Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 165 of 172
Found at i:48742469 original size:19 final size:18
Alignment explanation
Indices: 48742437--48742485 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
48742427 TAATTAACTT
48742437 TTAAAAAT-TTTAAAAAA
1 TTAAAAATATTTAAAAAA
*
48742454 TTAAAAAGTATTTAAAAAG
1 TTAAAAA-TATTTAAAAAA
48742473 TATAAAAATATTT
1 T-TAAAAATATTT
48742486 TTAAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 7 0.25
18 1 0.04
19 14 0.50
20 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (18 bp):
TTAAAAATATTTAAAAAA
Found at i:48744021 original size:24 final size:24
Alignment explanation
Indices: 48743994--48744045 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
48743984 ATTTTTTTAA
*
48743994 TTTTAAAATATTTTTAAAATACTT
1 TTTTAAAATATTTTTAAAATAATT
*** *
48744018 TTTTTTTATTTTTTTAAAATAATT
1 TTTTAAAATATTTTTAAAATAATT
48744042 TTTT
1 TTTT
48744046 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAAAATATTTTTAAAATAATT
Found at i:48746161 original size:23 final size:24
Alignment explanation
Indices: 48746115--48746173 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 24
48746105 ATAAAAATTA
48746115 ACCAAAATATTATAACTTTTTTATTT
1 ACCAAAATATTAT-A-TTTTTTATTT
48746141 ACCAAAATATTAT-TTTTTTATTT
1 ACCAAAATATTATATTTTTTATTT
*
48746164 ACGAAAATAT
1 ACCAAAATAT
48746174 ACCAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 19 0.59
26 13 0.41
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (24 bp):
ACCAAAATATTATATTTTTTATTT
Found at i:48746285 original size:27 final size:27
Alignment explanation
Indices: 48746253--48746326 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
48746243 AATCATATTA
*
48746253 GCGGCACCAAAGGTGCCAAAGAGATTG
1 GCGGCACCAATGGTGCCAAAGAGATTG
* * * *
48746280 GTGGCACCAATGATACCAAAGTGATTG
1 GCGGCACCAATGGTGCCAAAGAGATTG
48746307 GCGGCACCAATGGTGCCAAA
1 GCGGCACCAATGGTGCCAAA
48746327 TGACTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.30, T:0.15
Consensus pattern (27 bp):
GCGGCACCAATGGTGCCAAAGAGATTG
Found at i:48746429 original size:19 final size:17
Alignment explanation
Indices: 48746402--48746476 Score: 78
Period size: 18 Copynumber: 4.1 Consensus size: 17
48746392 CAACTCATTT
48746402 TTTTATTTAATAATTCTA
1 TTTTATTTAATAA-TCTA
*
48746420 TTTTAGTTTAATAAACTA
1 TTTTA-TTTAATAATCTA
*
48746438 TTCTCATTTAATAACTCTA
1 TT-TTATTTAATAA-TCTA
*
48746457 TTTTAATTTAATAAACTA
1 TTTT-ATTTAATAATCTA
48746475 TT
1 TT
48746477 AAGTAATACT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 24 0.50
19 24 0.50
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTTATTTAATAATCTA
Found at i:48746451 original size:37 final size:37
Alignment explanation
Indices: 48746406--48746476 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
48746396 TCATTTTTTT
* *
48746406 ATTTAATAATTCTATTTTAGTTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
48746443 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
48746477 AAGTAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:48746694 original size:19 final size:19
Alignment explanation
Indices: 48746670--48746728 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
48746660 TCTAATTAAG
48746670 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
48746689 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
48746707 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
48746726 TAA
1 TAA
48746729 ATGAGAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:48746748 original size:18 final size:19
Alignment explanation
Indices: 48746725--48746771 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
48746715 CTATTTTAAT
* *
48746725 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
48746743 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
48746762 TTAAAT-AAAA
1 TTAAATGAAAA
48746772 AATGAGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:48747070 original size:19 final size:19
Alignment explanation
Indices: 48746994--48747062 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
48746984 ACTTGATAGT
48746994 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
48747013 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
48747031 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
48747050 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
48747063 AATGAGTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:48747167 original size:27 final size:26
Alignment explanation
Indices: 48747136--48747213 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
48747126 AATTTTAGTC
*
48747136 CTTTGGCACCATTAGTGCCGTCAATCA
1 CTTTGGCACCATTGGTGCCG-CAATCA
* *
48747163 CTTTGGCACCATTGGTGCCACCAATCT
1 CTTTGGCACCATTGGTGCC-GCAATCA
*
48747190 CTTTGGCACCTTTGGTGCCGCAAT
1 CTTTGGCACCATTGGTGCCGCAAT
48747214 GTGATTGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.09
27 41 0.91
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.31
Consensus pattern (26 bp):
CTTTGGCACCATTGGTGCCGCAATCA
Found at i:48747330 original size:27 final size:27
Alignment explanation
Indices: 48747275--48747338 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
48747265 TTTTTTTTGT
*
48747275 ATATTTTCGTAAATAATAAAAAAAGTA
1 ATATTTTGGTAAATAATAAAAAAAGTA
48747302 ATATTTTGGTAAATAA-AAAAAATTA-TA
1 ATATTTTGGTAAATAATAAAAAA--AGTA
48747329 ATATTTTGGT
1 ATATTTTGGT
48747339 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.18
27 27 0.79
28 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (27 bp):
ATATTTTGGTAAATAATAAAAAAAGTA
Found at i:48749557 original size:15 final size:16
Alignment explanation
Indices: 48749536--48749582 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
48749526 TTGCATATTT
48749536 TTTTTATAATATTTAC
1 TTTTTATAATATTTAC
* *
48749552 -TTTTATTATCATTATTC
1 TTTTTATAAT-ATT-TAC
48749569 TTTTTATAATATTT
1 TTTTTATAATATTT
48749583 TTTTAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 8 0.32
16 4 0.16
17 5 0.20
18 8 0.32
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATAATATTTAC
Found at i:48750504 original size:25 final size:25
Alignment explanation
Indices: 48750458--48750506 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
48750448 AATCCATTGA
* *
48750458 AAATCTCAATTCGATTCGAAACCCT
1 AAATCTCAATCCCATTCGAAACCCT
48750483 AAATCTCAATCCCATTTC-AAACCC
1 AAATCTCAATCCCA-TTCGAAACCC
48750507 CAGACATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.37, C:0.33, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATCTCAATCCCATTCGAAACCCT
Found at i:48754828 original size:2 final size:2
Alignment explanation
Indices: 48754823--48754848 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48754813 TATTAAGGTT
48754823 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
48754849 AATGCTCTAA
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):
TA
Found at i:48756965 original size:14 final size:15
Alignment explanation
Indices: 48756946--48756975 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48756936 ATTTATCTAT
48756946 AACCAAAACCC-TAA
1 AACCAAAACCCATAA
48756960 AACCAAAACCCATAA
1 AACCAAAACCCATAA
48756975 A
1 A
48756976 CCCATACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.07
