Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 29 of 129
Found at i:5979626 original size:105 final size:102
Alignment explanation
Indices: 5979505--5979705 Score: 248
Period size: 105 Copynumber: 1.9 Consensus size: 102
5979495 AATAAAATTT
*
5979505 TTAAAAAATATATTTTTAAGGAAAAGTT-AAAAGTATCAA-TTTTCTTTGAAAATAAAATTAAAA
1 TTAAAAAATAGATTTTTAAGGAAAAGTTGAAAA-TATCAATTTTTC-TTGAAAAT-AAA--AAAA
*
5979568 AATATATTTTTA-AAAGAAAGTT-AAATGTATCAATTTCTTTAA
61 AATATATTTTTAGAAA-AAAGTTGAAA-GTATAAATTTCTTTAA
* ** * *
5979610 TTAAAAAATAGGTTTTTTGGGGAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAAAATATAT
1 TTAAAAAATAGATTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAAAAAATAT
5979675 ATTTTTAGAAAAAAGTTGAAAGTATAAATTT
66 ATTTTTAGAAAAAAGTTGAAAGTATAAATTT
5979706 TCCTTAAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
102 30 0.35
103 6 0.07
104 3 0.04
105 37 0.44
106 9 0.11
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (102 bp):
TTAAAAAATAGATTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAAAAAATAT
ATTTTTAGAAAAAAGTTGAAAGTATAAATTTCTTTAA
Found at i:5979731 original size:14 final size:15
Alignment explanation
Indices: 5979712--5979744 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5979702 ATTTTCCTTA
5979712 AAAATAAA-ATTTCT
1 AAAATAAACATTTCT
5979726 AAAATAAACATTTCT
1 AAAATAAACATTTCT
5979741 AAAA
1 AAAA
5979745 GTATTTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATAAACATTTCT
Found at i:5979893 original size:59 final size:60
Alignment explanation
Indices: 5979760--5979903 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 60
5979750 TTGGAGGAAG
* * * *
5979760 GTTGAAAGTATCAATTTCCCTTGAAAATAAAAAGGTTTTTAAAAAAATATTTTTAAGAAAAA
1 GTTGAAAGTATCAATTTTCCTTGAAAATAAAAA-G-TTTAAAAAAAAAAATTTTAAGAAAAA
* * *
5979822 GTTGAAAATATCAATTTTCTTTG-AAATTAAAA-TTTAAAAAAAAAACATTTTAAGAAAAA
1 GTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGTTTAAAAAAAAAA-ATTTTAAGAAAAA
*
5979881 GTTGAAAGTATCAATTTTTCTTG
1 GTTGAAAGTATCAATTTTCCTTG
5979904 TACAAAAGCA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
58 11 0.15
59 32 0.45
61 8 0.11
62 20 0.28
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (60 bp):
GTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGTTTAAAAAAAAAAATTTTAAGAAAAA
Found at i:5983763 original size:10 final size:10
Alignment explanation
Indices: 5983750--5983844 Score: 63
Period size: 9 Copynumber: 9.5 Consensus size: 10
5983740 GAAAAATGAG
5983750 AAAAAAAAAT
1 AAAAAAAAAT
5983760 -AAAAAAAAT
1 AAAAAAAAAT
5983769 AAGAAAAAAAAT
1 -A-AAAAAAAAT
* *
5983781 GAAAAAAAAG
1 AAAAAAAAAT
5983791 AAAGAAAAAA-
1 AAA-AAAAAAT
** *
5983801 GGAGAAAAA-
1 AAAAAAAAAT
*
5983810 AAGAAAAAAT
1 AAAAAAAAAT
*
5983820 -GAAAAAAAT
1 AAAAAAAAAT
5983829 AAAAAAAAAAT
1 -AAAAAAAAAT
5983840 AAAAA
1 AAAAA
5983845 TGAGAGAAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
9 26 0.40
10 16 0.25
11 14 0.22
12 9 0.14
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:5983767 original size:22 final size:22
Alignment explanation
Indices: 5983741--5983844 Score: 91
Period size: 20 Copynumber: 5.1 Consensus size: 22
5983731 ATAATGGATG
*
5983741 AAAAATGAGAAAAAAAAAT-AAA
1 AAAAATAAG-AAAAAAAATGAAA
5983763 AAAAATAAGAAAAAAAATGAAA
1 AAAAATAAGAAAAAAAATGAAA
* * * *
5983785 AAAAAGAA-AGAAAAAA-GGAG
1 AAAAATAAGAAAAAAAATGAAA
5983805 AAAAA-AAG--AAAAAATG-AA
1 AAAAATAAGAAAAAAAATGAAA
5983823 AAAAATAA-AAAAAAAAT-AAA
1 AAAAATAAGAAAAAAAATGAAA
5983843 AA
1 AA
5983845 TGAGAGAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
18 12 0.17
19 5 0.07
20 18 0.26
21 16 0.23
22 18 0.26
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (22 bp):
AAAAATAAGAAAAAAAATGAAA
Found at i:5983860 original size:1 final size:1
Alignment explanation
Indices: 5983750--5983844 Score: 55
Period size: 1 Copynumber: 95.0 Consensus size: 1
5983740 GAAAAATGAG
* * * ** * * ** * *
5983750 AAAAAAAAATAAAAAAAATAAGAAAAAAAATGAAAAAAAAGAAAGAAAAAAGGAGAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
5983815 AAAATGAAAAAAATAAAAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5983845 TGAGAGAAAA
Statistics
Matches: 68, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (1 bp):
A
Found at i:5985058 original size:25 final size:25
Alignment explanation
Indices: 5985029--5985651 Score: 299
Period size: 21 Copynumber: 26.5 Consensus size: 25
5985019 ATTTTGTTTC
* *
5985029 TTAAAGGAGAATCTTTAAGATATTT
1 TTAAATGAGAATCTTTAAGACATTT
* *
5985054 TTAAATGAGAATCTTT--G--AGTC
1 TTAAATGAGAATCTTTAAGACATTT
* * **
5985075 TTAAACGAAAATCTTTAAGATGTTT
1 TTAAATGAGAATCTTTAAGACATTT
*
5985100 TCAAATGAGAATCTTTAAG----TT
1 TTAAATGAGAATCTTTAAGACATTT
5985121 TTAAATGAGAATCTTTAAGACATTT
1 TTAAATGAGAATCTTTAAGACATTT
* * *
5985146 TCAAATGAGAATCTTT--G--AGTC
1 TTAAATGAGAATCTTTAAGACATTT
* * *
5985167 TTAAATAAGAATCTTTAAGGCGTTT
1 TTAAATGAGAATCTTTAAGACATTT
*
5985192 CTTAAATGAGAATCTTTAAAACATTTT
1 -TTAAATGAGAATCTTTAAGACA-TTT
*
5985219 TTAAAGTGAGAATCTTTAAAACATTT
1 TTAAA-TGAGAATCTTTAAGACATTT
* * *
5985245 CTAAATGAGAATCTTT--G--AGTC
1 TTAAATGAGAATCTTTAAGACATTT
*
5985266 TTAAATGAGAATCTTTAAGACGTTT
1 TTAAATGAGAATCTTTAAGACATTT
* * **
5985291 CTTAAATTAAAATCTTTAAGATGTTT
1 -TTAAATGAGAATCTTTAAGACATTT
* * * * *
5985317 TCATATGAAAATCTTT--G--AGTC
1 TTAAATGAGAATCTTTAAGACATTT
5985338 TTAAATGAGAATCTTTAAGACATTT
1 TTAAATGAGAATCTTTAAGACATTT
** ** * * *
5985363 CCAAAAAAAAATCTTT--G--AGTC
1 TTAAATGAGAATCTTTAAGACATTT
*
5985384 TTAAATGAGAATCTTTAAGACGTTT
1 TTAAATGAGAATCTTTAAGACATTT
* * * *
5985409 TCAAATGAGAAT-TTT-TG--AGTC
1 TTAAATGAGAATCTTTAAGACATTT
*
5985430 TTAAATGAGAATTTTTAAGACATTT
1 TTAAATGAGAATCTTTAAGACATTT
* ** *
5985455 TCAAAAAAGAATCTTTAAG----TC
1 TTAAATGAGAATCTTTAAGACATTT
* *
5985476 TCAAATGAGAATCTTTAAGACGTTT
1 TTAAATGAGAATCTTTAAGACATTT
* * *
5985501 TCAAATGAAAATCTTT--GA-A-TC
1 TTAAATGAGAATCTTTAAGACATTT
* * * *
5985522 CTAAATGAGAATTTTTTAG----TC
1 TTAAATGAGAATCTTTAAGACATTT
* * **
5985543 TCAAATGAGAATTTTTAAGATGTTT
1 TTAAATGAGAATCTTTAAGACATTT
*
5985568 CTTAAATGAGAATCTTTAAGACGTTT
1 -TTAAATGAGAATCTTTAAGACATTT
* *
5985594 TCAAATGAGAATCTTT-A-A-A-TC
1 TTAAATGAGAATCTTTAAGACATTT
* *
5985615 CTAAATGAAAATCTTTAAGACATTT
1 TTAAATGAGAATCTTTAAGACATTT
*
5985640 TCAAATGAGAAT
1 TTAAATGAGAAT
5985652 TTTTTAGTTT
Statistics
Matches: 449, Mismatches: 102, Indels: 94
0.70 0.16 0.15
Matches are distributed among these distances:
21 171 0.38
22 4 0.01
23 16 0.04
24 5 0.01
25 159 0.35
26 74 0.16
27 20 0.04
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (25 bp):
TTAAATGAGAATCTTTAAGACATTT
Found at i:5985089 original size:46 final size:46
Alignment explanation
Indices: 5985003--5985307 Score: 306
Period size: 46 Copynumber: 6.5 Consensus size: 46
5984993 ATGAAGTCTT
* * ** *
5985003 ACATTTTCACATGAGAAT-TTTGTTTCTTAAAGGAGAATCTTTAAG
1 ACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
* * *
5985048 ATATTTTTAAATGAGAATCTTTGAGTCTTAAACGAAAATCTTTAAG
1 ACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
** * * *
5985094 ATGTTTTCAAATGAGAATCTTTAAGTTTTAAATGAGAATCTTTAAG
1 ACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
* *
5985140 ACATTTTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAG
1 ACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
* * * * * *
5985186 GCGTTTCTTAAATGAGAATCTTTAAAACATTTTTTAAAGTGAGAATCTTTAAA
1 ACATTT-TTAAATGAGAATCTTT----GA-GTCTTAAA-TGAGAATCTTTAAG
*
5985239 ACATTTCTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
1 ACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
* * *
5985285 ACGTTTCTTAAATTAAAATCTTT
1 ACATTT-TTAAATGAGAATCTTT
5985308 AAGATGTTTT
Statistics
Matches: 214, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
45 15 0.07
46 126 0.59
47 34 0.16
48 1 0.00
51 1 0.00
52 21 0.10
53 16 0.07
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (46 bp):
ACATTTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
Found at i:5985236 original size:27 final size:26
Alignment explanation
Indices: 5985119--5985260 Score: 127
Period size: 26 Copynumber: 5.7 Consensus size: 26
5985109 AATCTTTAAG
*
5985119 TTTTAAATGAGAATCTTTAAGACA-T
1 TTTTAAATGAGAATCTTTAAAACATT
* * *
5985144 TTTCAAATGAGAATCTTT----GA-G
1 TTTTAAATGAGAATCTTTAAAACATT
* * ** *
5985165 TCTTAAATAAGAATCTTTAAGGCGTT
1 TTTTAAATGAGAATCTTTAAAACATT
*
5985191 TCTTAAATGAGAATCTTTAAAACATT
1 TTTTAAATGAGAATCTTTAAAACATT
5985217 TTTTAAAGTGAGAATCTTTAAAACA-T
1 TTTTAAA-TGAGAATCTTTAAAACATT
*
5985243 TTCTAAATGAGAATCTTT
1 TTTTAAATGAGAATCTTT
5985261 GAGTCTTAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
21 16 0.17
25 28 0.29
26 35 0.36
27 17 0.18
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (26 bp):
TTTTAAATGAGAATCTTTAAAACATT
Found at i:5985261 original size:99 final size:95
Alignment explanation
Indices: 5985029--5985611 Score: 405
Period size: 92 Copynumber: 6.2 Consensus size: 95
5985019 ATTTTGTTTC
* *
