Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold283
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: 2945114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 15
Found at i:1910216 original size:16 final size:16
Alignment explanation
Indices: 1910157--1910217 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 16
1910147 TTTATTAATT
*
1910157 ATAAAAAATAATATAA
1 ATAAAAAATAATTTAA
* * *
1910173 AT--AAATTAAATCAA
1 ATAAAAAATAATTTAA
*
1910187 GTAAAAAATAAATTTAA
1 ATAAAAAAT-AATTTAA
1910204 ATAAAAAATAATTT
1 ATAAAAAATAATTT
1910218 TTTTTAAATT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
14 9 0.27
16 11 0.33
17 13 0.39
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAAAAAATAATTTAA
Found at i:1910356 original size:29 final size:29
Alignment explanation
Indices: 1910275--1910378 Score: 83
Period size: 29 Copynumber: 3.7 Consensus size: 29
1910265 TTAAATTTAC
*
1910275 ATATTTTATATA-TTATAATTAAA-TTTAA-
1 ATATATTATATATTTAT-A-TAAATTTTAAT
*
1910303 A-ATATTACATATTTATATAAATTTTAAT
1 ATATATTATATATTTATATAAATTTTAAT
** **
1910331 ATAT-TTATATTATTTATATATTTTTTTTT
1 ATATATTATA-TATTTATATAAATTTTAAT
*
1910360 ATATATTATATAATTATAT
1 ATATATTATATATTTATAT
1910379 TATGTGAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
26 4 0.06
27 14 0.23
28 10 0.16
29 29 0.47
30 5 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (29 bp):
ATATATTATATATTTATATAAATTTTAAT
Found at i:1915289 original size:2 final size:2
Alignment explanation
Indices: 1915284--1915309 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1915274 TCAAACTGAA
1915284 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
1915310 GCAGATACAT
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:1917346 original size:3 final size:3
Alignment explanation
Indices: 1917340--1917401 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
1917330 CTGTTGCTGC
* * * * * * *
1917340 TGT TGT TGT TGT TGT TGC TGC TGC TGC TGC TGT TGT TGC TGA TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
1917388 TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TG
1917402 GAAATGATGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.02, C:0.10, G:0.34, T:0.55
Consensus pattern (3 bp):
TGT
Found at i:1919685 original size:19 final size:19
Alignment explanation
Indices: 1919661--1919699 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1919651 GGGATTATAA
1919661 AGAAAACCATGGTATTGTT
1 AGAAAACCATGGTATTGTT
1919680 AGAAAACCATGGTATTGTT
1 AGAAAACCATGGTATTGTT
1919699 A
1 A
1919700 AATTTAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
AGAAAACCATGGTATTGTT
Found at i:1920295 original size:2 final size:2
Alignment explanation
Indices: 1920290--1920323 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1920280 AAGCTTTTTA
1920290 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1920324 GAGGTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1921875 original size:3 final size:3
Alignment explanation
Indices: 1921859--1921899 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
1921849 GAAAGTTTCA
*
1921859 ATT ATT ACTA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1921900 ATGATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1922657 original size:2 final size:2
Alignment explanation
Indices: 1922650--1922674 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1922640 CCAAGGCATA
1922650 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1922675 AAGTAGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1932598 original size:3 final size:3
Alignment explanation
Indices: 1932553--1932589 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1932543 TAGTAACTGC
1932553 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1932590 GTTAATAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1937028 original size:2 final size:2
Alignment explanation
Indices: 1937021--1937052 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1937011 CTGCAACAAA
1937021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1937053 TATGGCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1944903 original size:22 final size:24
Alignment explanation
Indices: 1944878--1944928 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
1944868 GTTATTCTAG
* *
1944878 ATTCGGGTT-AATTGAGTTTAA-T
1 ATTCAGGTTAAATTGAGTTCAACT
1944900 ATTCAGGTTAAATTGAGTTCAACT
1 ATTCAGGTTAAATTGAGTTCAACT
1944924 ATTCA
1 ATTCA
1944929 AGTCATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 11 0.44
24 6 0.24
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCAGGTTAAATTGAGTTCAACT
Found at i:1945010 original size:46 final size:46
Alignment explanation
Indices: 1944943--1945072 Score: 251
Period size: 46 Copynumber: 2.8 Consensus size: 46
1944933 ATTTTGTCAT
1944943 AATTATAAATAGAACAATGATAATTATTTAGATTTTTATATTAAAA
1 AATTATAAATAGAACAATGATAATTATTTAGATTTTTATATTAAAA
1944989 AATTATAAATAGAACAATGATAATTATTTAGATTTTTATATTAAAA
1 AATTATAAATAGAACAATGATAATTATTTAGATTTTTATATTAAAA
*
1945035 AATTATAAATAGAACAATGATAATTATTTAAATTTTTA
1 AATTATAAATAGAACAATGATAATTATTTAGATTTTTA
1945073 CTGTATAATT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (46 bp):
AATTATAAATAGAACAATGATAATTATTTAGATTTTTATATTAAAA
Found at i:1948628 original size:17 final size:17
Alignment explanation
Indices: 1948608--1948640 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1948598 AGTGAGTGTC
1948608 ATTTT-TATTTTATTAAA
1 ATTTTATATTTT-TTAAA
1948625 ATTTTATATTTTTTAA
1 ATTTTATATTTTTTAA
1948641 TAAACTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTATATTTTTTAAA
Found at i:1950479 original size:16 final size:16
Alignment explanation
Indices: 1950435--1950480 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1950425 ATTATTCAGG
* *
1950435 TCATTTCGGGTTCGGG
1 TCATTTCGGGTTTGGA
1950451 TCA-TTCTGGGTTTGGA
1 TCATTTC-GGGTTTGGA
1950467 TCATTTCGGGTTTG
1 TCATTTCGGGTTTG
1950481 AATTATTCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 3 0.12
16 20 0.77
17 3 0.12
ACGTcount: A:0.09, C:0.15, G:0.33, T:0.43
Consensus pattern (16 bp):
TCATTTCGGGTTTGGA
Found at i:1950489 original size:32 final size:32
Alignment explanation
Indices: 1950435--1950505 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
1950425 ATTATTCAGG
** * *
1950435 TCATTTCGGGTTCGGGTCATTCTGGGTTTGGA
1 TCATTTCGGGTTCGAATCATTCTGGATTCGGA
* * *
1950467 TCATTTCGGGTTTGAATTATTCTGGATTCGGG
1 TCATTTCGGGTTCGAATCATTCTGGATTCGGA
1950499 TCATTTC
1 TCATTTC
1950506 AAGTTTAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.13, C:0.15, G:0.28, T:0.44
Consensus pattern (32 bp):
TCATTTCGGGTTCGAATCATTCTGGATTCGGA
Found at i:1950545 original size:16 final size:16