Consensus pattern (15 bp):
AACCAAAACCCATAA
Found at i:48764549 original size:4 final size:4
Alignment explanation
Indices: 48764537--48764567 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
48764527 TAAAATTAGT
48764537 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
48764568 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:48770237 original size:45 final size:45
Alignment explanation
Indices: 48770174--48770292 Score: 192
Period size: 45 Copynumber: 2.7 Consensus size: 45
48770164 GAGAGGTAGG
48770174 CAACT-TTTTTTTTGCGCTGTTTGCTTTTTTTTTAAGATTTTTCT
1 CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAGATTTTTCT
*
48770218 CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTTTAGATTTTTCT
1 CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAGATTTTTCT
*
48770263 CAA--CTTTTTTTTGCGCTTTTTG-TTTTTTTT
1 CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTT
48770293 ATTAACTAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
42 8 0.11
43 18 0.25
44 5 0.07
45 41 0.57
ACGTcount: A:0.09, C:0.14, G:0.11, T:0.66
Consensus pattern (45 bp):
CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTTAAGATTTTTCT
Found at i:48770496 original size:4 final size:4
Alignment explanation
Indices: 48770484--48770518 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
48770474 TAAAATTAGT
48770484 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
48770519 AAGGATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:48771402 original size:55 final size:55
Alignment explanation
Indices: 48771314--48771418 Score: 183
Period size: 55 Copynumber: 1.9 Consensus size: 55
48771304 AACAAATAAG
* *
48771314 CCAAATTGCAAATATAAAATATGGTAATCTACTTTGTACTTTATTTGCAAGTAAC
1 CCAAATTGCAAATATAAAATATGGTAATCTACTTTGTACTCTATCTGCAAGTAAC
*
48771369 CCAAATTGCAAATATAAAATATGGTAATTTACTTTGTACTCTATCTGCAA
1 CCAAATTGCAAATATAAAATATGGTAATCTACTTTGTACTCTATCTGCAA
48771419 TTCGTATTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (55 bp):
CCAAATTGCAAATATAAAATATGGTAATCTACTTTGTACTCTATCTGCAAGTAAC
Found at i:48778130 original size:7 final size:8
Alignment explanation
Indices: 48778101--48778187 Score: 50
Period size: 9 Copynumber: 9.8 Consensus size: 8
48778091 TAACTTTTAA
48778101 TTAAAATT
1 TTAAAATT
48778109 TT-AAATT
1 TTAAAATT
48778116 TTAAAAAATT
1 TT--AAAATT
*
48778126 TAAAAAATT
1 T-TAAAATT
*
48778135 ATAAAAACTATT
1 -TTAAAA-T--T
48778147 TTTAAAATT
1 TT-AAAATT
48778156 TTAAAATT
1 TTAAAATT
*
48778164 TTAAAATCA
1 TTAAAAT-T
48778173 TTAAAATT
1 TTAAAATT
48778181 GTTAAAA
1 -TTAAAA
48778188 AATATTTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
7 7 0.11
8 15 0.23
9 27 0.42
10 8 0.12
11 2 0.03
12 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (8 bp):
TTAAAATT
Found at i:48778185 original size:9 final size:8
Alignment explanation
Indices: 48778146--48778187 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
48778136 TAAAAACTAT
48778146 TTTTAAAA
1 TTTTAAAA
48778154 TTTTAAAA
1 TTTTAAAA
48778162 TTTTAAAA
1 TTTTAAAA
*
48778170 TCATTAAAA
1 T-TTTAAAA
48778179 TTGTTAAAA
1 TT-TTAAAA
48778188 AATATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 17 0.57
9 13 0.43
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TTTTAAAA
Found at i:48778199 original size:32 final size:31
Alignment explanation
Indices: 48778162--48778221 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
48778152 AATTTTAAAA
48778162 TTTTAAAATCATTAAAATTGTTAAAAAATATT
1 TTTTAAAATCATTAAAATT-TTAAAAAATATT
* * **
48778194 TTTTAATATCTTTTTAATTTTAAAAAAT
1 TTTTAAAATCATTAAAATTTTAAAAAAT
48778222 TAATTAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 9 0.38
32 15 0.62
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (31 bp):
TTTTAAAATCATTAAAATTTTAAAAAATATT
Found at i:48778224 original size:48 final size:45
Alignment explanation
Indices: 48778101--48778224 Score: 124
Period size: 48 Copynumber: 2.6 Consensus size: 45
48778091 TAACTTTTAA
*
48778101 TTAAAA-TTTTAAATTTTAAAAAATTTAAAAAATTATAAAAACTATTT
1 TTAAAATTTTTAAATTTTAAAAAA-TT--AAAATTATAAAAAATATTT
* * *
48778148 TTAAAATTTTAAAATTTTAAAATCATTAAAATTGTTAAAAAATATTTT
1 TTAAAATTTTTAAATTTTAAAA-AATTAAAATT-ATAAAAAATA-TTT
* *
48778196 TTAATATCTTTTTAATTTTAAAAAATTAA
1 TTAAAAT-TTTTAAATTTTAAAAAATTAA
48778225 TTAAATGATG
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
46 6 0.09
47 14 0.22
48 30 0.47
49 14 0.22
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (45 bp):
TTAAAATTTTTAAATTTTAAAAAATTAAAATTATAAAAAATATTT
Found at i:48781607 original size:4 final size:4
Alignment explanation
Indices: 48781598--48781628 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
48781588 TATCAGTCCT
48781598 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
48781629 TTATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:48783296 original size:17 final size:17
Alignment explanation
Indices: 48783274--48783315 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
48783264 ACTGTAGGGG
48783274 TCACACGGCCATGTGAC
1 TCACACGGCCATGTGAC
48783291 TCACACGGCCATGTGAC
1 TCACACGGCCATGTGAC
48783308 TCACACGG
1 TCACACGG
48783316 TCAAGAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.17
Consensus pattern (17 bp):
TCACACGGCCATGTGAC
Found at i:48792355 original size:13 final size:13
Alignment explanation
Indices: 48792339--48792365 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48792329 GGAATCATAA
48792339 TACATTTCATGTG
1 TACATTTCATGTG
48792352 TACATTTCATGTG
1 TACATTTCATGTG
48792365 T
1 T
48792366 TGTAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TACATTTCATGTG
Found at i:48798964 original size:17 final size:17
Alignment explanation
Indices: 48798937--48798995 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
48798927 ATATATAAAT
*
48798937 AAATA-AATAATTTTTA
1 AAATATAATAATATTTA
48798953 AAATATAATAATAAATTTA
1 AAATATAATAAT--ATTTA
48798972 AAGATATATATAA-ATTTA
1 AA-ATATA-ATAATATTTA
48798990 AAATAT
1 AAATAT
48798996 TGTTGACGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
16 5 0.14
17 10 0.27
18 7 0.19
19 6 0.16
20 5 0.14
21 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATATAATAATATTTA
Found at i:48798965 original size:20 final size:19
Alignment explanation
Indices: 48798949--48798995 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
48798939 ATAAATAATT
48798949 TTTAAAATATAATAATAAA
1 TTTAAAATATAATAATAAA
48798968 TTTAAAGATAT-AT-ATAAA
1 TTTAAA-ATATAATAATAAA
48798986 TTTAAAATAT
1 TTTAAAATAT
48798996 TGTTGACGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.15
18 11 0.41
19 8 0.30
20 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTAAAATATAATAATAAA
Found at i:48799712 original size:31 final size:31
Alignment explanation
Indices: 48799654--48799718 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
48799644 TTAGTATAAT
* *
48799654 ATTTGGTACTTTAGTTTAACTTTAATATTTA
1 ATTTGGTACTTGAGTTTAACTTTAATATTCA
**
48799685 ATTTGGTACTTGAGTTT-GGTTTCAATATTCA
1 ATTTGGTACTTGAGTTTAACTTT-AATATTCA
48799716 ATT
1 ATT
48799719 GGATATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (31 bp):
ATTTGGTACTTGAGTTTAACTTTAATATTCA
