATAGGGTAAAGAATCAAGTGATTATATTTTCGCTTCAGACAAAATACAAA
AGGTATAATTTTGACACATGTAAAAAATCTATAATTCTTGAAAAATTAAAAGAATATTTAATTAA
A
Found at i:961209 original size:31 final size:31
Alignment explanation
Indices: 961174--961238 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
961164 CTCTTTTCTT
961174 TTAAGAAATTTCATTTAAATCAGGGACTTTA
1 TTAAGAAATTTCATTTAAATCAGGGACTTTA
*
961205 TTAAGACATTTCATTTAAATCAGGGACTTTA
1 TTAAGAAATTTCATTTAAATCAGGGACTTTA
961236 TTA
1 TTA
961239 TCTACATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (31 bp):
TTAAGAAATTTCATTTAAATCAGGGACTTTA
Found at i:963347 original size:15 final size:14
Alignment explanation
Indices: 963320--963346 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
963310 AAAACATCTT
963320 AAAAAATCATTTTC
1 AAAAAATCATTTTC
963334 AAAAAATCATTTT
1 AAAAAATCATTTT
963347 TAAAGACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAAATCATTTTC
Found at i:966692 original size:23 final size:23
Alignment explanation
Indices: 966666--966710 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
966656 CACATAGTAT
* *
966666 TGTCCCGAATGACCGCGTAGAAA
1 TGTCCCGAAGGACCACGTAGAAA
*
966689 TGTCCCTAAGGACCACGTAGAA
1 TGTCCCGAAGGACCACGTAGAA
966711 TTATCTCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAA
Found at i:973608 original size:23 final size:23
Alignment explanation
Indices: 973532--973609 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
973522 CATCAAAGTG
973532 CCACATA-AAATGTCCCAAAGGA
1 CCACATAGAAATGTCCCAAAGGA
* * *
973554 CCACATAGTATTGTCCTAAAGGA
1 CCACATAGAAATGTCCCAAAGGA
*** *
973577 CCGTGTAGAAATGTCCCGAAGGA
1 CCACATAGAAATGTCCCAAAGGA
973600 CCACATAGAA
1 CCACATAGAA
973610 TTATCCCGAA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
22 7 0.17
23 35 0.83
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.18
Consensus pattern (23 bp):
CCACATAGAAATGTCCCAAAGGA
Found at i:973616 original size:23 final size:23
Alignment explanation
Indices: 973532--973621 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
973522 CATCAAAGTG
*
973532 CCACATA-AAATGTCCCAAAGGA
1 CCACATAGAATTGTCCCAAAGGA
* *
973554 CCACATAGTATTGTCCTAAAGGA
1 CCACATAGAATTGTCCCAAAGGA
*** * *
973577 CCGTGTAGAAATGTCCCGAAGGA
1 CCACATAGAATTGTCCCAAAGGA
*
973600 CCACATAGAATTATCCCGAAAG
1 CCACATAGAATTGTCCC-AAAG
973622 ACCGCTTAGA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
22 7 0.14
23 40 0.80
24 3 0.06
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (23 bp):
CCACATAGAATTGTCCCAAAGGA
Found at i:975289 original size:3 final size:3
Alignment explanation
Indices: 975281--975333 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
975271 TGGTTTGTAA
975281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
975329 AAT AA
1 AAT AA
975334 AGGTTGGATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:980502 original size:20 final size:20
Alignment explanation
Indices: 980466--980532 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 20
980456 TAAATTGTAC
*
980466 AATAAAAATAAATAAATATTA
1 AATAAAAAGAAA-AAATATTA
*
980487 AATAAAAAGAAAAAAT-TGA
1 AATAAAAAGAAAAAATATTA
*
980506 AA-AAAAGGATAAAAA-ATTA
1 AATAAAAAGA-AAAAATATTA
980525 AATAAAAA
1 AATAAAAA
980533 TGACTAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 6 0.16
19 13 0.34
20 8 0.21
21 11 0.29
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (20 bp):
AATAAAAAGAAAAAATATTA
Found at i:980541 original size:21 final size:20
Alignment explanation
Indices: 980466--980541 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
980456 TAAATTGTAC
* *
980466 AATAAAAATAAATAAATATTA
1 AATAAAAAT-GATAAAAATTA
*
980487 AATAAAAA-GA-AAAAATTG
1 AATAAAAATGATAAAAATTA
*
980505 AA-AAAAAGGATAAAAAATTA
1 AATAAAAATGAT-AAAAATTA
980525 AATAAAAATGACTAAAA
1 AATAAAAATGA-TAAAA
980542 TGAATGATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.11
18 10 0.22
19 1 0.02
20 9 0.20
21 19 0.42
22 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.20
Consensus pattern (20 bp):
AATAAAAATGATAAAAATTA
Found at i:981545 original size:24 final size:24
Alignment explanation
Indices: 981518--981605 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
981508 GATATTAGAA
* *
981518 ATCAAAACAGAATTCAGATCATAT
1 ATCAGAACAGAATTCAGATCAGAT
981542 ATCAGAACAGAATTCAGATCAGAT
1 ATCAGAACAGAATTCAGATCAGAT
* * * *
981566 ATCAGAACATAATCCAAATCAGAA
1 ATCAGAACAGAATTCAGATCAGAT
981590 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
981606 AGTAATGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.20
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATCAGAT
Found at i:981641 original size:24 final size:24
Alignment explanation
Indices: 981587--981643 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
981577 ATCCAAATCA
*
981587 GAAATCAGAACAGAATTCAAGTAAT
1 GAAATCAGAACAAAATTCAAGT-AT
*
981612 G-TATCAGAACAAAATTCAAGT-T
1 GAAATCAGAACAAAATTCAAGTAT
981634 GCAAATCAGA
1 G-AAATCAGA
981644 TAAAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.07
24 24 0.89
25 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (24 bp):
GAAATCAGAACAAAATTCAAGTAT
Found at i:987041 original size:24 final size:23
Alignment explanation
Indices: 986966--987053 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 23
986956 GATATCAGAA
* *
986966 ATCAAAACAGAATTCAGATTAGAT
1 ATCAGAACAGAATTCAGATAAG-T
**
986990 ATCAGAACAGAA-TCTAGATCAAAA
1 ATCAGAACAGAATTC-AGAT-AAGT
987014 ATCAGAACAGAATTCAGATAATGT
1 ATCAGAACAGAATTCAGATAA-GT
*
987038 ATCAGAACAAAATTCA
1 ATCAGAACAGAATTCA
987054 AGTCGCAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
23 4 0.08
24 46 0.87
25 3 0.06
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (23 bp):
ATCAGAACAGAATTCAGATAAGT
Found at i:987067 original size:48 final size:48
Alignment explanation
Indices: 986959--987055 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
986949 AAATGGAGAT
* * * * *
986959 ATCAGAAATCAAAACAGAATTCAGATTAGATATCAGAACAGAATCTAG
1 ATCAAAAATCAGAACAGAATTCAGATAAGATATCAGAACAAAATCAAG
987007 ATCAAAAATCAGAACAGAATTCAGATAATG-TATCAGAACAAAATTCAAG
1 ATCAAAAATCAGAACAGAATTCAGATAA-GATATCAGAACAAAA-TCAAG
987056 TCGCAAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 37 0.88
49 5 0.12
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.21
Consensus pattern (48 bp):
ATCAAAAATCAGAACAGAATTCAGATAAGATATCAGAACAAAATCAAG
Done.