Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 39 of 127
Found at i:7870098 original size:59 final size:57
Alignment explanation
Indices: 7869950--7870110 Score: 209
Period size: 56 Copynumber: 2.8 Consensus size: 57
7869940 AAACCAAAAA
* *
7869950 TTCCAAAAAAATATTTTTAGAGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTCC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
*** * *
7870008 TT-CAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATCGAAAT
1 TTCCAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAAT
7870066 TTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
7870111 CTACACAAGA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
55 1 0.01
56 40 0.46
57 1 0.01
58 8 0.09
59 36 0.41
60 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (57 bp):
TTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
Found at i:7873367 original size:10 final size:10
Alignment explanation
Indices: 7873344--7873372 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7873334 ATTTTATTAG
7873344 TTAAAATA-A
1 TTAAAATATA
7873353 TTAAAATATA
1 TTAAAATATA
7873363 TTAAAATATA
1 TTAAAATATA
7873373 AAAGCTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAAATATA
Found at i:7873862 original size:2 final size:2
Alignment explanation
Indices: 7873851--7873894 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
7873841 ACTACTCTCC
*
7873851 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7873892 TA T
1 TA T
7873895 GTAAGGAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7874097 original size:2 final size:2
Alignment explanation
Indices: 7874078--7874113 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7874068 GATCAATTCT
* *
7874078 TA TA TC TA TA TG 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
7874114 AATTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7874304 original size:2 final size:2
Alignment explanation
Indices: 7874293--7874332 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
7874283 ATCCCTCGTC
* *
7874293 AT AT AT -T AT AT AT AT AT AT AT AT AC AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7874333 AGAAAAGGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7874765 original size:5 final size:5
Alignment explanation
Indices: 7874755--7874786 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
7874745 AAATCTAATA
7874755 TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TA
7874787 GAACATACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:7874927 original size:26 final size:26
Alignment explanation
Indices: 7874898--7874947 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
7874888 AAATAAAATT
7874898 TTTTA-ATAAATTATTTAAATTGAATA
1 TTTTAGAT-AATTATTTAAATTGAATA
7874924 TTTTAGATAATTATTTAAATTGAA
1 TTTTAGATAATTATTTAAATTGAA
7874948 ATCAATATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTAGATAATTATTTAAATTGAATA
Found at i:7875519 original size:26 final size:26
Alignment explanation
Indices: 7875480--7875539 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
7875470 TTTATTTATC
* *
7875480 AAATAGAA-ATTTTTAATTAATTATTT
1 AAATTGAATATTTTGAA-TAATTATTT
*
7875506 AAATTGAATATTTTGGATAATTATTT
1 AAATTGAATATTTTGAATAATTATTT
7875532 AAATTGAA
1 AAATTGAA
7875540 ATCAATATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (26 bp):
AAATTGAATATTTTGAATAATTATTT
Found at i:7875549 original size:592 final size:594
Alignment explanation
Indices: 7874765--7875893 Score: 1822
Period size: 591 Copynumber: 1.9 Consensus size: 594
7874755 TATATTATAT
* * * ***
7874765 TATATTATATTATATTATATTAGAACATACAAAATTACATGATCAAAATTACTTATGTGGATGTT
1 TATATTATATTATATTATATTACAACATACAAAACTACATAATCAAAATTACTTATGTGGATACC
* * * * *
7874830 TAGGTGAATAATCTCTTTTAATTACACATAGAATAATATTTATATTATTTTATTTATCAAATAAA
66 TAAGTGAATAATATCTTCTAATGACACATAGAATAACATTTATATTATTTTATTTATCAAATAAA
7874895 ATTTTTTAATAAATTATTTAAATTGAATATTTTAGATAATTATTTAAATTGAAATCAATATCTAT
131 ATTTTTTAATAAATTATTTAAATTGAATATTTTAGATAATTATTTAAATTGAAATCAATATCTAT
* * * * * *
7874960 CTAAGATTGAAATTTTTGTATAAGATTTGAATTCAAATTTATTAAAACATAATTTATTTTTTCTT
196 CTAAGATTGAAAATTTTGCATAAAATTTGAATTCAAATATATTAAAACATAATTTATCTTTTCAT
* *
7875025 TTTAAACTTAATAGCAGTTCCAAATATATATACTCAATAAAATTTTATTTTTTGTCAAATAATTC
261 TTTAAACTTAA-AGCAATTCCAAATATATATACTCAATAAAATTTTATTTTCTGTCAAATAATTC
*
7875090 TATGTAATAAATTATTTTAATTTAATATTTTTAGATAATTATTTAAATTCAAATCAAAATCTATC
325 TATGTAATAAATTATTTAAATTTAATATTTTTAGATAATTATTTAAATTCAAATCAAAATCTATC
*
7875155 AAAAATTAAAAAT-TATTTAATAGACTATTTAAATTTAATACTTTTAGATAAGTTA-ATGAATTA
390 AAAAATTAAAAATCT-TTTAATAGACTATTTAAATTTAATACTTTTAGATAAGTTACATAAATTA
*
7875218 TTGACTA-GAAAGCGTGTATTTTTAAAGTAATAAAAGCTTACATCTTTATATGAAAATATGAGAC
454 TTGACTAGGAAAGCATGTATTTTTAAAGTAATAAAAGCTTACATCTTTATATGAAAATATGAGAC
7875282 ATTTGAA-TGTCGATAAAAAAGTTAGATAAAAATATATTTTTGCTTTACAAACAAATATAATGTT
519 ATTTGAATTGT-GATAAAAAAGTTAGATAAAAATATATTTTTGCTTTACAAACAAATATAATGTT
7875346 TATTCTAATAAA
583 TATTCTAATAAA
* *
7875358 TATATATATATTATATTATATTACAACATGCAAGACTACATAATCAAAATTACTTATGTGGATAC
1 TATAT-TATATTATATTATATTACAACATACAAAACTACATAATCAAAATTACTTATGTGGATAC
* * * *
7875423 CTAATTGGATAATATCTTCTAATGACATATAGGATAACATTTATA-T-TTTTATTTATCAAATAG
65 CTAAGTGAATAATATCTTCTAATGACACATAGAATAACATTTATATTATTTTATTTATCAAATA-
* *
7875486 AAA-TTTTTAATTAATTATTTAAATTGAATATTTTGGATAATTATTTAAATTGAAATCAATATCT
129 AAATTTTTTAATAAATTATTTAAATTGAATATTTTAGATAATTATTTAAATTGAAATCAATATCT
*
7875550 ATCTAAGATTGAAAATTTTGCATAAAATTTGAATTCAAATATATTAAATCATAATTTATCTTTTC
194 ATCTAAGATTGAAAATTTTGCATAAAATTTGAATTCAAATATATTAAAACATAATTTATCTTTTC
* * * * *
7875615 ATTTTAAATTTAACGGAATTCCAAATATATATACTTAATAAAATTTTATTTTCTGTGAAATAATT
259 ATTTTAAACTTAAAGCAATTCCAAATATATATACTCAATAAAATTTTATTTTCTGTCAAATAATT
*
7875680 CTATTTAATAAATTATTTAAATTTAATATTTTTAGATAATTATTTAAATTCAAATCAAAATCTAT
324 CTATGTAATAAATTATTTAAATTTAATATTTTTAGATAATTATTTAAATTCAAATCAAAATCTAT
*
7875745 CAAAAATTAAAAATCTTTTAATAGATTATTTAAATTTAATACTTTTAGATAAGTTACATAAATTA
389 CAAAAATTAAAAATCTTTTAATAGACTATTTAAATTTAATACTTTTAGATAAGTTACATAAATTA
7875810 TTGACTAGGAAAGCATGTATTTTTAAAGTAATAAAAGCTTACATCTTTATATGAAAATATGAGAC
454 TTGACTAGGAAAGCATGTATTTTTAAAGTAATAAAAGCTTACATCTTTATATGAAAATATGAGAC
7875875 ATTTGAATTGTGATAAAAA
519 ATTTGAATTGTGATAAAAA
7875894 TATGTTTTTG
Statistics
Matches: 492, Mismatches: 38, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
591 162 0.33
592 160 0.33
593 80 0.16
594 90 0.18
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (594 bp):
TATATTATATTATATTATATTACAACATACAAAACTACATAATCAAAATTACTTATGTGGATACC
TAAGTGAATAATATCTTCTAATGACACATAGAATAACATTTATATTATTTTATTTATCAAATAAA
ATTTTTTAATAAATTATTTAAATTGAATATTTTAGATAATTATTTAAATTGAAATCAATATCTAT
CTAAGATTGAAAATTTTGCATAAAATTTGAATTCAAATATATTAAAACATAATTTATCTTTTCAT
TTTAAACTTAAAGCAATTCCAAATATATATACTCAATAAAATTTTATTTTCTGTCAAATAATTCT
ATGTAATAAATTATTTAAATTTAATATTTTTAGATAATTATTTAAATTCAAATCAAAATCTATCA
AAAATTAAAAATCTTTTAATAGACTATTTAAATTTAATACTTTTAGATAAGTTACATAAATTATT
GACTAGGAAAGCATGTATTTTTAAAGTAATAAAAGCTTACATCTTTATATGAAAATATGAGACAT
TTGAATTGTGATAAAAAAGTTAGATAAAAATATATTTTTGCTTTACAAACAAATATAATGTTTAT
TCTAATAAA
Found at i:7881554 original size:2 final size:2
Alignment explanation
Indices: 7881542--7881593 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
7881532 TTGATCACTC
7881542 CT CT C- CT CT CT CT CT CT CT CT CT CT CT -T CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7881582 CT CT CT CT CT CT
1 CT CT CT CT CT CT
7881594 ATGTATTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7881573 original size:23 final size:23
Alignment explanation
Indices: 7881542--7881592 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
7881532 TTGATCACTC
7881542 CTCTCCTCTCTCTCTCTCTCTCT
1 CTCTCCTCTCTCTCTCTCTCTCT
*
7881565 CTCTTCTCTCTCTCTCTCTCTCT
1 CTCTCCTCTCTCTCTCTCTCTCT
7881588 CTCTC
1 CTCTC
7881593 TATGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (23 bp):
CTCTCCTCTCTCTCTCTCTCTCT
Found at i:7881871 original size:22 final size:21
Alignment explanation
Indices: 7881828--7881871 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
7881818 TACTAATATA
* *
7881828 TATTTTTTTATTTTTATCTTT
1 TATTTTTTTATTTTCATATTT
*
7881849 TATTTTATTTATTTTCGTATTT
1 TATTTT-TTTATTTTCATATTT
7881871 T
1 T
7881872 TATATATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTTTTTATTTTCATATTT
Found at i:7882824 original size:12 final size:11
Alignment explanation
Indices: 7882800--7882904 Score: 58
Period size: 10 Copynumber: 9.5 Consensus size: 11
7882790 CTTTCTTTGA
7882800 ATTTTTT-TTT
1 ATTTTTTATTT
*
7882810 ATTTCTTTGTTT
1 ATTT-TTTATTT
7882822 ATTTGTTTATTTT
1 ATTT-TTTA-TTT
7882835 ATTTTTTATTT
1 ATTTTTTATTT
**
7882846 ATTAGATTAGGTTT
1 ATT-TTTTA--TTT
* **
7882860 ATGTAATA-TT
1 ATTTTTTATTT
*
7882870 -CTTTTTATTT
1 ATTTTTTATTT
7882880 A-TTTTTATTT
1 ATTTTTTATTT
7882890 ATTTTTTA-TT
1 ATTTTTTATTT
7882900 ATTTT
1 ATTTT
7882905 ATTTTCTTTA
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
9 3 0.04
10 25 0.33
11 15 0.20
12 17 0.23
13 10 0.13
14 5 0.07
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:7882886 original size:10 final size:10
Alignment explanation
Indices: 7882871--7882908 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
7882861 TGTAATATTC
7882871 TTTTTATTTA
1 TTTTTATTTA
7882881 TTTTTATTTA
1 TTTTTATTTA
7882891 TTTTT-TATTA
1 TTTTTAT-TTA
7882901 -TTTTATTT
1 TTTTTATTT