Found at i:48802317 original size:18 final size:16
Alignment explanation
Indices: 48802281--48802311 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48802271 CATTAAAAAT
*
48802281 ATATTAAAAAGTATTC
1 ATATTAAAAAATATTC
48802297 ATATTAAAAAATATT
1 ATATTAAAAAATATT
48802312 ATCATAAATA
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:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATTAAAAAATATTC
Found at i:48806486 original size:18 final size:18
Alignment explanation
Indices: 48806463--48806530 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 18
48806453 AATATTTTTT
*
48806463 TCATAAAAGTATTAAATA
1 TCATAAAAATATTAAATA
48806481 TCATAAAAATATTATAA-A
1 TCATAAAAATATTA-AATA
*
48806499 -AATAAAAATATTAAATA
1 TCATAAAAATATTAAATA
*
48806516 TTA-AAAAATATTAAA
1 TCATAAAAATATTAAA
48806531 ATTGATACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.05
17 25 0.57
18 15 0.34
19 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (18 bp):
TCATAAAAATATTAAATA
Found at i:48806531 original size:9 final size:9
Alignment explanation
Indices: 48806466--48806531 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
48806456 ATTTTTTTCA
*
48806466 TAAAAGTAT
1 TAAAAATAT
*
48806475 TAAATATCA-
1 TAAAAAT-AT
48806484 TAAAAATAT
1 TAAAAATAT
48806493 TATAAAA-A-
1 TA-AAAATAT
48806501 TAAAAATAT
1 TAAAAATAT
48806510 T--AAATAT
1 TAAAAATAT
48806517 TAAAAAATAT
1 T-AAAAATAT
48806527 TAAAA
1 TAAAA
48806532 TTGATACAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
7 11 0.24
8 4 0.09
9 19 0.41
10 12 0.26
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATAT
Found at i:48806702 original size:19 final size:18
Alignment explanation
Indices: 48806633--48806702 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
48806623 AAACTTATTT
48806633 AAAATATTTAAAATTAAAA
1 AAAATA-TTAAAATTAAAA
* *
48806652 AAACATATTAGAATTAGAA
1 AAA-ATATTAAAATTAAAA
** *
48806671 AATTTTTTAAAAATTATAAA
1 AAAATATT-AAAATTA-AAA
48806691 AAAATATTAAAA
1 AAAATATTAAAA
48806703 CTGATATAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
18 3 0.08
19 25 0.66
20 10 0.26
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATATTAAAATTAAAA
Found at i:48807256 original size:10 final size:9
Alignment explanation
Indices: 48807204--48807286 Score: 62
Period size: 10 Copynumber: 8.7 Consensus size: 9
48807194 AATTTACTAA
48807204 TTTTATAACTT
1 TTTTATAA--T
48807215 TTTTATAAT
1 TTTTATAAT
* *
48807224 CTATTA-GAT
1 -TTTTATAAT
48807233 TTTTAT-AT
1 TTTTATAAT
48807241 TTTTATAAT
1 TTTTATAAT
48807250 ATTTTATAAGT
1 -TTTTATAA-T
48807261 TTTTATAAGT
1 TTTTATAA-T
*
48807271 TTATATCAAT
1 TTTTAT-AAT
48807281 TTTTAT
1 TTTTAT
48807287 TTTTAATATT
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
8 12 0.20
9 5 0.08
10 33 0.54
11 11 0.18
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:48811506 original size:23 final size:24
Alignment explanation
Indices: 48811462--48811508 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
48811452 TGAAATTAAT
*
48811462 AAAATTAATAAAAATATTTTTTTC
1 AAAATTAATAAAAATATATTTTTC
48811486 AAAA-TAAGTAAAAAT-TATTTTTC
1 AAAATTAA-TAAAAATATATTTTTC
48811509 CTTTGGATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAATTAATAAAAATATATTTTTC
Found at i:48811765 original size:20 final size:20
Alignment explanation
Indices: 48811740--48811778 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48811730 CTCCATGCTA
48811740 ATTTTT-TTTATGAATTTTTT
1 ATTTTTATTT-TGAATTTTTT
*
48811760 ATTTTTATTTTTAATTTTT
1 ATTTTTATTTTGAATTTTT
48811779 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (20 bp):
ATTTTTATTTTGAATTTTTT
Found at i:48815417 original size:3 final size:3
Alignment explanation
Indices: 48815409--48815436 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48815399 GCCTTTCTTG
48815409 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
48815437 AAATGATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:48839285 original size:27 final size:30
Alignment explanation
Indices: 48839258--48839314 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
48839248 TAATTAAAAT
* *
48839258 AAATT-AAA-ATTGGTGGTAAATTTTAATA
1 AAATTCAAAGATTGGTGATAAAATTTAATA
*
48839286 AAATTCAAAGTTTGGTGATAAAATTTAAT
1 AAATTCAAAGATTGGTGATAAAATTTAAT
48839315 TACATAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 3 0.12
30 16 0.67
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.39
Consensus pattern (30 bp):
AAATTCAAAGATTGGTGATAAAATTTAATA
Found at i:48839744 original size:12 final size:12
Alignment explanation
Indices: 48839727--48839767 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
48839717 GTGTAAGTTG
48839727 AATTTTTTTATT
1 AATTTTTTTATT
48839739 AATTTTTTTATT
1 AATTTTTTTATT
*
48839751 AATTTTTATTATC
1 AATTTTT-TTATT
48839764 AATT
1 AATT
48839768 ACTGATGCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (12 bp):
AATTTTTTTATT
Found at i:48846978 original size:14 final size:15
Alignment explanation
Indices: 48846959--48846990 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48846949 GCATAAGTTC
48846959 TATTAAAT-TATAAT
1 TATTAAATATATAAT
48846973 TATTAAATATATAAT
1 TATTAAATATATAAT
48846988 TAT
1 TAT
48846991 CACAACCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAAATATATAAT
Found at i:48847168 original size:21 final size:21
Alignment explanation
Indices: 48847134--48847182 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
48847124 ATTATAGATT
48847134 ATAA-ATATTGATATATTTTG
1 ATAATATATTGATATATTTTG
* * *
48847154 ATAATATATTTATATGTTTTT
1 ATAATATATTGATATATTTTG
48847175 ATACATAT
1 ATA-ATAT
48847183 TACATAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (21 bp):
ATAATATATTGATATATTTTG
Found at i:48851166 original size:19 final size:19
Alignment explanation
Indices: 48851144--48851181 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48851134 ATTATTTGTT
48851144 ATATATTAT-TTTTAAATAC
1 ATAT-TTATATTTTAAATAC
*
48851163 ATATTTATATTTTAGATAC
1 ATATTTATATTTTAAATAC
48851182 GTGGTTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (19 bp):
ATATTTATATTTTAAATAC
Found at i:48871510 original size:31 final size:29
Alignment explanation
Indices: 48871453--48871517 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
48871443 CTTTAATTAC
*
48871453 ATAAAATTAAAATTATATCATTTAATAAATT
1 ATAAAATTAAAATTATATCATGTAAT--ATT
48871484 ATAAAATT-AAATGTA-ACTCATGTAATATT
1 ATAAAATTAAAAT-TATA-TCATGTAATATT
48871513 ATAAA
1 ATAAA
48871518 CTGGTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
29 8 0.26
30 5 0.16
31 18 0.58
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (29 bp):
ATAAAATTAAAATTATATCATGTAATATT
Found at i:48874015 original size:27 final size:29
Alignment explanation
Indices: 48873985--48874048 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
48873975 AAAATTAAAT
** *
48873985 TTAAATTTTAAAATCT-AAAAAA-AAGGA
1 TTAAATTTTAAAAAATAAAAAAACAAGAA
*
48874012 TTAAATTCTAAAAAATAAAAAAACAAGAA
1 TTAAATTTTAAAAAATAAAAAAACAAGAA
48874041 TTAAATTT
1 TTAAATTT
48874049 CAAATTTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 13 0.43
28 6 0.20
29 11 0.37
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (29 bp):