5985029 TTAAAG-GAGAATCTTTAAGATATTTTTAAATGAGAATCTTTGAGTCTTAAACGAA-AATCTTTA
1 TTAAAGTGAGAATCTTTAAGACA-TTTTAAATGAGAATCTTTGAGTCTTAAA-TAAGAATCTTTA
* *
5985092 AGATGTTT-TCAAATGAGAATCTTT--AAGTT
64 AGACGTTTCTTAAATGAGAATCTTTAAAAGTT
5985121 TTAAA-TGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAA
1 TTAAAGTGAGAATCTTTAAGACATTTT-AAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAA
* *
5985185 GGCGTTTCTTAAATGAGAATCTTTAAAACATTTT
65 GACGTTTCTTAAATGAGAATCTTT-AAA-A-GTT
* *
5985219 TTAAAGTGAGAATCTTTAAAACATTTCTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAA
1 TTAAAGTGAGAATCTTTAAGACATTT-TAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAA
* * *
5985284 GACGTTTCTTAAATTAAAATCTTTAAGATGTT
65 GACGTTTCTTAAATGAGAATCTTTAA-AAGTT
* * * * * * * *
5985316 TTCATA-TGAAAATCTTT--GA-GTCTTAAATGAGAATCTTTAAGACATTTCCAAAAAAAAATCT
1 TT-AAAGTGAGAATCTTTAAGACATTTTAAATGAGAATCTTTGAGTC--TT--AAATAAGAATCT
*
5985377 TT--GA-G--TCTTAAATGAGAATCTTTAAGACGTT
61 TTAAGACGTTTCTTAAATGAGAATCTTTAA-AAGTT
* * * * * * *
5985408 TTCAAA-TGAGAAT-TTT-TGA-GTCTTAAATGAGAATTTTTAAGACATTTTCAAAAAAGAATCT
1 TT-AAAGTGAGAATCTTTAAGACATTTTAAATGAGAATCTTT--GA-GTCTT-AAATAAGAATCT
* *
5985469 TT-A-A-G--TCTCAAATGAGAATCTTTAAGACGTT
61 TTAAGACGTTTCTTAAATGAGAATCTTTAA-AAGTT
* ** * * * * *
5985500 TTCAAA-TGAAAATCTTT--GA-ATCCTAAATGAGAATTTTTTAGTCTCAAATGAGAATTTTTAA
1 TT-AAAGTGAGAATCTTTAAGACATTTTAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAA
* *
5985561 GATGTTTCTTAAATGAGAATCTTTAAGACGTT
65 GACGTTTCTTAAATGAGAATCTTTAA-AAGTT
5985593 TTCAAA-TGAGAATCTTTAA
1 TT-AAAGTGAGAATCTTTAA
5985612 ATCCTAAATG
Statistics
Matches: 414, Mismatches: 47, Indels: 57
0.80 0.09 0.11
Matches are distributed among these distances:
88 11 0.03
89 3 0.01
90 2 0.00
91 10 0.02
92 184 0.44
93 79 0.19
94 4 0.01
95 5 0.01
96 1 0.00
97 26 0.06
98 11 0.03
99 77 0.19
100 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (95 bp):
TTAAAGTGAGAATCTTTAAGACATTTTAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAG
ACGTTTCTTAAATGAGAATCTTTAAAAGTT
Found at i:5985351 original size:46 final size:46
Alignment explanation
Indices: 5985290--5985672 Score: 382
Period size: 46 Copynumber: 8.3 Consensus size: 46
5985280 TTAAGACGTT
* * * *
5985290 TCTTAAATTAAAATCTTTAAGATGTTTTCATATGAAAATCTTTGAG
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAG
* * **
5985336 TCTTAAATGAGAATCTTTAAGACATTTCCAAAAAAAAATCTTTGAG
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAG
* *
5985382 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATTTTTGAG
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAG
* * * *
5985428 TCTTAAATGAGAATTTTTAAGACATTTTCAAA-AAAGAATCTTTAAG
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAA-AATCTTTGAG
* *
5985474 TCTCAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAA
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAG
* ** * * *
5985520 TCCTAAATGAGAAT-TTT-TTA-G-TCTCAAATGAGAATTTTTAAGATG
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTT--GA-G
* * *
5985565 TTTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTAAA
1 --TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAG
* * * * * *
5985613 TCCTAAATGAAAATCTTTAAGACATTTTCAAATGAGAATTTTTTAG
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAG
5985659 T-TTCAAATGAGAAT
1 TCTT-AAATGAGAAT
5985673 ATTTGAATTT
Statistics
Matches: 276, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
42 15 0.05
43 1 0.00
44 3 0.01
45 5 0.02
46 215 0.78
47 15 0.05
48 3 0.01
49 2 0.01
50 1 0.00
51 16 0.06
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (46 bp):
TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAG
Found at i:5985399 original size:92 final size:92
Alignment explanation
Indices: 5985290--5985672 Score: 425
Period size: 92 Copynumber: 4.2 Consensus size: 92
5985280 TTAAGACGTT
* * * * * *
5985290 TCTTAAATTAAAATCTTTAAGATGTTTTCATATGAAAATCTTTGAGTCTTAAATGAGAATCTTTA
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAATCCTAAATGAGAATCTTTA
* *
5985355 AGACATTTCCAAAAAAAAATCTTTGAG
66 AGACATTTTCAAAAAAGAATCTTTGAG
* * * * *
5985382 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATTTTTGAGTCTTAAATGAGAATTTTTA
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAATCCTAAATGAGAATCTTTA
*
5985447 AGACATTTTCAAAAAAGAATCTTTAAG
66 AGACATTTTCAAAAAAGAATCTTTGAG
* * *
5985474 TCTCAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAATCCTAAATGAGAATTTTTT
1 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAATCCTAAATGAGAATCTTTA
* ** *
5985539 AG----TCTCAAATGAGAATTTTTAAGATG
66 AGACATTTTCAAAAAAGAATCTTT--GA-G
* * *
5985565 TTTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTAAATCCTAAATGAAAATCTT
1 --TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAATCCTAAATGAGAATCTT
** * *
5985630 TAAGACATTTTCAAATGAGAATTTTTTAG
64 TAAGACATTTTCAAAAAAGAATCTTTGAG
5985659 T-TTCAAATGAGAAT
1 TCTT-AAATGAGAAT
5985673 ATTTGAATTT
Statistics
Matches: 252, Mismatches: 29, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
88 14 0.06
90 1 0.00
91 3 0.01
92 154 0.61
93 61 0.24
94 1 0.00
95 1 0.00
97 17 0.07
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (92 bp):
TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAAAATCTTTGAATCCTAAATGAGAATCTTTA
AGACATTTTCAAAAAAGAATCTTTGAG
Found at i:5985683 original size:21 final size:21
Alignment explanation
Indices: 5985638--5985687 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
5985628 TTTAAGACAT
* * *
5985638 TTTCAAATGAGAATTTTTTAG
1 TTTCAAATGAGAATATTTGAA
5985659 TTTCAAATGAGAATATTTGAA
1 TTTCAAATGAGAATATTTGAA
5985680 TTTCAAAT
1 TTTCAAAT
5985688 AAGAGTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (21 bp):
TTTCAAATGAGAATATTTGAA
Found at i:5985698 original size:21 final size:21
Alignment explanation
Indices: 5985638--5985700 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
5985628 TTTAAGACAT
* * * *
5985638 TTTCAAATGAGAATTTTTTAG
1 TTTCAAATAAGAATATTTGAA
*
5985659 TTTCAAATGAGAATATTTGAA
1 TTTCAAATAAGAATATTTGAA
* *
5985680 TTTCAAATAAGAGTGTTTGAA
1 TTTCAAATAAGAATATTTGAA
5985701 GTGTGAAACC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (21 bp):
TTTCAAATAAGAATATTTGAA
Found at i:5986019 original size:114 final size:114
Alignment explanation
Indices: 5985823--5986202 Score: 562
Period size: 114 Copynumber: 3.3 Consensus size: 114
5985813 AAACTTTTGG
* * *
5985823 ATGTAAATCTCCAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATGTGAATCTCTAATTT
1 ATGTAAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGCGAATCTCTAAATT
* *
5985888 TTTTAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTGG
66 TTTAAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTGA
* *
5985937 ATGTGAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGCGAATTTCTAAATT
1 ATGTAAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGCGAATCTCTAAATT
* *
5986002 TTTAAGTGAGAACCTTTGAACTTAGATATGAAACTCTAAGATTTATTGA
66 TTTAAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTGA
* ** * * *
5986051 ATGTAAACCTTTAAAATTCAAACGAAAAGCTTTGAACTCAATTTTTGTATGCCAATCTCTAAATT
1 ATGTAAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGCGAATCTCTAAATT
* * *
5986116 TTTGAGTGAGAACCTTTGAACCTAGATGTGAAACTCGAAGATTTCTTGA
66 TTTAAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTGA
* ** *
5986165 ATGTGAATCTCCAAAATTCAAATAAAAAACTTTGAACT
1 ATGTAAATCTCCAAAATTCAAACGAAAAGCTTTGAACT
5986203 TTTGGATGTG
Statistics
Matches: 237, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 237 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (114 bp):
ATGTAAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGCGAATCTCTAAATT
TTTAAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTGA
Found at i:5986565 original size:43 final size:43
Alignment explanation
Indices: 5986464--5986600 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
5986454 ATGATTGTCA
* * *
5986464 AAGAGCTTTGTTCATTTTTCAAAAGTTGTTGAGCCTCT-TATTAG
1 AAGAGCTTTGTTTATTTTTC-AAAGTTATTGAGCATCTGT-TTAG
* * * * *
5986508 AGGAACTTTATTTATTTTTCAAAGGTATTGTGCATCTGTTTAG
1 AAGAGCTTTGTTTATTTTTCAAAGTTATTGAGCATCTGTTTAG
* *
5986551 AAGAGCTTTGTTTATTTTTAAAAGTTATTGAGCTTCTGTTTAG
1 AAGAGCTTTGTTTATTTTTCAAAGTTATTGAGCATCTGTTTAG
5986594 AAGAGCT
1 AAGAGCT
5986601 CTGTCATTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
43 60 0.78
44 17 0.22
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (43 bp):
AAGAGCTTTGTTTATTTTTCAAAGTTATTGAGCATCTGTTTAG
Found at i:5986612 original size:43 final size:43
Alignment explanation
Indices: 5986520--5986613 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
5986510 GAACTTTATT
* * * *
5986520 TATTTTTCAAAGGTATTGTGCATCTGTTTAGAAGAGCTTTGTT
1 TATTTTTAAAAGGTATTGAGCATCTGTTTAGAAGAGCTCTGTA
* *
5986563 TATTTTTAAAAGTTATTGAGCTTCTGTTTAGAAGAGCTCTGTCA
1 TATTTTTAAAAGGTATTGAGCATCTGTTTAGAAGAGCTCTGT-A
*
5986607 TTTTTTT
1 TATTTTT