7882909 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:7882892 original size:14 final size:15
Alignment explanation
Indices: 7882872--7882909 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
7882862 GTAATATTCT
7882872 TTTTATTTATTT-TTA
1 TTTTATTT-TTTATTA
7882887 -TTTATTTTTTATTA
1 TTTTATTTTTTATTA
7882901 TTTTATTTT
1 TTTTATTTT
7882910 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTATTA
Found at i:7883152 original size:60 final size:58
Alignment explanation
Indices: 7882936--7883394 Score: 574
Period size: 60 Copynumber: 7.7 Consensus size: 58
7882926 AAAAATTCCA
7882936 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTC
7882999 GAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* * * *
7883058 -CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
7883115 AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTA-AGAATAAATTTC
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTC
*
7883175 -CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC
*
7883234 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
*** * *
7883293 AAAAAAAGGGGTTTTT-GAGGAAAAATTGAAAGTATCAATTTT-CTTTGAAAATCGAAATTTC
1 AAAAAAA-ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC
* *
7883354 -CAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
7883395 CTACAAAAAA
Statistics
Matches: 354, Mismatches: 23, Indels: 41
0.85 0.06 0.10
Matches are distributed among these distances:
57 98 0.28
58 31 0.09
59 37 0.10
60 133 0.38
61 7 0.02
62 3 0.01
64 45 0.13
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:7883156 original size:117 final size:116
Alignment explanation
Indices: 7882938--7883394 Score: 606
Period size: 117 Copynumber: 3.9 Consensus size: 116
7882928 AAATTCCAAA
7882938 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT-AAATTTCGAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-T---AG-AAAATCAAATTTC-AA
7883002 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
60 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
7883059 AAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAG-AAAT-AAATTTCAAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAATCAAATTTC--AAAAA
*
7883122 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTA-AGAATAAATTTCC
63 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
*
7883176 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATC-AAATTTCAAAAAAA
* *
7883241 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * * *
7883293 AAAAAA-AGGGGTTTTT-GAGGAAAAATTGAAAGTATCAATTTTCTTTGAAAATCGAAATTTC-C
1 AAAAAATA----TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATC-AAATTTCAA
*
7883355 AAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
60 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
7883395 CTACAAAAAA
Statistics
Matches: 310, Mismatches: 15, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
116 14 0.05
117 160 0.52
118 35 0.11
119 16 0.05
120 46 0.15
121 39 0.13
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (116 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATCAAATTTCAAAAAAAA
TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:7883213 original size:27 final size:27
Alignment explanation
Indices: 7883126--7883214 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
7883116 AAAAAAAAAT
7883126 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
7883153 ATTTTCTTTAAGAATAAATTTCCAAAAAAT--
1 A--TT-TTTAGGGA-AAAGTT-GAAAGTATCA
7883183 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
7883210 ATTTT
1 ATTTT
7883215 CCTTGAAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 12 0.28
28 2 0.05
29 2 0.05
30 7 0.16
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:7885170 original size:3 final size:3
Alignment explanation
Indices: 7885164--7885198 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
7885154 TTTCTTTAAA
*
7885164 ATT ATT ATT ATT ATT ATT ATT -TT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7885199 CAAATATAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7886044 original size:2 final size:2
Alignment explanation
Indices: 7886037--7886074 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7886027 CTTGAAACCA
7886037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7886075 TGGGTTACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7886863 original size:2 final size:2
Alignment explanation
Indices: 7886856--7886894 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7886846 TAATAATGCA
7886856 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
7886895 CACACACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7889609 original size:10 final size:10
Alignment explanation
Indices: 7889594--7889619 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7889584 AGATACCTTA
7889594 ATTATTAATT
1 ATTATTAATT
7889604 ATTATTAATT
1 ATTATTAATT
7889614 ATTATT
1 ATTATT
7889620 GTATATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTATTAATT
Found at i:7889742 original size:25 final size:25
Alignment explanation
Indices: 7889713--7889761 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7889703 AATTCCGAAA
7889713 TTATTCTGT-CATATAATTATAAAGC
1 TTATTCT-TACATATAATTATAAAGC
7889738 TTATTCTTACATATAATTATAAAG
1 TTATTCTTACATATAATTATAAAG
7889762 TTTAAATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (25 bp):
TTATTCTTACATATAATTATAAAGC
Found at i:7889970 original size:32 final size:31
Alignment explanation
Indices: 7889934--7890004 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
7889924 AATATTTTGC
* **
7889934 ATAAAAAATTAGATATTATCTTATTATAAGTA
1 ATAAAAAAATAGATATTATC-TATTATAAAAA
* *
7889966 ATAAAATAAATATATTTTATCTATTATAAAAA
1 ATAAAA-AAATAGATATTATCTATTATAAAAA
7889998 ATAAAAA
1 ATAAAAA
7890005 TAAATGAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 1 0.03
32 21 0.64
33 11 0.33
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
ATAAAAAAATAGATATTATCTATTATAAAAA
Found at i:7890118 original size:24 final size:23
Alignment explanation
Indices: 7890091--7890135 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7890081 ACGATGAAAC
7890091 TCAAACCTAATTTTATTTTTTTGA
1 TCAAACCTAA-TTTATTTTTTTGA
* *
7890115 TCAAATCTTATTTATTTTTTT
1 TCAAACCTAATTTATTTTTTT
7890136 AAAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (23 bp):
TCAAACCTAATTTATTTTTTTGA
Found at i:7890926 original size:8 final size:8
Alignment explanation
Indices: 7890897--7890952 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
7890887 TGACATAAAA
7890897 AATTTAAT
1 AATTTAAT
7890905 AATTTCAAT
1 AATTT-AAT
*
7890914 TATTTAAT
1 AATTTAAT
*
7890922 AATTTTAT
1 AATTTAAT
7890930 AAATATTAAAT
1 -AAT-TT-AAT
7890941 AATTTAA-
1 AATTTAAT
7890948 AATTT
1 AATTT
7890953 TTATTACATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
7 5 0.12
8 16 0.40
9 12 0.30
10 5 0.12
11 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTAAT
Found at i:7893854 original size:37 final size:36
Alignment explanation
Indices: 7893780--7893850 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
7893770 TGTATATAAC
* * *
7893780 AAAAATTTTAAATTATTTAATATTTATAAAATTAAT
1 AAAAAATTAAAATTATTAAATATTTATAAAATTAAT
*
7893816 AAAAAATTAAAATTATTAAATTATTT-TTAAATTAA
1 AAAAAATTAAAATTATTAAA-TATTTATAAAATTAA
7893851 ATAATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 25 0.83
37 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
AAAAAATTAAAATTATTAAATATTTATAAAATTAAT
Found at i:7893885 original size:27 final size:27
Alignment explanation
Indices: 7893855--7893968 Score: 83
Period size: 25 Copynumber: 4.2 Consensus size: 27
7893845 AATTAAATAA
*
7893855 TATTTTTGTTAATAAATAATTAAAATT
1 TATTTTTGTTATTAAATAATTAAAATT
* *
7893882 TATTTATTAGTTTATTATATAATAAAAAATT
1 TATTT-TT-G-TTATTAAATAAT-TAAAATT
* * *
7893913 TATGTAT-TTATTACATAA-TAAAATT
1 TATTTTTGTTATTAAATAATTAAAATT
*
7893938 TATTTTT-ATATTAAATTAA-TAAAATT
1 TATTTTTGTTATTAAA-TAATTAAAATT
*
7893964 AATTT
1 TATTT
7893969 ATAATTTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
25 17 0.24
26 14 0.20
27 15 0.21
28 2 0.03
29 1 0.01
30 11 0.16
31 10 0.14
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.52
Consensus pattern (27 bp):
TATTTTTGTTATTAAATAATTAAAATT
Found at i:7893949 original size:25 final size:24
Alignment explanation
Indices: 7893896--7893968 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
7893886 TATTAGTTTA
*
7893896 TTATA-TAATAA-AAAATTTATGTA
1 TTATATTAATAATAAAATTTAT-TT
7893919 TT-TATTACATAATAAAATTTATTT
1 TTATATTA-ATAATAAAATTTATTT
*
7893943 TTATATTAAATTAATAAAATTAATTT
1 TTATATT-AA-TAATAAAATTTATTT
7893969 ATAATTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 2 0.05
23 4 0.10
24 7 0.17
25 14 0.33
26 15 0.36
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
TTATATTAATAATAAAATTTATTT
Found at i:7893957 original size:26 final size:24
Alignment explanation
Indices: 7893883--7893968 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 24
7893873 ATTAAAATTT
* *
7893883 ATTTATTAGTTTATTATATAATAAAAA
1 ATTTATT-TTTTATTAAATAAT--AAA
* *
7893910 ATTTATGTATTTATTACATAATAAA
1 ATTTAT-TTTTTATTAAATAATAAA
7893935 ATTTATTTTTATATTAAATTAATAAA
1 ATTTATTTTT-TATTAAA-TAATAAA
*
7893961 ATTAATTT
1 ATTTATTT
7893969 ATAATTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.06
25 15 0.29
26 14 0.27
27 18 0.35
28 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTTATTTTTTATTAAATAATAAA
Found at i:7896330 original size:43 final size:43