TTAAATTTTAAAAAATAAAAAAACAAGAA
Found at i:48875288 original size:2 final size:2
Alignment explanation
Indices: 48875182--48875274 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
48875172 AGAGTACCTA
48875182 AG AG AG AG AG AG 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 AG AG AG AG AG AG
48875224 AG AG AG AG AG AG 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 AG AG AG AG AG AG
48875266 AG AG AG AG A
1 AG AG AG AG A
48875275 AGACTTTGAG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48875709 original size:17 final size:19
Alignment explanation
Indices: 48875682--48875716 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48875672 TTAATTATGA
48875682 AAAATAAAATAA-AAAGAG
1 AAAATAAAATAAGAAAGAG
48875700 AAAA-AAAATAAGAAAGA
1 AAAATAAAATAAGAAAGA
48875717 AGAGGGCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAATAAAATAAGAAAGAG
Found at i:48876121 original size:22 final size:22
Alignment explanation
Indices: 48876096--48876141 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
48876086 TTTATATGAT
*
48876096 TTTTCTATTTATTGTTAC-ATTA
1 TTTTATATTTATT-TTACAATTA
*
48876118 TTTTATTTTTATTTTACAATTA
1 TTTTATATTTATTTTACAATTA
48876140 TT
1 TT
48876142 GTTGTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATATTTATTTTACAATTA
Found at i:48876149 original size:22 final size:22
Alignment explanation
Indices: 48876103--48876149 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
48876093 GATTTTTCTA
*
48876103 TTTATTGTTACATTATTTTATT
1 TTTATTGTTACATTATTTTAGT
48876125 TTTATT-TTACAATTATTGTT-GT
1 TTTATTGTTAC-ATTATT-TTAGT
48876147 TTT
1 TTT
48876150 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 16 0.73
23 2 0.09
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.68
Consensus pattern (22 bp):
TTTATTGTTACATTATTTTAGT
Found at i:48884094 original size:3 final size:3
Alignment explanation
Indices: 48884088--48884117 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
48884078 AAAGGAGTTC
48884088 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
48884118 CCTTCATTGT
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:48884314 original size:6 final size:6
Alignment explanation
Indices: 48884303--48884327 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48884293 CTTCTTAGAA
48884303 GAAGAT GAAGAT GAAGAT GAAGAT G
1 GAAGAT GAAGAT GAAGAT GAAGAT G
48884328 GTGAATTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:48887373 original size:17 final size:17
Alignment explanation
Indices: 48887352--48887388 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
48887342 TCAAATGCAC
48887352 ATTTTTATTAAAT-TTA
1 ATTTTTATTAAATATTA
*
48887368 ATTTTTATTTAATATTA
1 ATTTTTATTAAATATTA
48887385 ATTT
1 ATTT
48887389 ATTGTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTATTAAATATTA
Found at i:48890360 original size:19 final size:20
Alignment explanation
Indices: 48890336--48890373 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
48890326 TAAATCAAAT
48890336 ATTATAATTTTT-TAAATAA
1 ATTATAATTTTTATAAATAA
48890355 ATTATAATTTTTATAAATA
1 ATTATAATTTTTATAAATA
48890374 CTTTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATAATTTTTATAAATAA
Found at i:48902884 original size:16 final size:16
Alignment explanation
Indices: 48902863--48902895 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48902853 TTCAAAAATA
48902863 AGAAACCAAAGCAACC
1 AGAAACCAAAGCAACC
48902879 AGAAACCAAAGCAACC
1 AGAAACCAAAGCAACC
48902895 A
1 A
48902896 TCTTTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.30, G:0.12, T:0.00
Consensus pattern (16 bp):
AGAAACCAAAGCAACC
Found at i:48903776 original size:39 final size:36
Alignment explanation
Indices: 48903700--48903772 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
48903690 TTTCTGTTTA
48903700 TATTTTTTATAATAATAGAATGTTCGATTTTTTTTC
1 TATTTTTTATAATAATAGAATGTTCGATTTTTTTTC
48903736 TATTTTTTATAATAATAGAATGTTCGATTTTTTTTC
1 TATTTTTTATAATAATAGAATGTTCGATTTTTTTTC
48903772 T
1 T
48903773 TCTAAAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (36 bp):
TATTTTTTATAATAATAGAATGTTCGATTTTTTTTC
Found at i:48904434 original size:12 final size:12
Alignment explanation
Indices: 48904417--48904449 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
48904407 AACAGAAAAA
48904417 TTATCATTAAGT
1 TTATCATTAAGT
48904429 TTATCATTAAGT
1 TTATCATTAAGT
48904441 TTATCATTA
1 TTATCATTA
48904450 TGTTAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (12 bp):
TTATCATTAAGT
Found at i:48908883 original size:6 final size:6
Alignment explanation
Indices: 48908849--48908874 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48908839 ATCAAAATAT
48908849 ATCTAA ATCTAA ATCTAA ATCTAA AT
1 ATCTAA ATCTAA ATCTAA ATCTAA AT
48908875 AAATTTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATCTAA
Found at i:48914293 original size:17 final size:18
Alignment explanation
Indices: 48914273--48914318 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
48914263 ATTTTGTTTG
48914273 AAAAAT-AATTATTTTAT
1 AAAAATAAATTATTTTAT
48914290 -AAAATAAATTATTTTATAT
1 AAAAATAAATTA-TTT-TAT
48914309 AAAAATAAAT
1 AAAAATAAAT
48914319 GAATATGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.20
17 5 0.20
18 3 0.12
19 3 0.12
20 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAATAAATTATTTTAT
Found at i:48914295 original size:16 final size:17
Alignment explanation
Indices: 48914274--48914307 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48914264 TTTTGTTTGA
48914274 AAAAT-AATTATTTTAT
1 AAAATAAATTATTTTAT
48914290 AAAATAAATTATTTTAT
1 AAAATAAATTATTTTAT
48914307 A
1 A
48914308 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATAAATTATTTTAT
Found at i:48914473 original size:13 final size:13
Alignment explanation
Indices: 48914455--48914481 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48914445 TCAAGTTCTC
48914455 TTTAGAATTTTTA
1 TTTAGAATTTTTA
48914468 TTTAGAATTTTTA
1 TTTAGAATTTTTA
48914481 T
1 T
48914482 AAGATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTAGAATTTTTA
Found at i:48915036 original size:20 final size:20
Alignment explanation
Indices: 48914999--48915036 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48914989 TAGCACTAGT
*
48914999 AATCTATATAACTTTATAGA
1 AATCTATATAACTATATAGA
*
48915019 AATCTATATACCTATATA
1 AATCTATATAACTATATA
48915037 TAAAAGGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
AATCTATATAACTATATAGA
Found at i:48917350 original size:16 final size:15
Alignment explanation
Indices: 48917323--48917354 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
48917313 AAATAAATTA
48917323 AATTAATAACTAACT
1 AATTAATAACTAACT
48917338 AATTAATTAACTAACT
1 AATTAA-TAACTAACT
48917354 A
1 A
48917355 TAAAATCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTAATAACTAACT
Found at i:48920170 original size:61 final size:62
Alignment explanation
Indices: 48920087--48920224 Score: 197
Period size: 62 Copynumber: 2.2 Consensus size: 62
48920077 CATAAATTTA
* * *
48920087 AGGGTTAAATTTGTTGA-ATTTTTAGAATTAGGACCAATTTGATAGAATTTGTAAACATTGT
1 AGGGTTAAATTTGTTGATATTTTTAGAATTAAGACCAAATTGATAGAATCTGTAAACATTGT
