Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 4 of 113
Found at i:896383 original size:230 final size:230
Alignment explanation
Indices: 895956--896597 Score: 957
Period size: 230 Copynumber: 2.8 Consensus size: 230
895946 AACAATGGGG
* *
895956 AAAATATGCAACTTGCTCTAACTAAGCTATAAACCTCAAAGTTTTCACAACATTTCAACCGGGAA
1 AAAATATGCAACTTGCTCTAACTAAGCTATGAACCTCAAAGTTTTCACAACATTTCAACCGGAAA
* * *
896021 ATTGTCATAAATTTTATTGAATTAAATGGAAAACCTACCC-AAAATTCTTACATACAGATAAAAT
66 AATGTCATAAATTTTATTGAATGAAATGGAAAACCT-CCCTGAAATTCTTACATACAGATAAAAT
* ** *
896085 AAGAATAAGATTATAAAATCAGTATATGATACAAAATACCAGTAAATGATGCACAAGCAGTAAAA
130 AAGAATAAGATTACAAAATCAGTATATGATACAAAATACCTCTAAATGAAGCACAAGCAGTAAAA
896150 AACCATAAGTTAACATTTAAGATGAGCATGTATGCT
195 AACCATAAGTTAACATTTAAGATGAGCATGTATGCT
* * * *
896186 AAAATATGCAACTTGTTCTAACTAAGCTATGAACCCCAAAGTTTTCACAACATCTCAACCAGTAA
1 AAAATATGCAACTTGCTCTAACTAAGCTATGAACCTCAAAGTTTTCACAACATTTCAACC-GGAA
* * *
896251 AAATGTCATAAGTTTTATTGAACGAAATGGAAAACCTCCCTGAAATTCTTCCATACAGATAAAAT
65 AAATGTCATAAATTTTATTGAATGAAATGGAAAACCTCCCTGAAATTCTTACATACAGATAAAAT
*
896316 AAGAATAAGATTACAAAATCAGTATATGATACAAAAT-CCTCTAAATGAAGCACAAGCAGTGAAA
130 AAGAATAAGATTACAAAATCAGTATATGATACAAAATACCTCTAAATGAAGCACAAGCAGTAAAA
* ** *
896380 AACCATATGTTCGCATTTAAGATGTGCATGTATGCT
195 AACCATAAGTTAACATTTAAGATGAGCATGTATGCT
* *
896416 AAAATATGCAACTTGCTCTAATTAAGC-AGTGAGCCTCAAAGTTTTCACAACATTTCAACCGGAA
1 AAAATATGCAACTTGCTCTAACTAAGCTA-TGAACCTCAAAGTTTTCACAACATTTCAACCGGAA
* * *
896480 AAATGTCATAAATTTTATTAAATGAAATGGAAAACCTACCTGAAATTCTTACATATAGATAAAAT
65 AAATGTCATAAATTTTATTGAATGAAATGGAAAACCTCCCTGAAATTCTTACATACAGATAAAAT
* * * * *
896545 AAGAATAAGGTTACCAAATCATTATATGATGCAAAATAACTCTAAATGAAGCA
130 AAGAATAAGATTACAAAATCAGTATATGATACAAAATACCTCTAAATGAAGCA
896598 TATGTTCACA
Statistics
Matches: 370, Mismatches: 38, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
229 96 0.26
230 181 0.49
231 93 0.25
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (230 bp):
AAAATATGCAACTTGCTCTAACTAAGCTATGAACCTCAAAGTTTTCACAACATTTCAACCGGAAA
AATGTCATAAATTTTATTGAATGAAATGGAAAACCTCCCTGAAATTCTTACATACAGATAAAATA
AGAATAAGATTACAAAATCAGTATATGATACAAAATACCTCTAAATGAAGCACAAGCAGTAAAAA
ACCATAAGTTAACATTTAAGATGAGCATGTATGCT
Found at i:900591 original size:5 final size:5
Alignment explanation
Indices: 900583--900621 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
900573 TTTAATTTAG
900583 ATATA ATATAGA ATATCA ATATA ATATA ATATA ATATA A
1 ATATA ATAT--A ATAT-A ATATA ATATA ATATA ATATA A
900622 AAATAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 21 0.68
6 5 0.16
7 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:900626 original size:23 final size:23
Alignment explanation
Indices: 900583--900626 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
900573 TTTAATTTAG
**
900583 ATATAATATAGAATATCAATATA
1 ATATAATATAGAATAAAAATATA
900606 ATATAATATA-ATATAAAAATA
1 ATATAATATAGA-ATAAAAATA
900627 AAATCTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATAATATAGAATAAAAATATA
Found at i:918669 original size:21 final size:21
Alignment explanation
Indices: 918644--918683 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
918634 ATGATGAAGC
918644 CGTTGGTGTAATTGTTGGTTA
1 CGTTGGTGTAATTGTTGGTTA
* *
918665 CGTTGTTGTAATTTTTGGT
1 CGTTGGTGTAATTGTTGGT
918684 CAAAGAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.05, G:0.30, T:0.53
Consensus pattern (21 bp):
CGTTGGTGTAATTGTTGGTTA
Found at i:923995 original size:31 final size:31
Alignment explanation
Indices: 923959--924033 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
923949 ATTATTTATG
*
923959 TTAAGGGTTTATTTAGGTATAAATTAAATGT
1 TTAAGGGCTTATTTAGGTATAAATTAAATGT
* * *
923990 TTAAGGGCTTATTTGGGTGTAAATTAAA-GA
1 TTAAGGGCTTATTTAGGTATAAATTAAATGT
*
924020 TTAAAGGCTTATTT
1 TTAAGGGCTTATTT
924034 GAATGTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.43
Consensus pattern (31 bp):
TTAAGGGCTTATTTAGGTATAAATTAAATGT
Found at i:924031 original size:30 final size:30
Alignment explanation
Indices: 923967--924047 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
923957 TGTTAAGGGT
* * * *
923967 TTATTTAGGTATAAATTAAATGTTTAAGGGC
1 TTATTTGGGTGTAAATTAAA-GATTAAAGGC
923998 TTATTTGGGTGTAAATTAAAGATTAAAGGC
1 TTATTTGGGTGTAAATTAAAGATTAAAGGC
**
924028 TTATTTGAATGT-AATTAAAG
1 TTATTTGGGTGTAAATTAAAG
924048 TATAAGGACT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
29 8 0.18
30 18 0.41
31 18 0.41
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (30 bp):
TTATTTGGGTGTAAATTAAAGATTAAAGGC
Found at i:924059 original size:29 final size:29
Alignment explanation
Indices: 923978--924060 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
923968 TATTTAGGTA
* **
923978 TAAATTAAATGTTTAAGGGCTTATTTGGGTG
1 TAAATTAAA-GTATAA-GGCTTATTTGAATG
924009 TAAATTAAAG-ATTAAAGGCTTATTTGAATG
1 TAAATTAAAGTA-T-AAGGCTTATTTGAATG
924039 T-AATTAAAGTATAAGGACTTAT
1 TAAATTAAAGTATAAGG-CTTAT
924061 CTAAGTAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 4 0.09
29 14 0.31
30 16 0.36
31 11 0.24
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (29 bp):
TAAATTAAAGTATAAGGCTTATTTGAATG
Found at i:928767 original size:14 final size:14
Alignment explanation
Indices: 928738--928777 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