Alignment explanation
Indices: 7896275--7896701 Score: 399
Period size: 43 Copynumber: 9.8 Consensus size: 43
7896265 TCCTATAAAC
* *
7896275 AGAGGCTCAACAACTTTGAAAAATAAATAAGGTTCCTCTAAAT
1 AGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAGT
* * * *
7896318 AAAGGCTTAACAACTTTGAAAAAATAAATAAGGCTCTTCTAAAT
1 AGAGGCTCAACAACTTTG-AAAAATAAATAAGGCTCCTCTAAGT
* ** *
7896362 AGAGGCTTAATGACTTTGAAAAATAAATAAGGCTTCTCTAAGT
1 AGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAGT
* ** * * * *
7896405 AAATACTCAACAATTTTGAAAAATAAATAAGGCTCATCTTAGC
1 AGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAGT
* * * * *
7896448 AAAGACTCAATAATTTTTGAAAAATAAATAAGGCTCC-CATAAGC
1 AGAGGCTCAACAA-CTTTGAAAAATAAATAAGGCTCCTC-TAAGT
* * *
7896492 AGGGGCTCAACAACTTTAAAAAATAAATAAAGCTCCTCTAAGT
1 AGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAGT
* * ** * *
7896535 AGAAGCTTAACAACTTT-AAAAATTAAATAAAACTTCTCTAAAT
1 AGAGGCTCAACAACTTTGAAAAA-TAAATAAGGCTCCTCTAAGT
* * * *
7896578 AGAGGCTTAACAACTTTGAAAAAATAAATAAGACTCCTATAAGC
1 AGAGGCTCAACAACTTTG-AAAAATAAATAAGGCTCCTCTAAGT
* * * * *
7896622 AGAGGTTCAATCAACTTTTGAAAAATAAATAAGTCTCATTTAAGC
1 AGAGGCTCAA-CAAC-TTTGAAAAATAAATAAGGCTCCTCTAAGT
* *
7896667 AGAGGCTCAACAACTTTAAAAAATAAATAGGGCTC
1 AGAGGCTCAACAACTTTGAAAAATAAATAAGGCTC
7896702 ATCGACAATC
Statistics
Matches: 321, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
42 5 0.02
43 171 0.53
44 101 0.31
45 40 0.12
46 4 0.01
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (43 bp):
AGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAGT
Found at i:7896378 original size:87 final size:87
Alignment explanation
Indices: 7896264--7896701 Score: 390
Period size: 87 Copynumber: 5.0 Consensus size: 87
7896254 AACATAAAAA
* * * * * * *
7896264 CTCCTATAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGTTCCTCTAAATAAAGGCTTAAC
1 CTCCTCTAAGCAGAGGCTTAATAACTTTGAAAAATAAATAAGGTTCCTCTAAGTAGAGGCTCAAC
7896329 AACTTTGAAAAAATAAATAAGG
66 AACTTTGAAAAAATAAATAAGG
* ** * * **
7896351 CTCTTCTAAATAGAGGCTTAATGACTTTGAAAAATAAATAAGGCTT-CTCTAAGTAAATACTCAA
1 CTCCTCTAAGCAGAGGCTTAATAACTTTGAAAAATAAATAAGG-TTCCTCTAAGTAGAGGCTCAA
*
7896415 CAATTTTG-AAAAATAAATAAGG
65 CAACTTTGAAAAAATAAATAAGG
* * * * * * * * *
7896437 CTCATCTTAGCAAAGACTCAATAATTTTTGAAAAATAAATAAGGCTCC-CATAAGCAGGGGCTCA
1 CTCCTCTAAGCAGAGGCTTAATAA-CTTTGAAAAATAAATAAGGTTCCTC-TAAGTAGAGGCTCA
*
7896501 ACAACTTT-AAAAAATAAATAAAG
64 ACAACTTTGAAAAAATAAATAAGG
* * * ** * *
7896524 CTCCTCTAAGTAGAAGCTTAACAACTTT-AAAAATTAAATAAAACTT-CTCTAAATAGAGGCTTA
1 CTCCTCTAAGCAGAGGCTTAATAACTTTGAAAAA-TAAAT-AAGGTTCCTCTAAGTAGAGGCTCA
*
7896587 ACAACTTTGAAAAAATAAATAAGA
64 ACAACTTTGAAAAAATAAATAAGG
* * * *
7896611 CTCCTATAAGCAGAGG-TTCAATCAACTTTTGAAAAATAAATAA-GTCTCATTTAAGCAGAGGCT
1 CTCCTCTAAGCAGAGGCTT-AAT-AAC-TTTGAAAAATAAATAAGGT-TCCTCTAAGTAGAGGCT
*
7896674 CAACAACTTT-AAAAAATAAATAGGG
62 CAACAACTTTGAAAAAATAAATAAGG
7896699 CTC
1 CTC
7896702 ATCGACAATC
Statistics
Matches: 278, Mismatches: 58, Indels: 29
0.76 0.16 0.08
Matches are distributed among these distances:
85 5 0.02
86 61 0.22
87 155 0.56
88 24 0.09
89 28 0.10
90 5 0.02
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.26
Consensus pattern (87 bp):
CTCCTCTAAGCAGAGGCTTAATAACTTTGAAAAATAAATAAGGTTCCTCTAAGTAGAGGCTCAAC
AACTTTGAAAAAATAAATAAGG
Found at i:7896435 original size:130 final size:129
Alignment explanation
Indices: 7896280--7896695 Score: 401
Period size: 130 Copynumber: 3.2 Consensus size: 129
7896270 TAAACAGAGG
7896280 CTCAACAACTTTGAAAAATAAATAAGGTTCCTCTAAATAAAGGCTTAACAACTTTGAAAAAATAA
1 CTCAACAACTTTGAAAAATAAATAAGGTTCCTCTAAATAAAGGCTTAACAACTTTGAAAAAATAA
** * *
7896345 ATAAGGCTCTTCTAAATAGAGGCTTAATGACTTTGAAAAATAAATAAGGCTTCTCTAAGTA-AAT
66 ATAAGGCTC-TCTAAGCAGAGGCTTAATAACTTTGAAAAATAAATAAGGCTCCTCTAAGTAGAA-
7896409 A
129 A
* * * * ** * * * *
7896410 CTCAACAATTTTGAAAAATAAATAAGGCTCATCTTAGCAAAGACTCAATAATTTTTG-AAAAATA
1 CTCAACAACTTTGAAAAATAAATAAGGTTCCTCTAAATAAAGGCTTAACAA-CTTTGAAAAAATA
* * * * * *
7896474 AATAAGGCTCCCATAAGCAGGGGCTCAACAACTTTAAAAAATAAATAAAGCTCCTCTAAGTAGAA
65 AATAAGGCTCTC-TAAGCAGAGGCTTAATAACTTTGAAAAATAAATAAGGCTCCTCTAAGTAGAA
*
7896539 G
129 A
* ** *
7896540 CTTAACAACTTT-AAAAATTAAATAAAACTT-CTCTAAATAGAGGCTTAACAACTTTGAAAAAAT
1 CTCAACAACTTTGAAAAA-TAAAT-AAGGTTCCTCTAAATAAAGGCTTAACAACTTTGAAAAAAT
* * * * * *
7896603 AAATAAGACTCCTATAAGCAGAGG-TTCAATCAACTTTTGAAAAATAAATAAGTCTCATTTAAGC
64 AAATAAGGCT-CTCTAAGCAGAGGCTT-AAT-AAC-TTTGAAAAATAAATAAGGCTCCTCTAAGT
**
7896667 AGAGG
125 AGAAA
*
7896672 CTCAACAACTTTAAAAAATAAATA
1 CTCAACAACTTTGAAAAATAAATA
7896696 GGGCTCATCG
Statistics
Matches: 226, Mismatches: 49, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
129 11 0.05
130 153 0.68
131 14 0.06
132 43 0.19
133 5 0.02
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (129 bp):
CTCAACAACTTTGAAAAATAAATAAGGTTCCTCTAAATAAAGGCTTAACAACTTTGAAAAAATAA
ATAAGGCTCTCTAAGCAGAGGCTTAATAACTTTGAAAAATAAATAAGGCTCCTCTAAGTAGAAA
Found at i:7897151 original size:23 final size:23
Alignment explanation
Indices: 7897125--7897194 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
7897115 TTTCATATCT
7897125 AAATTCAAAGGTTCTCATTCAAA
1 AAATTCAAAGGTTCTCATTCAAA
* * * *
7897148 AAATTTAGAGGTTCACA-TCCAA
1 AAATTCAAAGGTTCTCATTCAAA
* * *
7897170 AATTTCAAAGCTTCTCATTCGAA
1 AAATTCAAAGGTTCTCATTCAAA
7897193 AA
1 AA
7897195 CTTTTGGCGA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (23 bp):
AAATTCAAAGGTTCTCATTCAAA
Found at i:7897318 original size:14 final size:14
Alignment explanation
Indices: 7897301--7897327 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7897291 ACAAAAATTC
7897301 TTATTCAAAGATTT
1 TTATTCAAAGATTT
7897315 TTATTCAAAGATT
1 TTATTCAAAGATT
7897328 CTCATTTAAA
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:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TTATTCAAAGATTT
Found at i:7898658 original size:7 final size:7
Alignment explanation
Indices: 7898621--7898736 Score: 87
Period size: 7 Copynumber: 16.1 Consensus size: 7
7898611 TCATTTTCTC
7898621 TCATTTT
1 TCATTTT
7898628 TACATTTTT
1 T-CA-TTTT
7898637 TACATTTT
1 T-CATTTT
7898645 TCA-TTT
1 TCATTTT
7898651 TCATTTT
1 TCATTTT
*
7898658 TTATTTT
1 TCATTTT
*
7898665 TTATTTT
1 TCATTTT
*
7898672 TTATTTTT
1 TCA-TTTT
7898680 TCACTTTT
1 TCA-TTTT
7898688 TCACTTTT
1 TCA-TTTT
7898696 TCACTTTT
1 TCA-TTTT
7898704 TCA-TTT
1 TCATTTT
*
7898710 T--TTCT
1 TCATTTT
7898715 TCATTTT
1 TCATTTT
*
7898722 TTATTTT
1 TCATTTT
*
7898729 TTATTTT
1 TCATTTT
7898736 T
1 T
7898737 TTTCTTTATC
Statistics
Matches: 96, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
5 3 0.03
6 10 0.10
7 39 0.41
8 36 0.38
9 8 0.08
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
TCATTTT
Found at i:7898737 original size:8 final size:8
Alignment explanation
Indices: 7898654--7898738 Score: 52
Period size: 8 Copynumber: 10.8 Consensus size: 8
7898644 TTCATTTTCA
7898654 TTTTTTA-
1 TTTTTTAT
7898661 TTTTTTA-
1 TTTTTTAT
7898668 TTTTTTAT
1 TTTTTTAT
* *
7898676 TTTTTCAC
1 TTTTTTAT
* *
7898684 TTTTTCAC
1 TTTTTTAT
* *
7898692 TTTTTCAC
1 TTTTTTAT
*
7898700 TTTTTCAT
1 TTTTTTAT
7898708 TTTTTCT-T
1 TTTTT-TAT
7898716 CATTTTTTA-
1 --TTTTTTAT
7898725 TTTTTTAT
1 TTTTTTAT
7898733 TTTTTT
1 TTTTTT
7898739 TCTTTATCCA
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
7 21 0.31
8 41 0.60
9 1 0.01
10 5 0.07
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAT
Found at i:7905811 original size:21 final size:21
Alignment explanation
Indices: 7905786--7905826 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7905776 AATACTTTAA
7905786 AAATAAAGTAAAT-AAATAAAC
1 AAATAAA-TAAATAAAATAAAC
*
7905807 AAATACATAAATAAAATAAA
1 AAATAAATAAATAAAATAAA
7905827 AATACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAAATAAATAAAATAAAC
Found at i:7907849 original size:19 final size:18
Alignment explanation
Indices: 7907821--7907859 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
7907811 AAAGTCTTTA
7907821 TATGTGAGTACTTTACCC
1 TATGTGAGTACTTTACCC
7907839 TATGTTGAGTACTTTACCC
1 TATG-TGAGTACTTTACCC
7907858 TA
1 TA
7907860 AAATGGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (18 bp):
TATGTGAGTACTTTACCC
Found at i:7907988 original size:195 final size:194
Alignment explanation
Indices: 7907644--7908021 Score: 614
Period size: 195 Copynumber: 1.9 Consensus size: 194
7907634 AAATAACAAG
* * *
7907644 CTATGTTAGTACTTTATCCTAAAATGGCTGTAGTAATTTTTGTCATCTTCAATATACATTTGATT
1 CTATGTTAGTACTTTACCCTAAAATGGCTGTAGTAATTTTTGCCATCTTCAACATACATTTGATT
* * * *
7907709 TTTTCATAATAGTGCAGTTCATCCTTTCAGTTATACTATTATGTTGTGATGTTCCAAGTCTATCA
66 TTTCCACAATAGTGCAGTTCATCCTTTCAGCTATACTATTATGTTGCGATGTTCCAAGTCTATCA
*
7907774 TCTCAAGCCTAATTTGATGCTTTGAATAGTATTCTTCAAAGTCTTTATATGTGAGTACTTTACC
131 TCTCAAGCCTAATTTGATGCTTTGAATAGTATTCTTCAAAGTCTTTACATGTGAGTACTTTACC
* * * *
7907838 CTATGTTGAGTACTTTACCCTAAAATGGCTTTGGTAA-TTTTGCCATCTTCGACATATATTTGAT
1 CTATGTT-AGTACTTTACCCTAAAATGGCTGTAGTAATTTTTGCCATCTTCAACATACATTTGAT
*
7907902 TTTTCCACAATGGTGCAGTTCATCCTTTCAGCTATACTATTATGTTGCGATGTTCCAAGTTCTAT
65 TTTTCCACAATAGTGCAGTTCATCCTTTCAGCTATACTATTATGTTGCGATGTTCCAAG-TCTAT
7907967 CATCTCAAGCCTAATTTGATGCTTTGAATAGTATTCTTCAAAGTCTTTACATGTG
129 CATCTCAAGCCTAATTTGATGCTTTGAATAGTATTCTTCAAAGTCTTTACATGTG
7908022 TATTCTTCAC
Statistics
Matches: 169, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
194 84 0.50
195 85 0.50
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (194 bp):