* **
48920148 AGGGTTAAATTTGTTGATTTTTTTAGAATTAAGACCAAATTGATAGAATCTGTAATTATTGT
1 AGGGTTAAATTTGTTGATATTTTTAGAATTAAGACCAAATTGATAGAATCTGTAAACATTGT
* *
48920210 AGAGCTAAATTTGTT
1 AGGGTTAAATTTGTT
48920225 ATTATGTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
61 17 0.25
62 51 0.75
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.42
Consensus pattern (62 bp):
AGGGTTAAATTTGTTGATATTTTTAGAATTAAGACCAAATTGATAGAATCTGTAAACATTGT
Found at i:48926461 original size:16 final size:16
Alignment explanation
Indices: 48926440--48926470 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48926430 TATGTTAGAG
48926440 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
48926456 CATATATATTTGAAA
1 CATATAAATTTGAAA
48926471 TAATTTTCAA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:48926582 original size:19 final size:19
Alignment explanation
Indices: 48926554--48926602 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
48926544 TAAAATTATT
* *
48926554 ATTTTATAAAATTTTTAGA
1 ATTTTTTAAAACTTTTAGA
*
48926573 ATTTTTTAAAACTTTTATA
1 ATTTTTTAAAACTTTTAGA
48926592 ATTTTTTAAAA
1 ATTTTTTAAAA
48926603 AATATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAAACTTTTAGA
Found at i:48926613 original size:19 final size:19
Alignment explanation
Indices: 48926572--48926614 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
48926562 AAATTTTTAG
** * *
48926572 AATTTTTTAAAACTTTTAT
1 AATTTTTTAAAAAATATAA
48926591 AATTTTTTAAAAAATATAA
1 AATTTTTTAAAAAATATAA
48926610 AATTT
1 AATTT
48926615 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTTTAAAAAATATAA
Found at i:48931425 original size:16 final size:14
Alignment explanation
Indices: 48931394--48931423 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
48931384 GCATAACCCT
48931394 TAATTGAAACTATA
1 TAATTGAAACTATA
48931408 TAATTGAAACTATA
1 TAATTGAAACTATA
48931422 TA
1 TA
48931424 TATGACTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
TAATTGAAACTATA
Found at i:48935791 original size:20 final size:19
Alignment explanation
Indices: 48935747--48935791 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
48935737 TATATTAAAA
48935747 TAAATTTTAAAATTATTAT
1 TAAATTTTAAAATTATTAT
*
48935766 TGAAATTTTAAATTTATTCAT
1 T-AAATTTTAAAATTATT-AT
48935787 TAAAT
1 TAAAT
48935792 ATGTTAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TAAATTTTAAAATTATTAT
Found at i:48938129 original size:3 final size:3
Alignment explanation
Indices: 48938109--48938155 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
48938099 TCTCCTTTCC
* *
48938109 TCT TCT TGT TCT TGT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
48938156 ATATGAGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:48941107 original size:19 final size:18
Alignment explanation
Indices: 48941083--48941142 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
48941073 AGACATACTT
48941083 TTTTAGTATTTTTTATATA
1 TTTTAG-ATTTTTTATATA
* *
48941102 TTTTAGCTTTTTTATAACA
1 TTTTAGATTTTTTAT-ATA
*
48941121 TATTAGATTTTTTATAT-
1 TTTTAGATTTTTTATATA
48941138 TTTTA
1 TTTTA
48941143 TTATTATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 4 0.12
18 9 0.26
19 21 0.62
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTAGATTTTTTATATA
Found at i:48941539 original size:23 final size:23
Alignment explanation
Indices: 48941506--48941553 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
48941496 ATAATTATAA
48941506 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
48941529 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
48941552 AT
1 AT
48941554 GTACTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:48945367 original size:3 final size:3
Alignment explanation
Indices: 48945359--48945386 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48945349 TTTTGTACAT
48945359 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48945387 TCTGTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:48950676 original size:18 final size:18
Alignment explanation
Indices: 48950653--48950704 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
48950643 ACCCCATCTG
* *
48950653 GAGTAATCACTAGGTCTA
1 GAGTAATCACTAGGCCGA
* *
48950671 GAGTAATCGCTAGGCCGG
1 GAGTAATCACTAGGCCGA
*
48950689 GAGTAATCACTGGGCC
1 GAGTAATCACTAGGCC
48950705 TATTACCCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (18 bp):
GAGTAATCACTAGGCCGA
Found at i:48961633 original size:42 final size:42
Alignment explanation
Indices: 48961586--48961673 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
48961576 GATGGCTGAT
48961586 GTAACATCTGATTACGAATGTGCTGTTATTGATGAAATACAG
1 GTAACATCTGATTACGAATGTGCTGTTATTGATGAAATACAG
48961628 GTAACATCTGATTACGAATGTGCTGTTATTGATGAAATACAG
1 GTAACATCTGATTACGAATGTGCTGTTATTGATGAAATACAG
48961670 GTAA
1 GTAA
48961674 GTCCATATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (42 bp):
GTAACATCTGATTACGAATGTGCTGTTATTGATGAAATACAG
Found at i:48963934 original size:3 final size:3
Alignment explanation
Indices: 48963926--48963965 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
48963916 TCGAGTTTGC
48963926 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48963966 GAACTTGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48973613 original size:13 final size:13
Alignment explanation
Indices: 48973597--48973660 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
48973587 TTTAAACCAA
48973597 ACTTTTTAAAAGC
1 ACTTTTTAAAAGC
* *
48973610 ACTTATCAAAAGC
1 ACTTTTTAAAAGC
* * *
48973623 ATTTTTTCACAGC
1 ACTTTTTAAAAGC
48973636 A-TTTTTCAAAAGC
1 ACTTTTT-AAAAGC
*
48973649 ACTTTTCAAAAG
1 ACTTTTTAAAAG
48973661 TAATGAAGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
12 5 0.13
13 30 0.77
14 4 0.10
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:48973629 original size:26 final size:26
Alignment explanation
Indices: 48973597--48973660 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
48973587 TTTAAACCAA
48973597 ACTTTTTAAAAGCACTTATCAAAAGC
1 ACTTTTTAAAAGCACTTATCAAAAGC
* * * * *
48973623 ATTTTTTCACAGCATTTTTCAAAAGC
1 ACTTTTTAAAAGCACTTATCAAAAGC
*
48973649 ACTTTTCAAAAG
1 ACTTTTTAAAAG
48973661 TAATGAAGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (26 bp):
ACTTTTTAAAAGCACTTATCAAAAGC
Found at i:48979278 original size:31 final size:32
Alignment explanation
Indices: 48979243--48979307 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
48979233 AATGTGAATA
* * *
48979243 AAAAAATCGACAATCTTCTTAAT-TAATAATT
1 AAAAAATCCAAAATCCTCTTAATCTAATAATT
*
48979274 AAAAAATCCAAAATCCTCTTGATCTAATAATT
1 AAAAAATCCAAAATCCTCTTAATCTAATAATT
48979306 AA
1 AA
48979308 GAAGAGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 19 0.66
32 10 0.34
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAAAATCCAAAATCCTCTTAATCTAATAATT
Found at i:48981650 original size:20 final size:20
Alignment explanation
Indices: 48981596--48981653 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
48981586 AAATTCAAAT
*
48981596 ATTTTAAATAT-TGTATTTAA
1 ATTTTAAATATCTGTA-TAAA
* ** *
48981616 ATGTTATTTAACTGTATAAA
1 ATTTTAAATATCTGTATAAA
48981636 ATTTTAAATATCTGTATA
1 ATTTTAAATATCTGTATA