Alignment explanation
Indices: 1950524--1950574 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
1950514 ATCATTTAGG
1950524 TTCAGGTTATTTCAGA
1 TTCAGGTTATTTCAGA
1950540 TTCAGGTTATTAT-AGA
1 TTCAGGTTATT-TCAGA
* *
1950556 TTCAGGTCATTTCGGA
1 TTCAGGTTATTTCAGA
1950572 TTC
1 TTC
1950575 GAGTCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (16 bp):
TTCAGGTTATTTCAGA
Found at i:1952381 original size:2 final size:2
Alignment explanation
Indices: 1952374--1952405 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1952364 GAGCAAGAAA
*
1952374 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1952406 GGGGTTATGG
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:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1957531 original size:3 final size:3
Alignment explanation
Indices: 1957517--1957555 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1957507 CAAACATAGG
*
1957517 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1957556 GAGGCAGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1961245 original size:7 final size:7
Alignment explanation
Indices: 1961235--1961267 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1961225 AAATATAATA
1961235 TAAAAAT
1 TAAAAAT
1961242 TAAAAAT
1 TAAAAAT
1961249 T-AAAAT
1 TAAAAAT
1961255 ATAAAAAT
1 -TAAAAAT
1961263 TAAAA
1 TAAAA
1961268 TAAATACGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.21
7 14 0.58
8 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:1961268 original size:14 final size:14
Alignment explanation
Indices: 1961237--1961269 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1961227 ATATAATATA
1961237 AAAAT-TAAAAATT
1 AAAATATAAAAATT
1961250 AAAATATAAAAATT
1 AAAATATAAAAATT
1961264 AAAATA
1 AAAATA
1961270 AATACGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:1961328 original size:14 final size:15
Alignment explanation
Indices: 1961293--1961329 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
1961283 TATATAAATA
1961293 AATTAAAATTTATAT
1 AATTAAAATTTATAT
1961308 AATTAAAA-TTAT-T
1 AATTAAAATTTATAT
1961321 AATATAAAA
1 AAT-TAAAA
1961330 AAATTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 9 0.43
15 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTAAAATTTATAT
Found at i:1962086 original size:35 final size:36
Alignment explanation
Indices: 1962034--1962130 Score: 92
Period size: 37 Copynumber: 2.6 Consensus size: 36
1962024 ATTTAAGTTT
* *
1962034 TTTTATATAAAATTTAAAATTTTA-TATCACATTAT-A
1 TTTTAT-TAATATTTAAAATTTTATTAACAC-TTATAA
1962070 TTTTATTAATATTTAAATAATTTTATTAACACTTATAA
1 TTTTATTAATATTT-AA-AATTTTATTAACACTTATAA
* *
1962108 TTTT-TTTATTTATTAAAATTTTA
1 TTTTATTAATAT-TTAAAATTTTA
1962131 AAAATATAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
35 7 0.13
36 15 0.29
37 18 0.35
38 12 0.23
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTATTAATATTTAAAATTTTATTAACACTTATAA
Found at i:1962800 original size:11 final size:12
Alignment explanation
Indices: 1962780--1962816 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
1962770 TTTAAATTTA
1962780 ATTATAAAATAAT
1 ATTAT-AAATAAT
1962793 ATT-TAAATAAT
1 ATTATAAATAAT
1962804 ATTATAAATAAT
1 ATTATAAATAAT
1962816 A
1 A
1962817 AAATTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.43
12 10 0.43
13 3 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTATAAATAAT
Found at i:1962832 original size:12 final size:12
Alignment explanation
Indices: 1962817--1962873 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
1962807 ATAAATAATA
1962817 AAATTAAATTTT
1 AAATTAAATTTT
1962829 AAATTAAATTTATT
1 AAATTAAA-TT-TT
*
1962843 TAATATAAA-TTT
1 AAAT-TAAATTTT
*
1962855 AAATAAAAATTTT
1 AAAT-TAAATTTT
1962868 AAATTA
1 AAATTA
1962874 TAATATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 18 0.49
13 10 0.27
14 5 0.14
15 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATTAAATTTT
Found at i:1963092 original size:12 final size:11
Alignment explanation
Indices: 1963075--1963115 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
1963065 TTTATTAAAA
1963075 TAAAAAATTATT
1 TAAAAAATT-TT
1963087 T-AAAAA-TTT
1 TAAAAAATTTT
1963096 TAAAAAATTTT
1 TAAAAAATTTT
1963107 ATAAAAAAT
1 -TAAAAAAT
1963116 AATTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.12
10 6 0.23
11 8 0.31
12 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAAAATTTT
Found at i:1963101 original size:10 final size:10
Alignment explanation
Indices: 1963075--1963113 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
1963065 TTTATTAAAA
1963075 TAAAAAATTAT
1 TAAAAAATT-T
*
1963086 TTAAAAATTT
1 TAAAAAATTT
1963096 TAAAAAATTT
1 TAAAAAATTT
1963106 TATAAAAA
1 TA-AAAAA
1963114 ATAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 12 0.48
11 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAAATTT
Found at i:1963499 original size:25 final size:25
Alignment explanation
Indices: 1963467--1963514 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1963457 TGTGAGATTA
1963467 ATTTAATTAAAT-TTATATTAATTGT
1 ATTTAATTAAATATTA-ATTAATTGT
*
1963492 ATTTAATTATATATTAATTAATT
1 ATTTAATTAAATATTAATTAATT
1963515 ATTTATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
ATTTAATTAAATATTAATTAATTGT
Found at i:1963504 original size:21 final size:20
Alignment explanation
Indices: 1963463--1963526 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
1963453 TATGTGTGAG
1963463 ATTAATTTAATTAAATTTAT
1 ATTAATTTAATTAAATTTAT
*
1963483 ATTAATTGT-ATTTAATTATAT
1 ATTAATT-TAATTAAATT-TAT
1963504 ATTAA-TTAATT--ATTTAT
1 ATTAATTTAATTAAATTTAT
1963521 -TTAATT
1 ATTAATT
1963527 ATAAATAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
16 4 0.10
17 4 0.10
18 3 0.08
19 1 0.03
20 18 0.46
21 9 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTAATTTAATTAAATTTAT
Found at i:1963512 original size:15 final size:16
Alignment explanation
Indices: 1963494--1963527 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1963484 TTAATTGTAT
1963494 TTAATTATATA-TTAA
1 TTAATTATATATTTAA
*
1963509 TTAATTATTTATTTAA
1 TTAATTATATATTTAA
1963525 TTA
1 TTA
1963528 TAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTATATATTTAA
Found at i:1963525 original size:27 final size:26
Alignment explanation
Indices: 1963491--1963580 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
1963481 ATATTAATTG
1963491 TATTTAATTATATATTAATTAATTATT
1 TATTTAATTATATA-TAATTAATTATT
*
1963518 TATTTAATTATAAATAATTTAA-TATT
1 TATTTAATTATATATAA-TTAATTATT
1963544 T-TTT-ATTATATA-AATATAATT-TT
1 TATTTAATTATATATAAT-TAATTATT
1963567 TAATTATAATTATA
1 T-ATT-TAATTATA
1963581 ATTTTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