928728 TTTGAGATAA
* *
928738 AAATTGAATTATTT
1 AAATTTAATTAATT
*
928752 AAATTTATTTAATT
1 AAATTTAATTAATT
928766 AAATTTAATTAA
1 AAATTTAATTAA
928778 CATATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:928785 original size:47 final size:45
Alignment explanation
Indices: 928699--928788 Score: 110
Period size: 47 Copynumber: 2.0 Consensus size: 45
928689 AAATTTAACT
* **
928699 AATTTTTAATTTTTTTAATTTAAATTTAATTTGAGATAAAAATTG
1 AATTTTTAATTTATTTAATTTAAATTTAATTACAGATAAAAATTG
*
928744 AATTATTTAAATTTATTTAA-TTAAATTTAATTAACATATAAAAAT
1 AATT-TTT-AATTTATTTAATTTAAATTTAATT-ACAGATAAAAAT
928789 AAATATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 4 0.11
46 15 0.39
47 19 0.50
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (45 bp):
AATTTTTAATTTATTTAATTTAAATTTAATTACAGATAAAAATTG
Found at i:929417 original size:13 final size:13
Alignment explanation
Indices: 929399--929437 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
929389 TTTGATTTAA
929399 TAAATTAAAATTT
1 TAAATTAAAATTT
*
929412 TAAATTATATATTT
1 TAAATTA-AAATTT
929426 TAATATTAAAAT
1 TAA-ATTAAAAT
929438 AAAATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 7 0.32
14 11 0.50
15 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATTAAAATTT
Found at i:931520 original size:18 final size:17
Alignment explanation
Indices: 931497--931567 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 17
931487 AATAATTTAT
931497 ATATTAAAATCATATAAA
1 ATATTAAAAT-ATATAAA
*
931515 ATATTAAAATTTATAAA
1 ATATTAAAATATATAAA
* *
931532 AAATTAAATATGTCATTAATA
1 ATATTAAA-ATAT-A-TAA-A
931553 ATATATAAAATATAT
1 ATAT-TAAAATATAT
931568 TTTTTTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 13 0.30
18 13 0.30
19 2 0.05
20 4 0.09
21 7 0.16
22 4 0.09
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (17 bp):
ATATTAAAATATATAAA
Found at i:934932 original size:2 final size:2
Alignment explanation
Indices: 934925--934955 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
934915 AAATTGATCA
934925 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 A
934956 ACATCTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:939095 original size:29 final size:28
Alignment explanation
Indices: 939037--939095 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
939027 ATATAAAATA
** * *
939037 TTATTTATAATTTAAATTTGATTAATAT
1 TTATTTATAATAAAAATTTGATCAACAT
*
939065 TTATTTAATAATAAAAATTTTATCAACAT
1 TTATTT-ATAATAAAAATTTGATCAACAT
939094 TT
1 TT
939096 TTACTATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (28 bp):
TTATTTATAATAAAAATTTGATCAACAT
Found at i:941683 original size:2 final size:2
Alignment explanation
Indices: 941678--941714 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
941668 TGAGACTCTG
941678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
941715 ATTAGGCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:944890 original size:29 final size:29
Alignment explanation
Indices: 944850--944905 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
944840 TTTGAATAAA
*
944850 AATAAAATATTAAAAACTTAATTAATTAT
1 AATAAAATATTAAAAACTTAAATAATTAT
944879 AATAAAATATTAAAAACTTAAATAATT
1 AATAAAATATTAAAAACTTAAATAATT
944906 TCGTCCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
AATAAAATATTAAAAACTTAAATAATTAT
Found at i:948226 original size:4 final size:4
Alignment explanation
Indices: 948217--948243 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
948207 CTCAAGTCTC
948217 AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AAT
948244 GAGAGAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:966410 original size:3 final size:3
Alignment explanation
Indices: 966397--966435 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
966387 GCAGACAAGC
*
966397 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA AT
966436 CAGTGCTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:969473 original size:16 final size:16
Alignment explanation
Indices: 969452--969482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
969442 CTACAAAAAA
969452 AGAAAAAGAAAACAAT
1 AGAAAAAGAAAACAAT
*
969468 AGAAAAAGTAAACAA
1 AGAAAAAGAAAACAA
969483 AATAAAGAAA
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:0.74, C:0.06, G:0.13, T:0.06
Consensus pattern (16 bp):
AGAAAAAGAAAACAAT
Found at i:975395 original size:110 final size:111
Alignment explanation
Indices: 975180--975405 Score: 411
Period size: 110 Copynumber: 2.0 Consensus size: 111
975170 CTTGCAGTGA
975180 ACATATGTGGTCTTTCCAAGAGATGAATTCACTTCATAAAGCACAAAAATAAGTAAATGTGTTAC
1 ACATATGTGGTCTTTCCAAGAGATGAATTCACTTCATAAAGCACAAAAATAAGTAAATGTGTTAC
*
975245 CAGAAAAGATACACACGACTAACAATAAAGACAAACCCCAGAAGAC
66 CAGAAAAGATACACACAACTAACAATAAAGACAAACCCCAGAAGAC
*
975291 -CATATGTGGTCTTTCCAAGAGATGCATTCACTTCATAAAGCACAAAAATAAGTAAATGTGTTAC
1 ACATATGTGGTCTTTCCAAGAGATGAATTCACTTCATAAAGCACAAAAATAAGTAAATGTGTTAC
975355 CAGAAAAGATTACACACAACTAACAATAAAGACAAA-CCCAGAAGAC
66 CAGAAAAGA-TACACACAACTAACAATAAAGACAAACCCCAGAAGAC
975401 ACATA
1 ACATA
975406 CCATGTATGA
Statistics
Matches: 111, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
110 82 0.74
111 29 0.26
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (111 bp):
ACATATGTGGTCTTTCCAAGAGATGAATTCACTTCATAAAGCACAAAAATAAGTAAATGTGTTAC
CAGAAAAGATACACACAACTAACAATAAAGACAAACCCCAGAAGAC