48981654 TTCATTTATT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTTTAAATATCTGTATAAA
Found at i:48983106 original size:27 final size:28
Alignment explanation
Indices: 48983045--48983108 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
48983035 CATTTGCTTT
* *
48983045 CTGAAAATAATTTCTATTTTTTATTTTA
1 CTGAAAATGATTTCTATTTTCTATTTTA
* * *
48983073 -AGGAAATGATTTTTATTTTCTA-TTTA
1 CTGAAAATGATTTCTATTTTCTATTTTA
48983099 CTGAAAATGA
1 CTGAAAATGA
48983109 CAAAACATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (28 bp):
CTGAAAATGATTTCTATTTTCTATTTTA
Found at i:48997191 original size:23 final size:20
Alignment explanation
Indices: 48997149--48997200 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 20
48997139 ATGATAATAA
48997149 AAATGTATTTTTATTATTTTAAT
1 AAATG-ATTTTTATTATTTT--T
48997172 AAATGATGTTTTA-TACTTTTT
1 AAATGAT-TTTTATTA-TTTTT
48997193 AAATGATT
1 AAATGATT
48997201 AGATCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.04
21 8 0.30
22 4 0.15
23 14 0.52
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
AAATGATTTTTATTATTTTT
Found at i:49001812 original size:22 final size:22
Alignment explanation
Indices: 49001772--49001816 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49001762 CGGAACAAAT
*
49001772 ACAGAGAGCACAAATGTGCTAA
1 ACAGAGAGCACAAACGTGCTAA
**
49001794 ACAGAGAGCACTGACGTGCTAA
1 ACAGAGAGCACAAACGTGCTAA
49001816 A
1 A
49001817 TATCAAAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.13
Consensus pattern (22 bp):
ACAGAGAGCACAAACGTGCTAA
Found at i:49003173 original size:40 final size:40
Alignment explanation
Indices: 49003111--49003205 Score: 136
Period size: 40 Copynumber: 2.3 Consensus size: 40
49003101 CTTTTCTTTC
* *
49003111 TTTCTTTCCTTCCTTCCTTCTCTGTTTCATTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCATTTTGCTCTCTG
**
49003152 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCATTTTGCTCTCTG
49003192 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
49003206 TTCTTTGTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.67
41 16 0.33
ACGTcount: A:0.01, C:0.28, G:0.07, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCATTTTGCTCTCTG
Found at i:49003233 original size:5 final size:5
Alignment explanation
Indices: 49003217--49003275 Score: 72
Period size: 5 Copynumber: 12.2 Consensus size: 5
49003207 TCTTTGTCAT
49003217 ATATA TATATA ATAT- A-ATA ATATA ATATA ATATA ATAT- AT-TA ATAATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
49003265 ATATA ATATA A
1 ATATA ATATA A
49003276 AAACATAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.06
4 6 0.12
5 30 0.62
6 9 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:49003239 original size:13 final size:13
Alignment explanation
Indices: 49003223--49003275 Score: 70
Period size: 13 Copynumber: 3.8 Consensus size: 13
49003213 TCATATATAT
49003223 ATATAATATAATA
1 ATATAATATAATA
49003236 ATATAATATAATATA
1 ATATAATAT-A-ATA
*
49003251 ATATATTAATAATA
1 ATATAAT-ATAATA
49003265 ATATAATATAA
1 ATATAATATAA
49003276 AAACATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 13 0.37
14 10 0.29
15 10 0.29
16 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:49003262 original size:29 final size:31
Alignment explanation
Indices: 49003215--49003275 Score: 99
Period size: 29 Copynumber: 2.0 Consensus size: 31
49003205 TTTCTTTGTC
49003215 ATATATATATATAATATAATAATATAATATA
1 ATATATATATATAATATAATAATATAATATA
*
49003246 ATATA-ATATATTA-ATAATAATATAATATA
1 ATATATATATATAATATAATAATATAATATA
49003275 A
1 A
49003276 AAACATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 17 0.59
30 7 0.24
31 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
ATATATATATATAATATAATAATATAATATA
Found at i:49003283 original size:13 final size:13
Alignment explanation
Indices: 49003223--49003284 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
49003213 TCATATATAT
*
49003223 ATATAATATAATA
1 ATATAATATAAAA
49003236 ATATAATATAATATA
1 ATATAATATAA-A-A
* *
49003251 ATATATTAATAATA
1 ATATAAT-ATAAAA
49003265 ATATAATATAAAA
1 ATATAATATAAAA
*
49003278 ACATAAT
1 ATATAAT
49003285 TATTACTTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
13 22 0.55
14 7 0.17
15 7 0.17
16 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAATATAAAA
Found at i:49003284 original size:24 final size:23
Alignment explanation
Indices: 49003217--49003275 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
49003207 TCTTTGTCAT
*
49003217 ATATATATATAATATAATAATATA
1 ATATA-ATATAATATAATAAAATA
*
49003241 ATATAATATAATATATTAATAATA
1 ATATAATATAATATAATAA-AATA
49003265 ATATAATATAA
1 ATATAATATAA
49003276 AAACATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATAATATAATATAATAAAATA
Found at i:49013460 original size:18 final size:19
Alignment explanation
Indices: 49013427--49013462 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49013417 ATGTTAAGTC
*
49013427 CTAAACAAAAGCAAAGAAT
1 CTAAAAAAAAGCAAAGAAT
49013446 CTAAAAAAAAG-AAAGAA
1 CTAAAAAAAAGCAAAGAA
49013463 AGAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.69, C:0.11, G:0.11, T:0.08
Consensus pattern (19 bp):
CTAAAAAAAAGCAAAGAAT
Found at i:49017933 original size:42 final size:42
Alignment explanation
Indices: 49017868--49017951 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
49017858 CTATGCTTTG
*
49017868 TTTAAAATTTATTGATATAAAATA-ATAATTA-TTTTAATTAT
1 TTTAAAATTTATTGATATAAAATAGA-AAATAGTTTTAATTAT
*
49017909 TTTAAAATTTTATTTATA-AGAAATAGAAAATAGTTTTAATTAT
1 TTTAAAA-TTTATTGATATA-AAATAGAAAATAGTTTTAATTAT
49017952 ATTTTATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
41 8 0.22
42 18 0.49
43 11 0.30
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (42 bp):
TTTAAAATTTATTGATATAAAATAGAAAATAGTTTTAATTAT
Found at i:49021074 original size:33 final size:33
Alignment explanation
Indices: 49021037--49021105 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
49021027 GTGTCAAGAG
*
49021037 AAAGTATGATCATGTATCAAGACCATAAGAACA
1 AAAGTATGATCATGTATCAAGACCACAAGAACA
49021070 AAAGTATGATCATGTATCAAGACCACAAGAACA
1 AAAGTATGATCATGTATCAAGACCACAAGAACA
49021103 AAA
1 AAA
49021106 TTTACCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (33 bp):
AAAGTATGATCATGTATCAAGACCACAAGAACA
Found at i:49022939 original size:3 final size:3
Alignment explanation
Indices: 49022928--49023018 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
49022918 ATTATTTTGT
*
49022928 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* * * * * * *
49022973 CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
49023019 ATTTATACCT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.04
3 63 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:49022948 original size:12 final size:12
Alignment explanation
Indices: 49022934--49023018 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
49022924 TTGTTTATTT
*
49022934 TATTATTATTAT
1 TATTATTATTAC
49022946 TATTATTATTTAC
1 TATTATTA-TTAC
49022959 TATTATTATCTTTAC
1 TATTATTA---TTAC
* *
49022974 TATTATTGTTAG
1 TATTATTATTAC
*
49022986 TATTATTACTAC
1 TATTATTATTAC
49022998 TATTATTATTAC
1 TATTATTATTAC
*
49023010 TATCATTAT
1 TATTATTAT
