Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 8 of 113
Found at i:2230932 original size:21 final size:22
Alignment explanation
Indices: 2230881--2230933 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
2230871 AAAAAATCAT
*
2230881 AAAAAATAATTTTAAAATATAA
1 AAAAAAAAATTTTAAAATATAA
* *
2230903 AAATAAAAATTTT-AGATATAA
1 AAAAAAAAATTTTAAAATATAA
2230924 AAAAAAAAAT
1 AAAAAAAAAT
2230934 GGATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAAAAAATTTTAAAATATAA
Found at i:2242481 original size:38 final size:38
Alignment explanation
Indices: 2242426--2242502 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
2242416 TTTCCTGAAC
2242426 TTAGTCTAATATACACTCCTAAAAGCAAGAAAGAATGG
1 TTAGTCTAATATACACTCCTAAAAGCAAGAAAGAATGG
* *
2242464 TTAGTCTAATATGCACTCCTAAAGGCAAGAAAGAATGG
1 TTAGTCTAATATACACTCCTAAAAGCAAGAAAGAATGG
2242502 T
1 T
2242503 CAAATTCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (38 bp):
TTAGTCTAATATACACTCCTAAAAGCAAGAAAGAATGG
Found at i:2262925 original size:23 final size:22
Alignment explanation
Indices: 2262892--2262934 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2262882 CATTCTGTAA
* *
2262892 TTCAAAGTTTTCTCTTTTTTTTT
1 TTCAAAATTTTC-ATTTTTTTTT
2262915 TTCAAAATTTTCATTTTTTT
1 TTCAAAATTTTCATTTTTTT
2262935 CTATTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCAAAATTTTCATTTTTTTTT
Found at i:2269453 original size:27 final size:27
Alignment explanation
Indices: 2269423--2269479 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
2269413 TAATCTATAT
2269423 AAAATCAGTTGTCAAATTTAAGGTTCA
1 AAAATCAGTTGTCAAATTTAAGGTTCA
*
2269450 AAAATCAGTTGTCACATTTAAGGTTCA
1 AAAATCAGTTGTCAAATTTAAGGTTCA
2269477 AAA
1 AAA
2269480 TTTGAATTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (27 bp):
AAAATCAGTTGTCAAATTTAAGGTTCA
Found at i:2274799 original size:2 final size:2
Alignment explanation
Indices: 2274792--2274819 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2274782 ATAAGCATAA
2274792 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
2274820 CAGTCGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2281654 original size:13 final size:13
Alignment explanation
Indices: 2281630--2281682 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
2281620 TTAATAATTT
2281630 AAAATATAATATA
1 AAAATATAATATA
* *
2281643 ATAATATGATAT-
1 AAAATATAATATA
2281655 AAAA-ATAATATA
1 AAAATATAATATA
* *
2281667 AATATAAAATATA
1 AAAATATAATATA
2281680 AAA
1 AAA
2281683 TGATTTAAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
11 6 0.19
12 6 0.19
13 19 0.61
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
AAAATATAATATA
Found at i:2281663 original size:16 final size:16
Alignment explanation
Indices: 2281642--2281686 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
2281632 AATATAATAT
2281642 AATAATATGATATAAA
1 AATAATATGATATAAA
*
2281658 AATAATATAAATATAAA
1 AATAATAT-GATATAAA
*
2281675 ATATAAAATGAT
1 A-ATAATATGAT
2281687 TTAAGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.33
17 10 0.42
18 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
AATAATATGATATAAA
Found at i:2281678 original size:24 final size:25
Alignment explanation
Indices: 2281615--2281683 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
2281605 TTAAGGTAAG
* *
2281615 TAAATTTAATAATTTAAAATATAATA
1 TAAATATAA-AATATAAAATATAATA
**
2281641 T-AATAATATGATATAAAA-ATAATA
1 TAAAT-ATAAAATATAAAATATAATA
2281665 TAAATATAAAATATAAAAT
1 TAAATATAAAATATAAAAT
2281684 GATTTAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
24 18 0.53
25 13 0.38
26 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (25 bp):
TAAATATAAAATATAAAATATAATA
Found at i:2281791 original size:20 final size:20
Alignment explanation
Indices: 2281766--2281825 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
2281756 TATAAATTAT
2281766 AATATATAATTTTTATATAA
1 AATATATAATTTTTATATAA
**
2281786 AATATAATACA--AATATATAA
1 AATAT-ATA-ATTTTTATATAA
2281806 AATAT-TAATTTTTTATATAA
1 AATATATAA-TTTTTATATAA
2281826 TACGAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
20 24 0.77
21 3 0.10
22 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATATAATTTTTATATAA
Found at i:2281824 original size:33 final size:33
Alignment explanation
Indices: 2281787--2281850 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2281777 TTTATATAAA
*
2281787 ATATAATACAAATATATAAAATATTAATTTTTT
1 ATATAATACAAATATACAAAATATTAATTTTTT
* * *
2281820 ATATAATACGAATATACAAATTATTACTTTT
1 ATATAATACAAATATACAAAATATTAATTTT
2281851 ACATATAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (33 bp):
ATATAATACAAATATACAAAATATTAATTTTTT
Found at i:2281857 original size:33 final size:33
Alignment explanation
Indices: 2281787--2281858 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
2281777 TTTATATAAA
* **
2281787 ATATAATACAAATATATAAAATATTAATTTTTT
1 ATATAATACAAATATACAAAATATTAATTTTAC
* * *
2281820 ATATAATACGAATATACAAATTATTACTTTTAC
1 ATATAATACAAATATACAAAATATTAATTTTAC
2281853 ATATAA
1 ATATAA
2281859 CATATTTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (33 bp):
ATATAATACAAATATACAAAATATTAATTTTAC
Found at i:2287938 original size:23 final size:22
Alignment explanation
Indices: 2287878--2287939 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
2287868 TATTAATAAT
*
2287878 TTTAAGTAAATTAATAA-AACA
1 TTTAAGTAAATTAAAAAGAACA
**
2287899 TTTAAG-AATATCCAAAAGACACA
1 TTTAAGTAA-ATTAAAAAGA-ACA
2287922 TTTAAGTAAATTAAAAAG
1 TTTAAGTAAATTAAAAAG
2287940 CAAGTCAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.06
21 11 0.34
22 1 0.03
23 16 0.50
24 2 0.06
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (22 bp):
TTTAAGTAAATTAAAAAGAACA
Found at i:2296778 original size:3 final size:3
Alignment explanation
Indices: 2296772--2296801 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2296762 TTCTTGGAGG
2296772 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
2296802 TGATGTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2297751 original size:6 final size:6
Alignment explanation
Indices: 2297740--2297766 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2297730 CAGGCAAAAG
2297740 GAGGCA GAGGCA GAGGCA GAGGCA GAG
1 GAGGCA GAGGCA GAGGCA GAGGCA GAG
2297767 ACGGTCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGCA
Found at i:2300257 original size:19 final size:19
Alignment explanation
Indices: 2300233--2300271 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2300223 AGAAAGATAG
*
2300233 TTCACTTCATAAGAGCAAT
1 TTCACTTCAAAAGAGCAAT
2300252 TTCACTTCAAAAGAGCAAT
1 TTCACTTCAAAAGAGCAAT
2300271 T
1 T
2300272 AAAAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (19 bp):
TTCACTTCAAAAGAGCAAT
Found at i:2301034 original size:13 final size:13
Alignment explanation
Indices: 2301016--2301040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2301006 TCCTTTTTTT
2301016 CTTATGGTAATAA
1 CTTATGGTAATAA
2301029 CTTATGGTAATA
1 CTTATGGTAATA
2301041 TATAGGGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTATGGTAATAA
Found at i:2314677 original size:18 final size:19
Alignment explanation
Indices: 2314644--2314682 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
2314634 TTATATATTT
2314644 AATAATTTTGAAATTACTA
1 AATAATTTTGAAATTACTA
*
2314663 AATAATTTT-AAATTATTA
1 AATAATTTTGAAATTACTA
2314681 AA
1 AA
2314683 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
AATAATTTTGAAATTACTA
Found at i:2314736 original size:50 final size:51
Alignment explanation
Indices: 2314672--2314770 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 51
2314662 AAATAATTTT
*
2314672 AAATTATTAAAATTA-TTTTATATCAAATAATATTTTTGTTAATAAATAAA
1 AAATTAATAAAATTATTTTTATATCAAATAATATTTTTGTTAATAAATAAA
* *
2314722 AAATTAATATAATTATTTTTATATCAAATAATATTTTTGTTATTAAATA
1 AAATTAATAAAATTATTTTTATATCAAATAATATTTTTGTTAATAAATA
2314771 TCTGAAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 13 0.29
51 32 0.71
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (51 bp):
AAATTAATAAAATTATTTTTATATCAAATAATATTTTTGTTAATAAATAAA
Found at i:2314769 original size:19 final size:19
Alignment explanation
Indices: 2314724--2314770 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
2314714 TAAATAAAAA
2314724 ATTAATATAATTATTTTTAT
1 ATTAA-ATAATTATTTTTAT
* *
2314744 ATCAAATAA-TATTTTTGTT
1 ATTAAATAATTATTTTT-AT
2314763 ATTAAATA
1 ATTAAATA
2314771 TCTGAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTAAATAATTATTTTTAT
Found at i:2317251 original size:76 final size:76
Alignment explanation
Indices: 2317125--2317274 Score: 237
Period size: 76 Copynumber: 2.0 Consensus size: 76
2317115 TTAGGTGAGC
** * *
2317125 GGTAACTGTGAAAATGCCAACTTGAAGACACTTATGCCTAAGTACCTTCAGTTAATAATTATGTG
1 GGTAACTGCAAAAATGCCAACTTGAAAACACTTATGCCTAAGTACCTTCAGTTAATAATTATGGG
2317190 ATTATGGTAGT
66 ATTATGGTAGT
* **
2317201 GGTAACTGCAAAAATGCCAACTTTAAAATGCTTATGCCTAAGTACCTTCAGTTAATAATTATGGG
1 GGTAACTGCAAAAATGCCAACTTGAAAACACTTATGCCTAAGTACCTTCAGTTAATAATTATGGG
2317266 ATTATGGTA