Found at i:986603 original size:15 final size:15
Alignment explanation
Indices: 986583--986620 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
986573 TTATCAGCCA
*
986583 TTTCTTTTTCT-TCT
1 TTTCTTTCTCTCTCT
986597 TTGTCTTTCTCTCTCT
1 TT-TCTTTCTCTCTCT
986613 TTTCTTTC
1 TTTCTTTC
986621 AAAACCAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 14 0.67
16 5 0.24
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTCTTTCTCTCTCT
Found at i:988560 original size:3 final size:3
Alignment explanation
Indices: 988552--988585 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
988542 GAAGGTCTAT
988552 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
988586 GAAAATGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:990247 original size:19 final size:19
Alignment explanation
Indices: 990207--990249 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
990197 CCGAACTTAA
* **
990207 TTATATATTTTTAAAATTT
1 TTATATATATTTAAAAAAT
990226 TTATATATATTTAAAAAAT
1 TTATATATATTTAAAAAAT
990245 TTATA
1 TTATA
990250 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATATATATTTAAAAAAT
Found at i:990399 original size:10 final size:8
Alignment explanation
Indices: 990360--990392 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
990350 ATTTAAATCA
990360 AATTTTAT
1 AATTTTAT
990368 AATTTTAT
1 AATTTTAT
990376 AATTTTAT
1 AATTTTAT
*
990384 AATATTAT
1 AATTTTAT
990392 A
1 A
990393 TAATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATTTTAT
Found at i:991491 original size:26 final size:28
Alignment explanation
Indices: 991437--991492 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
991427 TTTGTATATA
***
991437 TTTTAGATATTTTAAAATTATATCCTTT
1 TTTTAGATATTTTAAAATTATAAAATTT
991465 TTTTA-ATA-TTTAAAATTATAAAATTT
1 TTTTAGATATTTTAAAATTATAAAATTT
991491 TT
1 TT
991493 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.68
27 3 0.12
28 5 0.20
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTAGATATTTTAAAATTATAAAATTT
Found at i:998353 original size:2 final size:2
Alignment explanation
Indices: 998346--998381 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
998336 ACAGAACAGG
998346 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
998382 TGAATCCGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1003195 original size:26 final size:24
Alignment explanation
Indices: 1003158--1003227 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 24
1003148 CATGATTTTT
* *
1003158 AATATTTAAAAATAAAAAATCATTAA
1 AATATTTTAAAATAAAAAA--AGTAA
*
1003184 AATATTTTAAAATATAAAAAGTAA
1 AATATTTTAAAATAAAAAAAGTAA
1003208 AA-ATTTTAAATATAAAAAAA
1 AATATTTTAAA-ATAAAAAAA
1003228 AGACATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.21
24 14 0.36
26 17 0.44
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (24 bp):
AATATTTTAAAATAAAAAAAGTAA
Found at i:1003217 original size:23 final size:23
Alignment explanation
Indices: 1003181--1003225 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1003171 AAAAAATCAT
1003181 TAAAATATTTTAAAATATAAAAAG
1 TAAAATATTTT-AAATATAAAAAG
1003205 TAAAA-ATTTTAAATATAAAAA
1 TAAAATATTTTAAATATAAAAA
1003226 AAAGACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
23 5 0.24
24 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAAATATTTTAAATATAAAAAG
Found at i:1005572 original size:109 final size:107
Alignment explanation
Indices: 1005366--1005613 Score: 248
Period size: 109 Copynumber: 2.3 Consensus size: 107
1005356 GAAATGTCTC
* * * * * * *
1005366 AATAATTATCGGAT-ATTAGTTATGAGCACGTGTTCATTATTGATGGATTGAGTAGATACGAGCA
1 AATAATTAACGGATAAGTAGTTCTGAGCACGTGTTCATAATTAATGGATTAAGTAGATACGAGAA
*
1005430 CGTGTTAGTAATTAAGGGATTGAGTAATTCTGAGCACGTGTT
66 CGTGTTAGTAATTAACGGATTGAGTAATTCTGAGCACGTGTT
* * * * *
1005472 AATGATTAATGGATCGAGTAGTTCTGAGCACGTGTT-AGTAATTAAATGGATTAAGTAGGTATGA
1 AATAATTAACGGAT-AAGTAGTTCTGAGCACGTGTTCA-TAATT-AATGGATTAAGTAGATACGA
* * * ** **
1005536 GAATGTGTTAGTAGTTAACGGATTGGGTGGTTCTGAGCTGGTGTT
63 GAACGTGTTAGTAATTAACGGATTGAGTAATTCTGAGCACGTGTT
* * *
1005581 AGTAATTAACGTATAAGTAGTTCTGCGCACGTG
1 AATAATTAACGGATAAGTAGTTCTGAGCACGTG
1005614 GGCATGCTTG
Statistics
Matches: 113, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
106 11 0.10
107 1 0.01
108 39 0.35
109 62 0.55
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (107 bp):
AATAATTAACGGATAAGTAGTTCTGAGCACGTGTTCATAATTAATGGATTAAGTAGATACGAGAA
CGTGTTAGTAATTAACGGATTGAGTAATTCTGAGCACGTGTT
Found at i:1005573 original size:73 final size:73
Alignment explanation
Indices: 1005425--1005589 Score: 181
Period size: 73 Copynumber: 2.3 Consensus size: 73
1005415 GAGTAGATAC
* * * * *
1005425 GAGCACGTGTTAGTAATT-AAGGGATTGAGTAATTCTGAGCACGTGTTAATGATTAATGGATCGA
1 GAGCACGTGTTAGTAATTAAAGGGATTAAGTAAGTATGAGAACGTGTTAATGATTAACGGATCGA
1005489 GTAGTTCT
66 GTAGTTCT
* * * * *
1005497 GAGCACGTGTTAGTAATTAAATGGATTAAGTAGGTATGAGAATGTGTTAGT-AGTTAACGGATTG
1 GAGCACGTGTTAGTAATTAAAGGGATTAAGTAAGTATGAGAACGTGTTAATGA-TTAACGGATCG
* *
1005561 GGTGGTTCT
65 AGTAGTTCT
**
1005570 GAGCTGGTGTTAGTAATTAA
1 GAGCACGTGTTAGTAATTAA
1005590 CGTATAAGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
72 19 0.25
73 58 0.75
ACGTcount: A:0.29, C:0.07, G:0.30, T:0.34
Consensus pattern (73 bp):
GAGCACGTGTTAGTAATTAAAGGGATTAAGTAAGTATGAGAACGTGTTAATGATTAACGGATCGA
GTAGTTCT