49023019 ATTTATACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 11 0.18
15 12 0.19
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:49023194 original size:36 final size:34
Alignment explanation
Indices: 49023154--49023222 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
49023144 CATTATTTCG
*
49023154 TATATTTTATAATTTGTATATACATATACTTATATC
1 TATATTTTATAATTT-T-TATAAATATACTTATATC
* *
49023190 TATATTTTCTAATTTTTATAAATATATTTATAT
1 TATATTTTATAATTTTTATAAATATACTTATAT
49023223 GTACATACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 15 0.50
35 1 0.03
36 14 0.47
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (34 bp):
TATATTTTATAATTTTTATAAATATACTTATATC
Found at i:49023341 original size:13 final size:13
Alignment explanation
Indices: 49023318--49023352 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
49023308 AATATCACTA
49023318 TTTACTTTTTTATT
1 TTTA-TTTTTTATT
49023332 TTTATTTTTTATT
1 TTTATTTTTTATT
*
49023345 ATTATTTT
1 TTTATTTT
49023353 CAAATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:49035669 original size:46 final size:44
Alignment explanation
Indices: 49035602--49035930 Score: 213
Period size: 46 Copynumber: 7.6 Consensus size: 44
49035592 ATTATACAGG
*
49035602 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
49035648 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
49035692 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
49035731 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
49035772 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
49035818 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * *
49035862 TCTTATCTCCCTGAGATTACAG-CGAAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAA-CAGATCAAAGATTCA-GA
*
49035905 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
49035931 GTGGATTAAA
Statistics
Matches: 222, Mismatches: 42, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 28 0.13
42 5 0.02
43 24 0.11
44 68 0.31
45 1 0.00
46 70 0.32
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:49035926 original size:43 final size:44
Alignment explanation
Indices: 49035815--49035926 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
49035805 AAAGAATTTC
* * * * * *
49035815 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAAGTTACAGCGAAGCAGATCGAAGACAG
*
49035859 AGATCTTATCTCCCTG-AGATTACAGCGAAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAAG-TTACAGCGAAGCAGATCGAAGACAG
**
49035902 CTATCCTATCTCCCTGAAGTTACAG
1 AGATCCTATCTCCCTGAAGTTACAG
49035927 TGGAGTGGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 20 0.34
44 38 0.66
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTACAGCGAAGCAGATCGAAGACAG
Found at i:49037006 original size:13 final size:13
Alignment explanation
Indices: 49036983--49037017 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
49036973 AATATCACTA
49036983 TTTACTTTTTTATT
1 TTTA-TTTTTTATT
49036997 TTTATTTTTTATT
1 TTTATTTTTTATT
*
49037010 ATTATTTT
1 TTTATTTT
49037018 CAAATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:49041508 original size:24 final size:24
Alignment explanation
Indices: 49041433--49041558 Score: 127
Period size: 22 Copynumber: 5.3 Consensus size: 24
49041423 ACTTTAGCGC
49041433 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATT-TTAGCACGTTAGT
** *
49041458 GCTCTCTGACTACTAGCACGTTGGT
1 GCTCTCTGA-TTTTAGCACGTTAGT
*
49041483 GCTCTCTGATTTTAGCACGTCAGT
1 GCTCTCTGATTTTAGCACGTTAGT
*
49041507 GCTCTCTG--TTTAGCACATCT-GT
1 GCTCTCTGATTTTAGCACGT-TAGT
* *
49041529 GCTCTCTG--TATAGCACTTTAGT
1 GCTCTCTGATTTTAGCACGTTAGT
49041551 GCTCTCTG
1 GCTCTCTG
49041559 TTCATTAGTG
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
21 1 0.01
22 37 0.43
24 19 0.22
25 29 0.33
26 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
GCTCTCTGATTTTAGCACGTTAGT
Found at i:49044044 original size:21 final size:22
Alignment explanation
Indices: 49044001--49044045 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
49043991 TTACCGAGTT
49044001 GAGAAAGAGTGGAAGCAAATAA
1 GAGAAAGAGTGGAAGCAAATAA
*
49044023 GAGAAAG-GT-GAAGGCAACTAA
1 GAGAAAGAGTGGAA-GCAAATAA
49044044 GA
1 GA
49044046 TGTGGTGGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.52
22 7 0.33
ACGTcount: A:0.51, C:0.07, G:0.33, T:0.09
Consensus pattern (22 bp):
GAGAAAGAGTGGAAGCAAATAA
Found at i:49045051 original size:30 final size:30
Alignment explanation
Indices: 49045017--49045079 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
49045007 ACTTAACAAG
49045017 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
49045047 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
49045077 CAA
1 CAA
49045080 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:49045086 original size:17 final size:17
Alignment explanation
Indices: 49045056--49045088 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49045046 ACAAATGCCT
49045056 TTAAAATAATAATAAAA
1 TTAAAATAATAATAAAA
49045073 TTAACAATAA-AATAAA
1 TTAA-AATAATAATAAA
49045089 TTTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAATAATAATAAAA
Found at i:49045141 original size:11 final size:11
Alignment explanation
Indices: 49045104--49045142 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
49045094 TATAATATCC
49045104 AAATAGTAGCA
1 AAATAGTAGCA
* * *
49045115 ACATAATAGTA
1 AAATAGTAGCA
49045126 AAATAGTAGCA
1 AAATAGTAGCA
49045137 AAATAG
1 AAATAG
49045143 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (11 bp):
AAATAGTAGCA
Found at i:49052168 original size:55 final size:55
Alignment explanation
Indices: 49052102--49052212 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
49052092 TCAAACTAAG
49052102 ACTTAATCTACAACAAATCAAATAAATTTAAATAATAATCAAACCCAAGTTAATA
1 ACTTAATCTACAACAAATCAAATAAATTTAAATAATAATCAAACCCAAGTTAATA
49052157 ACTTAATCTACAACAAATCAAATAAATTTAAATAATAATCAAACCCAAGTTAATA
1 ACTTAATCTACAACAAATCAAATAAATTTAAATAATAATCAAACCCAAGTTAATA
49052212 A
1 A
49052213 TACTACCATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (55 bp):
ACTTAATCTACAACAAATCAAATAAATTTAAATAATAATCAAACCCAAGTTAATA
Found at i:49053595 original size:4 final size:4
Alignment explanation
Indices: 49053586--49053648 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
49053576 GTTTCTAGTA
49053586 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
49053634 ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACA
49053649 CCAAAAAAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:49059223 original size:19 final size:21
Alignment explanation
Indices: 49059199--49059237 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49059189 CTACGTAAAT
49059199 TTAATT-CTA-AAAAATAATA
1 TTAATTACTATAAAAATAATA
*
49059218 TTAATTATTATAAAAATAAT
1 TTAATTACTATAAAAATAAT
49059238 GAACAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAATTACTATAAAAATAATA
Found at i:49072400 original size:22 final size:22
Alignment explanation
Indices: 49072375--49072416 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
49072365 ATTAAAAATT
49072375 TCAATAAAAATATATAAAAAAA
1 TCAATAAAAATATATAAAAAAA
*
49072397 TCAATACAAATATATAAAAA
1 TCAATAAAAATATATAAAAA
49072417 TCAAACTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