22 1 0.02
23 8 0.15
24 8 0.15
25 5 0.09
26 9 0.17
27 23 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTTAATTATATATAATTAATTATT
Found at i:1963565 original size:21 final size:20
Alignment explanation
Indices: 1963541--1963586 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1963531 ATAATTTAAT
*
1963541 ATTTTTTATTATATAAATATA
1 ATTTTTTAAT-TATAAATATA
*
1963562 A-TTTTTAATTATAATTATA
1 ATTTTTTAATTATAAATATA
1963581 ATTTTT
1 ATTTTT
1963587 CATGTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 10 0.45
20 11 0.50
21 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTTAATTATAAATATA
Found at i:1963594 original size:18 final size:19
Alignment explanation
Indices: 1963552--1963604 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1963542 TTTTTTATTA
*
1963552 TATAAATATAATTTTTAAT
1 TATAATTATAATTTTTAAT
*
1963571 TATAATTATAATTTTTCA-
1 TATAATTATAATTTTTAAT
* *
1963589 TGTAATTAAAATTTTT
1 TATAATTATAATTTTT
1963605 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TATAATTATAATTTTTAAT
Found at i:1963926 original size:22 final size:21
Alignment explanation
Indices: 1963897--1963948 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1963887 TTAATATTTT
* *
1963897 ATTT-AATATTTATTAAGTTTA
1 ATTTAAATAGTTATTAAG-TAA
*
1963918 ATTTAAATAAGTTATTATGTAA
1 ATTTAAAT-AGTTATTAAGTAA
1963940 ATTTAAATA
1 ATTTAAATA
1963949 ATTCGATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.19
22 13 0.50
23 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
ATTTAAATAGTTATTAAGTAA
Found at i:1963934 original size:23 final size:22
Alignment explanation
Indices: 1963906--1963949 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1963896 TATTTAATAT
*
1963906 TTATTAAGTTTAATTTAAATAAG
1 TTATTAAG-TAAATTTAAATAAG
*
1963929 TTATTATGTAAATTTAAATAA
1 TTATTAAGTAAATTTAAATAA
1963950 TTCGATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTATTAAGTAAATTTAAATAAG
Found at i:1964174 original size:21 final size:22
Alignment explanation
Indices: 1964150--1964194 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
1964140 CTTTTACAAA
1964150 AAAAATAAATTTAA-AATTTAT
1 AAAAATAAATTTAATAATTTAT
* *
1964171 AAAATTTAATTTAATTAATTTAT
1 AAAAATAAATTTAA-TAATTTAT
1964194 A
1 A
1964195 TAATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATAAATTTAATAATTTAT
Found at i:1965020 original size:17 final size:19
Alignment explanation
Indices: 1964980--1965022 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
1964970 TGTGTAAATA
1964980 TAAATATGATATAAATTAT
1 TAAATATGATATAAATTAT
*
1964999 TAAATATG-TATACATT-T
1 TAAATATGATATAAATTAT
1965016 TAAATAT
1 TAAATAT
1965023 AAATATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
TAAATATGATATAAATTAT
Found at i:1965262 original size:15 final size:15
Alignment explanation
Indices: 1965212--1965307 Score: 63
Period size: 16 Copynumber: 6.2 Consensus size: 15
1965202 ACGAATATTT
*
1965212 TAAAATTTATATAATA
1 TAAAA-TTATTTAATA
* *
1965228 T-GAATTATTATTATA
1 TAAAATTATT-TAATA
1965243 TTAAAATTATTTAATA
1 -TAAAATTATTTAATA
1965259 TAAAA-TATTTTAA-A
1 TAAAATTA-TTTAATA
*
1965273 TAAAATTATAATAATA
1 TAAAATTAT-TTAATA
* *
1965289 TAAAAATATATAAATA
1 TAAAATTAT-TTAATA
1965305 TAA
1 TAA
1965308 TATGATGAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
14 13 0.20
15 21 0.33
16 23 0.36
17 7 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (15 bp):
TAAAATTATTTAATA
Found at i:1965303 original size:30 final size:29
Alignment explanation
Indices: 1965212--1965304 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
1965202 ACGAATATTT
* * *
1965212 TAAAATTTATATAATATGAATTATTATTATAT
1 TAAAA-TTATATAATATAAAATATTA-TA-AA
* *
1965244 TAAAATTATTTAATATAAAATATTTTAAA
1 TAAAATTATATAATATAAAATATTATAAA
1965273 TAAAATTATAATAATATAAAA-ATATATAAA
1 TAAAATTAT-ATAATATAAAATAT-TATAAA
1965303 TA
1 TA
1965305 TAATATGATG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 12 0.23
30 19 0.37
31 16 0.31
32 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
TAAAATTATATAATATAAAATATTATAAA
Found at i:1966018 original size:18 final size:18
Alignment explanation
Indices: 1965995--1966054 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 18
1965985 ATTTAAAATT
1965995 TTTAAATTATTAAATATA
1 TTTAAATTATTAAATATA
* *
1966013 TTTAAAATATT-TA-ATA
1 TTTAAATTATTAAATATA
1966029 TTTAAATTATTTAAAATATA
1 TTTAAATTA-TT-AAATATA
*
1966049 TATAAA
1 TTTAAA
1966055 ATTTAAACGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 11 0.33
17 3 0.09
18 10 0.30
19 1 0.03
20 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTAAATTATTAAATATA
Found at i:1966020 original size:34 final size:36
Alignment explanation
Indices: 1965976--1966061 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 36
1965966 TTAATTTTTT
*
1965976 TATA-ATAAAATTTAAAATTTTTAAATTA-TT-AAA
1 TATATATAAAATTTAAAATATTTAAATTATTTAAAA
* *
1966009 TATATTTAAAATATT-TAATATTTAAATTATTTAAAA
1 TATATATAAAAT-TTAAAATATTTAAATTATTTAAAA
1966045 TATATATAAAATTTAAA
1 TATATATAAAATTTAAA
1966062 CGATTAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
33 4 0.09
34 18 0.42
35 6 0.14
36 15 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
TATATATAAAATTTAAAATATTTAAATTATTTAAAA
Found at i:1966039 original size:9 final size:9
Alignment explanation
Indices: 1965985--1966043 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
1965975 TTATAATAAA
1965985 ATTTAAAATT
1 ATTT-AAATT
1965995 -TTTAAATT
1 ATTTAAATT
1966003 A-TTAAATAT
1 ATTTAAAT-T
*
1966012 ATTTAAAAT
1 ATTTAAATT
1966021 ATTT-AA-T
1 ATTTAAATT
1966028 ATTTAAATT
1 ATTTAAATT
1966037 ATTTAAA
1 ATTTAAA
1966044 ATATATATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
7 5 0.12
8 15 0.35
9 18 0.42
10 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTAAATT
Found at i:1969328 original size:39 final size:40
Alignment explanation
Indices: 1969285--1969363 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
1969275 GCTAGCACTA
* *
1969285 CCACCCAATTACATATTT-GATTTTCATGAATTGACATAG
1 CCACCCAACTACATATTTAAATTTTCATGAATTGACATAG
* *
1969324 CCACCCAACTACATATTTAAATTTTTATGTATTGACATAG
1 CCACCCAACTACATATTTAAATTTTCATGAATTGACATAG
1969364 TTACTTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 17 0.49
40 18 0.51
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (40 bp):
CCACCCAACTACATATTTAAATTTTCATGAATTGACATAG
Found at i:1970311 original size:22 final size:21
Alignment explanation
Indices: 1970273--1970314 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1970263 ATATTTAATT
1970273 TAAATTTAATAATAAAATATA
1 TAAATTTAATAATAAAATATA
1970294 TAAATATTAAT-ATAAAA-ATA
1 TAAAT-TTAATAATAAAATATA
1970314 T