CTATGTTAGTACTTTACCCTAAAATGGCTGTAGTAATTTTTGCCATCTTCAACATACATTTGATT
TTTCCACAATAGTGCAGTTCATCCTTTCAGCTATACTATTATGTTGCGATGTTCCAAGTCTATCA
TCTCAAGCCTAATTTGATGCTTTGAATAGTATTCTTCAAAGTCTTTACATGTGAGTACTTTACC
Found at i:7910206 original size:17 final size:17
Alignment explanation
Indices: 7910174--7910205 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7910164 ACTAACTCTC
7910174 TCTTTTTTATTTTTTTG
1 TCTTTTTTATTTTTTTG
7910191 TCTTTTTT-TTTTTTT
1 TCTTTTTTATTTTTTT
7910206 TTGCTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (17 bp):
TCTTTTTTATTTTTTTG
Found at i:7910212 original size:17 final size:18
Alignment explanation
Indices: 7910176--7910213 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7910166 TAACTCTCTC
7910176 TTTTTTATTTTTTTGTCT
1 TTTTTTATTTTTTTGTCT
*
7910194 TTTTTTTTTTTTTTG-CT
1 TTTTTTATTTTTTTGTCT
7910211 TTT
1 TTT
7910214 CTTCTTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.87
Consensus pattern (18 bp):
TTTTTTATTTTTTTGTCT
Found at i:7914379 original size:21 final size:21
Alignment explanation
Indices: 7914353--7914402 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
7914343 GATGGAATTG
* *
7914353 AAATTAATTATTGTAGTAATA
1 AAATTAAATATAGTAGTAATA
* *
7914374 AAATTAAATATAGTAGTAGTG
1 AAATTAAATATAGTAGTAATA
7914395 AAATTAAA
1 AAATTAAA
7914403 ATAAGTGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (21 bp):
AAATTAAATATAGTAGTAATA
Found at i:7919649 original size:34 final size:37
Alignment explanation
Indices: 7919550--7919629 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
7919540 GCCATTGTCG
7919550 CCCCTAACCAGCCACCCTA-AATCCACCTATAGCCTAA
1 CCCCTAA-CAGCCACCCTACAATCCACCTATAGCCTAA
7919587 CCCCTAACAGCCACCCTACAATCCACCTATAGCCT-A
1 CCCCTAACAGCCACCCTACAATCCACCTATAGCCTAA
7919623 CCCCTAA
1 CCCCTAA
7919630 GCCATCCTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 19 0.45
37 23 0.55
ACGTcount: A:0.31, C:0.47, G:0.05, T:0.16
Consensus pattern (37 bp):
CCCCTAACAGCCACCCTACAATCCACCTATAGCCTAA
Found at i:7920552 original size:12 final size:13
Alignment explanation
Indices: 7920532--7920570 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
7920522 TACACCAACC
7920532 ACAAAAAAATCAA
1 ACAAAAAAATCAA
7920545 ACAAAAAAATCAA
1 ACAAAAAAATCAA
*
7920558 ACAGAAAAA-CAA
1 ACAAAAAAATCAA
7920570 A
1 A
7920571 AACAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.77, C:0.15, G:0.03, T:0.05
Consensus pattern (13 bp):
ACAAAAAAATCAA
Found at i:7920576 original size:18 final size:19
Alignment explanation
Indices: 7920549--7920586 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7920539 AATCAAACAA
*
7920549 AAAAATCAAACAGAAAAAC
1 AAAAATCAAAAAGAAAAAC
*
7920568 AAAAA-CAAAAAGACAAAC
1 AAAAATCAAAAAGAAAAAC
7920586 A
1 A
7920587 CAGTCTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.76, C:0.16, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAAATCAAAAAGAAAAAC
Found at i:7921011 original size:28 final size:28
Alignment explanation
Indices: 7920970--7921025 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
7920960 AATATAGGAG
** **
7920970 CAAAACGACGTCGTTTTGAGCATAAGAT
1 CAAAACGAAATCGTTTCAAGCATAAGAT
7920998 CAAAACGAAATCGTTTCAAGCATAAGAT
1 CAAAACGAAATCGTTTCAAGCATAAGAT
7921026 GATCCGCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (28 bp):
CAAAACGAAATCGTTTCAAGCATAAGAT
Found at i:7921294 original size:19 final size:18
Alignment explanation
Indices: 7921253--7921321 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
7921243 GTAAAATTTT
* *
7921253 TTTTTTTTACATTTTTTA
1 TTTTTTTTATATTTGTTA
*
7921271 ATTTTTTTATATATTGTTA
1 TTTTTTTTATAT-TTGTTA
*
7921290 TTTTTGTTAT-TTTAAG-TA
1 TTTTTTTTATATTT--GTTA
*
7921308 TTTTCTTTATATTT
1 TTTTTTTTATATTT
7921322 ATGCATGATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.05
18 21 0.52
19 17 0.43
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTTTTTTATATTTGTTA
Found at i:7921701 original size:15 final size:15
Alignment explanation
Indices: 7921681--7921796 Score: 94
Period size: 15 Copynumber: 7.9 Consensus size: 15
7921671 ACTCATTCTT
7921681 AAATCCAAACCCCTA
1 AAATCCAAACCCCTA
* * *
7921696 AAATCCAAACTCTTT
1 AAATCCAAACCCCTA
*
7921711 AAATCCAAAACCCTA
1 AAATCCAAACCCCTA
* * *
7921726 AAATCCTAA-CCTTT
1 AAATCCAAACCCCTA
7921740 AAATCCAAACCCC-A
1 AAATCCAAACCCCTA
* **
7921754 AAATTCAAAACCTTTA
1 AAA-TCCAAACCCCTA
*
7921770 AAATCCAAA-CCCTT
1 AAATCCAAACCCCTA
*
7921784 AAATCAAAACCCC
1 AAATCCAAACCCC
7921797 AAACCTCAAA
Statistics
Matches: 76, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
14 24 0.32
15 48 0.63
16 4 0.05
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATCCAAACCCCTA
Found at i:7921713 original size:30 final size:29
Alignment explanation
Indices: 7921679--7921794 Score: 146
Period size: 30 Copynumber: 4.0 Consensus size: 29
7921669 ACACTCATTC
7921679 TTAAATCCAAACCCCTAAAATCCAAACTCT
1 TTAAATCCAAACCCCTAAAATCCAAAC-CT
* *
7921709 TTAAATCCAAAACCCTAAAATCCTAACCT
1 TTAAATCCAAACCCCTAAAATCCAAACCT
*
7921738 TTAAATCCAAACCCC-AAAATTCAAAACCT
1 TTAAATCCAAACCCCTAAAA-TCCAAACCT
* *
7921767 TTAAAATCCAAA-CCCTTAAATCAAAACC
1 TT-AAATCCAAACCCCTAAAATCCAAACC
7921795 CCAAACCTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
28 4 0.05
29 36 0.47
30 37 0.48
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (29 bp):
TTAAATCCAAACCCCTAAAATCCAAACCT
Found at i:7921744 original size:44 final size:44
Alignment explanation
Indices: 7921681--7921799 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
7921671 ACTCATTCTT
* ***
7921681 AAATCCAAACCCCTAAAATCCAAACTCTTTAAATCCAAAACC-CTA
1 AAATCCAAA-CCCTTAAATCCAAAC-CCCAAAATCCAAAACCTCTA
* * * *
7921726 AAATCCTAACCTTTAAATCCAAACCCCAAAATTCAAAACCTTTA
1 AAATCCAAACCCTTAAATCCAAACCCCAAAATCCAAAACCTCTA
*
7921770 AAATCCAAACCCTTAAATCAAAACCCCAAA
1 AAATCCAAACCCTTAAATCCAAACCCCAAA
7921800 CCTCAAATGT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 12 0.19
44 42 0.68
45 8 0.13
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (44 bp):
AAATCCAAACCCTTAAATCCAAACCCCAAAATCCAAAACCTCTA
Found at i:7921962 original size:29 final size:29
Alignment explanation
Indices: 7921923--7922014 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
7921913 TAAATTTCTT
*
7921923 AAACCCTAAAATTAAACCTTAAACC-TCC
1 AAACCTTAAAATTAAACCTTAAACCTTCC
* * * *
7921951 TAACCTTAAAAATGAAACCCTAGACCTTCC
1 AAACCTT-AAAATTAAACCTTAAACCTTCC
* *
7921981 AAACCTTAAAATTAAAACCTT-CACCTTCT
1 AAACCTTAAAATT-AAACCTTAAACCTTCC
7922010 AAACC
1 AAACC
7922015 CTACAATCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 5 0.10
29 31 0.61
30 15 0.29
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.24
Consensus pattern (29 bp):
AAACCTTAAAATTAAACCTTAAACCTTCC
Found at i:7922128 original size:14 final size:14
Alignment explanation
Indices: 7922097--7922162 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
7922087 TAAATCCTTT
* * *
7922097 AAACCCTAAAACTA
1 AAACCTTAAATCTC
*
7922111 AAACTTTAAATCTC
1 AAACCTTAAATCTC
* *
7922125 AAACCCTAAAATC-A
1 AAA-CCTTAAATCTC
7922139 AAACCTTAAATCTC
1 AAACCTTAAATCTC
*
7922153 AAACCCTAAA
1 AAACCTTAAA
7922163 ATAAAAAACA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
13 8 0.20
14 25 0.62
15 7 0.17
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCTTAAATCTC
Found at i:7922141 original size:28 final size:28
Alignment explanation
Indices: 7922044--7922169 Score: 121
Period size: 28 Copynumber: 4.4 Consensus size: 28
7922034 ACTCCAAGTT
** *
7922044 CTAAAATCAAAACTCCAAACTTTCAAACC
1 CTAAAATCAAAACTTTAAA-TCTCAAACC
* * * *
7922073 CTAAAATTAAATC-ATAAATCCTTTAAACC
1 CTAAAATCAAAACTTTAAAT-C-TCAAACC
7922102 CTAAAA-CTAAAACTTTAAATCTCAAACC
1 CTAAAATC-AAAACTTTAAATCTCAAACC
*
7922130 CTAAAATCAAAACCTTAAATCTCAAACC
1 CTAAAATCAAAACTTTAAATCTCAAACC
*
7922158 CTAAAATAAAAA
1 CTAAAATCAAAA
7922170 ACATAAACCC
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
27 1 0.01
28 45 0.56
29 29 0.36
30 5 0.06
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.24
Consensus pattern (28 bp):
CTAAAATCAAAACTTTAAATCTCAAACC
Found at i:7922164 original size:15 final size:15
Alignment explanation
Indices: 7922097--7922164 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 15
7922087 TAAATCCTTT
7922097 AAACCCTAAAA-CT-
1 AAACCCTAAAATCTC
* * *
7922110 AAAACTTTAAATCTC
1 AAACCCTAAAATCTC
7922125 AAACCCTAAAA--TC
1 AAACCCTAAAATCTC
* *
7922138 AAAACCTTAAATCTC
1 AAACCCTAAAATCTC
7922153 AAACCCTAAAAT
1 AAACCCTAAAAT
7922165 AAAAAACATA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
13 19 0.46
14 2 0.05
15 20 0.49
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTAAAATCTC
Found at i:7922183 original size:28 final size:28
Alignment explanation
Indices: 7922124--7922183 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7922114 CTTTAAATCT
* * * * *
7922124 CAAACCCTAAAATCAAAACCTTAAATCT
1 CAAACCCTAAAATAAAAAACATAAACCC
7922152 CAAACCCTAAAATAAAAAACATAAACCC
1 CAAACCCTAAAATAAAAAACATAAACCC
7922180 CAAA
1 CAAA
7922184 ATCTGAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (28 bp):
CAAACCCTAAAATAAAAAACATAAACCC
Found at i:7924093 original size:23 final size:23
Alignment explanation
Indices: 7924067--7924110 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7924057 ATTCTTTATG
7924067 AAAAAAAATGTTTTTCCTTTTAA
1 AAAAAAAATGTTTTTCCTTTTAA
* * *
7924090 AAAAAAGATTTTTTTTCTTTT
1 AAAAAAAATGTTTTTCCTTTT