5986614 TTTAAAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 37 0.86
44 6 0.14
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (43 bp):
TATTTTTAAAAGGTATTGAGCATCTGTTTAGAAGAGCTCTGTA
Found at i:5986754 original size:8 final size:8
Alignment explanation
Indices: 5986741--5986784 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
5986731 CAACTCTGAC
5986741 AATTAAAA
1 AATTAAAA
5986749 AATTAAAAA
1 AATT-AAAA
*
5986758 AATAACAAA
1 AATTA-AAA
*
5986767 AATGAAAA
1 AATTAAAA
5986775 AATTAAAA
1 AATTAAAA
5986783 AA
1 AA
5986785 AAAGGTGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (8 bp):
AATTAAAA
Found at i:5986759 original size:9 final size:9
Alignment explanation
Indices: 5986741--5986785 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
5986731 CAACTCTGAC
5986741 AATT-AAAA
1 AATTAAAAA
5986749 AATTAAAAA
1 AATTAAAAA
5986758 AA-TAACAAA
1 AATTAA-AAA
*
5986767 AA-TGAAAA
1 AATTAAAAA
5986775 AATTAAAAA
1 AATTAAAAA
5986784 AA
1 AA
5986786 AAGGTGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 12 0.38
9 20 0.62
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (9 bp):
AATTAAAAA
Found at i:5986786 original size:18 final size:18
Alignment explanation
Indices: 5986745--5986786 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5986735 TCTGACAATT
*
5986745 AAAAAATTAAAAAAATAA
1 AAAAAATGAAAAAAATAA
* *
5986763 CAAAAATGAAAAAATTAA
1 AAAAAATGAAAAAAATAA
5986781 AAAAAA
1 AAAAAA
5986787 AGGTGTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAAAATGAAAAAAATAA
Found at i:5987687 original size:23 final size:22
Alignment explanation
Indices: 5987651--5987696 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
5987641 TTGGTATTCT
*
5987651 TTTTTTTTAATTTTAATTTTAA
1 TTTTATTTAATTTTAATTTTAA
**
5987673 TTTTATTTAACTTTTCTTTTTAA
1 TTTTATTTAA-TTTTAATTTTAA
5987696 T
1 T
5987697 GATTTTCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTATTTAATTTTAATTTTAA
Found at i:5987761 original size:57 final size:56
Alignment explanation
Indices: 5987706--5987817 Score: 138
Period size: 57 Copynumber: 1.9 Consensus size: 56
5987696 TGATTTTCCT
*
5987706 AAAATAAAATTTTCAAAAAAAATATTTTT-GAGAAAAAGTTGAAA-GTATCAATTTCCTTTG
1 AAAATAAAA--TT-AAAAAAAATATTTTTAAAG-AAAAGTT-AAATGTATCAATTTCC-TTG
*
5987766 AAAATAAAATTAAAAAATATATTTTTAAAGAAAAGTTAAATGTATCAATTTC
1 AAAATAAAATTAAAAAAAATATTTTTAAAGAAAAGTTAAATGTATCAATTTC
5987818 TTTTAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
56 3 0.06
57 32 0.67
58 4 0.08
60 9 0.19
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (56 bp):
AAAATAAAATTAAAAAAAATATTTTTAAAGAAAAGTTAAATGTATCAATTTCCTTG
Found at i:5987832 original size:57 final size:57
Alignment explanation
Indices: 5987720--5987832 Score: 142
Period size: 57 Copynumber: 2.0 Consensus size: 57
5987710 TAAAATTTTC
* *
5987720 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTCCTTTGAAAATAAAATT
1 AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTCCTTTGAAAAAAAAATT
* *
5987777 AAAAAATATATTTTTAA-AGAAAAGTT-AAATGTATCAATTT-CTTTTAATAAAAAAAT
1 AAAAAAAATATTTTTAAGA-AAAAGTTGAAA-GTATCAATTTCCTTTGAA-AAAAAAAT
5987833 AGATTTTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
56 10 0.20
57 39 0.80
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (57 bp):
AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTCCTTTGAAAAAAAAATT
Found at i:5987932 original size:106 final size:103
Alignment explanation
Indices: 5987720--5987934 Score: 240
Period size: 106 Copynumber: 2.0 Consensus size: 103
5987710 TAAAATTTTC
*
5987720 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTCCTTTGAAAATAAAATTAAAAAATA
1 AAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTCCTTTGAAAATAAAATTAAAAAATA
* **
5987785 TATTTTTAAAGAAAAGTTAAATGTATCAATTTCTTTTAAT
66 TATTTTTAAAGAAAAGTTAAATGTAT--ATTCCTTAAAAT
* * *
5987825 AAAAAAATAGATTTTTGGGAGAAAGTTGAAAGTATCAATTT-TTCTTGAAAATAAAAAAGTTAAA
1 AAAAAAA-AGATTTTTGAGAAAAAGTTGAAAGTATCAATTTCCT-TTGAAAAT--AAAA-TTAAA
* *
5987889 AATATATATTTTTAGAGAAAAGTTGAA-GT-T-TTCCTTAAAAAT
61 AA-ATATATTTTTAAAGAAAAGTTAAATGTATATTCCTT-AAAAT
5987931 AAAA
1 AAAA
5987935 TTTTTAAAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
105 13 0.14
106 45 0.48
108 5 0.05
109 9 0.10
110 22 0.23
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.35
Consensus pattern (103 bp):
AAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTCCTTTGAAAATAAAATTAAAAAATA
TATTTTTAAAGAAAAGTTAAATGTATATTCCTTAAAAT
Found at i:5987945 original size:14 final size:15
Alignment explanation
Indices: 5987926--5987959 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5987916 GTTTTCCTTA
*
5987926 AAAAT-AAAATTTTT
1 AAAATAAAAATTTCT
5987940 AAAATAAAAATTTCT
1 AAAATAAAAATTTCT
5987955 AAAAT
1 AAAAT
5987960 TATTTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATAAAAATTTCT
Found at i:5987981 original size:125 final size:129
Alignment explanation
Indices: 5987835--5988141 Score: 367
Period size: 125 Copynumber: 2.3 Consensus size: 129
5987825 AAAAAAATAG
* *
5987835 ATTTTTGGGAGAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAAG-TTAAAAATATATATT
1 ATTTTTGAGA-AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAAGTTTAAAAA-AAATATT
* *
5987899 TTTAGAG-AAAAGTT-GAA-GT-TTTCCTTAAAAATAAAATTTTTAAAATAAAAATT-TCTAA-A
64 TTTA-AGTAAAAGTTAAAATATATTTCCTTAAAAATAAAATTTTTAAAATAAAAATTATC-AAGA
**
5987958 ATT
127 AAA
* *
5987961 ATTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGGTTTTAAAAAAAATATTT
1 ATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAAG-TTTAAAAAAAATATTT
*
5988026 TTAAGTAAAAGTTAAAAATATCAAGTTTCCTTGAAAATAAAATTTTTAAAATAAAAATTATCAAG
65 TTAAGTAAAAGTT-AAAATAT--A-TTTCCTTAAAAATAAAATTTTTAAAATAAAAATTATCAAG
5988091 AAAA
126 AAAA
* *
5988095 ATATTTTGAGGAAAAGTTGAAAGCATCAATTTTTCTTGAAATTAAAA
1 AT-TTTTGA-GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
5988142 TTTCAGAAAA
Statistics
Matches: 155, Mismatches: 12, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
125 38 0.25
126 26 0.17
127 7 0.05
128 2 0.01
129 1 0.01
133 35 0.23
134 6 0.04
135 6 0.04
136 34 0.22
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (129 bp):
ATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAAGTTTAAAAAAAATATTTT
TAAGTAAAAGTTAAAATATATTTCCTTAAAAATAAAATTTTTAAAATAAAAATTATCAAGAAAA
Found at i:5988082 original size:62 final size:62
Alignment explanation
Indices: 5987954--5988083 Score: 167
Period size: 62 Copynumber: 2.1 Consensus size: 62
5987944 TAAAAATTTC
* * * * *
5987954 TAAAATTATTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGGTTTTAAA
1 TAAAAATATTTTTAAGAAAAGTTAAAAATATCAAGTTTCCTTGAAAATAAAAAGGTTTTAAA
*
5988016 -AAAAATATTTTTAAGTAAAAGTTAAAAATATCAAGTTTCCTTGAAAAT-AAAA-TTTTTAAAA
1 TAAAAATATTTTTAAG-AAAAGTTAAAAATATCAAGTTTCCTTGAAAATAAAAAGGTTTT-AAA
5988077 TAAAAAT
1 TAAAAAT
5988084 TATCAAGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
60 4 0.07
61 20 0.34
62 35 0.59
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (62 bp):
TAAAAATATTTTTAAGAAAAGTTAAAAATATCAAGTTTCCTTGAAAATAAAAAGGTTTTAAA
Found at i:5988154 original size:59 final size:59
Alignment explanation
Indices: 5988071--5988209 Score: 181
Period size: 60 Copynumber: 2.3 Consensus size: 59
5988061 AATAAAATTT
* * * *
5988071 TTAAAATAAAAATTATC-AAGAAAAATATTTTGAGGAAAAGTTGAAAGCATCAATTTTTC
1 TTAAAATAAAAATT-TCAAAAAAAAATATTTTAAGGAAAAATTAAAAGCATCAATTTTTC
* * *
5988130 TTGAAATTAAAATTTCAGAAAAAAAATATTTTAAGGAAAAATTAAAAGTATCAATTTTTC
1 TTAAAATAAAAATTTCA-AAAAAAAATATTTTAAGGAAAAATTAAAAGCATCAATTTTTC
5988190 TTAAAATAAAAACTTTCAAA
1 TTAAAATAAAAA-TTTCAAA
5988210 TGCTTTAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
58 2 0.03
59 12 0.18
60 49 0.72
61 5 0.07
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (59 bp):
TTAAAATAAAAATTTCAAAAAAAAATATTTTAAGGAAAAATTAAAAGCATCAATTTTTC
Found at i:5995003 original size:124 final size:120
Alignment explanation
Indices: 5994856--5995084 Score: 307
Period size: 124 Copynumber: 1.9 Consensus size: 120
5994846 GAAGTATTAG
* * * * *
5994856 AAAAAAACTGTAAAAAGAGATTGGTTTGAGAAATAGATTT-GAATTAAAAATTTAAGGTTGAATT
1 AAAAAAACTGCAAAAAGAAATTGGCTTGAGAAATAGATTTAG-ATTAAAAATTTAAGATTGAAGT
* *
5994920 TTATTAAGATATTCAAATCAAGAAAATTATTTTTTTATTATAATTGGGATTATTTAAAA
65 TGATTAAGAGATTCAAATCAA-AAAA-T-TTTTTTTATTATAATTGGGATTATTTAAAA
* *
5994979 AAAAAAGACTGCAAAAGGAAATTGGCTTGAGAAATATATTTAGATTAAAAATTTAAGATTGAAGT
1 AAAAAA-ACTGCAAAAAGAAATTGGCTTGAGAAATAGATTTAGATTAAAAATTTAAGATTGAAGT
* *
5995044 TGATTAAGAGATTCAAATTAAAAAATTTTTTTTATTGTAAT
65 TGATTAAGAGATTCAAATCAAAAAATTTTTTTTATTATAAT
5995085 CAAGATTAGA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
121 14 0.15
122 1 0.01
123 10 0.11
124 67 0.72
125 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (120 bp):
AAAAAAACTGCAAAAAGAAATTGGCTTGAGAAATAGATTTAGATTAAAAATTTAAGATTGAAGTT
GATTAAGAGATTCAAATCAAAAAATTTTTTTTATTATAATTGGGATTATTTAAAA
Found at i:5995724 original size:114 final size:116