Found at i:1005590 original size:36 final size:36
Alignment explanation
Indices: 1005382--1005613 Score: 191
Period size: 36 Copynumber: 6.4 Consensus size: 36
1005372 TATCGGATAT
* * * *
1005382 TAGTTATGAGCACGTGTTCA-TTATTGATGGATTGAG
1 TAGTTCTGAGCACGTGTT-AGTAATTAACGGATTGAG
* *
1005418 TAGATAC-GAGCACGTGTTAGTAATTAAGGGATTGAG
1 TAG-TTCTGAGCACGTGTTAGTAATTAACGGATTGAG
* * * * *
1005454 TAATTCTGAGCACGTGTTAATGATTAATGGATCGAG
1 TAGTTCTGAGCACGTGTTAGTAATTAACGGATTGAG
* *
1005490 TAGTTCTGAGCACGTGTTAGTAATTAAATGGATTAAG
1 TAGTTCTGAGCACGTGTTAGTAATT-AACGGATTGAG
* * * * * *
1005527 TAGGTATGAGAATGTGTTAGTAGTTAACGGATTGGG
1 TAGTTCTGAGCACGTGTTAGTAATTAACGGATTGAG
* ** * *
1005563 TGGTTCTGAGCTGGTGTTAGTAATTAACGTA-TAAG
1 TAGTTCTGAGCACGTGTTAGTAATTAACGGATTGAG
*
1005598 TAGTTCTGCGCACGTG
1 TAGTTCTGAGCACGTG
1005614 GGCATGCTTG
Statistics
Matches: 154, Mismatches: 38, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
35 17 0.11
36 107 0.69
37 30 0.19
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (36 bp):
TAGTTCTGAGCACGTGTTAGTAATTAACGGATTGAG
Found at i:1012647 original size:45 final size:44
Alignment explanation
Indices: 1012577--1012669 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
1012567 GAATGAAAGA
*
1012577 AGAAAGCATTAGTCTGCAGCAATGTAGAGAGAAAACATATAAAT
1 AGAAAGCATTAGTCTGCAACAATGTAGAGAGAAAACATATAAAT
* * * *
1012621 AGAAAGCATTTAGTCTGCAACCATGTAGGGAGAAAATATGTAAAT
1 AGAAAGCA-TTAGTCTGCAACAATGTAGAGAGAAAACATATAAAT
1012666 AGAA
1 AGAA
1012670 TAAAAACTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 8 0.19
45 35 0.81
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (44 bp):
AGAAAGCATTAGTCTGCAACAATGTAGAGAGAAAACATATAAAT
Found at i:1015511 original size:23 final size:23
Alignment explanation
Indices: 1015491--1015554 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
1015481 CTCATTGTCT
1015491 TCATTTTTAAAATTATTTTGTGC
1 TCATTTTTAAAATTATTTTGTGC
* * *
1015514 TCATTTTTGAAACTA-ATTGTGC
1 TCATTTTTAAAATTATTTTGTGC
1015536 TCATTTTTAAAATTATTTT
1 TCATTTTTAAAATTATTTT
1015555 CAGTATCCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (23 bp):
TCATTTTTAAAATTATTTTGTGC
Found at i:1023520 original size:23 final size:23
Alignment explanation
Indices: 1023476--1023520 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1023466 TTTTAATTAA
* * *
1023476 ATTAAATAATTTTATTCGTGAAC
1 ATTAAATAAATATATTCATGAAC
*
1023499 ATTAAATAAATATATTTATGAA
1 ATTAAATAAATATATTCATGAA
1023521 TATATTCATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (23 bp):
ATTAAATAAATATATTCATGAAC
Found at i:1023685 original size:22 final size:22
Alignment explanation
Indices: 1023660--1023702 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1023650 TGGTATTATT
* *
1023660 ATAAATAAACAGTAAACGAATA
1 ATAAACAAACAATAAACGAATA
*
1023682 ATAAACAAATAATAAACGAAT
1 ATAAACAAACAATAAACGAAT
1023703 GGATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAAACAAACAATAAACGAATA
Found at i:1023686 original size:11 final size:11
Alignment explanation
Indices: 1023672--1023702 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1023662 AAATAAACAG
1023672 TAAACGAATAA
1 TAAACGAATAA
*
1023683 TAAACAAATAA
1 TAAACGAATAA
1023694 TAAACGAAT
1 TAAACGAAT
1023703 GGATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.19
Consensus pattern (11 bp):
TAAACGAATAA
Found at i:1030560 original size:33 final size:33
Alignment explanation
Indices: 1030521--1030585 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1030511 TGTTAGCTTT
** *
1030521 ATGATATATGTTGTAGTATGAATTTGCAACATG
1 ATGATATATACTGTAGTATGAATTTACAACATG
1030554 ATGATATATACTGTAGTATGAATTTACAACAT
1 ATGATATATACTGTAGTATGAATTTACAACAT
1030586 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (33 bp):
ATGATATATACTGTAGTATGAATTTACAACATG
Found at i:1030669 original size:42 final size:43
Alignment explanation
Indices: 1030597--1030680 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 43
1030587 ATAAAAAATA
**
1030597 TTTATGTATTAATTTTTTTTATAATTAAAGAAATTGAAGTTTG
1 TTTATGTATTAATTTTTTCGATAATTAAAGAAATTGAAGTTTG
1030640 TTTATGTATTAA-TTTTTCGATAATTAAAGAAATTGAAGTTT
1 TTTATGTATTAATTTTTTCGATAATTAAAGAAATTGAAGTTT
1030681 TATTTTGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 27 0.69
43 12 0.31
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.51
Consensus pattern (43 bp):
TTTATGTATTAATTTTTTCGATAATTAAAGAAATTGAAGTTTG
Found at i:1030904 original size:20 final size:20
Alignment explanation
Indices: 1030875--1030912 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1030865 AACTCTCTTA
*
1030875 TCATTGTCTAAAATGACTTG
1 TCATTATCTAAAATGACTTG
1030895 TCATTATCTAAAATGACT
1 TCATTATCTAAAATGACT
1030913 GCAATATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
TCATTATCTAAAATGACTTG
Found at i:1033298 original size:33 final size:33
Alignment explanation
Indices: 1033254--1033319 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1033244 GACTTCTTAG
1033254 ACAATTATAGAAAGAAACGCAAAGTTCGGCAAA
1 ACAATTATAGAAAGAAACGCAAAGTTCGGCAAA
* *
1033287 ACAATTGTAGAAAGAAACTCAAAGTTCGGCAAA
1 ACAATTATAGAAAGAAACGCAAAGTTCGGCAAA
1033320 GTCTTACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (33 bp):
ACAATTATAGAAAGAAACGCAAAGTTCGGCAAA
Found at i:1033743 original size:2 final size:2
Alignment explanation