7924111 TTTTTTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (23 bp):
AAAAAAAATGTTTTTCCTTTTAA
Found at i:7928258 original size:15 final size:16
Alignment explanation
Indices: 7928221--7928255 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7928211 TTAAGATTTC
7928221 AAAAA-AAAAAAGAGA
1 AAAAAGAAAAAAGAGA
7928236 AAAAAGAAAAAAGAGA
1 AAAAAGAAAAAAGAGA
7928252 AAAA
1 AAAA
7928256 GAAGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAGA
Found at i:7928797 original size:18 final size:19
Alignment explanation
Indices: 7928768--7928806 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
7928758 TGAACTATGC
7928768 GATCGATCATATTCCACTT
1 GATCGATCATATTCCACTT
7928787 GATCG-TCATATTCCACTT
1 GATCGATCATATTCCACTT
7928805 GA
1 GA
7928807 ACTAAGGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (19 bp):
GATCGATCATATTCCACTT
Found at i:7928836 original size:9 final size:9
Alignment explanation
Indices: 7928822--7928863 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
7928812 GGGGCATCAC
7928822 AAAAAAAAT
1 AAAAAAAAT
*
7928831 AAAAAAAGT
1 AAAAAAAAT
*
7928840 -AAAAAGAT
1 AAAAAAAAT
7928848 AAAAAAAAAT
1 -AAAAAAAAT
7928858 AAAAAA
1 AAAAAA
7928864 GACATTTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 14 0.52
10 7 0.26
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:7935840 original size:15 final size:16
Alignment explanation
Indices: 7935803--7935837 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7935793 TTAAGATTTC
7935803 AAAAA-AAAAAAGAGA
1 AAAAAGAAAAAAGAGA
7935818 AAAAAGAAAAAAGAGA
1 AAAAAGAAAAAAGAGA
7935834 AAAA
1 AAAA
7935838 GAAGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAGA
Found at i:7936376 original size:18 final size:19
Alignment explanation
Indices: 7936347--7936385 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
7936337 TGAACTATGC
7936347 GATCGATCATATTCCACTT
1 GATCGATCATATTCCACTT
7936366 GATCG-TCATATTCCACTT
1 GATCGATCATATTCCACTT
7936384 GA
1 GA
7936386 ACTAAGGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (19 bp):
GATCGATCATATTCCACTT
Found at i:7936415 original size:9 final size:9
Alignment explanation
Indices: 7936401--7936442 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
7936391 GGGGCATCAC
7936401 AAAAAAAAT
1 AAAAAAAAT
*
7936410 AAAAAAAGT
1 AAAAAAAAT
*
7936419 -AAAAAGAT
1 AAAAAAAAT
7936427 AAAAAAAAAT
1 -AAAAAAAAT
7936437 AAAAAA
1 AAAAAA
7936443 GGACATTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 14 0.52
10 7 0.26
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:7938609 original size:86 final size:86
Alignment explanation
Indices: 7938450--7938618 Score: 216
Period size: 86 Copynumber: 2.0 Consensus size: 86
7938440 ATCCAAAAAT
** * * *
7938450 GTTGATTCCTAAGACCTCCGAGCATAAATTTGATTCGTGGTGTTATCCCAATTAATTTATTATTT
1 GTTGATTCCTAAGACCTCCGAGCATAAATTCAATTCGCGGTGTTATCACAATTAATTCATTATTT
*
7938515 TTCAACTTGTGGTATTGTCCA
66 TTCAACTTGCGGTATTGTCCA
* *
7938536 GTTGATTCCTAAGACCTTCGAGGATAAATTCAATTCGCGGATGTTATCACAATCT-ATTCATTAT
1 GTTGATTCCTAAGACCTCCGAGCATAAATTCAATTCGCGG-TGTTATCACAAT-TAATTCATTAT
* *
7938600 TTTT-GACTTGCGGTGTTGT
64 TTTTCAACTTGCGGTATTGT
7938619 TTTATCGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
86 47 0.66
87 23 0.32
88 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (86 bp):
GTTGATTCCTAAGACCTCCGAGCATAAATTCAATTCGCGGTGTTATCACAATTAATTCATTATTT
TTCAACTTGCGGTATTGTCCA
Found at i:7938712 original size:109 final size:109
Alignment explanation
Indices: 7938538--7938748 Score: 291
Period size: 109 Copynumber: 1.9 Consensus size: 109
7938528 ATTGTCCAGT
* *
7938538 TGATTCCTAAGACCTTCGAGGATAAATTCAATTCGCGGATGTTATCACAATCTATTCATTATTTT
1 TGATTCCTAAGACCTTCGAGGATAAATTCAATTCACGGATGTTATCACAATCGATTCATTATTTT
* * *
7938603 TGACTTGCGGTGTTGTTTTATCGATTCTGTAAAACCTCCGGACA
66 TGACTTGCAGTGTTGTTCTATCAATTCTGTAAAACCTCCGGACA
* * * *
7938647 TGATTCCTATGACC-TCTAGGCATAAATTCAATTCACGG-TGTTATCCCGATCGATTCATTATTT
1 TGATTCCTAAGACCTTCGAGG-ATAAATTCAATTCACGGATGTTATCACAATCGATTCATTA-TT
* *
7938710 TTTGACTTGCAGTGTTGTTCTGTCAATTCTGTAAGACCT
64 TTTGACTTGCAGTGTTGTTCTATCAATTCTGTAAAACCT
7938749 GTGAGCATGA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
108 24 0.27
109 65 0.73
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (109 bp):
TGATTCCTAAGACCTTCGAGGATAAATTCAATTCACGGATGTTATCACAATCGATTCATTATTTT
TGACTTGCAGTGTTGTTCTATCAATTCTGTAAAACCTCCGGACA
Found at i:7938788 original size:22 final size:22
Alignment explanation
Indices: 7938735--7938800 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
7938725 TGTTCTGTCA
* * *
7938735 ATTCTGTAAGACCTGTGAGCATG
1 ATTCT-TAAGACTTTTGGGCATG
7938758 ATTCTTAAGACTTTTGGGCATG
1 ATTCTTAAGACTTTTGGGCATG
*
7938780 ATT-TCTAAGATTTTTGGGCAT
1 ATTCT-TAAGACTTTTGGGCAT
7938801 AAATTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.84
23 5 0.13
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (22 bp):
ATTCTTAAGACTTTTGGGCATG
Found at i:7939031 original size:132 final size:132
Alignment explanation
Indices: 7938872--7939374 Score: 557
Period size: 132 Copynumber: 3.8 Consensus size: 132
7938862 GTCGACTCTA
7938872 TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTTCTT-A-TTTTTGACTT
1 TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGA-TTCTTGACTTTTTGACTT
* ** * * **
7938935 GCAATGTTATCCCTTTCAATTCTGTAAGACCTTTGAGCATGATTTTATAAGACTTCCAGACATGA
65 ACGGTGTTATCCCATTCGATTCTGTAAGACCTCCGAGCATGATTTT-TAAGACTTCCAGACATGA
*
7939000 TTTC
129 TTTT
** * * * * *
7939004 TAAGACCTGTGGGCATAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTGATTTTTTTATTTA
1 TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTGACTTTTTGACTTA
* * * * * **
7939069 CGGTGTTGTCCCAATCGATTCTGTAAAACCTTCGAGCATGATTCTTAAGACTTCCAGGTATGATT
66 CGGTGTTATCCCATTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACTTCCAGACATGATT
7939134 TT
131 TT
* * * * * * * * *
7939136 TAATACCTCCGGACATAATTTTGATTCACGATGTTATCTCGATCGATTCTTGACTTTTCGACTTG
1 TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTGACTTTTTGACTTA
* * * *** *
7939201 CGGTCTTATCCCAGTCGATTCTGTAAGACCTCCG-GACATGATTTCTAAGACTTTTGGACATAAT
66 CGGTGTTATCCCATTCGATTCTGTAAGACCTCCGAG-CATGATTTTTAAGACTTCCAGACATGAT
7939265 TTT
130 TTT
* * *
7939268 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCAATCAATTCTT-AATTTTTGACTTA
1 TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTGACTTTTTGACTTA
*
7939332 CGGTGTTGTCCCAATT-GATTCTGTAAGACCTCCGAGCATGATT
66 CGGTGTTATCCC-ATTCGATTCTGTAAGACCTCCGAGCATGATT
7939375 CCTAAGACCT
Statistics
Matches: 305, Mismatches: 61, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
131 51 0.17
132 210 0.69
133 44 0.14
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (132 bp):
TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTGACTTTTTGACTTA
CGGTGTTATCCCATTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACTTCCAGACATGATT
TT
Found at i:7939249 original size:22 final size:22
Alignment explanation
Indices: 7939224--7939285 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
7939214 GTCGATTCTG
*
7939224 TAAGACCTCCGGACATGATTTC
1 TAAGACCTCCGGACATAATTTC
* ** *
7939246 TAAGACTTTTGGACATAATTTT
1 TAAGACCTCCGGACATAATTTC
*
7939268 TAAGACCTCCGGGCATAA
1 TAAGACCTCCGGACATAA
7939286 ATTCGATTCG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTC
Found at i:7939395 original size:109 final size:107
Alignment explanation
Indices: 7939268--7939536 Score: 315
Period size: 109 Copynumber: 2.5 Consensus size: 107
7939258 ACATAATTTT
* * * *
7939268 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCAATCAATTCTTAATTTTTGACTTAC
1 TAAGACCTTC-GGCATAAATTCGATTCGCGGTGTTGTCCCGATCGATTCTT-ATTTTTGACTTAC
**
7939333 GGTGTTGTCCCAATTGATTCTGTAAGACCTCCGAGCATGATTCC
64 GGTGTTGTCCCAATCAATTCTGTAAGACCTCCGAGCATGATTCC
** * * *
7939377 TAAGACCTTCGAGCATAAATTCGATTTACGGTGTTGTCCCGATCGATTCATTATTTTTTATTTAT
1 TAAGACCTTCG-GCATAAATTCGATTCGCGGTGTTGTCCCGATCGATTC-TTATTTTTGACTTAC
* * **
7939442 GGTGTTGTTCCAGTCAATTCTGTAAGACCTCCGAGCATGATTTT
64 GGTGTTGTCCCAATCAATTCTGTAAGACCTCCGAGCATGATTCC
* * *
7939486 TAAGA-CTTCTGGACATAATTTCAATTCGCGATGTTGTCCCGATCGATTCTT
1 TAAGACCTTC-GG-CATAAATTCGATTCGCGGTGTTGTCCCGATCGATTCTT
7939537 TAAATTCAAC
Statistics
Matches: 136, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
108 8 0.06
109 126 0.93
110 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (107 bp):
TAAGACCTTCGGCATAAATTCGATTCGCGGTGTTGTCCCGATCGATTCTTATTTTTGACTTACGG
TGTTGTCCCAATCAATTCTGTAAGACCTCCGAGCATGATTCC
Found at i:7939556 original size:109 final size:109
Alignment explanation
Indices: 7939334--7939571 Score: 239
Period size: 109 Copynumber: 2.2 Consensus size: 109
7939324 TTGACTTACG
* **
7939334 GTGTTGTCCCAATTGATTCTGTAAGACCTCCGAGCATGATTCCTAAGACCTTCGAGCATAAATTC
1 GTGTTGTCTCAATCAATTCTGTAAGACCTCCGAGCATGATTCCTAAGACCTTCGAGCATAAATTC
* * * ** ** * * **
7939399 GATTTACGGTGTTGTCCCGATCGATTCATTATTTTTTATTTATG
66 AATTCACGATGTTGTCCCGATCGATTCATTAAATTCAACTCACA
* ** *
7939443 GTGTTGT-TCCAGTCAATTCTGTAAGACCTCCGAGCATGATTTTTAAGA-CTTCTG-GACATAAT
1 GTGTTGTCT-CAATCAATTCTGTAAGACCTCCGAGCATGATTCCTAAGACCTTC-GAG-CATAAA
* * *
7939505 TTCAATTCGCGATGTTGTCCCGATCGATTCTTTAAATTCAACTCGCA
63 TTCAATTCACGATGTTGTCCCGATCGATTCATTAAATTCAACTCACA
7939552 GTGTTGTCTCAATCAATTCT
1 GTGTTGTCTCAATCAATTCT
7939572 TTAATTTCGA
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
108 5 0.05
109 97 0.94
110 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (109 bp):