66 ATTATGGTA
2317275 ATTTCTCTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (76 bp):
GGTAACTGCAAAAATGCCAACTTGAAAACACTTATGCCTAAGTACCTTCAGTTAATAATTATGGG
ATTATGGTAGT
Found at i:2321094 original size:2 final size:2
Alignment explanation
Indices: 2321087--2321116 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2321077 GAGAAACAGA
2321087 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2321117 TTGTCAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2322867 original size:201 final size:198
Alignment explanation
Indices: 2322382--2322884 Score: 465
Period size: 200 Copynumber: 2.5 Consensus size: 198
2322372 TGTTAAAGTA
* * *
2322382 AATTATCCCACATCTAATAAATTTTTAATTTTTTGTAATCTTATATTCAAGTTGAGCACT-TCTA
1 AATTATCCCACATCTAATAAATATTTAATTTTTTGTAATCTTATATTCAAGTCGAAC-CTCTC-A
* * ** * * * **
2322446 TTTACACCAAATTAATTTAAAGTTTGATGTTTAATATGGTATCAGAGTTATAATTTTCTTCTGTT
64 TTTACATC-AATTAATTTTAAGTTTGATACTTAACACGATATCAGAGCAATAATTTTCTTCTGTT
* * * * * *
2322511 GTCATTTTTAAATCTGTCATGTGATAAGTTTTTTCATCTCCACCTACACGTGATAAAGGCATGTT
128 ATCATTTTCAAATCTATCACGTAATAAGTTTTTTCATCTCCACCTACACGTGATAAAGGCATATT
*
2322576 AAAGTG
193 AAAGCG
* * ** * ** * * * *
2322582 AATTATCGCTCATCTAATAAATATCAAATATCATGTAGTCTTATATTCAGGTTGGATCC-CTTCA
1 AATTATCCCACATCTAATAAATATTTAATTTTTTGTAATCTTATATTCAAG-TCGAACCTC-TCA
* * *
2322646 TTTACAATCAATTGATTTTAAGTTTGATACTTAACCCGATATCAGAGCCAAT-ATTTTTTTCTGT
64 TTTAC-ATCAATTAATTTTAAGTTTGATACTTAACACGATATCAGAG-CAATAATTTTCTTCTGT
* * * * *
2322710 TATCATTTTCAAATCTATTACGTAATAAGTTTTTTTCATCTCCGCCTATATGTGAT-GAGGCCAT
127 TATCATTTTCAAATCTATCACGTAATAAG-TTTTTTCATCTCCACCTACACGTGATAAAGG-CAT
2322774 ATTAAAGCG
190 ATTAAAGCG
* * * * *
2322783 AGTTATCTCACATTTAATAAATATTTAATTTTTTATAATCTTATATTCAAGTCAAACCTCTCAAT
1 AATTATCCCACATCTAATAAATATTTAATTTTTTGTAATCTTATATTCAAGTCGAACCTCTC-AT
* * *
2322848 TTACAGTCAATTAATTTTAAGTTAGATGCTAAACACG
65 TTACA-TCAATTAATTTTAAGTTTGATACTTAACACG
2322885 TATGATAACA
Statistics
Matches: 237, Mismatches: 56, Indels: 19
0.76 0.18 0.06
Matches are distributed among these distances:
200 122 0.51
201 115 0.49
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (198 bp):
AATTATCCCACATCTAATAAATATTTAATTTTTTGTAATCTTATATTCAAGTCGAACCTCTCATT
TACATCAATTAATTTTAAGTTTGATACTTAACACGATATCAGAGCAATAATTTTCTTCTGTTATC
ATTTTCAAATCTATCACGTAATAAGTTTTTTCATCTCCACCTACACGTGATAAAGGCATATTAAA
GCG
Found at i:2332621 original size:210 final size:208
Alignment explanation
Indices: 2332224--2332638 Score: 661
Period size: 208 Copynumber: 2.0 Consensus size: 208
2332214 TATTTTTGTG
* * *
2332224 GGTACATTTCTTATCAATGTCTTAATCATTGATTATATTAGGCAATATAGCTTAATTTTTTTTCA
1 GGTACATTTCTTATCAATGTCTTAATCATTGATTATATTAGACAATAGAGCTTAA-TTTCTTTCA
* * *
2332289 AAATGGCCCTATTTTGCTGGTTAAAATCATAGAAAAATCAAACATCTTCATCTAATATTCTAAGT
65 AAATGGCCCCATTTTACTGGTTAAAATCATAGAAAAATCAAACATCTTCATCTAATATTCTAAGC
**
2332354 AAAATTTGTATTAAATTTTAACTTTGAAAATATTAATAGGTTTATTTTGTCATTTTTATAATTTT
130 AAAAACTGTATTAAATTTTAACTTTGAAAATATTAATAGGTTTATTTTGTCATTTTTATAATTTT
2332419 TGTCTACAATTTATA
195 TG-CTACAATTTATA
* *
2332434 GGTACATTTTTTATCGATGTCTTAATCATTGATTATATTAGACAATAGAGCTTAA-TTCTTTCAA
1 GGTACATTTCTTATCAATGTCTTAATCATTGATTATATTAGACAATAGAGCTTAATTTCTTTCAA
* *
2332498 AATGGCCCCATTTTACTGGTTAAAATCATAGAAAAATCAAATATTTTCATCTAATATTCTAAGCA
66 AATGGCCCCATTTTACTGGTTAAAATCATAGAAAAATCAAACATCTTCATCTAATATTCTAAGCA
* *
2332563 AAAACTGTGTTAAATTTTTAACTTTGAAAATATTAATGGGTTTTATTTTGTCATTTTTATAATTT
131 AAAACTGTATTAAA-TTTTAACTTTGAAAATATTAATAGG-TTTATTTTGTCATTTTTATAATTT
2332628 TTGCTACAATT
194 TTGCTACAATT
2332639 GGAGAAATAT
Statistics
Matches: 189, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
208 79 0.42
209 32 0.17
210 78 0.41
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (208 bp):
GGTACATTTCTTATCAATGTCTTAATCATTGATTATATTAGACAATAGAGCTTAATTTCTTTCAA
AATGGCCCCATTTTACTGGTTAAAATCATAGAAAAATCAAACATCTTCATCTAATATTCTAAGCA
AAAACTGTATTAAATTTTAACTTTGAAAATATTAATAGGTTTATTTTGTCATTTTTATAATTTTT
GCTACAATTTATA
Found at i:2335453 original size:54 final size:52
Alignment explanation
Indices: 2335351--2335466 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 52
2335341 CATAAGAATG
* *
2335351 AAATTGTAATAATAATAAAATATATCTTGAAAAAAGTTATAAATAAAAATAAA
1 AAATT-TAATAATAATAAAATATACCTTGAAAAAAATTATAAATAAAAATAAA
* * *
2335404 TAAATTATAATAGTAATAGAATATACCTTGAAAAAATATTACT-GA-AAAAATAAA
1 -AAATT-TAATAATAATAAAATATACCTTGAAAAAA-ATTA-TAAATAAAAATAAA
2335458 AAATTTAAT
1 AAATTTAAT
2335467 GTATAACATA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 4 0.07
53 5 0.09
54 40 0.74
55 4 0.07
56 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (52 bp):
AAATTTAATAATAATAAAATATACCTTGAAAAAAATTATAAATAAAAATAAA
Found at i:2335775 original size:16 final size:17
Alignment explanation
Indices: 2335749--2335780 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2335739 TTAATGTTTT
2335749 ATATAAATTTTTTAAAA
1 ATATAAATTTTTTAAAA
2335766 ATAT-AATTTTTTAAA
1 ATATAAATTTTTTAAA
2335781 TCAAGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATAAATTTTTTAAAA
Found at i:2337500 original size:24 final size:24
Alignment explanation
Indices: 2337450--2337500 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
2337440 ATATTAAATT
* *
2337450 AACTTAAAAAAATAAAATATTTTG
1 AACTTAAAAAAATAAAATATGTAG
*
2337474 AACTTTAAAAAATAAAATGA-GTAG
1 AACTTAAAAAAATAAAAT-ATGTAG
2337498 AAC
1 AAC
2337501 ATGTTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (24 bp):
AACTTAAAAAAATAAAATATGTAG
Found at i:2337731 original size:45 final size:45
Alignment explanation
Indices: 2337641--2337732 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
2337631 CCACGTTAGA
* *
2337641 TGGTACTATACTATTTCTAATTCCATAAATTAGGGATCTGATGGG
1 TGGTACTATACTATTACTAATTCCATAAATTAGGGAACTGATGGG
* * * *
2337686 TGGTATTATACTATTACTCATTGCATAAATTA-GGAACTTATTGGG
1 TGGTACTATACTATTACTAATTCCATAAATTAGGGAACTGA-TGGG
2337731 TG
1 TG
2337733 ATTATTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 6 0.15
45 34 0.85
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (45 bp):
TGGTACTATACTATTACTAATTCCATAAATTAGGGAACTGATGGG
Found at i:2339495 original size:26 final size:26
Alignment explanation
Indices: 2339464--2339516 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2339454 GATATAATGT
*
2339464 TATTATTTAATCTAATCTTTTTATAA
1 TATTATTTAATCTAATCTTATTATAA
* * *
2339490 TATTATTTTATTTTATCTTATTATAA
1 TATTATTTAATCTAATCTTATTATAA
2339516 T
1 T
2339517 TATGTGTATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTATTTAATCTAATCTTATTATAA
Found at i:2343383 original size:31 final size:31
Alignment explanation
Indices: 2343348--2343410 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
2343338 GTTTATTGCC
2343348 GAGTGGAAAAAGTAACCATCCTTGACAGCTT
1 GAGTGGAAAAAGTAACCATCCTTGACAGCTT
* *
2343379 GAGTGGAAGAAGTAACCGTCCTTGACAGCTT
1 GAGTGGAAAAAGTAACCATCCTTGACAGCTT
2343410 G
1 G
2343411 CCGCTTGCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (31 bp):
GAGTGGAAAAAGTAACCATCCTTGACAGCTT
Found at i:2348284 original size:12 final size:12
Alignment explanation
Indices: 2348267--2348293 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2348257 CTGTTATTAG
2348267 TGTTATCTATGT
1 TGTTATCTATGT
2348279 TGTTATCTATGT
1 TGTTATCTATGT
2348291 TGT
1 TGT
2348294 GCATTCCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.19, T:0.59
Consensus pattern (12 bp):
TGTTATCTATGT
Found at i:2351047 original size:12 final size:13
Alignment explanation
Indices: 2351029--2351095 Score: 70
Period size: 12 Copynumber: 5.4 Consensus size: 13
2351019 TAAGTAAGAA
2351029 ATTTATTTAAATT
1 ATTTATTTAAATT
*
2351042 -TTTA-TTAATTT
1 ATTTATTTAAATT
* *
2351053 A-ATATGTAAATT
1 ATTTATTTAAATT
2351065 ATTTATTTAATATT
1 ATTTATTTAA-ATT
2351079 ATTTA-TTAAATT
1 ATTTATTTAAATT
2351091 ATTTA
1 ATTTA
2351096 AGTAATATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
11 8 0.18
12 18 0.41
13 10 0.23
14 8 0.18
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (13 bp):
ATTTATTTAAATT
Found at i:2351053 original size:20 final size:22
Alignment explanation
Indices: 2351028--2351083 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
2351018 ATAAGTAAGA
2351028 AATTTATTTAAATT-TTTA-TT
1 AATTTATTTAAATTATTTATTT
2351048 AATTTAATATGTAAATTATTTATTT
1 AATTT-AT-T-TAAATTATTTATTT
2351073 AATATTATTTA
1 AAT-TTATTTA
2351084 TTAAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 1 0.03
23 8 0.27
24 5 0.17
25 7 0.23
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
AATTTATTTAAATTATTTATTT
Found at i:2351088 original size:26 final size:25
Alignment explanation
Indices: 2351029--2351108 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 25
2351019 TAAGTAAGAA
2351029 ATTTATTTAAATT-TTTATTAAT-TT
1 ATTTA-TTAAATTATTTATTAATATT
*
2351053 A-ATATGTAAATTATTTATTTAATATT
1 ATTTAT-TAAATTATTTA-TTAATATT
*
2351079 ATTTATTAAATTATTTAAGTAATATT
1 ATTTATTAAATTATTT-ATTAATATT
2351105 ATTT
1 ATTT
2351109 TAAGTTTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 1 0.02