Indices: 1033736--1033775 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1033726 AATCATCCGG
1033736 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1033776 CCTCATTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1034594 original size:5 final size:5
Alignment explanation
Indices: 1034581--1034614 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
1034571 CAAAAAGTAA
*
1034581 AAAAG -AAAG AAAAG AAGAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1034615 GAAGCATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1035189 original size:19 final size:19
Alignment explanation
Indices: 1035165--1035204 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1035155 TGTAACAGCT
1035165 TTATGCCATGGACCCAGGC
1 TTATGCCATGGACCCAGGC
**
1035184 TTATGCTGTGGACCCAGGC
1 TTATGCCATGGACCCAGGC
1035203 TT
1 TT
1035205 CTTTAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (19 bp):
TTATGCCATGGACCCAGGC
Found at i:1038762 original size:2 final size:2
Alignment explanation
Indices: 1038755--1038789 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1038745 TAGCAGCAAG
*
1038755 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1038790 ATTTTTAAAT
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1040457 original size:237 final size:237
Alignment explanation
Indices: 1040089--1040714 Score: 686
Period size: 237 Copynumber: 2.7 Consensus size: 237
1040079 CAAATTTTAT
* * *
1040089 CACTAAATTTATTTGATG-AAAAA--TATTTGTGACGTTTTTTATTTTAGGTGACGCTACAATTT
1 CACTAAATTTATTTG-TGAAAAAACTTTTTTATGACGTTTTTTATTTTAGGTGACGTTACAATTT
*
1040151 TATTA-TCAATTTAAAA--TTATCTGTGACGAAA-TGTTTTTGATAGATTTTAAGTGACGTTATT
65 TATTACT-AATTTAAAATTTTATCTGTGAC-AAATTTTTTTTGATAGATTTTAAGTGACGTTATT
* * * * *
1040212 AATTTTTGTCATAAATTAAACACTTTAGTTAACTATTAATGATATTGTAATTTCGTCA-CGTTAA
128 AATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACAATGCAATTTCGTCACCGTTAA
* * *
1040276 TGCATGATGGTATATGATGATAATATAAATGTCACAAAACTTTGAC
193 TGCATGATAGTATATGACGATAACATAAATGTCAC-AAACTTTGAC
** *
1040322 CACTAAATTTATTT-TGCGAAAACTTTTTTATGACATTTTTTTATTTTAGGTGACGTTTA-AATT
1 CACTAAATTTATTTGTGAAAAAACTTTTTTATGAC-GTTTTTTATTTTAGGTGACG-TTACAATT
* * *
1040385 TTGTTACTAATTTAAAATTTTAT-TCGTGACAAATTTTTTTTAATAGATTTTAAGTGACATTATT
64 TTATTACTAATTTAAAATTTTATCT-GTGACAAATTTTTTTTGATAGATTTTAAGTGACGTTATT
* * *
1040449 AATTTTTGTCACAAATGGAACACTTTAGTTAACTATTAATGACAATGCAATTTCGTCACCTTTAT
128 AATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACAATGCAATTTCGTCACCGTTAA
** * * * *
1040514 TTTATGGTATTATATGACGATAACATAAATGTCACAAATTTTTAC
193 TGCATGATAGTATATGACGATAACATAAATGTCACAAACTTTGAC
* * * * * * * * *
1040559 TATTAATTTTATTTGGTGAAAAAATTTTTTTATGACGTTTTATA-ATTA-ATCGACATTATAATT
1 CACTAAATTTATTT-GTGAAAAAACTTTTTTATGACGTTTTTTATTTTAGGT-GACGTTACAATT
* * * *
1040622 TTATCACCAATTTAAAATTTTATCTGTAACAAATTTTTTTTGATAGATTTT-AGATGATGTTATT
64 TTATTACTAATTTAAAATTTTATCTGTGACAAATTTTTTTTGATAGATTTTAAG-TGACGTTATT
* *
1040686 AATTTTTATCACAAATTGAATACTTTAGT
128 AATTTTTGTCACAAATTGAACACTTTAGT
1040715 CATATCAATA
Statistics
Matches: 329, Mismatches: 47, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
231 2 0.01
232 4 0.01
233 14 0.04
234 8 0.02
235 37 0.11
236 13 0.04
237 195 0.59
238 39 0.12
239 17 0.05
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (237 bp):
CACTAAATTTATTTGTGAAAAAACTTTTTTATGACGTTTTTTATTTTAGGTGACGTTACAATTTT
ATTACTAATTTAAAATTTTATCTGTGACAAATTTTTTTTGATAGATTTTAAGTGACGTTATTAAT
TTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACAATGCAATTTCGTCACCGTTAATGC
ATGATAGTATATGACGATAACATAAATGTCACAAACTTTGAC
Found at i:1040756 original size:209 final size:208
Alignment explanation
Indices: 1040516--1040920 Score: 485
Period size: 209 Copynumber: 1.9 Consensus size: 208
1040506 ACCTTTATTT
* * * * *
1040516 TATGGTATTATATGACGATAACATAAATGTCACAAATTTTTA-CTATTAATTTTATTTGGTGAAA
1 TATGATATTATATGACGATAACATAAATGTCACAAACTTTTATCT-TCAAATTTATTTGATGAAA
* *
1040580 AAATTTTT-TTATGACGTTTTATA-ATTA-ATCGACATTATAATTTTATCACCAATTTAAAATTT
65 AAATTTTTATGAT-ACGTTTTATATATTAGAT-AACATTATAATTTTATCACCAATTTAAAATTT
* * * * * *
1040642 TATCTGTAACAAATTTTTTTTGATAGATTTTAGATGATGTTATTAATTTTTATCACAAATTGAAT
128 TATATGTAACAAA-TTTTTTTAATAAATTTTAGATGACGCTATTAATTTTT-TCACAAATTGAAC
1040707 ACTTTAGTCATATCAATA
191 ACTTTAGTCATATCAATA
** * *
1040725 TATGATATTATATGACGATAATTTAAATGTCACAGACTTTTATCTTCAAATTTATTTGATGTAAA
1 TATGATATTATATGACGATAACATAAATGTCACAAACTTTTATCTTCAAATTTATTTGATGAAAA
** * * * * * *
1040790 AATTTTTATGATATTTTTTTTATTTTAGGTAACGTTATAATTTTGTCACTAATTTAAAATTTTAT
66 AATTTTTATGATACGTTTTATATATTAGATAACATTATAATTTTATCACCAATTTAAAATTTTAT
** *
1040855 ATGTAATGAATTTTTTTAATAAATTTTAGGTGACGCTATTAATTTTTTCACAAATTGAACACTTT
131 ATGTAACAAATTTTTTTAATAAATTTTAGATGACGCTATTAATTTTTTCACAAATTGAACACTTT
1040920 A
196 A
1040921 ATTAACAATT
Statistics
Matches: 164, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
208 18 0.11
209 99 0.60
210 46 0.28
211 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.47
Consensus pattern (208 bp):
TATGATATTATATGACGATAACATAAATGTCACAAACTTTTATCTTCAAATTTATTTGATGAAAA
AATTTTTATGATACGTTTTATATATTAGATAACATTATAATTTTATCACCAATTTAAAATTTTAT
ATGTAACAAATTTTTTTAATAAATTTTAGATGACGCTATTAATTTTTTCACAAATTGAACACTTT
AGTCATATCAATA
Found at i:1044397 original size:204 final size:201
Alignment explanation
Indices: 1044021--1044646 Score: 611