Alignment explanation
Indices: 5995531--5995738 Score: 255
Period size: 115 Copynumber: 1.8 Consensus size: 116
5995521 AATGTCCTAC
*
5995531 CAACATATTAAAAGATAATTAGATCTTTTAAAATAAAATTTTATCAACATATTAGAGAATCTTAT
1 CAACATATTAAAAGATAATTAGATCTTTTAAAATAAAATTTTATCAACATATTAGAAAATCTTAT
**
5995596 TAATTTTTTAAAAAA-TAAATTAAAAAAAGTAGTTTTCAATAAAACCTTAT
66 TAATTTTAAAAAAAATTAAATTAAAAAAAGTAGTTTTCAATAAAACCTTAT
* * * * * *
5995646 CAACATGTTGAAAGATAATTTGAT-TTTTAAGATAAAGTTTTA-CCACTATATTAGAAAA-CTT-
1 CAACATATTAAAAGATAATTAGATCTTTTAAAATAAAATTTTATCAAC-ATATTAGAAAATCTTA
* *
5995707 TATGATTTTAAATAAAAATTAATTTAAAAAAA
65 T-TAATTTTAAA-AAAAATTAAATTAAAAAAA
5995739 ATTCATAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
112 1 0.01
113 13 0.17
114 31 0.40
115 33 0.42
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (116 bp):
CAACATATTAAAAGATAATTAGATCTTTTAAAATAAAATTTTATCAACATATTAGAAAATCTTAT
TAATTTTAAAAAAAATTAAATTAAAAAAAGTAGTTTTCAATAAAACCTTAT
Found at i:5997019 original size:1 final size:1
Alignment explanation
Indices: 5997013--5997040 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
5997003 TAATATCCGT
5997013 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
5997041 GACTATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6001927 original size:29 final size:28
Alignment explanation
Indices: 6001878--6001938 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
6001868 TTATTAAAAA
** *
6001878 ATTTATTTATAATTTAAATTTAATTAAT
1 ATTTATTTATAATAAAAATTTAATCAAT
*
6001906 ATTTATTTAATAATAAAAATTTTATCAAT
1 ATTTATTT-ATAATAAAAATTTAATCAAT
6001935 ATTT
1 ATTT
6001939 TTATTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTATTTATAATAAAAATTTAATCAAT
Found at i:6002325 original size:28 final size:28
Alignment explanation
Indices: 6002285--6002349 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
6002275 ATGTTGGTGC
6002285 TTAATTTTCTTGGAAATACTATAATATA
1 TTAATTTTCTTGGAAATACTATAATATA
*
6002313 TTAATTTTCTTGGAAATTCTATAATATA
1 TTAATTTTCTTGGAAATACTATAATATA
*
6002341 TTCATTTTC
1 TTAATTTTC
6002350 GGAATTGCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (28 bp):
TTAATTTTCTTGGAAATACTATAATATA
Found at i:6003059 original size:2 final size:2
Alignment explanation
Indices: 6003052--6003078 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6003042 CATCTTCATT
6003052 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 T
6003079 TCATTAGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6003861 original size:4 final size:4
Alignment explanation
Indices: 6003852--6003878 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6003842 ATTGCTTCCT
6003852 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6003879 TTATTTGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6004642 original size:17 final size:17
Alignment explanation
Indices: 6004620--6004653 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6004610 AAAATGAGAT
6004620 TACACT-AGATTTGTATG
1 TACACTAAG-TTTGTATG
6004637 TACACTAAGTTTGTATG
1 TACACTAAGTTTGTATG
6004654 GTTATTGCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
TACACTAAGTTTGTATG
Found at i:6015664 original size:22 final size:22
Alignment explanation
Indices: 6015638--6015683 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6015628 AAAAGCACTA
6015638 AACAAATAATATCATCAGATTC
1 AACAAATAATATCATCAGATTC
6015660 AACAAATAATATCATCAGATTC
1 AACAAATAATATCATCAGATTC
6015682 AA
1 AA
6015684 GATCGGTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.26
Consensus pattern (22 bp):
AACAAATAATATCATCAGATTC
Found at i:6016837 original size:15 final size:15
Alignment explanation
Indices: 6016814--6016843 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6016804 TCTAGGGTTT
6016814 GTTTGTTTCCTGGAA
1 GTTTGTTTCCTGGAA
*
6016829 GTTTTTTTCCTGGAA
1 GTTTGTTTCCTGGAA
6016844 AATCTGGAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.50
Consensus pattern (15 bp):
GTTTGTTTCCTGGAA
Found at i:6020189 original size:25 final size:25
Alignment explanation
Indices: 6020151--6020200 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6020141 TTTGGGACAG
6020151 AACATAGTCAACTAATATGATAGCA
1 AACATAGTCAACTAATATGATAGCA
*
6020176 AACATAGTCCACTAATATGATAGCA
1 AACATAGTCAACTAATATGATAGCA
6020201 TGGTTTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (25 bp):
AACATAGTCAACTAATATGATAGCA
Found at i:6023199 original size:13 final size:14
Alignment explanation
Indices: 6023167--6023199 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
6023157 TTATTCTAAT
6023167 AATTATACATATAA
1 AATTATACATATAA
6023181 AA-TATA-ATATAA
1 AATTATACATATAA
6023193 AATTATA
1 AATTATA
6023200 TTATTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 8 0.44
14 2 0.11
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTATACATATAA
Found at i:6025024 original size:19 final size:18
Alignment explanation
Indices: 6024991--6025030 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6024981 ATTGTCAGCA
*
6024991 AAAAGAAAATTAAACAAG
1 AAAAGAAAATCAAACAAG
*
6025009 AAAAGAAAATCCAAACTAG
1 AAAAGAAAAT-CAAACAAG
6025028 AAA
1 AAA
6025031 TTTGTGCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAGAAAATCAAACAAG
Found at i:6027774 original size:29 final size:31
Alignment explanation
Indices: 6027741--6027816 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
6027731 TAAAAAAGAT
*
6027741 AATATATTTAAATTA-GAA-TTGTTGATAAC
1 AATATATTTAAATTACAAATTTGTTGATAAC
*
6027770 -A-ATATTTAATTATTACAAATTTTGTTGGTAAC
1 AATATATTTAA--ATTACAAA-TTTGTTGATAAC
6027802 AATATATTTAAATTA
1 AATATATTTAAATTA
6027817 TATATTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
27 8 0.21
28 1 0.03
29 4 0.11
30 2 0.05
32 14 0.37
33 1 0.03
34 8 0.21
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (31 bp):
AATATATTTAAATTACAAATTTGTTGATAAC
Found at i:6027867 original size:16 final size:15
Alignment explanation
Indices: 6027803--6027877 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 15
6027793 GTTGGTAACA
6027803 ATATATTT--AAATT
1 ATATATTTAAAAATT
*
6027816 ATATATTTAAAAAGT
1 ATATATTTAAAAATT
**
6027831 ATATA-AAAAATAACTTT
1 ATATATTTAAA-AA--TT
6027848 ATATATTTTAAAAATT
1 ATATA-TTTAAAAATT
6027864 ATATATTTAAAAAT
1 ATATATTTAAAAAT
6027878 ATTAAAATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
13 8 0.16
14 3 0.06
15 20 0.41
16 7 0.14
17 6 0.12
18 2 0.04
19 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (15 bp):
ATATATTTAAAAATT
Found at i:6027882 original size:24 final size:24
Alignment explanation
Indices: 6027811--6027899 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 24
6027801 CAATATATTT
6027811 AAATTATATATTTAAAAAGTATATAA
1 AAATTATATATTTAAAAA-TAT-TAA
* * *
6027837 AAA--ATA-ACTTTATATATTTTAA
1 AAATTATATA-TTTAAAAATATTAA
6027859 AAATTATATATTTAAAAATATTAA
1 AAATTATATATTTAAAAATATTAA
*
6027883 AATATAATAATATTTAA
1 AA-ATTAT-ATATTTAA
6027900 TTATTACTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
22 6 0.12
23 3 0.06
24 25 0.50
25 5 0.10
26 11 0.22
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (24 bp):
AAATTATATATTTAAAAATATTAA
Found at i:6033735 original size:17 final size:17
Alignment explanation
Indices: 6033709--6033751 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
6033699 AGATCATTTT
6033709 TTAT-TTTATTTTT-AGA
1 TTATATTTATTTTTGA-A
6033725 TTATATTTATTTTTGAA
1 TTATATTTATTTTTGAA
6033742 TTCATATTTA
1 TT-ATATTTA
6033752 ATGGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 12 0.50
18 8 0.33
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (17 bp):
TTATATTTATTTTTGAA
Found at i:6035566 original size:21 final size:21
Alignment explanation
Indices: 6035531--6035601 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
6035521 CCTGAAATTA
6035531 ATAAAATATTTATTTTTTAAAT
1 ATAAAATA-TTATTTTTTAAAT
6035553 ATAAAATATTATTTTTT-AAT
1 ATAAAATATTATTTTTTAAAT
** * *
6035573 ATAAATATAAAATTATATAAAT
1 ATAAA-ATATTATTTTTTAAAT
6035595 ATAAAAT
1 ATAAAAT
6035602 TAAATAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
20 8 0.19
21 19 0.44
22 16 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:6035592 original size:16 final size:16
Alignment explanation
Indices: 6035571--6035611 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
6035561 TTATTTTTTA
6035571 ATATAAATATAAAATT
1 ATATAAATATAAAATT
6035587 ATATAAATATAAAATT
1 ATATAAATATAAAATT
*
6035603 AAATAAATA
1 ATATAAATA
6035612 ATTAAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATATAAAATT
Found at i:6037381 original size:59 final size:58
Alignment explanation
Indices: 6037306--6037445 Score: 176
Period size: 59 Copynumber: 2.4 Consensus size: 58
6037296 AAATTTGGTA
* *
6037306 AAATTTGTTTGAGTTTTGGTTACCAATGTGTTGAGTTTTTGTTAGTTATT-TATATGTT
1 AAATTTATTTGAGTTTTGGTTACCAATGTATTGAGTTTTTGTTAGTT-TTATATATGTT
* * * *
6037364 AAATTTTATTTGGGTTTTGGTTACCAATTTATTGAGTTTTTGTTGGTTTTATATTTGTT