1 T
1970315 TTTAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATTTAATAATAAAATATA
Found at i:1975111 original size:2 final size:2
Alignment explanation
Indices: 1975106--1975136 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1975096 AAAAAAGCAA
*
1975106 AT AT AT AA 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 A
1975137 CAATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1975117 original size:8 final size:8
Alignment explanation
Indices: 1975104--1975143 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
1975094 CGAAAAAAGC
1975104 AAATATAT
1 AAATATAT
1975112 AAATATAT
1 AAATATAT
*
1975120 ATATATAT
1 AAATATAT
*
1975128 ATATATAT
1 AAATATAT
1975136 ACAATATA
1 A-AATATA
1975144 AATTTAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 24 0.83
9 5 0.17
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (8 bp):
AAATATAT
Found at i:1975637 original size:21 final size:22
Alignment explanation
Indices: 1975601--1975646 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1975591 AAATTTTATT
* *
1975601 TTTAATATATATTAATCTAATA
1 TTTAATATAAATTAATATAATA
*
1975623 TTTAATA-AAATTAATATATTA
1 TTTAATATAAATTAATATAATA
1975644 TTT
1 TTT
1975647 TTTATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATATAAATTAATATAATA
Found at i:1977711 original size:31 final size:32
Alignment explanation
Indices: 1977676--1977741 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
1977666 ATTTAATTTA
*
1977676 ATTTAAATTAATATTTACTCATAAAAA-T-AAT
1 ATTTAAATTAA-ATTTAATCATAAAAAGTAAAT
* *
1977707 ATTTAAATTTAATTTAATTATAAAAAGTAAAT
1 ATTTAAATTAAATTTAATCATAAAAAGTAAAT
1977739 ATT
1 ATT
1977742 AATATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 13 0.43
31 11 0.37
32 6 0.20
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (32 bp):
ATTTAAATTAAATTTAATCATAAAAAGTAAAT
Found at i:1977758 original size:17 final size:18
Alignment explanation
Indices: 1977716--1977764 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
1977706 TATTTAAATT
1977716 TAAT-TTAATTATAAAAAG
1 TAATATTAA-TATAAAAAG
1977734 TAAATATTAATATAAAAA-
1 T-AATATTAATATAAAAAG
1977752 TAATATTAA-ATAA
1 TAATATTAATATAA
1977765 TATAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.14
17 8 0.28
18 2 0.07
19 11 0.38
20 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TAATATTAATATAAAAAG
Found at i:1978627 original size:32 final size:33
Alignment explanation
Indices: 1978569--1978635 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
1978559 TTAAATAGAT
* *
1978569 TTAAAGATGATATTTATTTTTTATATTTTTAAA
1 TTAAAAATGATATTTATTTTTAATATTTTTAAA
*
1978602 TTAAAAATTATATTT-TTTTTAATATTTTTAAA
1 TTAAAAATGATATTTATTTTTAATATTTTTAAA
1978634 TT
1 TT
1978636 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (33 bp):
TTAAAAATGATATTTATTTTTAATATTTTTAAA
Found at i:1978639 original size:33 final size:34
Alignment explanation
Indices: 1978567--1978639 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
1978557 TTTTAAATAG
* *
1978567 ATTTAAAGATGATATTTATTTTTTATATTTTTAA
1 ATTTAAAAATGATATTTATTTTTAATATTTTTAA
*
1978601 A-TTAAAAATTATATTT-TTTTTAATATTTTTAA
1 ATTTAAAAATGATATTTATTTTTAATATTTTTAA
1978633 ATTTAAA
1 ATTTAAA
1978640 TAAAAATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 16 0.46
33 18 0.51
34 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (34 bp):
ATTTAAAAATGATATTTATTTTTAATATTTTTAA
Found at i:1978652 original size:32 final size:30
Alignment explanation
Indices: 1978583--1978657 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 30
1978573 AGATGATATT
*
1978583 TATTTTTTATATTTTTAAATTAAAAATTATA
1 TATTTTTTATATTTTTAAATTAAAAA-TAAA
*
1978614 TTTTTTTTAATATTTTTAAATTTAAATAA-AAA
1 TATTTTTT-ATATTTTTAAA-TTAAA-AATAAA
1978646 TA-TTTTTATATT
1 TATTTTTTATATT
1978658 ATCCTCCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
30 5 0.13
31 12 0.32
32 14 0.37
33 5 0.13
34 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTTTTATATTTTTAAATTAAAAATAAA
Found at i:1981152 original size:19 final size:19
Alignment explanation
Indices: 1981125--1981169 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1981115 CTTCTAATTA
*
1981125 GATTCATCGTCTATCAAAG
1 GATTTATCGTCTATCAAAG
1981144 GATTTATCGTCTATCAAAG
1 GATTTATCGTCTATCAAAG
*
1981163 GTTTTAT
1 GATTTAT
1981170 TCTTCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
GATTTATCGTCTATCAAAG
Found at i:1981423 original size:25 final size:26
Alignment explanation
Indices: 1981376--1981424 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1981366 ATGAAGAATT
**
1981376 AAAAACTTTTAAATATATGTATATAA
1 AAAAACTTTTAAATATAAATATATAA
*
1981402 AAAAATTTTTAAA-ATAAATATAT
1 AAAAACTTTTAAATATAAATATAT
1981425 TTATATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAAACTTTTAAATATAAATATATAA
Found at i:1986115 original size:9 final size:9
Alignment explanation
Indices: 1986101--1986127 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1986091 TGCAGTGAGG
1986101 TAGTAACAA
1 TAGTAACAA
1986110 TAGTAACAA
1 TAGTAACAA
1986119 TAGTAACAA
1 TAGTAACAA
1986128 AGGAGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (9 bp):
TAGTAACAA
Found at i:1988941 original size:24 final size:24
Alignment explanation
Indices: 1988914--1988980 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
1988904 TTTTTATATA
1988914 TTAATAATTAATATTATATAAATT
1 TTAATAATTAATATTATATAAATT
*
1988938 TTAA-AA-TATATATTTATATTATATT
1 TTAATAATTA-ATA-TTATA-TAAATT
* *
1988963 TTAATTATT-TTATTATAT
1 TTAATAATTAATATTATAT
1988981 CGTGCTCGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
22 2 0.06
23 6 0.17
24 14 0.40
25 11 0.31
26 1 0.03
27 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATAATTAATATTATATAAATT
Found at i:1992586 original size:19 final size:19
Alignment explanation
Indices: 1992553--1992608 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
1992543 ATGTTACGAA
*
1992553 AAAATAATATAAATATGAT-
1 AAAAT-ATATTAATATGATC
1992572 AAGAATATATTAATAT-ATC
1 AA-AATATATTAATATGATC
*
1992591 AAAATTTATATAATATGA
1 AAAATATAT-TAATATGA
1992609 ACTATTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 8 0.26
19 19 0.61
20 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATATATTAATATGATC
Found at i:1993198 original size:20 final size:22
Alignment explanation
Indices: 1993161--1993203 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1993151 AAAATTTTAA
* *
1993161 TTTTATTCAAAATTTATA-ATT
1 TTTTATCCAAAATATATATATT
1993182 TTTTATCCAAAA-ATATATATT
1 TTTTATCCAAAATATATATATT
1993203 T
1 T
1993204 ATAAACAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTATCCAAAATATATATATT
Found at i:1993721 original size:17 final size:17