Period size: 204 Copynumber: 3.1 Consensus size: 201
1044011 AAGATAAAGC
* * * * * **
1044021 ATAATATGACGTTTGATTTTATTGTTACA-TTTGACGTTATCTTATAATTATTTGTAACAATAAT
1 ATAAGATGACGTTTGATTTTATTGTCA-AGTTTGACATTATCTTATAATTATTCGTGATGATAAT
* * * * *
1044085 TATGTTACTAATATTATAATGATTTATCTTTTGTCATTAATATATAAGACTTTATCATTTATTTT
65 TATATCACTAATATTATAACGATTTATCTTTTGTCACTAATATATAAGATTTTATCATTTATTTT
* *** * * * * *
1044150 GTAATGATTATAATATTTAATGACGTTCTTTTTTATGAATAGTTGACGAAAAATAATGTCATATA
130 GTGATGATTATAGCCTTTAATTAAGTT-TTTTTTATAAATAGTTGACGAAAACTAACGTCATA-A
1044215 AAAAAAAAGT
193 AAAAAAAA-T
* * *
1044225 ATAAGTTGATGTTTGATTTTATTGTCATGTTTGACATTATCTTATAATTATTCGTGATGATAATT
1 ATAAGATGACGTTTGATTTTATTGTCAAGTTTGACATTATCTTATAATTATTCGTGATGATAATT
* * * * *
1044290 GTCTCACCAATATTATGACGATTTATCTTTTGTCACTAATATATTAGATTTTATCATTTATTTTG
66 ATATCACTAATATTATAACGATTTATCTTTTGTCACTAATATATAAGATTTTATCATTTATTTTG
* * *
1044355 TGATGATTATAGCCTTTAATTATGTTTTTGTTTATAAATAGTTGACGAAAACTAACGTTACAAAA
131 TGATGATTATAGCCTTTAATTAAGTTTTT-TTTATAAATAGTTGACGAAAACTAACGTCATAAAA
* *
1044420 ATTAACAT
195 A-AAAAAT
** * * *
1044428 ATAAGATGACGTTTGATTTTATTGTCACAG-TAAACATTATCTTACAATCATTGGTGATGATAAT
1 ATAAGATGACGTTTGATTTTATTGTCA-AGTTTGACATTATCTTATAATTATTCGTGATGATAAT
* ** * * * * *
1044492 TTTATCACTAATATTGCAACAATTTACCTTTCGTCACCAATATATCAA-ATTTTCTCATTT-TTT
65 TATATCACTAATATTATAACGATTTATCTTTTGTCACTAATATAT-AAGATTTTATCATTTATTT
* * * * * * *
1044555 TGTGACGAATATAGCCTTCAA-TAACTTTTTTTCATAAATAGCTGACGAAAACTAACGTC---AC
129 TGTGATGATTATAGCCTTTAATTAAGTTTTTTTTATAAATAGTTGACGAAAACTAACGTCATAAA
1044616 AAAAAAAT
194 AAAAAAAT
** *
1044624 ATTGGATGACGTTTTATTTTATT
1 ATAAGATGACGTTTGATTTTATT
1044647 ATCACAATAG
Statistics
Matches: 351, Mismatches: 66, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
196 24 0.07
197 3 0.01
200 26 0.07
201 7 0.02
202 21 0.06
203 108 0.31
204 162 0.46
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (201 bp):
ATAAGATGACGTTTGATTTTATTGTCAAGTTTGACATTATCTTATAATTATTCGTGATGATAATT
ATATCACTAATATTATAACGATTTATCTTTTGTCACTAATATATAAGATTTTATCATTTATTTTG
TGATGATTATAGCCTTTAATTAAGTTTTTTTTATAAATAGTTGACGAAAACTAACGTCATAAAAA
AAAAAT
Found at i:1045135 original size:20 final size:19
Alignment explanation
Indices: 1045095--1045134 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1045085 TAAATAATAA
*
1045095 TTACTTCTTTTCATTTTTT
1 TTACTTCTTTACATTTTTT
1045114 TTACTATCTTTAC-TTTTTT
1 TTACT-TCTTTACATTTTTT
1045133 TT
1 TT
1045135 TTTTTTGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (19 bp):
TTACTTCTTTACATTTTTT
Found at i:1050268 original size:8 final size:8
Alignment explanation
Indices: 1050255--1050284 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1050245 GAACCAAGGA
1050255 TTTTTTTC
1 TTTTTTTC
1050263 TTTTTTTC
1 TTTTTTTC
1050271 TTTTTTT-
1 TTTTTTTC
1050278 TTTTTTT
1 TTTTTTT
1050285 GGGGGGGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1050276 original size:16 final size:15
Alignment explanation
Indices: 1050255--1050284 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
1050245 GAACCAAGGA
1050255 TTTTTTTCTTTTTTTC
1 TTTTTTT-TTTTTTTC
1050271 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
1050285 GGGGGGGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:1051304 original size:10 final size:9
Alignment explanation
Indices: 1051280--1051311 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1051270 ACCTAATAGA
1051280 TGAAAAAAG
1 TGAAAAAAG
1051289 TGAAAAAAG
1 TGAAAAAAG
1051298 TGAAAAAAG
1 TGAAAAAAG
*
1051307 AGAAA
1 TGAAA
1051312 CATGAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (9 bp):
TGAAAAAAG
Found at i:1061680 original size:14 final size:16
Alignment explanation
Indices: 1061650--1061694 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
1061640 CCATACATAT
1061650 TTAATTATATATTAAA
1 TTAATTATATATTAAA
1061666 TTAATTAT-T-TTAAA
1 TTAATTATATATTAAA
*
1061680 TT-ATAATA-ATTAAA
1 TTAATTATATATTAAA
1061694 T
1 T
1061695 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 13 0.50
15 1 0.04
16 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATTATATATTAAA
Found at i:1061740 original size:29 final size:29
Alignment explanation
Indices: 1061688--1061754 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
1061678 AATTATAATA
*
1061688 ATTAAA-T-ATTAAAAATATTAAAATATT
1 ATTAAATTAATTAAAAATAGTAAAATATT
*
1061715 ATTAAATTAATTAAATAATAGT-AAATGTT
1 ATTAAATTAATTAAA-AATAGTAAAATATT
*
1061744 ATCAAATTAAT
1 ATTAAATTAAT
1061755 ATTTAATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.18
28 1 0.03
29 22 0.65
30 5 0.15
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
ATTAAATTAATTAAAAATAGTAAAATATT
Found at i:1061821 original size:16 final size:17
Alignment explanation
Indices: 1061777--1061837 Score: 70
Period size: 16 Copynumber: 3.4 Consensus size: 17
1061767 ACTAATAAAA
1061777 TAATATTTAATATTATTAGTT
1 TAATA-TTAA-ATTATTA--T
*
1061798 TAATATTAATTTATTAT
1 TAATATTAAATTATTAT
1061815 T-ATATTAAATTATTAT
1 TAATATTAAATTATTAT
1061831 TAATATT
1 TAATATT
1061838 TTATTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 15 0.41
17 7 0.19
19 6 0.16
20 4 0.11
21 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATATTAAATTATTAT
Found at i:1061822 original size:22 final size:22
Alignment explanation