1 AAA-TTTATTTGAGTTTTGGTTACCAATGTATTGAGTTTTTGTTAGTTTTATATATGTT
6037423 GAAATTTA-TTGTAGTTTTGGTTA
1 -AAATTTATTTG-AGTTTTGGTTA
6037446 TATCTTTGTT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
58 8 0.11
59 60 0.85
60 3 0.04
ACGTcount: A:0.21, C:0.03, G:0.20, T:0.56
Consensus pattern (58 bp):
AAATTTATTTGAGTTTTGGTTACCAATGTATTGAGTTTTTGTTAGTTTTATATATGTT
Found at i:6037441 original size:36 final size:33
Alignment explanation
Indices: 6037389--6037462 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
6037379 TTTGGTTACC
*
6037389 AATTTATTGAGTTTTTGTTGGTTTTATATTTGTTGA
1 AATTTATTGAG--TTT-TTGGTTATATATTTGTTGA
*
6037425 AATTTATTGTAG-TTTTGGTTATATCTTTGTTGA
1 AATTTATTG-AGTTTTTGGTTATATATTTGTTGA
6037458 AATTT
1 AATTT
6037463 GTTGGTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 22 0.63
34 2 0.06
36 9 0.26
37 2 0.06
ACGTcount: A:0.22, C:0.01, G:0.18, T:0.59
Consensus pattern (33 bp):
AATTTATTGAGTTTTTGGTTATATATTTGTTGA
Found at i:6037567 original size:21 final size:22
Alignment explanation
Indices: 6037543--6037583 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6037533 GCTTTTAGTA
*
6037543 TTGTTGGGAAATTT-TTTTTAT
1 TTGTTGAGAAATTTATTTTTAT
*
6037564 TTGTTGAGTAATTTATTTTT
1 TTGTTGAGAAATTTATTTTT
6037584 TATTCATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (22 bp):
TTGTTGAGAAATTTATTTTTAT
Found at i:6043388 original size:18 final size:18
Alignment explanation
Indices: 6043362--6043396 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6043352 TAATCCATGA
*
6043362 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
6043380 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
6043397 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:6047093 original size:22 final size:21
Alignment explanation
Indices: 6047064--6047109 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6047054 TCGAACCAAG
*
6047064 TTATATATAT-TTTTTAATTT
1 TTATATATATATTTTAAATTT
6047084 TTATATATATATTTTAAATTT
1 TTATATATATATTTTAAATTT
6047105 TTATA
1 TTATA
6047110 AAATAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATATATATTTTAAATTT
Found at i:6047165 original size:13 final size:13
Alignment explanation
Indices: 6047146--6047184 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6047136 ATTTACTTAA
6047146 ATATATTAAAATT
1 ATATATTAAAATT
* *
6047159 TTATATTAAAATA
1 ATATATTAAAATT
6047172 ATATA-TAAAATT
1 ATATATTAAAATT
6047184 A
1 A
6047185 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:6047427 original size:3 final size:3
Alignment explanation
Indices: 6047419--6047485 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
6047409 GTTTTAATTT
6047419 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
6047467 TAA TAA TAA TCA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
6047486 CATATTTAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6047744 original size:24 final size:24
Alignment explanation
Indices: 6047700--6047745 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6047690 TTCAACCTCT
*
6047700 CTCTCGAACCCCATCTCAAAAAAG
1 CTCTCGAACCCCATCTAAAAAAAG
*
6047724 CTCTCGGAACCCC-TTTAAAAAA
1 CTCTC-GAACCCCATCTAAAAAA
6047746 CCTTCAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.37, C:0.35, G:0.09, T:0.20
Consensus pattern (24 bp):
CTCTCGAACCCCATCTAAAAAAAG
Found at i:6049020 original size:33 final size:32
Alignment explanation
Indices: 6048976--6049097 Score: 120
Period size: 33 Copynumber: 3.8 Consensus size: 32
6048966 TAAGTTTTTA
6048976 AAACCCCTAAAAATCCAAAATCCCTTAAATCC
1 AAACCCCTAAAAATCCAAAATCCCTTAAATCC
* *
6049008 AAACCCCATAAAAATTCAAAATCTCTTAAATCC
1 AAACCCC-TAAAAATCCAAAATCCCTTAAATCC
* * * * *
6049041 AAACTCCTTAAAATTCGAAA-CTCCTAAAATCC
1 AAACCCCTAAAAATCCAAAATC-CCTTAAATCC
* * *
6049073 AAAACCCTCCAAAATCTAAAATCCC
1 AAACCCCT-AAAAATCCAAAATCCC
6049098 AAACTTTTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
31 1 0.01
32 32 0.44
33 39 0.53
34 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (32 bp):
AAACCCCTAAAAATCCAAAATCCCTTAAATCC
Found at i:6049054 original size:16 final size:16
Alignment explanation
Indices: 6048985--6049075 Score: 71
Period size: 16 Copynumber: 5.6 Consensus size: 16
6048975 AAAACCCCTA
*
6048985 AAAATCCAAAATCCCTT
1 AAAATCCAAACT-CCTT
* *
6049002 -AAATCCAAACCCCATA
1 AAAATCCAAACTCC-TT
* *
6049018 AAAATTCAAAATCTCTT
1 AAAATCCAAACTC-CTT
6049035 -AAATCCAAACTCCTT
1 AAAATCCAAACTCCTT
*
6049050 AAAATTCGAAACTCC-T
1 AAAA-TCCAAACTCCTT
6049066 AAAATCCAAA
1 AAAATCCAAA
6049076 ACCCTCCAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
15 10 0.17
16 28 0.48
17 19 0.33
18 1 0.02
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (16 bp):
AAAATCCAAACTCCTT
Found at i:6049071 original size:32 final size:33
Alignment explanation
Indices: 6048976--6049075 Score: 107
Period size: 32 Copynumber: 3.1 Consensus size: 33
6048966 TAAGTTTTTA
* * *
6048976 AAACCCC-TAAAAATCCAAAATCCCTTAAATCC
1 AAACCCCATAAAAATTCAAAATCTCTAAAATCC
*
6049008 AAACCCCATAAAAATTCAAAATCTCTTAAATCC
1 AAACCCCATAAAAATTCAAAATCTCTAAAATCC
* * *
6049041 AAACTCC-TTAAAATTCGAAA-CTCCTAAAATCC
1 AAACCCCATAAAAATTCAAAATCT-CTAAAATCC
6049073 AAA
1 AAA
6049076 ACCCTCCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
31 2 0.03
32 29 0.48
33 29 0.48
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (33 bp):
AAACCCCATAAAAATTCAAAATCTCTAAAATCC
Found at i:6049077 original size:16 final size:16
Alignment explanation
Indices: 6048975--6049077 Score: 61
Period size: 16 Copynumber: 6.3 Consensus size: 16
6048965 CTAAGTTTTT
*
6048975 AAAACCCCTAAAAATCC
1 AAAACTCCT-AAAATCC
*
6048992 AAAA-TCCCTTAAATCC
1 AAAACT-CCTAAAATCC
* *
6049008 -AAACCCCATAAAAATTC
1 AAAACTCC-T-AAAATCC
*
6049025 AAAA-TCTCTTAAATCC
1 AAAACTC-CTAAAATCC
*
6049041 -AAACTCCTTAAAATTC
1 AAAACTCC-TAAAATCC
*
6049057 GAAACTCCTAAAATCC
1 AAAACTCCTAAAATCC
6049073 AAAAC
1 AAAAC
6049078 CCTCCAAAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
15 9 0.14
16 31 0.48
17 21 0.32
18 4 0.06
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (16 bp):
AAAACTCCTAAAATCC
Found at i:6049160 original size:45 final size:46
Alignment explanation
Indices: 6049074--6049161 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 46
6049064 CTAAAATCCA
* ** *
6049074 AAACCCTCCAAAATCTAAAATCCCAAACTTTTAAACTCTTAAACCT
1 AAACCCTCCAAAATCTAAAATCCCAAACATCCAAACCCTTAAACCT
*
6049120 AAACCC-CCTAAATCTAAAATCCCTAAA-ATCCAAACCCTTAAA
1 AAACCCTCCAAAATCTAAAATCCC-AAACATCCAAACCCTTAAA
6049162 TCAAAACCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
45 27 0.75
46 9 0.25
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (46 bp):
AAACCCTCCAAAATCTAAAATCCCAAACATCCAAACCCTTAAACCT
Found at i:6049162 original size:14 final size:14
Alignment explanation
Indices: 6049125--6049188 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 14
6049115 AACCTAAACC
6049125 CCCT-AAATCTAAAA
1 CCCTAAAATC-AAAA
*
6049139 TCCCTAAAATCCAAA
1 -CCCTAAAATCAAAA
*
6049154 CCCTTAAATCAAAA
1 CCCTAAAATCAAAA
6049168 -CCTAAAACCTCAAAA
1 CCCTAAAA--TCAAAA
6049183 -CCTAAA
1 CCCTAAA
6049189 CCCTAAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
13 6 0.14
14 12 0.29
15 19 0.45
16 5 0.12
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
CCCTAAAATCAAAA
Found at i:6049188 original size:51 final size:51
Alignment explanation
Indices: 6049114--6049225 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
6049104 TTAAACTCTT
* * * *
6049114 AAACCTAAACCCCCTAAATCTAAAATCCCTAAAATC-C-AAACCCTTAAATCA
1 AAACCTAAAACCCCAAAACCT-AAA-CCCTAAAATCTCTAAACCCTAAAATCA
* *
6049165 AAACCTAAAACCTCAAAACCTAAACCCTAAAATCTCTAAACTCTAAAATCA
1 AAACCTAAAACCCCAAAACCTAAACCCTAAAATCTCTAAACCCTAAAATCA
6049216 AAACCCTAAA
1 AAA-CCTAAA
6049226 CCTTCCATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
49 10 0.19
50 4 0.08
51 32 0.62
52 6 0.12
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (51 bp):
AAACCTAAAACCCCAAAACCTAAACCCTAAAATCTCTAAACCCTAAAATCA
Found at i:6049196 original size:14 final size:14
Alignment explanation
Indices: 6049164--6049225 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
6049154 CCCTTAAATC
*
6049164 AAAACCTAAAACCT
1 AAAACCTAAACCCT
6049178 CAAAACCTAAACCCT
1 -AAAACCTAAACCCT
*
6049193 AAAATCTCTAAACTCT
1 AAAA-C-CTAAACCCT
* *
6049209 AAAATCAAAACCCT
1 AAAACCTAAACCCT
6049223 AAA
1 AAA
6049226 CCTTCCATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 14 0.35
15 14 0.35
16 12 0.30
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAACCTAAACCCT
Found at i:6049196 original size:22 final size:23
Alignment explanation
Indices: 6049168--6049211 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6049158 TAAATCAAAA
6049168 CCTAAAACCTCAAAAC-CTAAAC
1 CCTAAAACCTCAAAACTCTAAAC
* *
6049190 CCTAAAATCTCTAAACTCTAAA
1 CCTAAAACCTCAAAACTCTAAA
6049212 ATCAAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (23 bp):
CCTAAAACCTCAAAACTCTAAAC