Alignment explanation
Indices: 1993693--1993731 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1993683 TTGTGAGGTA
1993693 TTTTTTTGCTCTATTTC
1 TTTTTTTGCTCTATTTC
*
1993710 TGTTTTTT-CTCTGTTTC
1 T-TTTTTTGCTCTATTTC
1993727 TTTTT
1 TTTTT
1993732 CCATATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 10 0.50
18 6 0.30
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTTTTGCTCTATTTC
Found at i:1998268 original size:24 final size:25
Alignment explanation
Indices: 1998241--1998287 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1998231 TTTTAAAAAA
1998241 TAATTAAAAATAAATTTA-AAATTT
1 TAATTAAAAATAAATTTATAAATTT
* *
1998265 TAATTATAAATAATTTTATAAAT
1 TAATTAAAAATAAATTTATAAAT
1998288 AATCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATTAAAAATAAATTTATAAATTT
Found at i:2003436 original size:22 final size:22
Alignment explanation
Indices: 2003367--2003437 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
2003357 ATTTTGGGAC
*
2003367 ATATAAAATTATT-TTATTTT-T
1 ATATAAAA-TATTAATATTTTAT
* *
2003388 A-ATAAAATA-AAATATGCTTAAT
1 ATATAAAATATTAATAT--TTTAT
2003410 ATATAAAATATTAATATTTTAT
1 ATATAAAATATTAATATTTTAT
2003432 ATATAA
1 ATATAA
2003438 TAATTTTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
19 5 0.13
20 6 0.15
21 3 0.08
22 12 0.31
23 8 0.21
24 5 0.13
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (22 bp):
ATATAAAATATTAATATTTTAT
Found at i:2021467 original size:22 final size:22
Alignment explanation
Indices: 2021439--2021482 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2021429 TGAGATTGAA
2021439 TTTTTTTTCCTATAATTTTTGT
1 TTTTTTTTCCTATAATTTTTGT
*
2021461 TTTTTTTTCTTATAATTTTTGT
1 TTTTTTTTCCTATAATTTTTGT
2021483 GTTTGTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTTTTTCCTATAATTTTTGT
Found at i:2021892 original size:2 final size:2
Alignment explanation
Indices: 2021885--2021911 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2021875 AATATCCTAT
2021885 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
2021912 TATATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2021916 original size:2 final size:2
Alignment explanation
Indices: 2021911--2021959 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2021901 ACACACACAC
2021911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2021953 AT AT AT A
1 AT AT AT A
2021960 AAGGCTACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2022118 original size:2 final size:2
Alignment explanation
Indices: 2022111--2022149 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2022101 GCATGGCTTC
* * *
2022111 TA TA TA TA TA TA TA TA TA TA CA TA TA TA AA TC TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2022150 GGGCAACATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2030947 original size:11 final size:11
Alignment explanation
Indices: 2030921--2030970 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
2030911 CACTTGAGAA
2030921 GAAAAGGGAAAG
1 GAAAA-GGAAAG
*
2030933 GGAAAGGAAAAG
1 GAAAAGG-AAAG
2030945 G-AAAGAGAAA-
1 GAAAAG-GAAAG
2030955 GAAAAGGAAAG
1 GAAAAGGAAAG
2030966 GAAAA
1 GAAAA
2030971 CCCTAGATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
10 5 0.15
11 18 0.55
12 10 0.30
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (11 bp):
GAAAAGGAAAG
Found at i:2030949 original size:5 final size:5
Alignment explanation
Indices: 2030927--2030969 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
2030917 AGAAGAAAAG
*
2030927 GGAAA GGGAAA GGAAAA GGAAA GAGAAA GAAAA GGAAA GGAAA
1 GGAAA -GGAAA GG-AAA GGAAA G-GAAA GGAAA GGAAA GGAAA
2030970 ACCCTAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 18 0.55
6 15 0.45
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:2032258 original size:2 final size:2
Alignment explanation
Indices: 2032251--2032275 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2032241 GTTGAGACTT
2032251 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
2032276 CTTTGATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2033436 original size:2 final size:2
Alignment explanation
Indices: 2033431--2033472 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2033421 TATATACAAT
2033431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2033473 AGGTATGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2034422 original size:28 final size:26
Alignment explanation
Indices: 2034391--2034448 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
2034381 ATGTATATAA
*
2034391 ATATATTAATAATTTAATATATCATATT
1 ATATATTAATAATTTAAAATAT-AT-TT
* * *
2034419 ATATTTTTATATTTTAAAATATATTT
1 ATATATTAATAATTTAAAATATATTT
2034445 ATAT
1 ATAT
2034449 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 6 0.23
27 2 0.08
28 18 0.69
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATATTAATAATTTAAAATATATTT
Found at i:2036567 original size:14 final size:15
Alignment explanation
Indices: 2036541--2036572 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2036531 GTCGATAAAA
2036541 AAAATTATAAATATT
1 AAAATTATAAATATT
2036556 AAAATT-TAAATATT
1 AAAATTATAAATATT
2036570 AAA
1 AAA
2036573 TTTGTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:2038570 original size:21 final size:21
Alignment explanation
Indices: 2038545--2038584 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2038535 GCCCAAATCG
*
2038545 AAGTAAATTTCCACATTCAGA
1 AAGTAAATTACCACATTCAGA
* *
2038566 AAGTACATTACCATATTCA
1 AAGTAAATTACCACATTCA
2038585 TAGCCTCTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (21 bp):
AAGTAAATTACCACATTCAGA
Found at i:2043077 original size:5 final size:5
Alignment explanation
Indices: 2043067--2043164 Score: 62
Period size: 5 Copynumber: 19.2 Consensus size: 5
2043057 ACTTTATGTA
* *
2043067 ATTAT ATTAT A-TAC ATTACAT ATTA- ATAAT -TTA- ATTTAT ATTAT
1 ATTAT ATTAT ATTAT ATT--AT ATTAT ATTAT ATTAT ATT-AT ATTAT
* *
2043111 ATTTAA ATATATT ATTAT ATTAT ATT-C ATTAT ATTTAT ATTAT ATTAT
1 A-TTAT AT-TA-T ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT
2043159 ATTAT A
1 ATTAT A
2043165 ATTTAATTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
4 13 0.18
5 38 0.52
6 16 0.22
7 6 0.08
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:2043128 original size:23 final size:25
Alignment explanation
Indices: 2043086--2043166 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 25
2043076 TATACATTAC
* *
2043086 ATATTAATAATTTA-AT-TTATATT
1 ATATTCATAATATATATATTATATT
*
2043109 ATATTTA-AATATAT-TATTATATT
1 ATATTCATAATATATATATTATATT
* *
2043132 ATATTCATTATATTTATATTATATT
1 ATATTCATAATATATATATTATATT
2043157 ATATT-ATAAT
1 ATATTCATAAT