Indices: 1061787--1061847 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
1061777 TAATATTTAA
1061787 TATTATTAGT-TTAATATTAAT-T
1 TATTATTA-TATTAA-ATTAATAT
*
1061809 TATTATTATATTAAATTATTAT
1 TATTATTATATTAAATTAATAT
* *
1061831 TAATATTTTATTAAATT
1 TATTATTATATTAAATT
1061848 TGATTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTATTATATTAAATTAATAT
Found at i:1061853 original size:27 final size:26
Alignment explanation
Indices: 1061800--1061866 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
1061790 TATTAGTTTA
*
1061800 ATATTAAT-TTATTATTATATTAAATT
1 ATATTAATATT-TTATTAAATTAAATT
**
1061826 ATTATTAATATTTTATTAAATTTGATT
1 A-TATTAATATTTTATTAAATTAAATT
1061853 A-ATTAATAATTTTA
1 ATATTAAT-ATTTTA
1061867 ATAATAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 6 0.17
26 7 0.20
27 20 0.57
28 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (26 bp):
ATATTAATATTTTATTAAATTAAATT
Found at i:1087355 original size:40 final size:40
Alignment explanation
Indices: 1087300--1087379 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
1087290 TTGCAATATC
1087300 AGTTTACTCGCTCTGCTTGGGCTAGTTGTGTAACATTTGG
1 AGTTTACTCGCTCTGCTTGGGCTAGTTGTGTAACATTTGG
1087340 AGTTTACTCGCTCTGCTTGGGCTAGTTGTGTAACATTTGG
1 AGTTTACTCGCTCTGCTTGGGCTAGTTGTGTAACATTTGG
1087380 GTGTTGTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.15, C:0.17, G:0.28, T:0.40
Consensus pattern (40 bp):
AGTTTACTCGCTCTGCTTGGGCTAGTTGTGTAACATTTGG
Found at i:1089314 original size:9 final size:9
Alignment explanation
Indices: 1089280--1089308 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
1089270 AGCCTTTAAG
1089280 AGAGAGAGA
1 AGAGAGAGA
1089289 AGAGAGAGA
1 AGAGAGAGA
1089298 AGAGAGAGA
1 AGAGAGAGA
1089307 AG
1 AG
1089309 GAAGAGTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (9 bp):
AGAGAGAGA
Found at i:1093061 original size:71 final size:71
Alignment explanation
Indices: 1092971--1093177 Score: 240
Period size: 71 Copynumber: 2.9 Consensus size: 71
1092961 AATATAGTAG
*
1092971 ATATTAAAATTATATTTTCAAAATTTTAAAATTTTAACAAAATTCTTTTTTTAAGATAAAAAAAT
1 ATATTAAAATT-TATTTTCAAAATTTTAAAATTTTAACAAAATTCTTTTTTTAAGATAAAAAAAC
*
1093036 GTAAAGG
65 GTAAAGA
* * *
1093043 ATTTTGAAAATTT-TTTTCAAAATTTTGAAATTTTAAC-GAATATCTTATTTTTAAGAT-AAAAA
1 ATATT-AAAATTTATTTTCAAAATTTTAAAATTTTAACAAAAT-TCTT-TTTTTAAGATAAAAAA
**
1093105 ACGTAGTGA
63 ACGTAAAGA
* * *
1093114 ATATTAAAACTTTATTTTCAAATTTTTAAAATTTTAACAAAAATCATATTTTTTAAAATAAAAA
1 ATATTAAAA-TTTATTTTCAAAATTTTAAAATTTTAACAAAATTC-T-TTTTTTAAGATAAAAA
1093178 CATAATTCTT
Statistics
Matches: 113, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
70 7 0.06
71 44 0.39
72 39 0.35
73 18 0.16
74 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (71 bp):
ATATTAAAATTTATTTTCAAAATTTTAAAATTTTAACAAAATTCTTTTTTTAAGATAAAAAAACG
TAAAGA
Found at i:1093146 original size:72 final size:70
Alignment explanation
Indices: 1092971--1093177 Score: 238
Period size: 72 Copynumber: 2.9 Consensus size: 70
1092961 AATATAGTAG
1092971 ATATTAAAATTATATTTTCAAAATTTTAAAATTTTAACAAAATTCTT-TTTTTAAGATAAAAAAA
1 ATATTAAAATT-TATTTTCAAAATTTTAAAATTTTAACAAAA-TCTTATTTTTAAGAT-AAAAAA
* *
1093035 TGTAAAGG
63 CGTAAAGA
* * *
1093043 ATTTTGAAAATTT-TTTTCAAAATTTTGAAATTTTAACGAATATCTTATTTTTAAGATAAAAAAC
1 ATATT-AAAATTTATTTTCAAAATTTTAAAATTTTAAC-AAAATCTTATTTTTAAGATAAAAAAC
**
1093107 GTAGTGA
64 GTAAAGA
* * *
1093114 ATATTAAAACTTTATTTTCAAATTTTTAAAATTTTAACAAAAATCATATTTTTTAAAATAAAAA
1 ATATTAAAA-TTTATTTTCAAAATTTTAAAATTTTAAC-AAAATCTTA-TTTTTAAGATAAAAA
1093178 CATAATTCTT
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
70 4 0.03
71 44 0.38
72 47 0.41
73 20 0.17
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (70 bp):
ATATTAAAATTTATTTTCAAAATTTTAAAATTTTAACAAAATCTTATTTTTAAGATAAAAAACGT
AAAGA
Found at i:1094805 original size:21 final size:21
Alignment explanation
Indices: 1094779--1094825 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1094769 TATTTATATA
1094779 TTTATATTTAAAAAATAAAAT
1 TTTATATTTAAAAAATAAAAT
** *
1094800 TTTATATTTTTAAAATAATAT
1 TTTATATTTAAAAAATAAAAT
1094821 TTTAT
1 TTTAT
1094826 TAATTTCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATATTTAAAAAATAAAAT
Found at i:1096167 original size:18 final size:17
Alignment explanation
Indices: 1096142--1096175 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1096132 TATATAAATT
*
1096142 AATTAAATTTAAATTTA
1 AATTAAATTCAAATTTA
1096159 AATTCAAATTCAAATTT
1 AATT-AAATTCAAATTT
1096176 TGAGTACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTCAAATTTA
Found at i:1098495 original size:30 final size:27
Alignment explanation
Indices: 1098441--1098503 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
1098431 TTTTATCTTG
** *
1098441 TATATTTAAATAATTATTTTATAAATA
1 TATATTTAAATAATTATTCAATAAAAA
1098468 TATATATTAATATATATTATTCAATAAAAA
1 TATAT-TTAA-ATA-ATTATTCAATAAAAA
1098498 TATATT
1 TATATT
1098504 GATTCTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 5 0.17
28 4 0.13
29 4 0.13
30 17 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATTTAAATAATTATTCAATAAAAA
Found at i:1108200 original size:13 final size:13
Alignment explanation
Indices: 1108182--1108208 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1108172 TGGGAGAGAT
1108182 AGGGAAGAAACTC
1 AGGGAAGAAACTC
1108195 AGGGAAGAAACTC
1 AGGGAAGAAACTC