Found at i:6049205 original size:16 final size:16
Alignment explanation
Indices: 6049184--6049214 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6049174 ACCTCAAAAC
6049184 CTAAACCCTAAAATCT
1 CTAAACCCTAAAATCT
*
6049200 CTAAACTCTAAAATC
1 CTAAACCCTAAAATC
6049215 AAAACCCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (16 bp):
CTAAACCCTAAAATCT
Found at i:6051519 original size:12 final size:13
Alignment explanation
Indices: 6051500--6051525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6051490 ACTTCAATTT
6051500 GAAAAAAATTAAA
1 GAAAAAAATTAAA
6051513 GAAAAAAATTAAA
1 GAAAAAAATTAAA
6051526 AAATTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
GAAAAAAATTAAA
Found at i:6056465 original size:89 final size:92
Alignment explanation
Indices: 6056307--6056475 Score: 254
Period size: 89 Copynumber: 1.9 Consensus size: 92
6056297 TAATGTTATC
* * *
6056307 TTGTCCCTGCATCTTACTCAGTATCTTTGTTACTTATAGGGGGTTAATTGCGGTTTGTTTCTTTT
1 TTGTCCCTGCATCTTA-TCAGTATCTTTGTTACTTACAGGGGGTTAATTGCGGTTGGTTTCTTTA
*
6056372 GCTTGTAGAGTTGGAAGGGATCATCATT
65 GCTTGTAGAGCTGGAAGGGATCATCATT
* *
6056400 TTGTCCCTGCATC-T-T-AGTATCTTTGTTCCTTACAGGGGGTTAATTGTGGTTGGTTTCTTTAG
1 TTGTCCCTGCATCTTATCAGTATCTTTGTTACTTACAGGGGGTTAATTGCGGTTGGTTTCTTTAG
6056462 CTTGTAGAGCTGGA
66 CTTGTAGAGCTGGA
6056476 TGTGATTCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
89 55 0.79
90 1 0.01
92 1 0.01
93 13 0.19
ACGTcount: A:0.16, C:0.15, G:0.25, T:0.44
Consensus pattern (92 bp):
TTGTCCCTGCATCTTATCAGTATCTTTGTTACTTACAGGGGGTTAATTGCGGTTGGTTTCTTTAG
CTTGTAGAGCTGGAAGGGATCATCATT
Found at i:6064046 original size:15 final size:15
Alignment explanation
Indices: 6064026--6064054 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6064016 AAATATTTTT
6064026 CTTTTCTTTCCTTTC
1 CTTTTCTTTCCTTTC
6064041 CTTTTCTTTCCTTT
1 CTTTTCTTTCCTTT
6064055 ATTAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTTTCTTTCCTTTC
Found at i:6066901 original size:15 final size:15
Alignment explanation
Indices: 6066883--6066912 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6066873 TCCTTTTCGG
*
6066883 AATTTTATTTTTTAT
1 AATTTGATTTTTTAT
6066898 AATTTGATTTTTTAT
1 AATTTGATTTTTTAT
6066913 TTTGTGGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
AATTTGATTTTTTAT
Found at i:6067665 original size:23 final size:23
Alignment explanation
Indices: 6067638--6067699 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
6067628 TATGATAATA
*
6067638 ATTAAAATTATAAAATTATT-TTT
1 ATTAAAATTATAAAA-AATTATTT
*
6067661 ATTAAAAATATAAAAAATTATTT
1 ATTAAAATTATAAAAAATTATTT
6067684 -TTAAAATTAATAAAAA
1 ATTAAAATT-ATAAAAA
6067700 TAATGTGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTAAAATTATAAAAAATTATTT
Found at i:6067695 original size:25 final size:23
Alignment explanation
Indices: 6067649--6067699 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
6067639 TTAAAATTAT
6067649 AAAATTATTTTTATTAAAAATATAA
1 AAAATTATTTTTA-TAAAAATA-AA
6067674 AAAATTATTTTTA-AAATTAATAAA
1 AAAATTATTTTTATAAA--AATAAA
6067698 AA
1 AA
6067700 TAATGTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.12
24 4 0.17
25 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTATTTTTATAAAAATAAA
Found at i:6067698 original size:22 final size:22
Alignment explanation
Indices: 6067639--6067700 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
6067629 ATGATAATAA
6067639 TTAAAATT-AT-AAAATTATTT
1 TTAAAATTAATAAAAATTATTT
*
6067659 TTATTAAA-AATATAAAAAATTATTT
1 TTA--AAATTA-AT-AAAAATTATTT
6067684 TTAAAATTAATAAAAAT
1 TTAAAATTAATAAAAAT
6067701 AATGTGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
20 3 0.09
22 9 0.27
23 7 0.21
24 1 0.03
25 13 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAATTAATAAAAATTATTT
Found at i:6076742 original size:31 final size:31
Alignment explanation
Indices: 6076704--6076768 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
6076694 CAAAAAGAAC
6076704 AAAGTTTCTTTTTATATATATATAAATAAAT
1 AAAGTTTCTTTTTATATATATATAAATAAAT
6076735 AAAGTTTCTTTTTATATATATATAAATAAAT
1 AAAGTTTCTTTTTATATATATATAAATAAAT
6076766 AAA
1 AAA
6076769 CCCTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (31 bp):
AAAGTTTCTTTTTATATATATATAAATAAAT
Found at i:6077192 original size:44 final size:44
Alignment explanation
Indices: 6077134--6077223 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
6077124 TCCATAGTAT
6077134 CTGCATCAGTCAAACAGACAAAACTTTACTCTCTCTCTCTCTGC
1 CTGCATCAGTCAAACAGACAAAACTTTACTCTCTCTCTCTCTGC
*
6077178 CTGCATCAGTCAAACAGACAAAACTTTACTCTCTTTCTCTCTGC
1 CTGCATCAGTCAAACAGACAAAACTTTACTCTCTCTCTCTCTGC
6077222 CT
1 CT
6077224 TGCTCATTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.33, G:0.09, T:0.31
Consensus pattern (44 bp):
CTGCATCAGTCAAACAGACAAAACTTTACTCTCTCTCTCTCTGC
Found at i:6077939 original size:2 final size:2
Alignment explanation
Indices: 6077932--6077957 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6077922 AACAAGCAAA
6077932 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
6077958 CCTGTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6078285 original size:13 final size:13
Alignment explanation
Indices: 6078267--6078306 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
6078257 ATTTATTGTA
6078267 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
6078280 ATTAAATATATAT
1 ATTAAATTTAAAT
6078293 ATTAAATTTTAAAT
1 ATTAAA-TTTAAAT
6078307 TATAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:6078473 original size:14 final size:14
Alignment explanation
Indices: 6078431--6078485 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 14
6078421 AAAATTTCAC
6078431 ATTAAAATAATAAAAA
1 ATTAAAAT--TAAAAA
*
6078447 ATAAAAATTTTAAAAA
1 ATTAAAA--TTAAAAA
*
6078463 ATTAAAATTAATAA
1 ATTAAAATTAAAAA
6078477 ATTAAAATT
1 ATTAAAATT
6078486 CAATTCAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 15 0.44
16 18 0.53
18 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTAAAATTAAAAA
Found at i:6080074 original size:9 final size:9
Alignment explanation
Indices: 6080060--6080088 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6080050 TGAAATATTC
6080060 TTTTTAATT
1 TTTTTAATT
6080069 TTTTTAA-T
1 TTTTTAATT
6080077 TTTTTAATT
1 TTTTTAATT
6080086 TTT
1 TTT
6080089 CATATGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTAATT
Found at i:6081032 original size:9 final size:9
Alignment explanation
Indices: 6080996--6081078 Score: 51
Period size: 9 Copynumber: 9.2 Consensus size: 9
6080986 AATTTCCATA
6080996 ATGATAATG
1 ATGATAATG
* *
6081005 CTAATAGAT-
1 ATGATA-ATG
*
6081014 ATGATTATG
1 ATGATAATG
6081023 ATGATAATG
1 ATGATAATG
* *
6081032 ATGCTGATG
1 ATGATAATG
* * *
6081041 AAGATGATA
1 ATGATAATG
* *
6081050 ATGATGATT
1 ATGATAATG
6081059 ATGATAATG
1 ATGATAATG
*
6081068 ATGAAAATG
1 ATGATAATG
6081077 AT
1 AT
6081079 AATATAAATG
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
8 2 0.04
9 52 0.93
10 2 0.04
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.34
Consensus pattern (9 bp):
ATGATAATG
Found at i:6081039 original size:15 final size:15
Alignment explanation
Indices: 6080996--6081081 Score: 81
Period size: 15 Copynumber: 5.9 Consensus size: 15
6080986 AATTTCCATA
*
6080996 ATGATAATGCTAAT-
1 ATGATAATGATAATG
*
6081010 A-GAT-ATGATTATG
1 ATGATAATGATAATG
**
6081023 ATGATAATGATGCTG
1 ATGATAATGATAATG
6081038 ATGA-AGATGATAATG
1 ATGATA-ATGATAATG
*
6081053 ATGATTATGATAATG
1 ATGATAATGATAATG
*
6081068 ATGAAAATGATAAT
1 ATGATAATGATAAT
6081082 ATAAATGTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
12 6 0.10
13 4 0.07
14 5 0.09
15 43 0.74
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (15 bp):
ATGATAATGATAATG
Found at i:6081068 original size:21 final size:21
Alignment explanation
Indices: 6080996--6081069 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
6080986 AATTTCCATA
*
6080996 ATGATAATGCTAATAGAT-ATG
1 ATGATAATGATAAT-GATGATG
* * *
6081017 ATTATGATGATAATGATGCTG
1 ATGATAATGATAATGATGATG
*
6081038 ATGA-AGATGATAATGATGATT
1 ATGATA-ATGATAATGATGATG
6081059 ATGATAATGAT
1 ATGATAATGAT
6081070 GAAAATGATA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.07
21 38 0.90
22 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.35
Consensus pattern (21 bp):
ATGATAATGATAATGATGATG
Found at i:6084223 original size:49 final size:49
Alignment explanation
Indices: 6084137--6084234 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
6084127 ATTTTTTTTA
* * * *
6084137 TGTAACATATGCTGGCATTATTTTGTGGTGTATTGACAAAATAGTGATG
1 TGTAACATATGCTAGCATCATTTTGTGGTATACTGACAAAATAGTGATG
* * *
6084186 TGTAATATATGCTAGCATCATTGTTGT-GTATACTGACATAATGGTGATG
1 TGTAACATATGCTAGCATCATT-TTGTGGTATACTGACAAAATAGTGATG
6084235 AAATTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 37 0.90
50 4 0.10
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (49 bp):
TGTAACATATGCTAGCATCATTTTGTGGTATACTGACAAAATAGTGATG