GTGTTGTCTCAATCAATTCTGTAAGACCTCCGAGCATGATTCCTAAGACCTTCGAGCATAAATTC
AATTCACGATGTTGTCCCGATCGATTCATTAAATTCAACTCACA
Found at i:7939612 original size:36 final size:36
Alignment explanation
Indices: 7939501--7939614 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 36
7939491 CTTCTGGACA
7939501 TAATTTCAATTCGC-GATGTTGTCCCGATCGATTCTT
1 TAATTTCAATTCGCAG-TGTTGTCCCGATCGATTCTT
* * * * *
7939537 TAAATTCAACTCGCAGTGTTGTCTCAATCAATTCTT
1 TAATTTCAATTCGCAGTGTTGTCCCGATCGATTCTT
* *
7939573 TAATTTCGATTCGCAGTGTTGTCCCGATTGATTCTT
1 TAATTTCAATTCGCAGTGTTGTCCCGATCGATTCTT
7939609 TAATTT
1 TAATTT
7939615 TGACTAACGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 64 0.98
37 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (36 bp):
TAATTTCAATTCGCAGTGTTGTCCCGATCGATTCTT
Found at i:7940950 original size:24 final size:23
Alignment explanation
Indices: 7940906--7940955 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
7940896 ATTTTTTGCA
*
7940906 TTTTTTATTTTTTTATATATTATT
1 TTTTTTATTGTTTTATATATT-TT
*
7940930 TTTTTTGTTGTTTTA-AGTATTTT
1 TTTTTTATTGTTTTATA-TATTTT
7940953 TTT
1 TTT
7940956 ATACTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTTTATTGTTTTATATATTTT
Found at i:7941346 original size:15 final size:14
Alignment explanation
Indices: 7941326--7941563 Score: 147
Period size: 15 Copynumber: 16.2 Consensus size: 14
7941316 ACTAATTCTT
7941326 AAATCCAAACTCCTA
1 AAATCCAAAC-CCTA
*
7941341 AAATCCAAACCCCTT
1 AAATCCAAA-CCCTA
7941356 AAATCCAAACCCCTA
1 AAATCCAAA-CCCTA
7941371 AAATCCAAAACCCTA
1 AAATCC-AAACCCTA
* * *
7941386 AAATCCTAACCTTT
1 AAATCCAAACCCTA
7941400 AAATCCAAACCCTA
1 AAATCCAAACCCTA
7941414 AAATCCAAAACCCTTA
1 AAATCC-AAACCC-TA
* *
7941430 AAATCCAAACCTTT
1 AAATCCAAACCCTA
* *
7941444 AAATCAAAACCC-C
1 AAATCCAAACCCTA
* ***
7941457 AAACCTCAAATTTTAA
1 AAATC-CAAACCCT-A
*
7941473 AAATCAAAACCCTA
1 AAATCCAAACCCTA
* * *
7941487 AAAACGAAACTCTA
1 AAATCCAAACCCTA
*
7941501 AATTTCCCAAACCCTA
1 AA-AT-CCAAACCCTA
* *
7941517 AAAT-TAAACCTTA
1 AAATCCAAACCCTA
* * *
7941530 AAACTTCAAAACCTTC
1 AAA--TCCAAACCCTA
7941546 AAATCCAAAACCCTA
1 AAATCC-AAACCCTA
7941561 AAA
1 AAA
7941564 ACGAAACTCT
Statistics
Matches: 171, Mismatches: 39, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
13 14 0.08
14 52 0.30
15 69 0.40
16 36 0.21
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:7941402 original size:44 final size:44
Alignment explanation
Indices: 7941326--7941456 Score: 194
Period size: 44 Copynumber: 3.0 Consensus size: 44
7941316 ACTAATTCTT
*
7941326 AAATCC-AAACTCCTAAAATCCAAACCCCTTAAATCCAAACCCCTA
1 AAATCCAAAAC-CCTAAAATCCAAA-CCTTTAAATCCAAACCCCTA
*
7941371 AAATCCAAAACCCTAAAATCCTAACCTTTAAATCCAAA-CCCTA
1 AAATCCAAAACCCTAAAATCCAAACCTTTAAATCCAAACCCCTA
*
7941414 AAATCCAAAACCCTTAAAATCCAAACCTTTAAATCAAAACCCC
1 AAATCCAAAACCC-TAAAATCCAAACCTTTAAATCCAAACCCC
7941457 AAACCTCAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
43 18 0.23
44 36 0.46
45 21 0.27
46 4 0.05
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (44 bp):
AAATCCAAAACCCTAAAATCCAAACCTTTAAATCCAAACCCCTA
Found at i:7941511 original size:73 final size:74
Alignment explanation
Indices: 7941434--7941621 Score: 195
Period size: 74 Copynumber: 2.6 Consensus size: 74
7941424 CCCTTAAAAT
* * **
7941434 CCAAACCTTTAAATCAAAACC-CCAAACCTC-AAATTTTAAAAAT-CAAAACCCTAAAAACGAAA
1 CCAAACCTTAAAAT-AAAACCTCAAAACCTCAAAACCTT-AAAATCCAAAACCCTAAAAACGAAA
7941496 CTCTAAATTTC
64 CTCTAAATTTC
* * * * *
7941507 CCAAACCCTAAAATTAAACCTTAAAACTTCAAAACCTTCAAATCCAAAACCCTAAAAACGAAACT
1 CCAAACCTTAAAATAAAACCTCAAAACCTCAAAACCTTAAAATCCAAAACCCTAAAAACGAAACT
*
7941572 CTAAATTTT
66 CTAAATTTC
* * * **
7941581 TCAAACCTTAAAATTAAACCT-TAAACCTCCTAACCTTAAAA
1 CCAAACCTTAAAATAAAACCTCAAAACCTCAAAACCTTAAAA
7941622 ATGAAATCCT
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
72 5 0.05
73 37 0.39
74 53 0.56
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (74 bp):
CCAAACCTTAAAATAAAACCTCAAAACCTCAAAACCTTAAAATCCAAAACCCTAAAAACGAAACT
CTAAATTTC
Found at i:7941601 original size:58 final size:59
Alignment explanation
Indices: 7941522--7941663 Score: 148
Period size: 58 Copynumber: 2.4 Consensus size: 59
7941512 CCCTAAAATT
** *
7941522 AAACCTTAAAACTTCAAAACCTTCAAA-TCCAAAACCCTAAAAACGAAA-CTCTAAATTTTTC
1 AAACCTTAAAA-TT-AAAACCTTCAAACTCC-AAACCCTAAAAACGAAATC-CTAAACCTTCC
* * *
7941583 AAACCTTAAAATT-AAACCTT-AAACCTCCTAACCTTAAAAATGAAATCCTAAACCTTCC
1 AAACCTTAAAATTAAAACCTTCAAA-CTCCAAACCCTAAAAACGAAATCCTAAACCTTCC
*
7941641 AAACCCTAAAATTAAAACCTTCA
1 AAACCTTAAAATTAAAACCTTCA
7941664 CCTTTCAAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
57 3 0.04
58 41 0.59
59 11 0.16
60 3 0.04
61 11 0.16
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (59 bp):
AAACCTTAAAATTAAAACCTTCAAACTCCAAACCCTAAAAACGAAATCCTAAACCTTCC
Found at i:7941700 original size:58 final size:57
Alignment explanation
Indices: 7941632--7941829 Score: 170
Period size: 58 Copynumber: 3.4 Consensus size: 57
7941622 ATGAAATCCT
* *
7941632 AAACCTTCCAAACCCTAAAATTAAAACCTTCACCTTTCAAACCCTACAATCAAAACCCC
1 AAACC-TCCAAACCCTAAAATCAAAA-CTTCACCTTTCAAACCCTAAAATCAAAACCCC
* * * **
7941691 AAACCTCCAAGCTCTAAAATCAAAA-TTCTAAACC-TTCAAACCCTAAAAT-TAAACCGT
1 AAACCTCCAAACCCTAAAATCAAAACTTC---ACCTTTCAAACCCTAAAATCAAAACCCC
* * * ** * * *
7941748 AAATCCTCTAAACCATAAAACCAAAACTTCAAATCTCAATCCTTAAAATCAAAACCCC
1 AAA-CCTCCAAACCCTAAAATCAAAACTTCACCTTTCAAACCCTAAAATCAAAACCCC
*
7941806 AAATCT-CAAACCCTAAAATCAAAA
1 AAACCTCCAAACCCTAAAATCAAAA
7941830 ACCTAAACCC
Statistics
Matches: 108, Mismatches: 24, Indels: 17
0.72 0.16 0.11
Matches are distributed among these distances:
56 19 0.18
57 22 0.20
58 56 0.52
59 11 0.10
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (57 bp):
AAACCTCCAAACCCTAAAATCAAAACTTCACCTTTCAAACCCTAAAATCAAAACCCC
Found at i:7941843 original size:28 final size:29
Alignment explanation
Indices: 7941596--7941843 Score: 134
Period size: 29 Copynumber: 8.6 Consensus size: 29
7941586 CCTTAAAATT
* * *
7941596 AAACCTTAAACCTCCTAACCTTAAAAAT-GA
1 AAACC-TAAACCTCCAAACCCT-AAAATCAA
* *
7941626 AATCCTAAACCTTCCAAACCCTAAAAT-TA
1 AAACCTAAACC-TCCAAACCCTAAAATCAA
** * *
7941655 AAACCTTCACCTTTCAAACCCTACAATCAA
1 AAACCTAAACC-TCCAAACCCTAAAATCAA
* * * *
7941685 AACCCCAAACCTCCAAGCTCTAAAATCAA
1 AAACCTAAACCTCCAAACCCTAAAATCAA
** * *
7941714 AATTCTAAACCTTCAAACCCTAAAAT--T
1 AAACCTAAACCTCCAAACCCTAAAATCAA
* * *
7941741 AAACCGTAAATCCTCTAAACCATAAAA-CCA
1 AAACC-TAAA-CCTCCAAACCCTAAAATCAA
* * * *
7941771 AAACTTCAAATCT-CAATCCTTAAAATCAA
1 AAACCT-AAACCTCCAAACCCTAAAATCAA
* * *
7941800 AACCCCAAATCT-CAAACCCTAAAATCAA
1 AAACCTAAACCTCCAAACCCTAAAATCAA
7941828 AAACCTAAACC-CCAAA
1 AAACCTAAACCTCCAAA
7941844 ATTTGAAACT
Statistics
Matches: 164, Mismatches: 45, Indels: 20
0.72 0.20 0.09
Matches are distributed among these distances:
27 3 0.02
28 45 0.27
29 89 0.54
30 27 0.16
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (29 bp):
AAACCTAAACCTCCAAACCCTAAAATCAA
Found at i:7941894 original size:15 final size:15
Alignment explanation
Indices: 7941876--7941915 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
7941866 TCTAAAATCC
7941876 AAAATCCTAAACCTT
1 AAAATCCTAAACCTT
*
7941891 AAAATCCAAAACCTT
1 AAAATCCTAAACCTT
7941906 AAAAT-CTAAA
1 AAAATCCTAAA
7941916 ATTTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATCCTAAACCTT
Found at i:7941908 original size:22 final size:22
Alignment explanation
Indices: 7941856--7941917 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
7941846 TTGAAACTTG
7941856 AAACCTT-AACTCTAAAATCCA
1 AAACCTTAAACTCTAAAATCCA
7941877 AAATCC-TAAAC-CTTAAAATCCA
1 AAA-CCTTAAACTC-TAAAATCCA
*
7941899 AAACCTTAAAATCTAAAAT
1 AAACCTTAAACTCTAAAAT
7941918 TTTGAAAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 7 0.20
22 27 0.77
23 1 0.03
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACCTTAAACTCTAAAATCCA
Found at i:7941916 original size:15 final size:15
Alignment explanation
Indices: 7941856--7941916 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
7941846 TTGAAACTTG
*
7941856 AAACCTT-AACTCTA
1 AAACCTTAAAATCTA
7941870 AAATCC--AAAATCCT-
1 AAA-CCTTAAAAT-CTA
*
7941884 AAACCTTAAAATCCA
1 AAACCTTAAAATCTA
7941899 AAACCTTAAAATCTA
1 AAACCTTAAAATCTA
7941914 AAA
1 AAA
7941917 TTTTGAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
13 2 0.05
14 10 0.26
15 26 0.68
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (15 bp):
AAACCTTAAAATCTA
Found at i:7943935 original size:100 final size:101
Alignment explanation
Indices: 7943817--7944017 Score: 268
Period size: 100 Copynumber: 2.0 Consensus size: 101
7943807 CCAACACTAC
* * *
7943817 CAATAGGCCACCCAACAATCATC-ATAACAAAGACCTTA-TCCTAGAAAAAG-CTCAGCCTCTTC
1 CAATAAGCCACCCAACAATCA-CGATAAAAAAGACCTCACT-CTAGAAAAAGTC-CAGCCT-TTC
7943879 TTT-TCAAAAGCCACTCTAAACCCCCTTAACAT-CTAAAA
62 TTTCTCAAAAGCCACTCTAAACCCCCTTAACATGCTAAAA
* *
7943917 CAATAAGCCACCCAACAATCACGATAAAAAAGACCTCACTTTAGAAAAAGTCCAGCCTTTTTTTC
1 CAATAAGCCACCCAACAATCACGATAAAAAAGACCTCACTCTAGAAAAAGTCCAGCCTTTCTTTC
* *
7943982 TCGAAAGCCACTCTAAACCCTCTTAACATGCTAAAA
66 TCAAAAGCCACTCTAAACCCCCTTAACATGCTAAAA
7944018 GCTACCCCCA
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
99 6 0.07
100 75 0.84
101 8 0.09
ACGTcount: A:0.39, C:0.30, G:0.08, T:0.22
Consensus pattern (101 bp):
CAATAAGCCACCCAACAATCACGATAAAAAAGACCTCACTCTAGAAAAAGTCCAGCCTTTCTTTC
TCAAAAGCCACTCTAAACCCCCTTAACATGCTAAAA
Found at i:7944077 original size:19 final size:19