23 8 0.17
24 5 0.11
25 5 0.11
26 24 0.51
27 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (25 bp):
ATTTATTAAATTATTTATTAATATT
Found at i:2351119 original size:15 final size:14
Alignment explanation
Indices: 2351058--2351113 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
2351048 AATTTAATAT
*
2351058 GTAA-ATTATTTAT
1 GTAATATTATTTAA
*
2351071 TTAATATTATTT-A
1 GTAATATTATTTAA
*
2351084 TTAA-ATTATTTAA
1 GTAATATTATTTAA
2351097 GTAATATTATTTTAA
1 GTAATATTA-TTTAA
2351112 GT
1 GT
2351114 TTTATTGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.19
13 11 0.31
14 11 0.31
15 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
GTAATATTATTTAA
Found at i:2351158 original size:19 final size:18
Alignment explanation
Indices: 2351130--2351186 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
2351120 GTATATATAA
*
2351130 TATATGTAATAGTAAATTT
1 TATATATAATA-TAAATTT
*
2351149 TATATATAATAACAAAATTT
1 TATATATAAT-A-TAAATTT
*
2351169 TAT-CATAATATAAATTT
1 TATATATAATATAAATTT
2351186 T
1 T
2351187 TTTCATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 7 0.22
18 1 0.03
19 14 0.44
20 10 0.31
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (18 bp):
TATATATAATATAAATTT
Found at i:2351188 original size:19 final size:19
Alignment explanation
Indices: 2351136--2351193 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
2351126 ATAATATATG
*
2351136 TAATAGTAAATTTTATAT-A
1 TAATA-TAAATTTTTTATCA
**
2351155 TAATA-ACAAAATTTTATCA
1 TAATATA-AATTTTTTATCA
2351174 TAATATAAATTTTTT-TCA
1 TAATATAAATTTTTTATCA
2351192 TA
1 TA
2351194 TTTTTAACAG
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
17 1 0.03
18 12 0.39
19 17 0.55
20 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATATAAATTTTTTATCA
Found at i:2351309 original size:72 final size:73
Alignment explanation
Indices: 2351191--2351331 Score: 169
Period size: 72 Copynumber: 1.9 Consensus size: 73
2351181 AATTTTTTTC
* *
2351191 ATATTTTTAACAGAATTTAAGTTTTTAAATTTTAAAAACGTCTTTTTCATTGAAATTTAAAAAT-
1 ATATTTTTAACAAAATTTAAGTTTTTAAATTTTAAAAAAGTCTTTTTCATTGAAATTTAAAAATA
2351255 TTTTAAAA
66 TTTTAAAA
** * * * ** *
2351263 ATATTTTTAACAAAATTTGTGTTTTT-TATTTTAAAAATATTGTTTTTGTTTGAATTTTAAAAAT
1 ATATTTTTAACAAAATTTAAGTTTTTAAATTTTAAAAA-AGTCTTTTTCATTGAAATTTAAAAAT
2351327 ATTTT
65 ATTTT
2351332 TATATTTTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
71 10 0.18
72 43 0.75
73 4 0.07
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (73 bp):
ATATTTTTAACAAAATTTAAGTTTTTAAATTTTAAAAAAGTCTTTTTCATTGAAATTTAAAAATA
TTTTAAAA
Found at i:2351399 original size:74 final size:77
Alignment explanation
Indices: 2351335--2351481 Score: 198
Period size: 74 Copynumber: 2.0 Consensus size: 77
2351325 ATATTTTTAT
* *
2351335 ATTTTCAATAAAAATTAT-TT-TTATCTTAAAAATATCT-TTTTTGTTAAATTT-TAA-A-AAAT
1 ATTTTTAATAAAAATTATGTTATTATCTTAAAAATAT-TGTATTTGTTAAATTTCTAATACAAAT
2351394 AAAAAATTATTTC
65 AAAAAATTATTTC
* *
2351407 ATTTTTAATAAAGATTCTGTTATTATCTTAAAAATATTGTATTTGTTAAATTTCTAATATCAAAT
1 ATTTTTAATAAAAATTATGTTATTATCTTAAAAATATTGTATTTGTTAAATTTCTAATA-CAAAT
2351472 AAAAAATTAT
65 AAAAAATTAT
2351482 ATATAAAATG
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
72 15 0.23
73 3 0.05
74 28 0.44
75 3 0.05
76 1 0.02
78 14 0.22
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (77 bp):
ATTTTTAATAAAAATTATGTTATTATCTTAAAAATATTGTATTTGTTAAATTTCTAATACAAATA
AAAAATTATTTC
Found at i:2366830 original size:19 final size:19
Alignment explanation
Indices: 2366806--2366842 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2366796 TCGTCCACAA
*
2366806 AATTAGCAAATTCGTTGAC
1 AATTAGCAAATTCATTGAC
*
2366825 AATTAGTAAATTCATTGA
1 AATTAGCAAATTCATTGA
2366843 TAAAATTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
AATTAGCAAATTCATTGAC
Found at i:2370811 original size:17 final size:18
Alignment explanation
Indices: 2370789--2370825 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2370779 TATAATCAAC
2370789 AAAAAATTAA-GAAAAAT
1 AAAAAATTAATGAAAAAT
*
2370806 AAAAAATTAATGTAAAAT
1 AAAAAATTAATGAAAAAT
2370824 AA
1 AA
2370826 TATAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAAATTAATGAAAAAT
Found at i:2371095 original size:23 final size:23
Alignment explanation
Indices: 2371068--2371114 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2371058 TTAATTTGAT
2371068 TAAAAATATATTAACAA-ATAAAA
1 TAAAAATATATTAA-AATATAAAA
* *
2371091 TAAAATTATTTTAAAATATAAAA
1 TAAAAATATATTAAAATATAAAA
2371114 T
1 T
2371115 TAATAGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAAATATATTAAAATATAAAA
Found at i:2378961 original size:153 final size:153
Alignment explanation
Indices: 2378684--2378991 Score: 451
Period size: 153 Copynumber: 2.0 Consensus size: 153
2378674 TATACACTTC
* * * *
2378684 TCCAGTGAATTAAAGTTATCAATTAGACGCTCCAAGTTATGTAGTAATGCCCCACTGTTGATATA
1 TCCAGTAAATTAAAGTTATCAATTAGACACTCCAAGTTAAGTAGTAATGCCCCAATGTTGATATA
* *
2378749 AAAATAGGAAGTTTCTTTTCATTAAACTTTGACCCTACACCTCACAAGTAAAACGAGCT-ATGAA
66 AAAATAGGAAGTTTCTTTTCACTAAACTTTGACCCTACACCTCACAAGAAAAACGAGCTAATGAA
*
2378813 ATTCTTCTGCCAAAGTCAGCGTG
131 ATTCTTCTGCCAAAGTCAACGTG
2378836 TCCAGTAAATTAAAGTTATCAATTAGACACTCCCAAGTTAAGTAGTAATGCCCCAATGTTGATAT
1 TCCAGTAAATTAAAGTTATCAATTAGACACT-CCAAGTTAAGTAGTAATGCCCCAATGTTGATAT
* * * *
2378901 AAAACTAGTAAGTTTCTTTTCACTACACTTT-AGCCCTGCACCTCA-AGAGAAAAACGAGCTAAA
65 AAAAATAGGAAGTTTCTTTTCACTAAACTTTGA-CCCTACACCTCACA-AGAAAAACGAGCT-AA
*
2378964 TGAAATTCTTCTGCCACAGTCAACGTG
127 TGAAATTCTTCTGCCAAAGTCAACGTG
2378991 T
1 T
2378992 ATCTTATCGG
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
152 31 0.22
153 81 0.58
155 27 0.19
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (153 bp):
TCCAGTAAATTAAAGTTATCAATTAGACACTCCAAGTTAAGTAGTAATGCCCCAATGTTGATATA
AAAATAGGAAGTTTCTTTTCACTAAACTTTGACCCTACACCTCACAAGAAAAACGAGCTAATGAA
ATTCTTCTGCCAAAGTCAACGTG
Found at i:2380575 original size:27 final size:28
Alignment explanation
Indices: 2380529--2380584 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2380519 CTAAATTTTG
2380529 AAAAAATATATATAAATTATCATC-TAAAT
1 AAAAAATATATAT-AATTAT-ATCATAAAT
*
2380558 AAAAAATATATAT-TTTATATCATAAAT
1 AAAAAATATATATAATTATATCATAAAT
2380585 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 9 0.36
29 13 0.52
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAAAATATATATAATTATATCATAAAT
Found at i:2382896 original size:18 final size:17
Alignment explanation
Indices: 2382855--2382903 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 17
2382845 ATCCGAAATT
2382855 AAATTTAATAT--TTTA
1 AAATTTAATATAATTTA
*
2382870 AAATATAATATAATTTA
1 AAATTTAATATAATTTA
2382887 AAATTTTAATAATAATT
1 AAA-TTTAAT-ATAATT
2382904 ATATATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.36
17 7 0.25
18 5 0.18
19 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTAATATAATTTA
Found at i:2382906 original size:25 final size:24
Alignment explanation
Indices: 2382851--2382906 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
2382841 GTTAATCCGA
*
2382851 AATTA-AATTTAATATTTTAAAAT
1 AATTATAATTTAAAATTTTAAAAT
*
2382874 ATAATATAATTTAAAATTTTAATAAT
1 A-ATTATAATTTAAAATTTTAA-AAT
2382900 AATTATA
1 AATTATA
2382907 TATAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 3 0.11
25 19 0.70
26 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTATAATTTAAAATTTTAAAAT
Found at i:2383844 original size:17 final size:18
Alignment explanation
Indices: 2383822--2383860 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
2383812 TAATGAGCGA
2383822 TAAAATTAAC-TTAAT-AT
1 TAAAATT-ACTTTAATCAT
2383839 TAAAATTACTTTAATCAT
1 TAAAATTACTTTAATCAT
2383857 TAAA
1 TAAA
2383861 TTATCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.10
17 12 0.60
18 6 0.30
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATTACTTTAATCAT
Found at i:2384401 original size:21 final size:21
Alignment explanation
Indices: 2384377--2384416 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2384367 TTTAAATAAA
2384377 TTTA-TTTATAAAATATTTATT
1 TTTATTTTATAAAAT-TTTATT
2384398 TTTATTTTATAAAATTTTA
1 TTTATTTTATAAAATTTTA
2384417 AAATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTTTATAAAATTTTATT
Found at i:2384484 original size:18 final size:18
Alignment explanation
Indices: 2384452--2384497 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
2384442 TATAATTTGA
** *
2384452 TTTAATTTATTTTTTTAT
1 TTTAATTTAAATTTTAAT
*
2384470 TTTGATTTAAATTTTAAT
1 TTTAATTTAAATTTTAAT
2384488 TTTAATTTAA
1 TTTAATTTAA
2384498 TATATACATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTAATTTAAATTTTAAT
Found at i:2384490 original size:23 final size:23
Alignment explanation
Indices: 2384447--2384491 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2384437 AAATATATAA
**
2384447 TTTGATTTAATTTATTTTTTTAT
1 TTTGATTTAATTTATAATTTTAT
2384470 TTTGATTTAAATTT-TAATTTTA
1 TTTGATTT-AATTTATAATTTTA
2384492 ATTTAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTGATTTAATTTATAATTTTAT
Found at i:2388581 original size:21 final size:20
Alignment explanation
Indices: 2388551--2388590 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2388541 AAAAAAATTT
* *
2388551 TAAAATTTAATTTATTATAA
1 TAAAATTTAAATAATTATAA
2388571 TAAAATATTAAATAATTATA
1 TAAAAT-TTAAATAATTATA
2388591 TAATTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAATTTAAATAATTATAA
Found at i:2388667 original size:24 final size:24
Alignment explanation
Indices: 2388620--2388667 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2388610 CGAGATTTAT
* *
2388620 TTTTATTATATGATTTTACTTAAA
1 TTTTATTATATGATTTGACATAAA
2388644 TTTTATTATATGATTGTGA-ATAAA
1 TTTTATTATATGATT-TGACATAAA
2388668 AGGGCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
TTTTATTATATGATTTGACATAAA
Found at i:2390165 original size:27 final size:27
Alignment explanation
Indices: 2390125--2390181 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2390115 TTAGAATTAG
* * * *
2390125 TATATTTTTTTAAAATATATATTAATA
1 TATATATTTATAAAAAATATATAAATA
*
2390152 TATATATTTATAAAAAATATCTAAATA
1 TATATATTTATAAAAAATATATAAATA
2390179 TAT
1 TAT
2390182 GTGATAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATATTTATAAAAAATATATAAATA
Found at i:2396949 original size:15 final size:14
Alignment explanation
Indices: 2396925--2396955 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
2396915 CCACCGCCCC
2396925 AAAAAAAAAATAAA
1 AAAAAAAAAATAAA
2396939 AAAATAAAAAATAAA
1 AAAA-AAAAAATAAA
2396954 AA
1 AA
2396956 CTCCTGTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAAAAAAAATAAA
Found at i:2401393 original size:23 final size:21
Alignment explanation
Indices: 2401344--2401393 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
2401334 GGAGGATCTG
* *
2401344 AAAAAGAGAAGGAAATGAAGA
1 AAAAAGAGAAAGAAAAGAAGA
*
2401365 ATAAAGAGAAAAGAAGAAGAAGA
1 AAAAAGAG-AAAGAA-AAGAAGA
2401388 AAAAAG
1 AAAAAG
2401394 GTGAGTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 7 0.30
22 5 0.22
23 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (21 bp):
AAAAAGAGAAAGAAAAGAAGA
Found at i:2401950 original size:2 final size:2
Alignment explanation
Indices: 2401943--2401985 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
2401933 TCTGGGATTC
* * * *
2401943 AT AT AT AT AT AT AC AC AC AC 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 AT AT
2401985 A
1 A
2401986 GTGATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:2402652 original size:2 final size:2
Alignment explanation
Indices: 2402645--2402669 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2402635 TAATTATGGG
2402645 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
2402670 GCTCAAAGGC
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:2412312 original size:13 final size:14
Alignment explanation
Indices: 2412292--2412337 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
2412282 AACTCTTTTG
2412292 TATTTTATATTAAT
1 TATTTTATATTAAT
*
2412306 T-TTTTATTTTAAT
1 TATTTTATATTAAT
2412319 TGA-TTTATA-TAAT
1 T-ATTTTATATTAAT
2412332 TATTTT
1 TATTTT
2412338 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 1 0.04
13 20 0.74
14 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTTTATATTAAT
Found at i:2412742 original size:20 final size:20
Alignment explanation
Indices: 2412719--2412758 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2412709 ATTTTTATAT
*
2412719 TTAT-TTAAATATATTAAAAA
1 TTATATTAAA-ATAATAAAAA
2412739 TTATATTAAAATAATAAAAA
1 TTATATTAAAATAATAAAAA
2412759 AATAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATATTAAAATAATAAAAA
Found at i:2412745 original size:22 final size:21
Alignment explanation
Indices: 2412720--2412770 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2412710 TTTTTATATT
* *
2412720 TATTTAAATATATTAAAAATTA
1 TATTTAAATA-ATAAAAAAATA
*
2412742 TATTAAAATAATAAAAAAATA
1 TATTTAAATAATAAAAAAATA
*
2412763 AATTTAAA
1 TATTTAAA
2412771 AAAACTAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATTTAAATAATAAAAAAATA
Found at i:2424675 original size:28 final size:28
Alignment explanation
Indices: 2424644--2424731 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 28
2424634 ATTAACAAAA
2424644 TTATAATTTAAATATTATATTAAAATTT
1 TTATAATTTAAATATTATATTAAAATTT
*
2424672 TTATTATTTAAA-ATTTATATTTAACAA---
1 TTATAATTTAAATA-TTATA-TTAA-AATTT
*
2424699 --AGAATTTAAATATTATATT-AAATATT
1 TTATAATTTAAATATTATATTAAAAT-TT
2424725 TTATAAT
1 TTATAAT
2424732 ATTTTAACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 20
0.66 0.06 0.29
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 2 0.04
25 13 0.28
26 1 0.02
27 1 0.02
28 20 0.43
29 4 0.09
30 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
TTATAATTTAAATATTATATTAAAATTT
Found at i:2424684 original size:16 final size:17
Alignment explanation
Indices: 2424655--2424692 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
2424645 TATAATTTAA
2424655 ATATTATATTAAAATTT
1 ATATTATATTAAAATTT
*
2424672 TTATTAT-TTAAAATTT
1 ATATTATATTAAAATTT
2424688 ATATT
1 ATATT
2424693 TAACAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTATATTAAAATTT
Found at i:2425716 original size:32 final size:33
Alignment explanation
Indices: 2425671--2425741 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
2425661 TCGTTCAAAT
*
2425671 TTTAAA-AATATTTAAATAAAAAATTAAAATTTA
1 TTTAAATAATATTT-AAGAAAAAATTAAAATTTA
* *
2425704 -TTAAATAA-ATTTAAGCAAAAATTTAAATTTA
1 TTTAAATAATATTTAAGAAAAAATTAAAATTTA
2425735 TTTAAAT
1 TTTAAAT
2425742 TTTAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
31 16 0.48
32 15 0.45
33 2 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (33 bp):
TTTAAATAATATTTAAGAAAAAATTAAAATTTA
Found at i:2425812 original size:30 final size:31
Alignment explanation
Indices: 2425778--2425845 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 31
2425768 TTAAAACTTG
*
2425778 AATTATAATCTAATAACATAAATATA-AT-TA
1 AATTAT-ATATAATAACATAAATATATATGTA
* *
2425808 AATTAT-TATAATTATATAAATATATATGTA
1 AATTATATATAATAACATAAATATATATGTA
2425838 AATTATAT
1 AATTATAT
2425846 TTAAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 15 0.47
29 2 0.06
30 14 0.44
31 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (31 bp):
AATTATATATAATAACATAAATATATATGTA
Found at i:2427224 original size:3 final size:3
Alignment explanation
Indices: 2427216--2427263 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
2427206 TTGATTCGAT
* * * * *
2427216 GCA GCA GCA GCA GCA GCA GCA ACA ACA CCA ACA GCA ACA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
2427264 ACAAATAGCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.42, C:0.35, G:0.23, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:2427464 original size:13 final size:13
Alignment explanation
Indices: 2427446--2427476 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2427436 TGATGTAACT
2427446 AGGTTAGTACATA
1 AGGTTAGTACATA
*
2427459 AGGTTAGTAGATA
1 AGGTTAGTACATA
2427472 AGGTT
1 AGGTT
2427477 GATTAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (13 bp):
AGGTTAGTACATA
Found at i:2427816 original size:3 final size:3
Alignment explanation
Indices: 2427808--2427837 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2427798 CTGCTCTCAA
2427808 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
2427838 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2449179 original size:17 final size:18
Alignment explanation
Indices: 2449159--2449206 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
2449149 AAATAAAAGT
*
2449159 TTTTTAATTTTAAATA-A
1 TTTTTAATTTTAAAAACA
*
2449176 -TTTTATTATTTAAAAACA
1 TTTTTAAT-TTTAAAAACA
2449194 TTTTTAATTTTAA
1 TTTTTAATTTTAA
2449207 TTATTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 6 0.24
17 7 0.28
18 6 0.24
19 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTAATTTTAAAAACA
Found at i:2449179 original size:18 final size:18
Alignment explanation
Indices: 2449158--2449215 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 18
2449148 TAAATAAAAG
2449158 TTTTTTAATTTTAAATAA
1 TTTTTTAATTTTAAATAA
2449176 TTTTATT-A-TTTAAA-AA
1 TTTT-TTAATTTTAAATAA
* *
2449192 CATTTTTAATTTT-AATTA
1 -TTTTTTAATTTTAAATAA
2449210 TTTTTT
1 TTTTTT
2449216 GATGTGTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
16 4 0.12
17 17 0.53
18 9 0.28
19 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTAATTTTAAATAA
Found at i:2454632 original size:22 final size:21
Alignment explanation
Indices: 2454581--2454632 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
2454571 AAATTATACT
*
2454581 AAAATAATATATAAAAATAAA
1 AAAATAAAATATAAAAATAAA
*
2454602 AAAATTAAAATTTAAAAATAAA
1 AAAA-TAAAATATAAAAATAAA
2454624 AAGAATAAA
1 AA-AATAAA
2454633 TCGATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 4 0.15
22 21 0.78
23 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAATAAAATATAAAAATAAA
Found at i:2455810 original size:29 final size:29
Alignment explanation