Found at i:6087140 original size:20 final size:20
Alignment explanation
Indices: 6087117--6087156 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6087107 TATTTGGCTT
6087117 GCCTTCTCTTTTTTT-TTTTA
1 GCCTT-TCTTTTTTTGTTTTA
*
6087137 GCCTTTTTTTTTTTGTTTTA
1 GCCTTTCTTTTTTTGTTTTA
6087157 CTCATTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.72
Consensus pattern (20 bp):
GCCTTTCTTTTTTTGTTTTA
Found at i:6087805 original size:144 final size:145
Alignment explanation
Indices: 6087497--6087910 Score: 369
Period size: 145 Copynumber: 2.9 Consensus size: 145
6087487 TCATTTTTTA
* * * * * *
6087497 GATTTTAAA-ACACCAAAAATCATGAAATATTATAAAATTGATATCTAAAAAGTTTCATAAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATAT-GAAAGTTTCATGAAAAT
* *
6087561 TCGAGCTCGGGAATGTCAAATTATAAAAATACCCCTTATAGGAGTATTTTAATAATTTCACACTT
65 TCGAGCTCAGGAATGTCAAATTACAAAAATACCCCTTATAGGAGTATTTTAATAATTTCACACTT
*
6087626 TCTAATGTACTACTAT
130 TCTAAGGTACTACTAT
* * *
6087642 GATTTCAAATGCATC-AAAATCATGAAATATTATGAAATTAAGATATGAAAGTTTCATGAAAATT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATATGAAAGTTTCATGAAAATT
* * * * * * **
6087706 TGAGCTTATGACA-GTTAAATTACGAAAATA-CCCTTATAAGG-GTTTTTTGGTAATTTCACAC-
66 CGAGCTCAGGA-ATGTCAAATTACAAAAATACCCCTTAT-AGGAGTATTTTAATAATTTCACACT
** * *
6087767 TTCTTGGGGTA-TGATTGT
129 TTC-TAAGGTACT-ACTAT
* * * *
6087785 GATTTTAAATGCACCAAAAATTATAAAATATTAAAAAATTAAGATATGAAAAGTTTTATGAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATATG-AAAGTTTCATGAAAAT
* * ** * * ** *
6087850 TCAAGCGCAAAAAGGTTAAATTACAAAAATA-CTTTTATA-TAGGTATTTTAATAATTTCACA
65 TCGAGCTCAGGAATGTCAAATTACAAAAATACCCCTTATAGGA-GTATTTTAATAATTTCACA
6087911 TTTTTCTCAA
Statistics
Matches: 215, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
142 4 0.02
143 44 0.20
144 70 0.33
145 94 0.44
146 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (145 bp):
GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATATGAAAGTTTCATGAAAATT
CGAGCTCAGGAATGTCAAATTACAAAAATACCCCTTATAGGAGTATTTTAATAATTTCACACTTT
CTAAGGTACTACTAT
Found at i:6089904 original size:12 final size:12
Alignment explanation
Indices: 6089887--6089923 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6089877 TTTAATTTAA
6089887 TATAAATATATT
1 TATAAATATATT
6089899 TATAAATATA--
1 TATAAATATATT
*
6089909 TATAAATTTATT
1 TATAAATATATT
6089921 TAT
1 TAT
6089924 TATAATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 9 0.41
12 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATAAATATATT
Found at i:6089908 original size:18 final size:18
Alignment explanation
Indices: 6089885--6089919 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6089875 TTTTTAATTT
*
6089885 AATATAAATATATTTATA
1 AATATAAATAAATTTATA
*
6089903 AATATATATAAATTTAT
1 AATATAAATAAATTTAT
6089920 TTATTATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATAAATAAATTTATA
Found at i:6089962 original size:23 final size:23
Alignment explanation
Indices: 6089935--6089983 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
6089925 ATAATACTAT
*
6089935 TAATAATCTATAAAAT-AAATATA
1 TAAT-ATCTATAAAATCAAATAAA
*
6089958 TAATATCTTTAAAATCAAATAAA
1 TAATATCTATAAAATCAAATAAA
6089981 TAA
1 TAA
6089984 ATTTAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
TAATATCTATAAAATCAAATAAA
Found at i:6090761 original size:6 final size:6
Alignment explanation
Indices: 6090742--6090771 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
6090732 AATAAGATTA
6090742 TTTAAT TATTAAT TTTAAT TTTAAT TTTAA
1 TTTAAT T-TTAAT TTTAAT TTTAAT TTTAA
6090772 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTAAT
Found at i:6091850 original size:17 final size:17
Alignment explanation
Indices: 6091830--6091863 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6091820 ATATTATAAA
6091830 AATTTTAAATTCAATTT
1 AATTTTAAATTCAATTT
*
6091847 AATTTTAAATTTAATTT
1 AATTTTAAATTCAATTT
6091864 TTATAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTAAATTCAATTT
Found at i:6091903 original size:31 final size:31
Alignment explanation
Indices: 6091848--6091947 Score: 100
Period size: 30 Copynumber: 3.3 Consensus size: 31
6091838 ATTCAATTTA
* *
6091848 ATTTTAAATTTAATTT-TTATAAATATTATG
1 ATTTTAAATTAAATTTAATATAAATATTATG
*
6091878 ATTTTAAATTAAATTTAATATAAATATT-TA
1 ATTTTAAATTAAATTTAATATAAATATTATG
* **
6091908 ATATTTAATTTAAATCGAAT-TAAA-ATTTATG
1 AT-TTTAAATTAAATTTAATATAAATA-TTATG
6091939 ATTTTAAAT
1 ATTTTAAAT
6091948 CAATTTTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.02
30 30 0.52
31 27 0.47
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (31 bp):
ATTTTAAATTAAATTTAATATAAATATTATG
Found at i:6091966 original size:10 final size:9
Alignment explanation
Indices: 6091951--6091975 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6091941 TTTAAATCAA
6091951 TTTTTTTAT
1 TTTTTTTAT
6091960 TTTTTTTAT
1 TTTTTTTAT
6091969 TTTTTTT
1 TTTTTTT
6091976 CTCATCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:6094354 original size:15 final size:16
Alignment explanation
Indices: 6094331--6094363 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6094321 TATTTAAATT
*
6094331 TTAAAAAATTTTAATA
1 TTAAAAATTTTTAATA
6094347 TTAAAAATTTTTAATA
1 TTAAAAATTTTTAATA
6094363 T
1 T
6094364 GATATCTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAAATTTTTAATA
Found at i:6097261 original size:32 final size:33
Alignment explanation
Indices: 6097205--6097269 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
6097195 CATAGAGAGA
*
6097205 AAAAAAAATCAAATAAAATACCCAAAATTTAGT
1 AAAAAAAATAAAATAAAATACCCAAAATTTAGT
*
6097238 AAAAGAAATAAAAT-AAATACCCAAAATTTAGT
1 AAAAAAAATAAAATAAAATACCCAAAATTTAGT
6097270 TTTCCAAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.22
Consensus pattern (33 bp):
AAAAAAAATAAAATAAAATACCCAAAATTTAGT
Found at i:6106966 original size:2 final size:2
Alignment explanation
Indices: 6106959--6106990 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6106949 AGTGAAGGAG
*
6106959 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6106991 GTACGTACGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6107492 original size:42 final size:45
Alignment explanation
Indices: 6107418--6107510 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
6107408 TATATCTAAA
*
6107418 AATATTTTTTATTTATATATATTATATTAATAAAATAAT-TATTT
1 AATATTTTTTATTTATATATATAATATTAATAAAATAATATATTT
*
6107462 AATATTTTGTT-TTTATATAT-TAAT-TTAATAAAATATTATATTT
1 AATATTTT-TTATTTATATATATAATATTAATAAAATAATATATTT
6107505 ATATAT
1 A-ATAT
6107511 AATTAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
42 12 0.27
43 9 0.20
44 21 0.48
45 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (45 bp):
AATATTTTTTATTTATATATATAATATTAATAAAATAATATATTT
Found at i:6107505 original size:29 final size:28
Alignment explanation
Indices: 6107473--6107531 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
6107463 ATATTTTGTT
*
6107473 TTTATATATTAATT-TAATAAAATATTATA
1 TTTATATA-TAATTAAAATAAAAT-TTATA
*
6107502 TTTATATATAATTAAAATATAATTTATA
1 TTTATATATAATTAAAATAAAATTTATA
6107530 TT
1 TT
6107532 AAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTATATATAATTAAAATAAAATTTATA
Found at i:6110861 original size:2 final size:2
Alignment explanation
Indices: 6110850--6110886 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
6110840 AACACCAATC
*
6110850 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6110887 CACACACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6111417 original size:2 final size:2
Alignment explanation
Indices: 6111410--6111436 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6111400 TTTAAGAATC
6111410 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6111437 GCATCATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6116973 original size:14 final size:14
Alignment explanation
Indices: 6116936--6117006 Score: 58
Period size: 14 Copynumber: 5.2 Consensus size: 14
6116926 TAACTTAAAA
6116936 AAAAAGAAAAAATG
1 AAAAAGAAAAAATG
* *
6116950 AAGATGAAAAAATG
1 AAAAAGAAAAAATG
*
6116964 AAAAA-CAAAAAT-
1 AAAAAGAAAAAATG
* **
6116976 AAAAATAATAAAGGG
1 AAAAAGAA-AAAATG
6116991 AAAAAG-AAAAATG
1 AAAAAGAAAAAATG
6117004 AAA
1 AAA
6117007 CTCATTGAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
12 5 0.12
13 14 0.33
14 19 0.44
15 5 0.12
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.10
Consensus pattern (14 bp):
AAAAAGAAAAAATG
Found at i:6117666 original size:19 final size:19
Alignment explanation
Indices: 6117639--6117712 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
6117629 AAAAAAATTT
*
6117639 AAATGAAAAATTTTATTAA
1 AAATAAAAAATTTTATTAA
* **
6117658 AAATAAAAAATTTGAAAAA
1 AAATAAAAAATTTTATTAA
*
6117677 AGTAATAAAAAAGTTT-TTAA
1 A--AATAAAAAATTTTATTAA
6117697 AAATTAAAAAATTTTA
1 AAA-TAAAAAATTTTA
6117713 AGAAGATAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.05