Alignment explanation
Indices: 7944053--7944102 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
7944043 TATTTACCCC
7944053 ACCAAACCCAT-AACACAAA
1 ACCAAACCC-TCAACACAAA
*
7944072 ACCAAACCCTCAACACAGA
1 ACCAAACCCTCAACACAAA
7944091 ACCAAACCCTCA
1 ACCAAACCCTCA
7944103 TTAATATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.50, C:0.42, G:0.02, T:0.06
Consensus pattern (19 bp):
ACCAAACCCTCAACACAAA
Found at i:7945297 original size:12 final size:12
Alignment explanation
Indices: 7945280--7945313 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
7945270 TGACATCTTA
7945280 TTATAAAAAATG
1 TTATAAAAAATG
7945292 TTATAAAAAATG
1 TTATAAAAAATG
7945304 TTATAAAAAA
1 TTATAAAAAA
7945314 AGGTTGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (12 bp):
TTATAAAAAATG
Found at i:7955758 original size:14 final size:15
Alignment explanation
Indices: 7955734--7955774 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
7955724 ACATATATTT
*
7955734 TATTCATAATTTTAA
1 TATTTATAATTTTAA
*
7955749 T-TTTATAATTATAA
1 TATTTATAATTTTAA
7955763 TATTTA-AATTTT
1 TATTTATAATTTT
7955775 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTATAATTTTAA
Found at i:7956379 original size:21 final size:21
Alignment explanation
Indices: 7956355--7956394 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7956345 TATTATTATT
*
7956355 TTATTTAATATAA-TAATAATA
1 TTATATAATA-AATTAATAATA
7956376 TTATATAATAAATTAATAA
1 TTATATAATAAATTAATAA
7956395 ATAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATATAATAAATTAATAATA
Found at i:7959851 original size:27 final size:28
Alignment explanation
Indices: 7959821--7959898 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 28
7959811 ATCTTTAAAT
*
7959821 TATTTTATTTT-TTTAAAT-AACCTTCAA
1 TATTTT-TTTTATCTAAATAAACCTTCAA
7959848 TATTTTTTTTATCTAAATAAACCTTC-A
1 TATTTTTTTTATCTAAATAAACCTTCAA
*
7959875 TACTTTGATTTCTATCTAAATAAA
1 TA-TTT--TTTTTATCTAAATAAA
7959899 TTTTTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 4 0.09
27 15 0.34
28 10 0.23
30 15 0.34
ACGTcount: A:0.35, C:0.13, G:0.01, T:0.51
Consensus pattern (28 bp):
TATTTTTTTTATCTAAATAAACCTTCAA
Found at i:7959893 original size:30 final size:28
Alignment explanation
Indices: 7959834--7959898 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
7959824 TTTATTTTTT
*
7959834 TAAAT-AACCTTCAATATTTTTTTTATC
1 TAAATAAACCTTCAATATTTTTTCTATC
7959861 TAAATAAACCTTC-ATACTTTGATTTCTATC
1 TAAATAAACCTTCAATA-TTT--TTTCTATC
7959891 TAAATAAA
1 TAAATAAA
7959899 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 8 0.24
28 10 0.30
30 15 0.45
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAATAAACCTTCAATATTTTTTCTATC
Found at i:7961997 original size:19 final size:19
Alignment explanation
Indices: 7961947--7962024 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
7961937 TATCATGCAA
* *
7961947 AATAAAATCATACAATAAT
1 AATATAATCATGCAATAAT
*
7961966 -ATAATATATCATGCAATCAT
1 AAT-ATA-ATCATGCAATAAT
*
7961986 AATATAATCATGCAAAAAT
1 AATATAATCATGCAATAAT
*
7962005 AATACAATCATGCAATAAT
1 AATATAATCATGCAATAAT
7962024 A
1 A
7962025 TAATATATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 2 0.04
19 31 0.63
20 14 0.29
21 2 0.04
ACGTcount: A:0.55, C:0.13, G:0.04, T:0.28
Consensus pattern (19 bp):
AATATAATCATGCAATAAT
Found at i:7962247 original size:14 final size:13
Alignment explanation
Indices: 7962228--7962297 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
7962218 AACAACCATT
7962228 TAAAATAATAAATA
1 TAAAATAATAAA-A
7962242 TAAAAT-ATAAAA
1 TAAAATAATAAAA
7962254 T-AAATAATATATAA
1 TAAAATAATA-A-AA
*
7962268 -AAAA-AGAGAAAA
1 TAAAATA-ATAAAA
*
7962280 TAAAATAAGAAAA
1 TAAAATAATAAAA
7962293 TAAAA
1 TAAAA
7962298 ATCAAACACA
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
11 4 0.08
12 7 0.15
13 23 0.48
14 14 0.29
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:7962252 original size:21 final size:23
Alignment explanation
Indices: 7962228--7962269 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7962218 AACAACCATT
7962228 TAAAAT-AATAA-ATATAAAATA
1 TAAAATAAATAATATATAAAATA
7962249 TAAAATAAATAATATATAAAA
1 TAAAATAAATAATATATAAAA
7962270 AAAGAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATAATATATAAAATA
Found at i:7962316 original size:18 final size:17
Alignment explanation
Indices: 7962289--7962349 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
7962279 ATAAAATAAG
*
7962289 AAAATAAAAATCAAACAC
1 AAAAAAAAAAT-AAACAC
7962307 AAAAAAAAAA-AAATCA-
1 AAAAAAAAAATAAA-CAC
**
7962323 AAGCAAAAAATAAACAC
1 AAAAAAAAAATAAACAC
7962340 AAAGAAAAAA
1 AAA-AAAAAA
7962350 GAAAAACCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 13 0.38
17 7 0.21
18 14 0.41
ACGTcount: A:0.79, C:0.11, G:0.03, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAATAAACAC
Found at i:7962318 original size:21 final size:20
Alignment explanation
Indices: 7962266--7962332 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
7962256 AATAATATAT
* *
7962266 AAAAAAAGAGAAAAT-AAAAT
1 AAAAAAA-AAAAAATCAAAAC
* *
7962286 AAGAAAATAAAAATCAAACAC
1 AAAAAAAAAAAAATCAAA-AC
*
7962307 AAAAAAAAAAAAATCAAAGC
1 AAAAAAAAAAAAATCAAAAC
7962327 AAAAAA
1 AAAAAA
7962333 TAAACACAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.13
20 16 0.42
21 17 0.45
ACGTcount: A:0.79, C:0.07, G:0.06, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAAAAATCAAAAC
Found at i:7962330 original size:17 final size:16
Alignment explanation
Indices: 7962305--7962354 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
7962295 AAAATCAAAC
7962305 ACAAA-AAAAAA-AAA
1 ACAAAGAAAAAAGAAA
*
7962319 ATCAAAGCAAAAAATAAA
1 A-CAAAG-AAAAAAGAAA
7962337 CACAAAGAAAAAAGAAA
1 -ACAAAGAAAAAAGAAA
7962354 A
1 A
7962355 ACCTACGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 4 0.13
16 1 0.03
17 15 0.50
18 8 0.27
19 1 0.03
ACGTcount: A:0.80, C:0.10, G:0.06, T:0.04
Consensus pattern (16 bp):
ACAAAGAAAAAAGAAA
Found at i:7969575 original size:13 final size:14
Alignment explanation
Indices: 7969549--7969577 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7969539 ATAAAAAAAT
7969549 TATCATGTAAATAA
1 TATCATGTAAATAA
7969563 TATCATG-AAATAA
1 TATCATGTAAATAA
7969576 TA
1 TA
7969578 ATATAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
TATCATGTAAATAA
Found at i:7969583 original size:21 final size:21
Alignment explanation
Indices: 7969559--7969655 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 21
7969549 TATCATGTAA
*
7969559 ATAATATCATGAAATAATAAT
1 ATAATATCATGCAATAATAAT
*
7969580 ATAATATATCATGCAATAACAAT
1 AT-A-ATATCATGCAATAATAAT
7969603 A-AACTATCATGCAATAAT-AT
1 ATAA-TATCATGCAATAATAAT
*
7969623 -TAATTATCATGCAATTA-AAT
1 ATAA-TATCATGCAATAATAAT
7969643 AT-A-ATCATGCAAT
1 ATAATATCATGCAAT
7969656 TATGCAAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.15
20 20 0.31
21 17 0.26
22 1 0.02
23 17 0.26
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAATATCATGCAATAATAAT
Found at i:7969871 original size:20 final size:20
Alignment explanation
Indices: 7969846--7969890 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7969836 ATTTGAAATA
*
7969846 ATAAATATTAAAAAATATAT
1 ATAAATAATAAAAAATATAT
* *
7969866 ATAAATAATATATAATATAT
1 ATAAATAATAAAAAATATAT
7969886 ATAAA
1 ATAAA
7969891 AAAACAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAATAATAAAAAATATAT
Found at i:7969875 original size:13 final size:14
Alignment explanation
Indices: 7969841--7969879 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
7969831 CAACCATTTG
*
7969841 AAATAATAAATATT
1 AAATAATATATATT
*
7969855 AAAAAATATATA-T
1 AAATAATATATATT
7969868 AAATAATATATA
1 AAATAATATATA
7969880 ATATATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATATATATT
Found at i:7969878 original size:11 final size:10
Alignment explanation
Indices: 7969858--7969890 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
7969848 AAATATTAAA
7969858 AAATATATAT
1 AAATATATAT
7969868 AAATA-ATAT
1 AAATATATAT
7969877 ATAATATATAT
1 A-AATATATAT
7969888 AAA
1 AAA
7969891 AAAACAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.24
10 11 0.52
11 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATATATAT
Found at i:7970855 original size:18 final size:18
Alignment explanation
Indices: 7970818--7970855 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7970808 TCTCAATCTC
* *
7970818 AATTAAAATCAAATTTAA
1 AATTAAAAACAAATTAAA
7970836 AATTAAAAACAAATTAAA
1 AATTAAAAACAAATTAAA
7970854 AA
1 AA
7970856 GTTCGGGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AATTAAAAACAAATTAAA
Found at i:7971503 original size:17 final size:17
Alignment explanation
Indices: 7971453--7971503 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
7971443 AAATTCTTAG
*
7971453 AGGTTCCGAATTCA-CAA
1 AGGTTCCAAATT-AGCAA
* * *
7971470 AGATTCCAAGTTCGCAA
1 AGGTTCCAAATTAGCAA
7971487 AGGTTCCAAATTAGCAA
1 AGGTTCCAAATTAGCAA
7971504 GGATTTTTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (17 bp):
AGGTTCCAAATTAGCAA
Found at i:7971546 original size:18 final size:18
Alignment explanation
Indices: 7971493--7971596 Score: 79
Period size: 18 Copynumber: 5.9 Consensus size: 18
7971483 GCAAAGGTTC
* *
7971493 CAAATTAGCAAGGATTTT
1 CAAATTTGCAAGAATTTT
* * *
7971511 TAGATCTGCAAG-ATTTT
1 CAAATTTGCAAGAATTTT
7971528 CAAATTTGCAAGAATTTT
1 CAAATTTGCAAGAATTTT
* ** * *
7971546 CAAGTTCACGATAATTTT
1 CAAATTTGCAAGAATTTT
*