Indices: 2455740--2455820 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
2455730 AAAAAAACAG
* *
2455740 TTTAAAAATAAAAAATTATAAATATTAAGA
1 TTTAAAAA-ATAAATTTATAAATATTAAGA
* * *
2455770 TTTGAATAATAAATTTATTAAATATTAA-T
1 TTTAAAAAATAAATTTA-TAAATATTAAGA
*
2455799 TTTAAAAAATAAATTCATAAAT
1 TTTAAAAAATAAATTTATAAAT
2455821 TAACTGAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 5 0.12
29 21 0.50
30 16 0.38
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (29 bp):
TTTAAAAAATAAATTTATAAATATTAAGA
Found at i:2464949 original size:182 final size:182
Alignment explanation
Indices: 2464642--2465015 Score: 730
Period size: 182 Copynumber: 2.1 Consensus size: 182
2464632 GCAAGGTGAT
2464642 GTAAAGTGCAAGATTTGGCACAGGTAATTAGAAGACACCGTTGATTCATGCGATTATAGATAAAA
1 GTAAAGTGCAAGATTTGGCACAGGTAATTAGAAGACACCGTTGATTCATGCGATTATAGATAAAA
2464707 ATATCACACTATAGTTTCTTTCTTTTGTTTCCATTTTAATGAAGAAACTCCAAGTCAAGCCCAAG
66 ATATCACACTATAGTTTCTTTCTTTTGTTTCCATTTTAATGAAGAAACTCCAAGTCAAGCCCAAG
2464772 TACTTCCACCACCCGCAAGACAGACAAAGTTTGAGTCCATATTGTTGGTATA
131 TACTTCCACCACCCGCAAGACAGACAAAGTTTGAGTCCATATTGTTGGTATA
*
2464824 GTAAAGTGCAAGATTTGGCACAGGTAATTAGAAGACACCGTTGATTCATGCGATTTTAGATAAAA
1 GTAAAGTGCAAGATTTGGCACAGGTAATTAGAAGACACCGTTGATTCATGCGATTATAGATAAAA
2464889 ATATCACACTATAGTTTCTTTCTTTTGTTTCCATTTTAATGAAGAAACTCCAAGTCAAGCCCAAG
66 ATATCACACTATAGTTTCTTTCTTTTGTTTCCATTTTAATGAAGAAACTCCAAGTCAAGCCCAAG
2464954 TACTTCCACCACCCGCAAGACAGACAAAGTTTGAGTCCATATTGTTGGTATA
131 TACTTCCACCACCCGCAAGACAGACAAAGTTTGAGTCCATATTGTTGGTATA
*
2465006 GTAAATTGCA
1 GTAAAGTGCA
2465016 TCCACAAGTG
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 190 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (182 bp):
GTAAAGTGCAAGATTTGGCACAGGTAATTAGAAGACACCGTTGATTCATGCGATTATAGATAAAA
ATATCACACTATAGTTTCTTTCTTTTGTTTCCATTTTAATGAAGAAACTCCAAGTCAAGCCCAAG
TACTTCCACCACCCGCAAGACAGACAAAGTTTGAGTCCATATTGTTGGTATA
Found at i:2468632 original size:36 final size:34
Alignment explanation
Indices: 2468558--2468632 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 34
2468548 ATTAAAATTT
* *
2468558 TAAAAATTATATAATATATATTATATAATAACTG
1 TAAAAATAATATAATATATATTATATAATAACTA
2468592 TAAAAATAATATAATA-ATAATT-TATTAATGTAACTA
1 TAAAAATAATATAATATAT-ATTATA-TAA--TAACTA
2468628 TAAAA
1 TAAAA
2468633 TAAAGATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
33 4 0.11
34 21 0.60
36 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (34 bp):
TAAAAATAATATAATATATATTATATAATAACTA
Found at i:2472954 original size:22 final size:23
Alignment explanation
Indices: 2472908--2472956 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
2472898 ATCTTAGAAA
*
2472908 ATAATAATATAAATTTAAAATTT
1 ATAATAATATAAATTTAAAAGTT
2472931 ATAATAAT-T-AATTTCAAAAGTT
1 ATAATAATATAAATTT-AAAAGTT
2472953 ATAA
1 ATAA
2472957 GTCTGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 11 0.46
23 8 0.33
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATAATAATATAAATTTAAAAGTT
Found at i:2484508 original size:20 final size:20
Alignment explanation
Indices: 2484451--2484508 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
2484441 ATAATATTTT
* *
2484451 AAAATTTATTAATTAAATAAA
1 AAAATTTAAT-ATTTAATAAA
* *
2484472 TAAATTATAA-ATATAATAAA
1 AAAATT-TAATATTTAATAAA
2484492 AAAATTTAATATTTAAT
1 AAAATTTAATATTTAAT
2484509 TTATTTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 3 0.10
20 19 0.66
21 5 0.17
22 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTTAATATTTAATAAA
Found at i:2485668 original size:19 final size:20
Alignment explanation
Indices: 2485625--2485670 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
2485615 AAATATTTTA
*
2485625 TCAA-TAAAATAATTAAAAT
1 TCAATTAAAATAATAAAAAT
*
2485644 T-TATTAAAAT-ATAAAAAT
1 TCAATTAAAATAATAAAAAT
2485662 TCAATTAAA
1 TCAATTAAA
2485671 TTTACAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
TCAATTAAAATAATAAAAAT
Found at i:2491643 original size:16 final size:17
Alignment explanation
Indices: 2491618--2491651 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2491608 TAAATCCAAC
2491618 ATAAATAAAATAGTTTA
1 ATAAATAAAATAGTTTA
*
2491635 ATAAA-AAAATATTTTA
1 ATAAATAAAATAGTTTA
2491651 A
1 A
2491652 ACAATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
ATAAATAAAATAGTTTA
Found at i:2500920 original size:35 final size:35
Alignment explanation
Indices: 2500871--2500940 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
2500861 CTTAAAACAT
*
2500871 TAGATCAAATAGGAAAGATAAAGTTTCTATTGGTA
1 TAGATCAAACAGGAAAGATAAAGTTTCTATTGGTA
2500906 TAGATCAAACAGGAAAGATAAAGTTTCTATTGGTA
1 TAGATCAAACAGGAAAGATAAAGTTTCTATTGGTA
2500941 CCGTGAACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (35 bp):
TAGATCAAACAGGAAAGATAAAGTTTCTATTGGTA
Found at i:2501409 original size:7 final size:7
Alignment explanation
Indices: 2501397--2501423 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2501387 TCTGCAAGGA
2501397 TTTGTAT
1 TTTGTAT
2501404 TTTGTAT
1 TTTGTAT
2501411 TTTGTAT
1 TTTGTAT
2501418 TTTGTA
1 TTTGTA
2501424 ATATGTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (7 bp):
TTTGTAT
Found at i:2505416 original size:21 final size:20
Alignment explanation
Indices: 2505392--2505440 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2505382 ATAAAAAAAT
*
2505392 AATTTTTTTTATCAAAATCAA
1 AATTTTTTTTA-AAAAATCAA
* **
2505413 AATTTTATTTAAAAAATTTA
1 AATTTTTTTTAAAAAATCAA
2505433 AATTTTTT
1 AATTTTTT
2505441 ATGAAATCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTTTTTAAAAAATCAA
Found at i:2518966 original size:21 final size:21
Alignment explanation
Indices: 2518913--2518968 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
2518903 GATCTCTGTA
2518913 AATTTTATCTTTAAACTTCTT
1 AATTTTATCTTTAAACTTCTT
* *
2518934 -ATTTGA-CGTTTACA-TTCTCT
1 AATTTTATC-TTTAAACTTCT-T
2518954 AATTTTATCTTTAAA
1 AATTTTATCTTTAAA
2518969 AAATGTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 10 0.37
22 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.04, T:0.54
Consensus pattern (21 bp):
AATTTTATCTTTAAACTTCTT
Found at i:2520288 original size:26 final size:24
Alignment explanation
Indices: 2520234--2520306 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 24
2520224 ATTTTTTTTA
2520234 TTTATAACTTATATATTTAGATTATTT
1 TTTATAA-TTATATA-TTA-ATTATTT
2520261 TTTATAATTATATATTAATATATATT
1 TTTATAATTATATATTAAT-TAT-TT
* **
2520287 TTAATAAAAATATATTAATT
1 TTTATAATTATATATTAATT
2520307 TTAATTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.05
25 7 0.17
26 25 0.61
27 7 0.17
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (24 bp):
TTTATAATTATATATTAATTATTT
Found at i:2520343 original size:20 final size:19
Alignment explanation
Indices: 2520319--2520363 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2520309 AATTAATTTA
*
2520319 AAATAATAATTTATATTATT
1 AAATAAAAATTTAT-TTATT
*
2520339 TAATAAAAAATTTATTTATT
1 AAAT-AAAAATTTATTTATT
2520359 AAATA
1 AAATA
2520364 TATATAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 11 0.52
21 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAAAAATTTATTTATT
Found at i:2520348 original size:27 final size:24
Alignment explanation
Indices: 2520286--2520349 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 24
2520276 TAATATATAT
*
2520286 TTTAATAAAAATATATTAATTTTAA
1 TTTAATAAAAA-ATAATAATTTTAA
**
2520311 -TTAATTTAAAATAATAATTTATATTA
1 TTTAATAAAAAATAATAATTT-TA--A
2520337 TTTAATAAAAAAT
1 TTTAATAAAAAAT
2520350 TTATTTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 9 0.30
24 10 0.33
26 1 0.03
27 10 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAATAAAAAATAATAATTTTAA
Found at i:2522742 original size:20 final size:20
Alignment explanation
Indices: 2522717--2522755 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2522707 ATAATCATTG
*
2522717 TACTATAATTAGTCAATCAT
1 TACTATAATTAATCAATCAT
2522737 TACTATAATTAATCAATCA
1 TACTATAATTAATCAATCA
2522756 CAATTTAAAA
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:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (20 bp):
TACTATAATTAATCAATCAT
Found at i:2527207 original size:22 final size:20
Alignment explanation
Indices: 2527182--2527221 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
2527172 GTCTACCAAT
2527182 ATAAACAAAATAACCAGCATAA
1 ATAAACAAAAT--CCAGCATAA
*
2527204 ATAATCAAAATCCAGCAT
1 ATAAACAAAATCCAGCAT
2527222 CACAATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.57, C:0.20, G:0.05, T:0.17
Consensus pattern (20 bp):
ATAAACAAAATCCAGCATAA
Found at i:2544425 original size:12 final size:12
Alignment explanation
Indices: 2544392--2544429 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2544382 TGAAGCGTTG
2544392 AATAGAAAGAAAA
1 AATAGAAA-AAAA
*
2544405 AA-AGCAAAAAA
1 AATAGAAAAAAA
2544416 AATAGAAAAAAA
1 AATAGAAAAAAA
2544428 AA
1 AA
2544430 GGGGAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 6 0.27
12 14 0.64
13 2 0.09
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.05
Consensus pattern (12 bp):
AATAGAAAAAAA