19 26 0.62
20 3 0.07
21 11 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATAAAAAATTTTATTAA
Found at i:6117677 original size:18 final size:18
Alignment explanation
Indices: 6117656--6117731 Score: 53
Period size: 18 Copynumber: 4.0 Consensus size: 18
6117646 AAATTTTATT
6117656 AAAAATAAAAAATTTGAAA
1 AAAAATAAAAAATTTG-AA
**
6117675 AAAGTAATAAAAAAGTTTTTA
1 AAA--AATAAAAAA-TTTGAA
* *
6117696 AAAATTAAAAAATTTTAA
1 AAAAATAAAAAATTTGAA
* * *
6117714 GAAGATAAAAAAATTGAA
1 AAAAATAAAAAATTTGAA
6117732 GAGTCTAACA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 18 0.40
19 11 0.24
21 13 0.29
22 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (18 bp):
AAAAATAAAAAATTTGAA
Found at i:6117971 original size:21 final size:21
Alignment explanation
Indices: 6117932--6117972 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6117922 TAAAACTTTT
* **
6117932 AAAAATAGAAAAACTAAAAAC
1 AAAAAAAGAAAAAAGAAAAAC
6117953 AAAAAAAGAAAAAAGAAAAA
1 AAAAAAAGAAAAAAGAAAAA
6117973 AACTAGCTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.83, C:0.05, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAAAAAGAAAAAAGAAAAAC
Found at i:6119532 original size:139 final size:137
Alignment explanation
Indices: 6119284--6119563 Score: 472
Period size: 139 Copynumber: 2.0 Consensus size: 137
6119274 TCATGAAATG
* * *
6119284 GATAATATCAAAGCAACAAATATAATATTGAATGACAAACAAAAAATATCATATCAGTAAGAAAA
1 GATAATATCAAAGCAACAAAAATAATATTGAATGAAAAAAAAAAAATATCATATCAGTAAGAAAA
*
6119349 GAAATAAATTAATTCACTACATATAAAAAAATAAAAATAAAATACATTCTTTATACATATAATAA
66 GAAATAAATCAATTCACTACATATAAAAAAATAAAAATAAAATACATTCTTTATACATATAATAA
6119414 GAGAGGT
131 GAGAGGT
6119421 GATAATATCAAAGCAACAAAAATAATATTGAATGAAAAATAAAATAAATATCATATCAGTAAGAA
1 GATAATATCAAAGCAACAAAAATAATATTGAATGAAAAA-AAAA-AAATATCATATCAGTAAGAA
*
6119486 AAGAAATAAATCAATTCACTTCATAT-AAAAAATAAAAAATAAAATACATTCTTTATACATATAA
64 AAGAAATAAATCAATTCACTACATATAAAAAAAT-AAAAATAAAATACATTCTTTATACATATAA
*
6119550 TAAGATAGGT
128 TAAGAGAGGT
6119560 GATA
1 GATA
6119564 GGTTATTGTT
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
137 37 0.28
138 10 0.07
139 87 0.65
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.26
Consensus pattern (137 bp):
GATAATATCAAAGCAACAAAAATAATATTGAATGAAAAAAAAAAAATATCATATCAGTAAGAAAA
GAAATAAATCAATTCACTACATATAAAAAAATAAAAATAAAATACATTCTTTATACATATAATAA
GAGAGGT
Found at i:6123588 original size:2 final size:2
Alignment explanation
Indices: 6123581--6123606 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6123571 GTAATATTAA
6123581 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
6123607 GATGATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6131316 original size:2 final size:2
Alignment explanation
Indices: 6131309--6131343 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6131299 AGTTTAGGGT
6131309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6131344 GTAATGGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6135300 original size:4 final size:4
Alignment explanation
Indices: 6135276--6135321 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
6135266 TTATATCATC
* *
6135276 ATGT ATAT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
6135322 ATGAACAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:6137178 original size:1 final size:1
Alignment explanation
Indices: 6137172--6137198 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
6137162 TCAGAATCTT
6137172 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
6137199 CTCAAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6141257 original size:2 final size:2
Alignment explanation
Indices: 6141252--6141277 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6141242 ACACACACAC
6141252 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
6141278 CCATTTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6143433 original size:31 final size:31
Alignment explanation
Indices: 6143374--6143435 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
6143364 TTGAATTTTG
*
6143374 AATATGATATTTAAATTATAATTTATTAATT
1 AATATGATATTTAAATTATAATTAATTAATT
* *
6143405 AATATGATATTT-ATTTTTAATATAATTAATT
1 AATATGATATTTAAATTATAAT-TAATTAATT
6143436 TCAAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
AATATGATATTTAAATTATAATTAATTAATT
Found at i:6152509 original size:2 final size:2
Alignment explanation
Indices: 6152502--6152538 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6152492 CTTGAACCAA
6152502 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 A
6152539 CTGGCATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6159553 original size:24 final size:24
Alignment explanation
Indices: 6159526--6159577 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6159516 CCAAATAAGA
*
6159526 TTAAAAGAAAGAATGATCAAACCT
1 TTAAAACAAAGAATGATCAAACCT
**
6159550 TTAATTCAAAGAATGATCAAACCT
1 TTAAAACAAAGAATGATCAAACCT
6159574 TTAA
1 TTAA
6159578 TTCAATGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (24 bp):
TTAAAACAAAGAATGATCAAACCT
Found at i:6159578 original size:24 final size:24
Alignment explanation
Indices: 6159533--6159582 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
6159523 AGATTAAAAG
6159533 AAAGAATGATCAAACCTTTAATTC
1 AAAGAATGATCAAACCTTTAATTC
6159557 AAAGAATGATCAAACCTTTAATTC
1 AAAGAATGATCAAACCTTTAATTC
6159581 AA
1 AA
6159583 TGTTCACTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (24 bp):
AAAGAATGATCAAACCTTTAATTC
Found at i:6159950 original size:20 final size:20
Alignment explanation
Indices: 6159894--6159953 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 20
6159884 TAACCCAAAT
**
6159894 AAAAAAAAATCC-AACTTAA
1 AAAAAAAAATCCTAACACAA
* * *
6159913 CAAAAAAAATCAT-GCACAA
1 AAAAAAAAATCCTAACACAA
6159932 AAAAAAAAATCCTAACACAA
1 AAAAAAAAATCCTAACACAA
6159952 AA
1 AA
6159954 CTCATATCCA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.68, C:0.18, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAAAAAAATCCTAACACAA
Found at i:6160131 original size:33 final size:34
Alignment explanation
Indices: 6160086--6160153 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 34
6160076 ACAAATTGAC
*
6160086 AACAAACGAATCACACAT-A-AAAAATAGCAAAAA
1 AACAAACGAATCAAACATGAGAAAAATAG-AAAAA
6160119 AACAAA-GAAATCAAACATGAGAAAAATAGAAAAA
1 AACAAACG-AATCAAACATGAGAAAAATAGAAAAA
6160153 A
1 A
6160154 CTCACATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 1 0.03
33 15 0.48
34 7 0.23
35 8 0.26
ACGTcount: A:0.69, C:0.13, G:0.09, T:0.09
Consensus pattern (34 bp):
AACAAACGAATCAAACATGAGAAAAATAGAAAAA
Found at i:6160773 original size:3 final size:3
Alignment explanation
Indices: 6160765--6160812 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
6160755 AAATACTTAA
6160765 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6160813 TTACTCATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6161017 original size:18 final size:18
Alignment explanation
Indices: 6160994--6161035 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6160984 CCCAAGTGTG
*
6160994 TTATTTT-TGTTTTGTTTT
1 TTATTTTAT-TTTTGCTTT
6161012 TTATTTTATTTTTGCTTT
1 TTATTTTATTTTTGCTTT
6161030 TTATTT
1 TTATTT
6161036 GGATTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.81
Consensus pattern (18 bp):
TTATTTTATTTTTGCTTT
Found at i:6161042 original size:18 final size:18
Alignment explanation
Indices: 6161003--6161042 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6160993 GTTATTTTTG
* *
6161003 TTTTGTTTTTTATTTTAT
1 TTTTGCTTTTTATTTGAT
6161021 TTTTGCTTTTTATTTGGAT
1 TTTTGCTTTTTATTT-GAT
6161040 TTT
1 TTT
6161043 ATAATTTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTGCTTTTTATTTGAT
Found at i:6161106 original size:24 final size:24
Alignment explanation
Indices: 6161053--6161102 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
6161043 ATAATTTAGT
6161053 AAAAT-ATTAATTAAATAATAATA
1 AAAATAATTAATTAAATAATAATA
*
6161076 ATAATAATTAATTAACA-AAT-ATA
1 AAAATAATTAATTAA-ATAATAATA
6161099 AAAA
1 AAAA
6161103 ATAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
23 10 0.43
24 12 0.52
25 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATAATTAATTAAATAATAATA
Found at i:6163221 original size:10 final size:10
Alignment explanation
Indices: 6163206--6163231 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6163196 AAAATTATCT
6163206 TTTTAATAAA
1 TTTTAATAAA
6163216 TTTTAATAAA
1 TTTTAATAAA
6163226 TTTTAA
1 TTTTAA
6163232 AATTTTTTTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:6163543 original size:18 final size:19
Alignment explanation
Indices: 6163522--6163557 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6163512 AAATACCACA
6163522 AAAAAAT-AAAAAAAAATC
1 AAAAAATCAAAAAAAAATC
*
6163540 AAAAAATCAAAAACAAAT
1 AAAAAATCAAAAAAAAAT
6163558 TGAAAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAATCAAAAAAAAATC
Done.