7971564 CAAATTCGCAAGAA-TTT
1 CAAATTTGCAAGAATTTT
7971581 CAAATTCT-CAAGAATT
1 CAAATT-TGCAAGAATT
7971597 CAAAAATTTG
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
17 29 0.44
18 37 0.56
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
CAAATTTGCAAGAATTTT
Found at i:7972070 original size:46 final size:46
Alignment explanation
Indices: 7971929--7972070 Score: 144
Period size: 46 Copynumber: 3.1 Consensus size: 46
7971919 TTTGGAAAAA
* *
7971929 TTAGGGATTCACAT-CAAAATTTCAAAGGTTCTCATTAAAAAAAACT
1 TTAGGGATTCACATCCAAATTTTCAAAGGTTCTCATT-CAAAAAACT
** * * ** *
7971975 TTAATGCTTCACATCTAAAATTTT-ATTGGTTCTCATTCAAAAAATT
1 TTAGGGATTCACATC-CAAATTTTCAAAGGTTCTCATTCAAAAAACT
* **
7972021 TTAGGGTTTCACATCCAAATTTTCAAAAATTCTCATTCAAAAAACT
1 TTAGGGATTCACATCCAAATTTTCAAAGGTTCTCATTCAAAAAACT
7972067 TTAG
1 TTAG
7972071 TATTATGCCC
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
45 7 0.09
46 51 0.68
47 11 0.15
48 6 0.08
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (46 bp):
TTAGGGATTCACATCCAAATTTTCAAAGGTTCTCATTCAAAAAACT
Found at i:7977875 original size:102 final size:103
Alignment explanation
Indices: 7977698--7977888 Score: 262
Period size: 102 Copynumber: 1.9 Consensus size: 103
7977688 AAATCTTTAC
* *
7977698 TTGTGAAAACAATTTATTCTAAAAAATATCTTCTAATATGTTAGTAAGATTTTCAGTCAAGAATT
1 TTGTGAAAACAATTTATTCTAAAAAATATCTTCTAATATGTTAGTAAAATTTTCAGTCAAGAATC
7977763 ATCCTCCAATATGTTGGTAGGATTGAAAGTTTATTTGT
66 ATCCTCCAATATGTTGGTAGGATTGAAAGTTTATTTGT
* ** * *
7977801 TTGTGAAAATAATTTATT-TTCATAATATCTT-TCAATATGTTGGTAAAATTTTTCA-TCAAGAA
1 TTGTGAAAACAATTTATTCTAAAAAATATCTTCT-AATATGTTAGTAAAA-TTTTCAGTCAAGAA
* *
7977863 TCATCTTTCAATATGTTGGTAGGATT
64 TCATCCTCCAATATGTTGGTAGGATT
7977889 TTAAAAAATA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
101 1 0.01
102 53 0.69
103 23 0.30
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (103 bp):
TTGTGAAAACAATTTATTCTAAAAAATATCTTCTAATATGTTAGTAAAATTTTCAGTCAAGAATC
ATCCTCCAATATGTTGGTAGGATTGAAAGTTTATTTGT
Found at i:7978078 original size:21 final size:21
Alignment explanation
Indices: 7978054--7978142 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 21
7978044 TATTATACAA
7978054 ATAATATCATGCAATAATAAT
1 ATAATATCATGCAATAATAAT
*
7978075 ATAATATATCAAGCAATAATAAT
1 AT-A-ATATCATGCAATAATAAT
7978098 A-AACTATCATGCAATAAT-AT
1 ATAA-TATCATGCAATAATAAT
* *
7978118 -TACTTATCATGCAATTA-AAT
1 ATA-ATATCATGCAATAATAAT
7978138 ATAAT
1 ATAAT
7978143 TGTGTAATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
20 19 0.34
21 18 0.32
22 1 0.02
23 18 0.32
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (21 bp):
ATAATATCATGCAATAATAAT
Found at i:7978090 original size:23 final size:21
Alignment explanation
Indices: 7978056--7978116 Score: 86
Period size: 23 Copynumber: 2.8 Consensus size: 21
7978046 TTATACAAAT
7978056 AATATCATGCAATAATAATATA
1 AATATCATGCAATAATAATA-A
*
7978078 ATATATCAAGCAATAATAATAA
1 A-ATATCATGCAATAATAATAA
*
7978100 ACTATCATGCAATAATA
1 AATATCATGCAATAATA
7978117 TTACTTATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.40
22 3 0.09
23 18 0.51
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (21 bp):
AATATCATGCAATAATAATAA
Found at i:7978113 original size:18 final size:20
Alignment explanation
Indices: 7978058--7978132 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 20
7978048 ATACAAATAA
*
7978058 TATCATGCAATAATAATATAAT
1 TATCATGCAATAAT-ATA-ACT
*
7978080 ATATCAAGCAATAATAATAAAC-
1 -TATCATGCAATAAT-AT-AACT
*
7978102 TATCATGCAATAATATTACT
1 TATCATGCAATAATATAACT
7978122 TATCATGCAAT
1 TATCATGCAAT
7978133 TAAATATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.04
20 13 0.28
21 13 0.28
23 17 0.37
24 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (20 bp):
TATCATGCAATAATATAACT
Found at i:7978428 original size:12 final size:12
Alignment explanation
Indices: 7978375--7978428 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
7978365 TATAATATAT
*
7978375 AAAAAATAGAATA
1 AAAAAATA-AACA
*
7978388 AGAAAATAAACA
1 AAAAAATAAACA
*
7978400 ATAAAAATAAACC
1 A-AAAAATAAACA
*
7978413 AAAAAATAAGCA
1 AAAAAATAAACA
7978425 AAAA
1 AAAA
7978429 CAATTAAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 17 0.50
13 17 0.50
ACGTcount: A:0.76, C:0.07, G:0.06, T:0.11
Consensus pattern (12 bp):
AAAAAATAAACA
Found at i:7978656 original size:20 final size:21
Alignment explanation
Indices: 7978631--7978680 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
7978621 CCCGAAATTA
7978631 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
7978651 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
7978672 AT-AAATATT
1 ATAAAATATT
7978681 TAAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:7978673 original size:14 final size:14
Alignment explanation
Indices: 7978665--7978704 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
7978655 AATATTATTT
7978665 TTTAAATATAAATA
1 TTTAAATATAAATA
7978679 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
7978695 TATAAATATA
1 TTTAAATATA
7978705 TATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:7978686 original size:8 final size:8
Alignment explanation
Indices: 7978670--7978706 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
7978660 TATTTTTTAA
7978670 ATATAAAT
1 ATATAAAT
*
7978678 ATTTAAAT
1 ATATAAAT
*
7978686 ATATAATT
1 ATATAAAT
7978694 ATATAAAT
1 ATATAAAT
7978702 ATATA
1 ATATA
7978707 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:7978712 original size:26 final size:24
Alignment explanation
Indices: 7978670--7978721 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
7978660 TATTTTTTAA
* *
7978670 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
7978694 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
7978720 AT
1 AT
7978722 TTTTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:7978713 original size:14 final size:14
Alignment explanation
Indices: 7978667--7978714 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
7978657 TATTATTTTT
* *
7978667 TAAATATAAATATT
1 TAAATATATATATA
7978681 TAAATATATAATTATA
1 TAAATATAT-A-TATA
*
7978697 TAAATATATATAAA
1 TAAATATATATATA
7978711 TAAA
1 TAAA
7978715 AAATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 15 0.52
15 2 0.07
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:7979550 original size:14 final size:15
Alignment explanation
Indices: 7979533--7979568 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
7979523 ATTGATTTCA
*
7979533 TTGATTTTTGG-GAT
1 TTGATTTTTGGTCAT
7979547 TTGATTTTTGGTCAT
1 TTGATTTTTGGTCAT
7979562 TTGATTT
1 TTGATTT
7979569 CTTATAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.14, C:0.03, G:0.22, T:0.61
Consensus pattern (15 bp):
TTGATTTTTGGTCAT
Found at i:7979740 original size:17 final size:18
Alignment explanation
Indices: 7979698--7979739 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
7979688 AATTTTCCCA
7979698 TTTTTTTACTTTTGACTT
1 TTTTTTTACTTTTGACTT
7979716 TTTTTTTACTTTTGACTT
1 TTTTTTTACTTTTGACTT
7979734 TTTTTT
1 TTTTTT
7979740 AACCAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTTTACTTTTGACTT
Found at i:7979814 original size:17 final size:17
Alignment explanation
Indices: 7979782--7979826 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
7979772 CTAAAACTAA
*
7979782 AAAATCTAAATCTAAATT
1 AAAATC-AAATTTAAATT
7979800 AAAATCAAATTTAAATT
1 AAAATCAAATTTAAATT
7979817 -AAATCAAATT
1 AAAATCAAATT
7979827 AAAAAGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 10 0.38
17 10 0.38
18 6 0.23
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATCAAATTTAAATT
Found at i:7983891 original size:15 final size:15
Alignment explanation
Indices: 7983868--7983899 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7983858 ATAGATCATG
7983868 ATTAAAAAAATAAAA
1 ATTAAAAAAATAAAA
*
7983883 ATTATAAAAATAAAA
1 ATTAAAAAAATAAAA
7983898 AT
1 AT
7983900 ACAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
ATTAAAAAAATAAAA
Found at i:7984039 original size:56 final size:56
Alignment explanation
Indices: 7983968--7984080 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
7983958 ACATTTTTAT
* * *
7983968 AACCCTCTCACCCCTAAAAAAGAATATGAAAAA-TCATAAGTTATAAGAAAATTAAA
1 AACCCTCTCACCCCTAAAAAAGAAGATGAAAAACT-ACAAGTCATAAGAAAATTAAA
* *
7984024 AACCCTCTTATCCCTAAAAAAGAAGATGAAAAACTACAAGTCATAAGAAAATTAAA
1 AACCCTCTCACCCCTAAAAAAGAAGATGAAAAACTACAAGTCATAAGAAAATTAAA
7984080 A
1 A
7984081 GTAAAAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 50 0.98
57 1 0.02
ACGTcount: A:0.54, C:0.18, G:0.08, T:0.20
Consensus pattern (56 bp):
AACCCTCTCACCCCTAAAAAAGAAGATGAAAAACTACAAGTCATAAGAAAATTAAA
Found at i:7986798 original size:2 final size:2
Alignment explanation
Indices: 7986791--7986819 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7986781 TACTAAGAGT
7986791 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7986820 GTAAGACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7989800 original size:34 final size:34
Alignment explanation
Indices: 7989748--7989819 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
7989738 GTAGAATGTT
* *
7989748 ACATGTTTGACATGTCAGCAACATGTGGGATGCC
1 ACATGTTTCACATGTCAGCAACATGTGGCATGCC
*
7989782 ACATTTTTCACATGTCAGCAACATGTGGCATGCC
1 ACATGTTTCACATGTCAGCAACATGTGGCATGCC
7989816 ACAT
1 ACAT
7989820 AGGATTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (34 bp):
ACATGTTTCACATGTCAGCAACATGTGGCATGCC
Done.