2043167 TTAATTATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
22 6 0.12
23 19 0.40
24 9 0.19
25 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (25 bp):
ATATTCATAATATATATATTATATT
Found at i:2047364 original size:2 final size:2
Alignment explanation
Indices: 2047357--2047388 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2047347 GTATGTTCTG
2047357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2047389 TTAATGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2048609 original size:3 final size:3
Alignment explanation
Indices: 2048603--2048636 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2048593 TTCGTAAATT
*
2048603 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2048637 TATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2048978 original size:11 final size:11
Alignment explanation
Indices: 2048962--2048986 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2048952 TTTAAATAAA
2048962 AATTTAAAATT
1 AATTTAAAATT
2048973 AATTTAAAATT
1 AATTTAAAATT
2048984 AAT
1 AAT
2048987 AAATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:2050033 original size:7 final size:7
Alignment explanation
Indices: 2050023--2050062 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
2050013 TTTTTTTTTT
2050023 TTTTTAA
1 TTTTTAA
2050030 TTTTTAA
1 TTTTTAA
2050037 TTTTTAA
1 TTTTTAA
*
2050044 TTTTTTA
1 TTTTTAA
2050051 TCTTTT-A
1 T-TTTTAA
2050058 TTTTT
1 TTTTT
2050063 GTTTTTGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTAA
Found at i:2050033 original size:14 final size:13
Alignment explanation
Indices: 2050008--2050068 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
2049998 TCATCTTCTC
2050008 TTTTTTTTT-TTT
1 TTTTTTTTTATTT
*
2050020 TTTTTTTTAATTT
1 TTTTTTTTTATTT
* *
2050033 TTAATTTTTAATTT
1 TT-TTTTTTTATTT
*
2050047 TTTATCTTTTATTT
1 TTT-TTTTTTATTT
2050061 TTGTTTTT
1 TT-TTTTT
2050069 GCAGGTGGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.21
13 5 0.13
14 25 0.64
15 1 0.03
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTATTT
Found at i:2053732 original size:2 final size:2
Alignment explanation
Indices: 2053725--2053757 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2053715 AGTTCACTTT
*
2053725 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2053758 TTAATTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2074319 original size:11 final size:11
Alignment explanation
Indices: 2074303--2074348 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
2074293 AAAATATTCA
2074303 TATATTTATAT
1 TATATTTATAT
2074314 TATATTT-TAAT
1 TATATTTAT-AT
2074325 TAT-TTTAT-T
1 TATATTTATAT
2074334 TATATTTAATAT
1 TATATTT-ATAT
2074346 TAT
1 TAT
2074349 CACCTCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
9 4 0.13
10 7 0.23
11 15 0.50
12 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:2085267 original size:25 final size:24
Alignment explanation
Indices: 2085239--2085343 Score: 82
Period size: 25 Copynumber: 4.6 Consensus size: 24
2085229 ATAACTTTTG
2085239 GATTTAGATATTGAATCATTATCCA
1 GATTTAGATATTGAATCATT-TCCA
* *
2085264 GATTTAGATATTGATTAATTATCCTA
1 GATTTAGATATTGAATCATT-TCC-A
* *
2085290 -AGTT--ACA-T-AA-C-TTT-CA
1 GATTTAGATATTGAATCATTTCCA
*
2085306 GCTTTAGATATTGAATCATTTCCA
1 GATTTAGATATTGAATCATTTCCA
2085330 GATTTAGATATTGA
1 GATTTAGATATTGA
2085344 TGAATATCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
16 1 0.02
17 3 0.05
18 1 0.02
19 4 0.07
20 1 0.02
21 3 0.05
22 2 0.03
23 5 0.08
24 15 0.25
25 25 0.41
26 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (24 bp):
GATTTAGATATTGAATCATTTCCA
Found at i:2085353 original size:24 final size:24
Alignment explanation
Indices: 2085308--2085353 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2085298 AACTTTCAGC
* *
2085308 TTTAGATATTGAATCATTTCCAGA
1 TTTAGATATTGAATAATATCCAGA
2085332 TTTAGATATTG-ATGAATATCCA
1 TTTAGATATTGAAT-AATATCCA
2085354 AAGCCAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (24 bp):
TTTAGATATTGAATAATATCCAGA
Found at i:2089128 original size:2 final size:2
Alignment explanation
Indices: 2089121--2089153 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2089111 TCCCATTAAT
2089121 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 T
2089154 GCTTTGGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2090737 original size:6 final size:6
Alignment explanation
Indices: 2090728--2090771 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
2090718 ATATATATAT
2090728 ATATTC ATATTC ATATTC ATATTC ATATTC ATATTC ATATTC AT
1 ATATTC ATATTC ATATTC ATATTC ATATTC ATATTC ATATTC AT
2090772 CCAATATACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTC
Found at i:2096002 original size:2 final size:2
Alignment explanation
Indices: 2095983--2096017 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2095973 GATTAAGCGA
* *
2095983 AT AT AC AT AT AA 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 A
2096018 ATCATATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2096138 original size:2 final size:2
Alignment explanation
Indices: 2096133--2096157 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2096123 TATATATAAA
2096133 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
2096158 ATAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2098914 original size:2 final size:2
Alignment explanation
Indices: 2098907--2098941 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2098897 ATTTAGGAAC
*
2098907 TA TA TA TA TA TA TA TA TA TT 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
2098942 GAGTTCCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2099145 original size:2 final size:2
Alignment explanation
Indices: 2099138--2099175 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2099128 TAATAAATAC
2099138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2099176 TGGCTTGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2099240 original size:2 final size:2
Alignment explanation
Indices: 2099233--2099266 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2099223 AATTTTTAAC
2099233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2099267 TAAGAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2099992 original size:1 final size:1
Alignment explanation
Indices: 2099988--2100015 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
2099978 TTTTTTTTTT
2099988 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
2100016 TAATGTTAGT
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:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:2107826 original size:22 final size:21
Alignment explanation