Found at i:2548468 original size:14 final size:14
Alignment explanation
Indices: 2548425--2548487 Score: 56
Period size: 14 Copynumber: 4.2 Consensus size: 14
2548415 TCAATTTTAA
2548425 TAATATATAAAATA-
1 TAATAT-TAAAATAT
*
2548439 AAATATTTAAAATAT
1 TAATA-TTAAAATAT
2548454 TAATATTAAAATATTTT
1 TAATATTAAAATA---T
*
2548471 TAATATTAAAATTT
1 TAATATTAAAATAT
2548485 TAA
1 TAA
2548488 ATTTTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
14 23 0.56
15 5 0.12
17 13 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATATTAAAATAT
Found at i:2548493 original size:23 final size:23
Alignment explanation
Indices: 2548425--2548517 Score: 82
Period size: 23 Copynumber: 4.0 Consensus size: 23
2548415 TCAATTTTAA
*
2548425 TAATATATAAAA-TAAAATATTTA
1 TAATAT-TAAAATTAAAATATTTT
* *
2548448 AAATATTAATATTAAAATATTTT
1 TAATATTAAAATTAAAATATTTT
* *
2548471 TAATATTAAAATTTTAAATTTTTAT
1 TAATATTAAAA-TTAAAATATTT-T
* *
2548496 TAAAATT-AAATAAAAATATTTT
1 TAATATTAAAATTAAAATATTTT
2548518 GATTAATATA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
22 5 0.09
23 32 0.57
24 12 0.21
25 7 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATATTAAAATTAAAATATTTT
Found at i:2552023 original size:6 final size:6
Alignment explanation
Indices: 2552014--2552098 Score: 57
Period size: 7 Copynumber: 13.7 Consensus size: 6
2552004 AGGTTTTTTT
* * **
2552014 TTTTCA TTTT-A TTTTTA TTTTTA TTTTTG TTTTCAA TTTTCAA TTTTCAA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTC-A TTTTC-A TTTTC-A
* *
2552064 TTTTCAA TTTTCAA TTTTGA TTTTGA TTTT-A TTTT
1 TTTTC-A TTTTC-A TTTTCA TTTTCA TTTTCA TTTT
2552099 GATGTTATTA
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
5 10 0.14
6 31 0.42
7 32 0.44
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:2552053 original size:7 final size:7
Alignment explanation
Indices: 2552043--2552081 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
2552033 TTTATTTTTG
2552043 TTTTCAA
1 TTTTCAA
2552050 TTTTCAA
1 TTTTCAA
2552057 TTTTCAA
1 TTTTCAA
2552064 TTTTCAA
1 TTTTCAA
2552071 TTTTCAA
1 TTTTCAA
2552078 TTTT
1 TTTT
2552082 GATTTTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTCAA
Found at i:2556690 original size:14 final size:15
Alignment explanation
Indices: 2556647--2556690 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
2556637 TCATTTTTAA
2556647 TAATATATAAAATA-
1 TAATATATAAAATAT
*
2556661 AAATATATAAAATAT
1 TAATATATAAAATAT
2556676 TAATAT-TAAAATAT
1 TAATATATAAAATAT
2556690 T
1 T
2556691 TTTAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATATAAAATAT
Found at i:2556707 original size:14 final size:14
Alignment explanation
Indices: 2556662--2556709 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
2556652 TATAAAATAA
*
2556662 AATATATAAAATATT
1 AATAT-TAAAATTTT
2556677 AATATTAAAATATTTTT
1 AATATT-AAA-A-TTTT
2556694 AATATTAAAATTTT
1 AATATTAAAATTTT
2556708 AA
1 AA
2556710 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.24
15 9 0.31
16 4 0.14
17 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATATTAAAATTTT
Found at i:2556720 original size:25 final size:23
Alignment explanation
Indices: 2556647--2556739 Score: 73
Period size: 23 Copynumber: 4.0 Consensus size: 23
2556637 TCATTTTTAA
* *
2556647 TAATATATAAAA-TAAAATATATA
1 TAATAT-TAAAATTAAAATATTTT
* *
2556670 AAATATTAATATTAAAATATTTT
1 TAATATTAAAATTAAAATATTTT
* *
2556693 TAATATTAAAATTTTAAATTTTTAT
1 TAATATTAAAA-TTAAAATATTT-T
* *
2556718 TAAAATT-AAATAAAAATATTTT
1 TAATATTAAAATTAAAATATTTT
2556740 GATTAATATA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
22 5 0.09
23 31 0.56
24 12 0.22
25 7 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATATTAAAATTAAAATATTTT
Found at i:2557856 original size:21 final size:19
Alignment explanation
Indices: 2557832--2557870 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
2557822 TATAATAAGA
2557832 ATTTTCATTCTATTAATTTTG
1 ATTTTCATT-T-TTAATTTTG
*
2557853 ATTTTGATTTTTAATTTT
1 ATTTTCATTTTTAATTTT
2557871 TGTTAGATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTCATTTTTAATTTTG
Found at i:2559223 original size:9 final size:9
Alignment explanation
Indices: 2559203--2559233 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2559193 TAGGAAAATC
2559203 TTTAATTTAA
1 TTTAA-TTAA
2559213 TTTAATTAA
1 TTTAATTAA
2559222 TTTAATTAA
1 TTTAATTAA
2559231 TTT
1 TTT
2559234 GTTTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTAATTAA
Found at i:2560275 original size:14 final size:13
Alignment explanation
Indices: 2560240--2560290 Score: 68
Period size: 14 Copynumber: 3.8 Consensus size: 13
2560230 TTTTCATTTT
*
2560240 ATTTTTATTTT-T
1 ATTTTTATTTTCA
2560252 ATTTTTATTTTCA
1 ATTTTTATTTTCA
2560265 ATTTTTAATTTTCA
1 ATTTTT-ATTTTCA
2560279 ATTTTTAATTTT
1 ATTTTT-ATTTT
2560291 GATATTGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 11 0.31
13 6 0.17
14 19 0.53
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTTATTTTCA
Found at i:2560308 original size:6 final size:6
Alignment explanation
Indices: 2560236--2560382 Score: 66
Period size: 6 Copynumber: 23.5 Consensus size: 6
2560226 TCTTTTTTCA
* *
2560236 TTTTAT TTTTAT TTTTAT TTTTAT TTTCAAT TTTTAAT TTTCAAT TTTTAAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTT-AT TTT-TAT TTTT-AT
* * * * * *
2560288 TTTGAT ATTGA- TTTTAT TTTTCTT ATTTTAT TTTCA- TTATAT TATTTAT
1 TTTTAT TTTTAT TTTTAT TTTT-AT -TTTTAT TTTTAT TTTTAT T-TTTAT
* * * * * *
2560337 ATATAT TTTTAC TATTA- TTTTAT CCTTTAT TATTAT TTATTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TT-TTAT TTT
2560383 AAATTGAGCA
Statistics
Matches: 104, Mismatches: 25, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
5 10 0.10
6 53 0.51
7 37 0.36
8 4 0.04
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (6 bp):
TTTTAT
Found at i:2560317 original size:14 final size:15
Alignment explanation
Indices: 2560298--2560334 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
2560288 TTTGATATTG
2560298 ATTTTATTTTTC-TT
1 ATTTTATTTTTCATT
2560312 ATTTTA-TTTTCATT
1 ATTTTATTTTTCATT
*
2560326 ATATTATTT
1 ATTTTATTT
2560335 ATATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 13 0.65
15 2 0.10
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTTCATT
Found at i:2561764 original size:16 final size:16
Alignment explanation
Indices: 2561745--2561776 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2561735 TTTAGGTTGC
*
2561745 TCTTTGTATTTATTAT
1 TCTTTGTATATATTAT
2561761 TCTTTGTATATATTAT
1 TCTTTGTATATATTAT
2561777 GTGTATACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (16 bp):
TCTTTGTATATATTAT
Found at i:2566327 original size:45 final size:44
Alignment explanation
Indices: 2566276--2566397 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 44
2566266 ACATAAAGTC
2566276 TTTCGAATGAAAATCTTTGAAATTTTGGATGTGAATCCCAAAACT
1 TTTCGAATGAAAATCTTT-AAATTTTGGATGTGAATCCCAAAACT
* * * * * * *
2566321 TTTCGAATGAGAATTTTTTAAACTCTAGATGTGAATCCTAAAATT
1 TTTCGAATGA-AAATCTTTAAATTTTGGATGTGAATCCCAAAACT
* * *
2566366 TTTTGAATAAAAATCTTTAAATTTTGGTTGTG
1 TTTCGAATGAAAATCTTTAAATTTTGGATGTG
2566398 GACCTTGAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
44 16 0.26
45 39 0.64
46 6 0.10
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (44 bp):
TTTCGAATGAAAATCTTTAAATTTTGGATGTGAATCCCAAAACT
Found at i:2566552 original size:21 final size:22
Alignment explanation
Indices: 2566494--2566552 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
2566484 AATGTGAAAT
*
2566494 TTTTG-ATGTAAATCTTTAAGT
1 TTTTGAATGTAAATCTTTAAGC
* **
2566515 TTTTCAAATAAAAATCTTTAA-C
1 TTTT-GAATGTAAATCTTTAAGC
2566537 TTTTGAATGTAAATCT
1 TTTTGAATGTAAATCT
2566553 CTAAAGTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 13 0.45
22 4 0.14
23 12 0.41
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (22 bp):
TTTTGAATGTAAATCTTTAAGC
Found at i:2566650 original size:21 final size:21
Alignment explanation
Indices: 2566583--2566650 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
2566573 AATTTGGATG
*
2566583 TGAATC-CTTAAAGTTTTTGAA
1 TGAATCTC-TAAAATTTTTGAA
* * *
2566604 TGAAAATCTCT-AACTTTTGGGTA
1 TG--AATCTCTAAAATTTT-TGAA
2566627 TGAATCTCTAAAATTTTTGAA
1 TGAATCTCTAAAATTTTTGAA
2566648 TGA
1 TGA
2566651 GAATATTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
21 14 0.39
22 12 0.33
23 9 0.25
24 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (21 bp):
TGAATCTCTAAAATTTTTGAA
Found at i:2566659 original size:81 final size:80
Alignment explanation
Indices: 2566473--2566659 Score: 189
Period size: 81 Copynumber: 2.3 Consensus size: 80
2566463 TATAAAATGT
* * * *
2566473 TAAAGTTTTTGAATGTGAAATTTTTGATGTAAATCTTTAAGTTTTTCAAATAAAAATCTTTAACT
1 TAAAGTTTTTGAATGAGAAA-TTTGGATGTAAATCTTAAAGTTTTTCAAATAAAAATCTCTAACT
*
2566538 TTTGAATGTAAATCTC
65 TTTGAATATAAATCTC
* * * * *
2566554 TAAAGTTTTT-AAAGTACAAAATTTGGATGTGAATCCTTAAAGTTTTT-GAATGAAAATCTCTAA
1 TAAAGTTTTTGAATG-A-GAAATTTGGATGTAAAT-CTTAAAGTTTTTCAAATAAAAATCTCTAA