TCAATAAAAATATATAAAAAAA
Found at i:49083367 original size:32 final size:31
Alignment explanation
Indices: 49083331--49083397 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
49083321 ATTCGATCAA
* *
49083331 TTTAAGTCATTGTAC-TTTTCAATTTGGTAAAT
1 TTTAA-TCATTATACTTTTTAAATTTGG-AAAT
* *
49083363 TTTAATCCTTATACTTTTTAAATTTTGAAAT
1 TTTAATCATTATACTTTTTAAATTTGGAAAT
49083394 TTTA
1 TTTA
49083398 GTCCTAACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 15 0.50
32 15 0.50
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (31 bp):
TTTAATCATTATACTTTTTAAATTTGGAAAT
Found at i:49087177 original size:32 final size:31
Alignment explanation
Indices: 49087115--49087185 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 31
49087105 ATTTAAAATT
* *
49087115 TTAAATGAAAAATATTATTTTATACTAATTAT
1 TTAAAT-AAAAATATTATTTTATACAAATTAA
49087147 TATAAATAAAAATA-TACTATTTATA-AAATTAA
1 T-TAAATAAAAATATTA-T-TTTATACAAATTAA
49087179 TTAAATA
1 TTAAATA
49087186 TTAAATACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 8 0.24
32 15 0.44
33 11 0.32
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (31 bp):
TTAAATAAAAATATTATTTTATACAAATTAA
Found at i:49087440 original size:45 final size:45
Alignment explanation
Indices: 49087391--49087477 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
49087381 ACTTTTTGTA
49087391 AAAATATATTCAAATAATATAAT-TTATTTTAATTATAAAAAAATT
1 AAAATATATTCAAATAATAT-ATCTTATTTTAATTATAAAAAAATT
* *
49087436 AAAATATCTTTAAATAATATATCTTATTTTAATTATAAAAAA
1 AAAATATATTCAAATAATATATCTTATTTTAATTATAAAAAA
49087478 TATTTTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (45 bp):
AAAATATATTCAAATAATATATCTTATTTTAATTATAAAAAAATT
Found at i:49103244 original size:23 final size:22
Alignment explanation
Indices: 49103218--49103266 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
49103208 TTTTGAGAGG
*
49103218 TTAAAACATAATTTTATCATTT
1 TTAAAACATAATTTCATCATTT
***
49103240 ATTAATTTATAATTTCATCATTT
1 -TTAAAACATAATTTCATCATTT
49103263 TTAA
1 TTAA
49103267 GGGATTAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAACATAATTTCATCATTT
Found at i:49103887 original size:18 final size:19
Alignment explanation
Indices: 49103864--49103915 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
49103854 CAATAGTATA
49103864 TTAAATAAGGTTAAA-ATT
1 TTAAATAAGGTTAAACATT
* *
49103882 TTAAATTAGGGTCAAACATT
1 TTAAA-TAAGGTTAAACATT
*
49103902 TTAAA-ATGGTTAAA
1 TTAAATAAGGTTAAA
49103916 TAAAGGTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.43
19 8 0.29
20 8 0.29
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (19 bp):
TTAAATAAGGTTAAACATT
Found at i:49103937 original size:29 final size:29
Alignment explanation
Indices: 49103874--49103936 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
49103864 TTAAATAAGG
* * *
49103874 TTAAAAT-TTTAAATTAGGGTCAAACATT
1 TTAAAATGGTTAAATAAAGGTCAAACATT
*
49103902 TTAAAATGGTTAAATAAAGGTCAAATCTTT
1 TTAAAATGGTTAAATAAAGGTCAAA-CATT
49103932 TTAAA
1 TTAAA
49103937 TAAGGGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 7 0.24
29 14 0.48
30 8 0.28
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (29 bp):
TTAAAATGGTTAAATAAAGGTCAAACATT
Found at i:49118779 original size:31 final size:31
Alignment explanation
Indices: 49118727--49118847 Score: 101
Period size: 31 Copynumber: 3.9 Consensus size: 31
49118717 ATTGTAAGAT
*
49118727 TAAAATTATACTTTAAGTTATTAAATTATTAA
1 TAAATTTATA-TTTAAGTTATTAAATTATTAA
*
49118759 TAAATTTATATTTTAA-TTATTTAATT-TTAA
1 TAAATTTATA-TTTAAGTTATTAAATTATTAA
* **
49118789 AAAATTGTA-AAATAA-TTATTAAATTATT--
1 TAAATT-TATATTTAAGTTATTAAATTATTAA
*
49118817 TGAAACTTTTTATTTAAGTTATTAAATTATT
1 T-AAA-TTTATATTTAAGTTATTAAATTATT
49118848 TGAAAGTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
29 16 0.22
30 18 0.25
31 24 0.33
32 14 0.19
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (31 bp):
TAAATTTATATTTAAGTTATTAAATTATTAA
Found at i:49118848 original size:31 final size:31
Alignment explanation
Indices: 49118804--49118866 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
49118794 TGTAAAATAA
49118804 TTATTAAATTATTTGAAACTTTTTATTTAAG
1 TTATTAAATTATTTGAAACTTTTTATTTAAG
*
49118835 TTATTAAATTATTTGAAAGTTTTTATTTAAG
1 TTATTAAATTATTTGAAACTTTTTATTTAAG
49118866 T
1 T
49118867 CATCGAGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (31 bp):
TTATTAAATTATTTGAAACTTTTTATTTAAG
Found at i:49119083 original size:17 final size:17
Alignment explanation
Indices: 49119061--49119098 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
49119051 TACAACAGTA
49119061 ATTTTAACAATATAGTG
1 ATTTTAACAATATAGTG
49119078 ATTTTAACAATATAGTG
1 ATTTTAACAATATAGTG
49119095 ATTT
1 ATTT
49119099 AAATGAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (17 bp):
ATTTTAACAATATAGTG
Found at i:49121886 original size:18 final size:16
Alignment explanation
Indices: 49121847--49121888 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
49121837 TTGAGTTTGA
*
49121847 TTTAAATGTTATTAAG
1 TTTAAATTTTATTAAG
49121863 -TTAAATTTTAGTATAAG
1 TTTAAATTTTA-T-TAAG
49121880 TTTAAATTT
1 TTTAAATTT
49121889 AAGAATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 9 0.41
16 1 0.05
17 4 0.18
18 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TTTAAATTTTATTAAG
Found at i:49144477 original size:14 final size:14
Alignment explanation
Indices: 49144458--49144490 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
49144448 TTAATGATTT
*
49144458 AAATAAAAATTTTC
1 AAATAAAAACTTTC
49144472 AAATAAAAACTTTC
1 AAATAAAAACTTTC
49144486 AAATA
1 AAATA
49144491 GTTTAACGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAAAACTTTC
Found at i:49146113 original size:26 final size:29
Alignment explanation
Indices: 49146058--49146119 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 29
49146048 ATAAAAATTA
*
49146058 ACCAAAATATTATAACTTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTATTATTT
*
49146087 ACCAAAATA-T-T-ACTTTTTTATTGTTT
1 ACCAAAATATTATAACTTTTTTATTATTT
*
49146113 ACGAAAA
1 ACCAAAA
49146120 ATATAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 19 0.63
27 1 0.03
28 1 0.03
29 9 0.30
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.48
Consensus pattern (29 bp):
ACCAAAATATTATAACTTTTTTATTATTT
Found at i:49146209 original size:27 final size:27
Alignment explanation
Indices: 49146179--49146230 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
49146169 GGCCAATCAC
*
49146179 ATTGGCGGCACCAAAGGTGCCAAATAG
1 ATTGGCGGCACCAAAGATGCCAAATAG
* *
49146206 ATTGGTGGCACCAATGATGCCAAAT
1 ATTGGCGGCACCAAAGATGCCAAAT
49146231 GACTAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGATGCCAAATAG
Found at i:49146331 original size:19 final size:19
Alignment explanation
Indices: 49146304--49146373 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
49146294 TCAACTCATT
*
49146304 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
49146323 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
49146341 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
49146360 TTTTAATTTAATAA
1 TTTTAATTTAATAA
49146374 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Done.