Indices: 2107798--2107846 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
2107788 TAAAATTGTC
2107798 TAAAATAGAATATAATAAGTA
1 TAAAATAGAATATAATAAGTA
*
2107819 TTAAAATATAATATAATAAGTA
1 -TAAAATAGAATATAATAAGTA
2107841 TAAAAT
1 TAAAAT
2107847 TTTCAACGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
TAAAATAGAATATAATAAGTA
Found at i:2112609 original size:2 final size:2
Alignment explanation
Indices: 2112602--2112633 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2112592 GCTAATTGTA
2112602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2112634 AACCAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2112974 original size:3 final size:3
Alignment explanation
Indices: 2112968--2113014 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
2112958 AAAAAAAAGG
2112968 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2113015 CTATCTATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2113077 original size:4 final size:4
Alignment explanation
Indices: 2113068--2113140 Score: 71
Period size: 4 Copynumber: 19.0 Consensus size: 4
2113058 GTTTGGCTGG
* * * *
2113068 GAAA GAAA GAAA GAAA GTAA GAAA -AAA AAAA GAAT GAAT GAAA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
* *
2113114 GAAA AAAA GAAA -AAA AAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
2113141 AAAATTATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 9 0.16
4 49 0.84
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (4 bp):
GAAA
Found at i:2113089 original size:12 final size:12
Alignment explanation
Indices: 2113068--2113140 Score: 71
Period size: 11 Copynumber: 6.3 Consensus size: 12
2113058 GTTTGGCTGG
2113068 GAAAGAAAGAAA
1 GAAAGAAAGAAA
*
2113080 GAAAGTAAGAAA
1 GAAAGAAAGAAA
* *
2113092 -AAAAAAAGAAT
1 GAAAGAAAGAAA
*
2113103 GAATGAAAG-AA
1 GAAAGAAAGAAA
*
2113114 GAAAAAAAGAAA
1 GAAAGAAAGAAA
*
2113126 -AAAAAAAGAAA
1 GAAAGAAAGAAA
2113137 GAAA
1 GAAA
2113141 AAAATTATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
11 27 0.55
12 22 0.45
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (12 bp):
GAAAGAAAGAAA
Found at i:2113099 original size:23 final size:23
Alignment explanation
Indices: 2113073--2113144 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
2113063 GCTGGGAAAG
*
2113073 AAAGAAAGAAAGTAAGAAAAAAA
1 AAAGAAAGAAAGAAAGAAAAAAA
* * *
2113096 AAAGAATGAATGAAAGAAGAAAA
1 AAAGAAAGAAAGAAAGAAAAAAA
*
2113119 AAAGAAA-AAAAAAAGAAAGAAAA
1 AAAGAAAGAAAGAAAGAAA-AAAA
2113142 AAA
1 AAA
2113145 TTATATGTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 8 0.20
23 32 0.80
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAGAAAGAAAGAAAGAAAAAAA
Found at i:2113908 original size:16 final size:16
Alignment explanation
Indices: 2113869--2113909 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2113859 TTTTTATTAA
2113869 AAATAATTAAAAATAT
1 AAATAATTAAAAATAT
* *
2113885 AAAAAATTAAAAATGT
1 AAATAATTAAAAATAT
*
2113901 AATTAATTA
1 AAATAATTA
2113910 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAATAATTAAAAATAT
Found at i:2114682 original size:19 final size:18
Alignment explanation
Indices: 2114658--2114706 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
2114648 TACTCAGGTG
2114658 AAAAAGAAAAAAAGAAACA
1 AAAAAGAAAAAAAGAAA-A
*
2114677 AAAAAGCAAAAAAGAAAA
1 AAAAAGAAAAAAAGAAAA
*
2114695 AAAAGGAAAAAA
1 AAAAAGAAAAAA
2114707 TTTATGTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAGAAAA
Found at i:2114774 original size:26 final size:27
Alignment explanation
Indices: 2114743--2114814 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
2114733 TGTATCTAAA
2114743 ATATTATATTTTTATATATTTT-TTAC
1 ATATTATATTTTTATATATTTTATTAC
* * *
2114769 ATATTA-ATAATTTATTTGATTTTATTAT
1 ATATTATAT-TTTTATAT-ATTTTATTAC
2114797 ATA-TATATTTTTATATAT
1 ATATTATATTTTTATATAT
2114815 AATTTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
25 2 0.05
26 14 0.38
27 13 0.35
28 8 0.22
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (27 bp):
ATATTATATTTTTATATATTTTATTAC
Found at i:2114812 original size:14 final size:15
Alignment explanation
Indices: 2114789--2114830 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
2114779 TTTATTTGAT
2114789 TTTATTATATATATA
1 TTTATTATATATATA
2114804 TTT-TTATATATA-A
1 TTTATTATATATATA
*
2114817 TTTATTTTATATAT
1 TTTATTATATATAT
2114831 GGGAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 17 0.71
15 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATTATATATATA
Found at i:2114813 original size:16 final size:16
Alignment explanation
Indices: 2114787--2114830 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
2114777 AATTTATTTG
2114787 ATTTTAT-TATATATAT
1 ATTTTATATATA-ATAT
*
2114803 ATTTTTATATATAATTT
1 A-TTTTATATATAATAT
2114820 ATTTTATATAT
1 ATTTTATATAT
2114831 GGGAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 10 0.40
18 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTATATATAATAT
Found at i:2116022 original size:22 final size:24
Alignment explanation
Indices: 2115997--2116040 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2115987 CGTGATGGAA
2115997 AAGAAAG-A-AAAAAAAAGAAAGG
1 AAGAAAGAAGAAAAAAAAGAAAGG
2116019 AAGAAAGAAGAAAAAAAAGAAA
1 AAGAAAGAAGAAAAAAAAGAAA
2116041 AAAATTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AAGAAAGAAGAAAAAAAAGAAAGG
Found at i:2116107 original size:24 final size:25
Alignment explanation
Indices: 2116080--2116144 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 25
2116070 TATTTGTATC
2116080 TATATTTTTTTATA-CTTAAAATAT
1 TATATTTTTTTATATCTTAAAATAT
* * *
2116104 TATATTTTTATATATTTTAACATAT
1 TATATTTTTTTATATCTTAAAATAT
2116129 TAATAATTTATTTTAT
1 T-AT-ATTT-TTTTAT
2116145 TTTATGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 13 0.39
25 9 0.27
26 2 0.06
27 4 0.12
28 5 0.15
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TATATTTTTTTATATCTTAAAATAT
Found at i:2117901 original size:27 final size:26
Alignment explanation
Indices: 2117853--2117908 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 26
2117843 ATATTAAAAT
2117853 TAATATTTTATTATAATTAATTATAA
1 TAATATTTTATTATAATTAATTATAA
*
2117879 TAATA-TTTATTATATTTACAATTATAA
1 TAATATTTTATTATAATT--AATTATAA
2117906 TAA
1 TAA
2117909 ATATAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.41
26 5 0.19
27 11 0.41
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TAATATTTTATTATAATTAATTATAA
Found at i:2118589 original size:22 final size:23
Alignment explanation
Indices: 2118564--2118615 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
2118554 TAAAAATTTA
*
2118564 ATTTTTATATTATAT-TATTTTT
1 ATTTTTATATTATATAAATTTTT
** *
2118586 ATTTAAATATTTTATAAATTTTT