** *
2566617 CTTTTGGGTATGAATCTC
63 CTTTTGAATATAAATCTC
*
2566635 TAAAATTTTTGAATGAGAATATTTG
1 TAAAGTTTTTGAATGAGAA-ATTTG
2566660 AATATCCATG
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
80 5 0.06
81 63 0.74
82 17 0.20
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (80 bp):
TAAAGTTTTTGAATGAGAAATTTGGATGTAAATCTTAAAGTTTTTCAAATAAAAATCTCTAACTT
TTGAATATAAATCTC
Found at i:2566924 original size:17 final size:17
Alignment explanation
Indices: 2566904--2566936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2566894 ACCTCTGCGA
*
2566904 AATTTGAAATCTTTGTG
1 AATTTGAAACCTTTGTG
2566921 AATTTGAAACCTTTGT
1 AATTTGAAACCTTTGT
2566937 TAAGCTTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (17 bp):
AATTTGAAACCTTTGTG
Found at i:2567295 original size:42 final size:42
Alignment explanation
Indices: 2567191--2567723 Score: 303
Period size: 42 Copynumber: 12.6 Consensus size: 42
2567181 GTTTCAGTCC
* ** * * *
2567191 CATTTTCTATTTTAAAGTTGTTTAGTGTCTGTATAGAAAAAC-
1 CATTTTCTATTTTAAAGTTATTTAGCCTCTGTTTAG-AGAGCT
*
2567233 CTATTTTCTATTTTAAAGTTATTTAACCTCTGTTTAGAGTAG--
1 C-ATTTTCTATTTTAAAGTTATTTAGCCTCTGTTTAGAG-AGCT
* * * *
2567275 CATATTCCTATTTTAAAGTTATTTAACCTCTATTTAGTTGAGCT
1 CAT-TTTCTATTTTAAAGTTATTTAGCCTCTGTTTAG-AGAGCT
* *
2567319 CA-TTTCT-TATTT-AAGTTGTTTAGCTTCTGTTTAGAAGAGCT
1 CATTTTCTAT-TTTAAAGTTATTTAGCCTCTGTTTAG-AGAGCT
* * *
2567360 CATTTCCTATTTTAAAGTTATTTAGCTTCTATTTAGAAGAGCT
1 CATTTTCTATTTTAAAGTTATTTAGCCTCTGTTTAG-AGAGCT
* * *
2567403 CATTTTCTA-TTTAAAGTTGTTTAGCCTCTGTTTAGAGGAACA
1 CATTTTCTATTTTAAAGTTATTTAGCCTCTGTTTAGA-GAGCT
* * * * *
2567445 CATTTTCTATTTTAAAGTTGTTTAGCATTTGTTTTGAGGAGCA
1 CATTTTCTATTTTAAAGTTATTTAGCCTCTGTTTAGA-GAGCT
* * * *
2567488 CATTTTCTA-TTTAAAGTTGTTTAGCCTTTATTTAGAGGAACCT
1 CATTTTCTATTTTAAAGTTATTTAGCCTCTGTTTAGA-G-AGCT
* * * * *
2567531 C-TTTT-TATTTTAATA-TTGTTTAGCTTCTATTTAGTGGTGCT
1 CATTTTCTATTTTAA-AGTTATTTAGCCTCTGTTTAG-AGAGCT
* * * * *
2567572 -AATTTCTCA-TTTAAAGTTGTTTAACCTCTATTTAAAGGAG-T
1 CATTTTCT-ATTTTAAAGTTATTTAGCCTCTGTTTAGA-GAGCT
* * *
2567613 CCA-TTTCTTATTTTAAAATTATTTAGCATATGTTTAGAGGAGCT
1 -CATTTTC-TATTTTAAAGTTATTTAGCCTCTGTTTAGA-GAGCT
** * * *
2567657 CA-TTTCTTATTTT-AAGCGATTTAACTTCTATTGTA-AGAAGCT
1 CATTTTC-TATTTTAAAGTTATTTAGCCTCTGTT-TAGAG-AGCT
* *
2567699 CATTTCCTA-TTTAAAGTTGTTTAGC
1 CATTTTCTATTTTAAAGTTATTTAGC
2567724 TTTTACTTAG
Statistics
Matches: 396, Mismatches: 65, Indels: 60
0.76 0.12 0.12
Matches are distributed among these distances:
41 42 0.11
42 196 0.49
43 155 0.39
44 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (42 bp):
CATTTTCTATTTTAAAGTTATTTAGCCTCTGTTTAGAGAGCT
Found at i:2567469 original size:85 final size:84
Alignment explanation
Indices: 2567190--2567745 Score: 404
Period size: 85 Copynumber: 6.6 Consensus size: 84
2567180 CGTTTCAGTC
* * * *
2567190 CCATTTTCTATTTTAAAGTTGTTTAG-TGTCTGTATAGAAAAAC-CTATTTTCTATTTTAAAGTT
1 CCATTTTCTATTTTAAAGTTGTTTAGCT-TCTATTTAGAAGAGCTC-ATTTTCTA-TTTAAAGTT
* * *
2567253 ATTTAACCTCTGTTTAGA-GTA
63 GTTTAACCTCTATTTAGAGGAA
* * * * * **
2567274 GCATATTCCTATTTTAAAGTTATTTAACCTCTATTTAGTTGAGCTCA-TTTCTTATTT-AAGTTG
1 CCAT-TTTCTATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTC-TATTTAAAGTTG
* * * * *
2567337 TTTAGCTTCTGTTTAGAAGAG
64 TTTAACCTCTATTTAGAGGAA
* *
2567358 CTCATTTCCTATTTTAAAGTTATTTAGCTTCTATTTAGAAGAGCTCATTTTCTATTTAAAGTTGT
1 C-CATTTTCTATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTCTATTTAAAGTTGT
* *
2567423 TTAGCCTCTGTTTAGAGGAA
65 TTAACCTCTATTTAGAGGAA
* * * *
2567443 CACATTTTCTATTTTAAAGTTGTTTAGCATT-TGTTTTGAGGAGCACATTTTCTATTTAAAGTTG
1 C-CATTTTCTATTTTAAAGTTGTTTAGC-TTCTATTTAGAAGAGCTCATTTTCTATTTAAAGTTG
* *
2567507 TTTAGCCTTTATTTAGAGGAA
64 TTTAACCTCTATTTAGAGGAA
* ** * *
2567528 CC-TCTTTTTATTTTAATA-TTGTTTAGCTTCTATTTAGTGGTGCT-AATTTCTCATTTAAAGTT
1 CCAT-TTTCTATTTTAA-AGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTCT-ATTTAAAGTT
* *
2567590 GTTTAACCTCTATTTAAAGGAGT
63 GTTTAACCTCTATTTAGAGGA-A
* * * * * * * *
2567613 CCA-TTTCTTATTTTAAAATTATTTAGCATATGTTTAGAGGAGCTCA-TTTCTTATTTTAAG-CG
1 CCATTTTC-TATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTC-TATTTAAAGTTG
*
2567675 ATTTAACTTCTATTGTA-A-GAA
64 -TTTAACCTCTATT-TAGAGGAA
* * * *
2567696 GCTCATTTCCTA-TTTAAAGTTGTTTAGCTTTTACTTAGAAGAGCCCATTT
1 -C-CATTTTCTATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTT
2567746 CTTGATTTAG
Statistics
Matches: 383, Mismatches: 64, Indels: 49
0.77 0.13 0.10
Matches are distributed among these distances:
83 29 0.08
84 147 0.38
85 197 0.51
86 10 0.03
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (84 bp):
CCATTTTCTATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTCTATTTAAAGTTGTT
TAACCTCTATTTAGAGGAA
Found at i:2567501 original size:169 final size:168
Alignment explanation
Indices: 2567191--2567745 Score: 524
Period size: 169 Copynumber: 3.3 Consensus size: 168
2567181 GTTTCAGTCC
* * * * * *
2567191 CATTTTCTATTTTAAAGTTGTTTAG-TGTCTGTATAGAAAAAC-CTATTTTCTATTTTAAAGTTA
1 CATTTCCTATTTTAAAGTTGTTTAGCT-TCTATTTAGAAGAGCTC-ATTTTCTA-TTTAAAGTTG
* * * * * * * * **
2567254 TTTAACCTCTGTTTAGAGTAGCATATTCCTATTTTAAAGTTATTTAACCTCTATTTAGTTGAGCT
63 TTTAACCTCTGTTTAGAGGAACACATTTCTATTTTAAAGTTATTTAGCATATGTTTAGAGGAGCT
2567319 CATTTCTTATTTAAGTTGTTTAGCTTCTGTTTAGAAG-AGCT
128 CATTTCTTATTTAAGTTGTTTAGCTTCT-TTTAGAAGAAGCT
*
2567360 CATTTCCTATTTTAAAGTTATTTAGCTTCTATTTAGAAGAGCTCATTTTCTATTTAAAGTTGTTT
1 CATTTCCTATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTCTATTTAAAGTTGTTT
* * * * *
2567425 AGCCTCTGTTTAGAGGAACACATTTTCTATTTTAAAGTTGTTTAGCATTTGTTTTGAGGAGCACA
66 AACCTCTGTTTAGAGGAACACA-TTTCTATTTTAAAGTTATTTAGCATATGTTTAGAGGAGCTCA
* *
2567490 TTT-TCTATTTAAAGTTGTTTAGCCTT-TATTTAGAGGAACCT
130 TTTCT-TATTT-AAGTTGTTTAG-CTTCT-TTTAGAAGAAGCT
* ** * *
2567531 C-TTT-TTATTTTAATA-TTGTTTAGCTTCTATTTAGTGGTGCT-AATTTCTCATTTAAAGTTGT
1 CATTTCCTATTTTAA-AGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTCT-ATTTAAAGTTGT
* * * *
2567592 TTAACCTCTATTTAAAGGAGTC-CATTTCTTATTTTAAAATTATTTAGCATATGTTTAGAGGAGC
64 TTAACCTCTGTTTAGAGGA-ACACATTTC-TATTTTAAAGTTATTTAGCATATGTTTAGAGGAGC
* * *
2567656 TCATTTCTTATTTTAAG-CGATTTAACTTCTATT-GTAAGAAGCT
127 TCATTTCTTA-TTTAAGTTG-TTTAGCTTCTTTTAG-AAGAAGCT
* * *
2567699 CATTTCCTA-TTTAAAGTTGTTTAGCTTTTACTTAGAAGAGCCCATTT
1 CATTTCCTATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTT
2567746 CTTGATTTAG
Statistics
Matches: 314, Mismatches: 52, Indels: 39
0.78 0.13 0.10
Matches are distributed among these distances:
167 1 0.00
168 55 0.18
169 216 0.69
170 35 0.11
171 7 0.02
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (168 bp):
CATTTCCTATTTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCATTTTCTATTTAAAGTTGTTT
AACCTCTGTTTAGAGGAACACATTTCTATTTTAAAGTTATTTAGCATATGTTTAGAGGAGCTCAT
TTCTTATTTAAGTTGTTTAGCTTCTTTTAGAAGAAGCT
Found at i:2567745 original size:42 final size:42
Alignment explanation
Indices: 2567279--2567746 Score: 330
Period size: 42 Copynumber: 11.1 Consensus size: 42
2567269 GAGTAGCATA
* * * **
2567279 TTCCTATTTTAAAGTTATTTAACCTCTATTTAGTTGAGCTCAT
1 TTCCTA-TTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
* *
2567322 TTCTTATTT-AAGTTGTTTAGCTTCTGTTTAGAAGAGCTCAT
1 TTCCTATTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
*
2567363 TTCCTATTTTAAAGTTATTTAGCTTCTATTTAGAAGAGCTCAT
1 TTCCTA-TTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
* * * * * *
2567406 TTTCTATTTAAAGTTGTTTAGCCTCTGTTTAGAGGAACACAT
1 TTCCTATTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
* * * * *
2567448 TTTCTATTTTAAAGTTGTTTAGCATT-TGTTTTGAGGAGCACAT
1 TTCCTA-TTTAAAGTTGTTTAGC-TTCTATTTAGAAGAGCTCAT
* * *
2567491 TTTCTATTTAAAGTTGTTTAGCCTT-TATTTAGAGGAACCTC-T
1 TTCCTATTTAAAGTTGTTTAG-CTTCTATTTAGAAG-AGCTCAT
* ** * *
2567533 TT-TTATTTTAATA-TTGTTTAGCTTCTATTTAGTGGTGCTAAT
1 TTCCTA-TTTAA-AGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
* *
2567575 TT-CTCATTTAAAGTTGTTTAACCTCTATTTA-AAGGAG-TCCAT
1 TTCCT-ATTTAAAGTTGTTTAGCTTCTATTTAGAA-GAGCT-CAT
* * * * * * *
2567617 TTCTTATTTTAAAATTATTTAGCATATGTTTAGAGGAGCTCAT
1 TTCCTA-TTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
* * * *
2567660 TTCTTATTTTAAG-CGATTTAACTTCTA-TT-GTAAGAAGCTCAT
1 TTCCTATTTAAAGTTG-TTTAGCTTCTATTTAG-AAG-AGCTCAT
* * *
2567702 TTCCTATTTAAAGTTGTTTAGCTTTTACTTAGAAGAGCCCAT
1 TTCCTATTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
2567744 TTC
1 TTC
2567747 TTGATTTAGT
Statistics
Matches: 342, Mismatches: 59, Indels: 49
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.00
41 44 0.13
42 172 0.50
43 121 0.35
44 4 0.01
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (42 bp):
TTCCTATTTAAAGTTGTTTAGCTTCTATTTAGAAGAGCTCAT
Found at i:2573873 original size:52 final size:52
Alignment explanation
Indices: 2573816--2573961 Score: 145
Period size: 51 Copynumber: 2.8 Consensus size: 52
2573806 AACTGTAATT
* * *
2573816 GAGAGATTTTTTGGATTTAATTTCAAAATCAATTGACATTAAAAATTAT-GTG
1 GAGAGATTTTTAGGATTTAATTTCAAAATCAATTCACATTAAAAATGATAG-G
* ** * *
2573868 GAGAGATTGTCGGGATTTAA-TTCTATAATCAATTCATATT-AAAATGATAGG