1 ATTTTTATATTATATAAATTTTT
2118609 ATTTTTA
1 ATTTTTA
2118616 ATTCAGTACT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTTATATTATATAAATTTTT
Found at i:2118918 original size:17 final size:18
Alignment explanation
Indices: 2118886--2118920 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2118876 ATGATATATA
*
2118886 CAATTCAAGGTTTTTTTT
1 CAATTCAAGCTTTTTTTT
2118904 CAATT-AAGCTTTTTTTT
1 CAATTCAAGCTTTTTTTT
2118921 TTTTGGTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (18 bp):
CAATTCAAGCTTTTTTTT
Found at i:2123046 original size:10 final size:10
Alignment explanation
Indices: 2123019--2123048 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
2123009 TATTTTATAA
2123019 AAATAAAATT
1 AAATAAAATT
2123029 AAATTAAAATT
1 AAA-TAAAATT
2123040 AAATAAAAT
1 AAATAAAAT
2123049 AATTATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAATAAAATT
Found at i:2123076 original size:43 final size:43
Alignment explanation
Indices: 2122989--2123082 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
2122979 TTCACTGAAG
* *
2122989 TAAAATTATAATAAAATAATTATTTTATAAAAATAAAATTAAAT
1 TAAAATTATAATAAAATAATTA-TTAATAAAAATAAAATAAAAT
* *
2123033 TAAAATTA-AATAAAATAATTA-TAATAATAACTTAATATAAAAT
1 TAAAATTATAATAAAATAATTATTAATAA-AA-ATAAAATAAAAT
*
2123076 TTAAATT
1 TAAAATT
2123083 CTTAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
41 5 0.12
42 2 0.05
43 28 0.65
44 8 0.19
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (43 bp):
TAAAATTATAATAAAATAATTATTAATAAAAATAAAATAAAAT
Found at i:2123569 original size:23 final size:24
Alignment explanation
Indices: 2123539--2123607 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
2123529 TTAAAATTTT
2123539 AAAAAATTTATTAAATATATA-TA
1 AAAAAATTTATTAAATATATATTA
* *
2123562 AAAAAATTTA-TAAAAATAAATTA
1 AAAAAATTTATTAAATATATATTA
* *
2123585 AATATATTAATATTAAATATATA
1 AAAAAATT--TATTAAATATATA
2123608 ATTATATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 8 0.22
23 18 0.50
25 2 0.06
26 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAATTTATTAAATATATATTA
Found at i:2123607 original size:17 final size:17
Alignment explanation
Indices: 2123581--2123621 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
2123571 ATAAAAATAA
*
2123581 ATTAAATATAT--TAAT
1 ATTAAATATATAATTAT
2123596 ATTAAATATATAATTAT
1 ATTAAATATATAATTAT
*
2123613 ATTCAATAT
1 ATTAAATAT
2123622 TTATCTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 11 0.50
17 11 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAAATATATAATTAT
Found at i:2124711 original size:13 final size:13
Alignment explanation
Indices: 2124679--2124713 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
2124669 GTTTACGGTA
2124679 ATAT-TAAATATG
1 ATATATAAATATG
2124691 ATTATATAAATATG
1 A-TATATAAATATG
2124705 ATATATAAA
1 ATATATAAA
2124714 AAATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 11 0.52
14 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (13 bp):
ATATATAAATATG
Found at i:2124777 original size:28 final size:27
Alignment explanation
Indices: 2124728--2124798 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
2124718 AATTAAAATA
*
2124728 TAAAATAATATAAATATTTAAATATTT
1 TAAAATAATATAAATATTTAAAAATTT
*
2124755 TAAAATTAATAT-AATTTTATAAAAATTT
1 TAAAA-TAATATAAATATT-TAAAAATTT
*
2124783 ATATAAATAAAATAAA
1 -TA-AAATAATATAAA
2124799 AAATAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 10 0.28
28 14 0.39
29 7 0.19
30 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAATAATATAAATATTTAAAAATTT
Found at i:2125021 original size:23 final size:23
Alignment explanation
Indices: 2124982--2125037 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
2124972 TTTTAAAATC
* *
2124982 AATATA-ATTATATTTAAATTTA
1 AATATATATAATATTTAAATGTA
*
2125004 TATATATATAATATTTAAATGTA
1 AATATATATAATATTTAAATGTA
*
2125027 AAAATATATAA
1 AATATATATAA
2125038 AAATAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATATATATAATATTTAAATGTA
Found at i:2129573 original size:18 final size:18
Alignment explanation
Indices: 2129547--2129581 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2129537 TCATTTCTAA
*
2129547 TATTTTATACAAAAATAT
1 TATTATATACAAAAATAT
*
2129565 TATTATATATAAAAATA
1 TATTATATACAAAAATA
2129582 ATCTTAAAAA
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:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTATATACAAAAATAT
Found at i:2129700 original size:24 final size:24
Alignment explanation
Indices: 2129655--2129701 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2129645 AATAATTTTA
* *
2129655 CATAATATAATCATTAACAAAATT
1 CATAAAATAATCATTAAAAAAATT
*
2129679 CATAAAATAATACATAAAAAAAA
1 CATAAAATAAT-CATTAAAAAAA
2129702 CATATAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.26
Consensus pattern (24 bp):
CATAAAATAATCATTAAAAAAATT
Found at i:2145137 original size:2 final size:2
Alignment explanation
Indices: 2145130--2145162 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2145120 AGGACTAAGA
2145130 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 A
2145163 AAACTTACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2149139 original size:10 final size:10
Alignment explanation
Indices: 2149118--2149150 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2149108 AATTTTAAAC
2149118 TTTAAAAA-T
1 TTTAAAAATT
2149127 TTTAAAAATT
1 TTTAAAAATT
2149137 TTTAAAAATAT
1 TTTAAAAAT-T
2149148 TTT
1 TTT
2149151 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.36
10 10 0.45
11 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAAAAATT
Found at i:2149153 original size:13 final size:13
Alignment explanation
Indices: 2149135--2149159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2149125 ATTTTAAAAA
2149135 TTTTTAAAAATAT
1 TTTTTAAAAATAT
2149148 TTTTTAAAAATA
1 TTTTTAAAAATA
2149160 ATTATACGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTTAAAAATAT
Found at i:2154445 original size:2 final size:2
Alignment explanation
Indices: 2154438--2154465 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2154428 GAGGCAAGCA
2154438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2154466 TCATACACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2156272 original size:21 final size:22
Alignment explanation
Indices: 2156221--2156274 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
2156211 TTATATTTAG
** *
2156221 AAAATAATTTTTTTAGTGAAGA
1 AAAATAATTTTTTTAGAAAAAA
**
2156243 AAAGGAATTTTTTT-GAAAAAA
1 AAAATAATTTTTTTAGAAAAAA
2156264 AAAATAATTTT
1 AAAATAATTTT
2156275 ATAATATTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (22 bp):
AAAATAATTTTTTTAGAAAAAA
Done.