1 GAGAGATTTTTAGGATTTAATTTC-AAAATCAATTCACATTAAAAATGATAGG
* * * *
2573919 GAGAGATTTTTAAGATTTGATTTCAGAATCAATTCTCATTAAA
1 GAGAGATTTTTAGGATTTAATTTCAAAATCAATTCACATTAAA
2573962 TCAAAAATCA
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
51 39 0.52
52 36 0.48
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (52 bp):
GAGAGATTTTTAGGATTTAATTTCAAAATCAATTCACATTAAAAATGATAGG
Found at i:2574493 original size:10 final size:10
Alignment explanation
Indices: 2574479--2574527 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
2574469 TTTTCTTATT
2574479 TTTTTATTTA
1 TTTTTATTTA
* *
2574489 ATTTTGTTTA
1 TTTTTATTTA
2574499 TTTTTATTTA
1 TTTTTATTTA
2574509 TTTTTA-TTA
1 TTTTTATTTA
2574518 TTTCTTATTT
1 TTT-TTATTT
2574528 TAAATTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 6 0.18
10 25 0.76
11 2 0.06
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:2574520 original size:28 final size:31
Alignment explanation
Indices: 2574448--2574520 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 31
2574438 TTTCCATTCC
* *
2574448 ATTTTT-TTGTTTTGATTCTATTTTTCTTAT
1 ATTTTTATTATTTTGATTCTATTTTTATTAT
*
2574478 TTTTTTATTTAATTTTG-TT-TATTTTTATT-T
1 ATTTTTA-TT-ATTTTGATTCTATTTTTATTAT
2574508 ATTTTTATTATTT
1 ATTTTTATTATTT
2574521 CTTATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
28 4 0.11
29 2 0.06
30 12 0.33
31 9 0.25
32 4 0.11
33 5 0.14
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (31 bp):
ATTTTTATTATTTTGATTCTATTTTTATTAT
Found at i:2574530 original size:41 final size:41
Alignment explanation
Indices: 2574448--2574530 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
2574438 TTTCCATTCC
* * *
2574448 ATTTTTTTGTTTTGATTCTATTTTTCTTATTTTTTTATTTA
1 ATTTTTTTATTTTGATTCTATTTTTATTATTTTTATATTTA
*
2574489 ATTTTGTTTATTTTTATT-TATTTTTATTATTTCTTAT-TTTA
1 ATTTT-TTTATTTTGATTCTATTTTTATTATTT-TTATATTTA
2574530 A
1 A
2574531 ATTGAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 23 0.64
42 13 0.36
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (41 bp):
ATTTTTTTATTTTGATTCTATTTTTATTATTTTTATATTTA
Found at i:2578271 original size:14 final size:14
Alignment explanation
Indices: 2578248--2578288 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
2578238 AATTTTCTTG
*
2578248 AAAAATAAAAAAAC
1 AAAAAAAAAAAAAC
2578262 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
2578276 AAACAAAAAAAAA
1 AAA-AAAAAAAAA
2578289 GAAATTGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:2578279 original size:18 final size:17
Alignment explanation
Indices: 2578248--2578288 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
2578238 AATTTTCTTG
*
2578248 AAAAATAAAAAAACAAA
1 AAAAAAAAAAAAACAAA
2578265 AAAAAAAAAACAAACAAA
1 AAAAAAAAAA-AAACAAA
2578283 AAAAAA
1 AAAAAA
2578289 GAAATTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAACAAA
Found at i:2578631 original size:24 final size:23
Alignment explanation
Indices: 2578604--2578654 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
2578594 AAAGAGAAAC
2578604 AAAAATG-AAAAGAAAAAACAAGAA
1 AAAAATGTAAAAG-AAAAACAA-AA
* *
2578628 AAAAGTGTGAAAGAAAAACAAAA
1 AAAAATGTAAAAGAAAAACAAAA
2578651 AAAA
1 AAAA
2578655 TTACAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 14 0.58
25 4 0.17
ACGTcount: A:0.76, C:0.04, G:0.14, T:0.06
Consensus pattern (23 bp):
AAAAATGTAAAAGAAAAACAAAA
Found at i:2578662 original size:12 final size:12
Alignment explanation
Indices: 2578645--2578679 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2578635 TGAAAGAAAA
2578645 ACAAAAAAAATT
1 ACAAAAAAAATT
*
2578657 ACAAAAAAAAGT
1 ACAAAAAAAATT
*
2578669 AAAAAAAAAAT
1 ACAAAAAAAAT
2578680 GAAGGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (12 bp):
ACAAAAAAAATT
Found at i:2579744 original size:68 final size:68
Alignment explanation
Indices: 2579659--2579866 Score: 242
Period size: 68 Copynumber: 3.1 Consensus size: 68
2579649 CAAATTATTA
* *
2579659 TGAAACCTTTACGAATCTAGAACCTTTACGAAACTTGAAATCTTACGAATCTTTCATTCTTGTGA
1 TGAAATCTTTACGAATCTAAAACCTTTACGAAACTTGAAATCTTACGAATCTTTCATTCTTGTGA
2579724 ATT
66 ATT
* * * * *
2579727 TGAAATCTTTACAAATCTAAAACCTTTACGAAACTT-AGAATCTTGCAAATCTTTTATTCCTGTG
1 TGAAATCTTTACGAATCTAAAACCTTTACGAAACTTGA-AATCTTACGAATCTTTCATTCTTGTG
*
2579791 AATC
65 AATT
* * * * * *
2579795 TGAAATTTTTACGAATCTATAA-CTTCTATGAAACTTGGACTCTTACGAATTTTTCATT-TTGTG
1 TGAAATCTTTACGAATCTAAAACCTT-TACGAAACTTGAAATCTTACGAATCTTTCATTCTTGTG
2579858 AATT
65 AATT
*
2579862 CGAAA
1 TGAAA
2579867 GTCCTTATGA
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
67 15 0.13
68 101 0.87
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.38
Consensus pattern (68 bp):
TGAAATCTTTACGAATCTAAAACCTTTACGAAACTTGAAATCTTACGAATCTTTCATTCTTGTGA
ATT
Found at i:2580695 original size:121 final size:117
Alignment explanation
Indices: 2580321--2580694 Score: 363
Period size: 121 Copynumber: 3.1 Consensus size: 117
2580311 AGTTTTGGTC
* * * * * * *
2580321 GTTTCATTTTTTGACTCATGATTTCATCCTGATCACTCGATCTTGACTTAGTGTAGATCATTTTT
1 GTTTCATTTTTTGACTTATGGTTTCGTCCTGGTCACTCGATCTTGGCTTAGTCTAGATCATTTCT
* * * * * *
2580386 TATGAATCTTGGTTTCATCTCGATCATTTATTTTTGACATCGACTCGGTCCTGGT
66 TATG-AT-TTGGTTTCATCTCGATCATTTATTTTTTACCTCAACT-TGTTCTGTT
* * * * * *
2580441 GTTTTATTTTTTTGACTTGTGGTTTCGTCCAGGTCACCCGATCTTGGCTCAGTCCAGATCATTTC
1 GTTTCA-TTTTTTGACTTATGGTTTCGTCCTGGTCACTCGATCTTGGCTTAGTCTAGATCATTTC
* * * * * *
2580506 TTATTATTCGTGATTTCATCTCGGTCATTTATTTTTTACCTTAACTTGATTTTGGTC
65 TTATGATT--TGGTTTCATCTCGATCATTTATTTTTTACCTCAACTTG-TTCT-GTT
** * *
2580563 ACTTCATTTTTTGACTTTTGGTTTCGTCCTGGTTACTCGATCTTGGCTTAGTCTAGATCA-TTCT
1 GTTTCATTTTTTGACTTATGGTTTCGTCCTGGTCACTCGATCTTGGCTTAGTCTAGATCATTTCT
*
2580627 TATGACTTATGGTTTCGTCTCGATCATTTATTTTTTACCTCAACTTAGTTCTGATT
66 TATGA-TT-TGGTTTCATCTCGATCATTTATTTTTTACCTCAACTT-GTTCTG-TT
2580683 GTTTCATTTTTT
1 GTTTCATTTTTT
2580695 TACTCATGAT
Statistics
Matches: 202, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
119 2 0.01
120 63 0.31
121 133 0.66
122 4 0.02
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.49
Consensus pattern (117 bp):
GTTTCATTTTTTGACTTATGGTTTCGTCCTGGTCACTCGATCTTGGCTTAGTCTAGATCATTTCT
TATGATTTGGTTTCATCTCGATCATTTATTTTTTACCTCAACTTGTTCTGTT
Found at i:2580805 original size:241 final size:242
Alignment explanation
Indices: 2580323--2580820 Score: 533
Period size: 241 Copynumber: 2.1 Consensus size: 242
2580313 TTTTGGTCGT
* *
2580323 TTCATTTTTTGACTCATGATTTCATCCTGATCACTCGATCTTGACTTAGTGTAGATCATTTTTTA
1 TTCATTTTTTGACTCATGATTTCATCCTGATCACTCGATCTTGACTTAGTCTAGATCATTTCTTA
* * *
2580388 TGAATCTTGGTTTCATCTCGATCATTTATTTTTGACATCGACTCGGTCCTGGTGTTTTATTTTTT
66 TGAATCTTGGTTTCATCTCGATCATTTATTTTTGACATCAACTCAGTCCTGGTGTTTCATTTTTT
** * * * * * *
2580453 TGACTTGTGGTTTCGTCCAGGTCACCCGATCTTGGCTCAGTCCAGATCATTTCTTATTATTCGTG
131 TGACTCATGATTTCGTCCAGATCACCCAATCTTGGCTCAATCCAGATAATTTCTTATGATTCGTG
* * * **
2580518 ATTTCATCTCGGTCATTTATTTTTTACCTTAACTTGATTTTGGTCAC
196 ATTTCATCTCAGTCATTTATTTTTAACCGTAACTTGATCCTGGTCAC
** * * * * *
2580565 TTCATTTTTTGACTTTTGGTTTCGTCCTGGTTACTCGATCTTGGCTTAGTCTAGATCA-TTCTTA
1 TTCATTTTTTGACTCATGATTTCATCCTGATCACTCGATCTTGACTTAGTCTAGATCATTTCTTA
* * * * * * *
2580629 TGACT-TATGGTTTCGTCTCGATCATTTATTTTTTACCTCAACTTAGTTCTGATTGTTTCATTTT
66 TGAATCT-TGGTTTCATCTCGATCATTTATTTTTGACATCAACTCAGTCCTG-GTGTTTCATTTT
** * * *
2580693 TTT-ACTCATGATTTTTTCTCA-ATCACCTAATCTTGGCTCAATTCAGATAATTTTTTATGACTT
129 TTTGACTCATGATTTCGTC-CAGATCACCCAATCTTGGCTCAATCCAGATAATTTCTTATGA-TT
* * *
2580756 -GTGGTTTCAT-TCTAGT-ATTTTATTTTTAACCGTGACTTGGTCCTGGTCAC
192 CGTGATTTCATCTC-AGTCA-TTTATTTTTAACCGTAACTTGATCCTGGTCAC
2580806 TTCATTTTTTGACTC
1 TTCATTTTTTGACTC
2580821 GTGGTTTTGT
Statistics
Matches: 209, Mismatches: 41, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
240 4 0.02
241 138 0.66
242 67 0.32
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (242 bp):
TTCATTTTTTGACTCATGATTTCATCCTGATCACTCGATCTTGACTTAGTCTAGATCATTTCTTA
TGAATCTTGGTTTCATCTCGATCATTTATTTTTGACATCAACTCAGTCCTGGTGTTTCATTTTTT
TGACTCATGATTTCGTCCAGATCACCCAATCTTGGCTCAATCCAGATAATTTCTTATGATTCGTG
ATTTCATCTCAGTCATTTATTTTTAACCGTAACTTGATCCTGGTCAC
Found at i:2580895 original size:55 final size:55
Alignment explanation
Indices: 2580807--2580971 Score: 165
Period size: 55 Copynumber: 3.0 Consensus size: 55
2580797 CCTGGTCACT
* * * * *
2580807 TCAT-TTTTTGACTCGTGGTTTTGTCTTAATCATCCGATCTTGGCTTAATCCAGA
1 TCATCTTTCTGACTCGTGGTTTTATCTTAGTCATCAGATCTTGGCTTGATCCAGA
* * * * *
2580861 TCATCTTTCTGACTCATGATTTTATCTTAGTCATCTGA-CTTAGCTTGGAT-CAAA
1 TCATCTTTCTGACTCGTGGTTTTATCTTAGTCATCAGATCTTGGCTT-GATCCAGA
* * **
2580915 TCATCTTTCATGACTCGTGGTTTCATATCGGTCATCAGATCTTGGCTTGATCCAGA
1 TCATCTTTC-TGACTCGTGGTTTTATCTTAGTCATCAGATCTTGGCTTGATCCAGA
2580971 T
1 T
2580972 GTGGTTTCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
54 23 0.26
55 54 0.61
56 11 0.12
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (55 bp):
TCATCTTTCTGACTCGTGGTTTTATCTTAGTCATCAGATCTTGGCTTGATCCAGA
Done.