1108208 A
1 A
1108209 CACTTTGTAC
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:0.48, C:0.15, G:0.30, T:0.07
Consensus pattern (13 bp):
AGGGAAGAAACTC
Found at i:1111231 original size:11 final size:12
Alignment explanation
Indices: 1111193--1111229 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
1111183 TAAATTTAAG
1111193 TTTAATTTAAAA
1 TTTAATTTAAAA
1111205 TTTAATAATTAAAA
1 TTTAAT--TTAAAA
1111219 TTTAATTTAAA
1 TTTAATTTAAA
1111230 TTCGATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTAATTTAAAA
Found at i:1111395 original size:13 final size:13
Alignment explanation
Indices: 1111379--1111426 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
1111369 AAAATATTTT
1111379 ATTAATTAAAATA
1 ATTAATTAAAATA
*
1111392 ATTAAATATAAATA
1 ATTAATTA-AAATA
* * *
1111406 TTTAATTAAATTT
1 ATTAATTAAAATA
1111419 ATTAATTA
1 ATTAATTA
1111427 TTTAAATCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAATTAAAATA
Found at i:1119237 original size:3 final size:3
Alignment explanation
Indices: 1119229--1119254 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1119219 AGAGAATAAA
1119229 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
1119255 CTGATGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1120018 original size:29 final size:29
Alignment explanation
Indices: 1119956--1120020 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
1119946 ATTATTTAAA
1119956 TCATTTTAAATATACGATATATAATTATT
1 TCATTTTAAATATACGATATATAATTATT
**
1119985 T-ATTTTAAAT-TATTATATATAATATATT
1 TCATTTTAAATATACGATATATAAT-TATT
1120013 TCATTTTA
1 TCATTTTA
1120021 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.34
28 14 0.44
29 7 0.22
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
TCATTTTAAATATACGATATATAATTATT
Found at i:1130181 original size:14 final size:16
Alignment explanation
Indices: 1130141--1130195 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
1130131 TATTTATTTA
*
1130141 TATATATTTATATAAT
1 TATATATTTAAATAAT
1130157 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
*
1130172 T-TATATTTAAAAAAT
1 TATATATTTAAATAAT
*
1130187 AATAT-TTTA
1 TATATATTTA
1130196 TTAATTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 9 0.26
16 15 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:1130359 original size:14 final size:14
Alignment explanation
Indices: 1130340--1130380 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1130330 TAACAAAACA
*
1130340 TAAATAAAGTTTTT
1 TAAATAAAATTTTT
1130354 TAAATAAAA-TTTT
1 TAAATAAAATTTTT
1130367 TAAA-AATAATTTTT
1 TAAATAA-AATTTTT
1130381 AAAAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.08
13 10 0.42
14 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TAAATAAAATTTTT
Found at i:1130368 original size:13 final size:13
Alignment explanation
Indices: 1130340--1130407 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
1130330 TAACAAAACA
*
1130340 TAAATAAAGTTTTT
1 TAAATAAA-ATTTT
1130354 TAAATAAAATTTT
1 TAAATAAAATTTT
1130367 TAAA-AATAATTTT
1 TAAATAA-AATTTT
1130380 TAAA-AATAA--TT
1 TAAATAA-AATTTT
*
1130391 T-AATAAAAATTT
1 TAAATAAAATTTT
1130403 TAAAT
1 TAAAT
1130408 TGATAAATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
10 4 0.08
11 5 0.10
12 5 0.10
13 26 0.54
14 8 0.17
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (13 bp):
TAAATAAAATTTT
Found at i:1130418 original size:25 final size:24
Alignment explanation
Indices: 1130385--1130443 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
1130375 ATTTTTAAAA
*
1130385 ATAATTTAATAAAAATTTTAA-ATTG
1 ATAAATTAATAAAAA-TTTAATA-TG
1130410 ATAAATTAAT-AAAATTTAATATG
1 ATAAATTAATAAAAATTTAATATG
1130433 A-AAATTAATAA
1 ATAAATTAATAA
1130444 TATATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 8 0.26
23 9 0.29
24 5 0.16
25 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (24 bp):
ATAAATTAATAAAAATTTAATATG
Found at i:1130528 original size:12 final size:12
Alignment explanation
Indices: 1130511--1130558 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
1130501 AAGATATAAA
1130511 TTTTATCAAAAT
1 TTTTATCAAAAT
*
1130523 TTTTATTAAAAAT
1 TTTTA-TCAAAAT
1130536 TTTTATCTAAAAT
1 TTTTATC-AAAAT
* *
1130549 ATATATCAAA
1 TTTTATCAAA
1130559 TTTATTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTATCAAAAT
Found at i:1130548 original size:13 final size:13
Alignment explanation
Indices: 1130511--1130548 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1130501 AAGATATAAA
1130511 TTTTATC-AAAAT
1 TTTTATCTAAAAT
1130523 TTTTAT-TAAAAAT
1 TTTTATCT-AAAAT
1130536 TTTTATCTAAAAT
1 TTTTATCTAAAAT
1130549 ATATATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.26
13 16 0.70
14 1 0.04
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTATCTAAAAT
Found at i:1130624 original size:12 final size:12
Alignment explanation
Indices: 1130605--1130634 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1130595 TATAATAAGA
1130605 TAATTTTATTTT
1 TAATTTTATTTT
*
1130617 TTATTTTATTTT
1 TAATTTTATTTT
1130629 TAATTT
1 TAATTT
1130635 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TAATTTTATTTT
Found at i:1132951 original size:24 final size:22
Alignment explanation
Indices: 1132902--1132951 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
1132892 GAAAATGACC
*
1132902 CAAAATGAGCAGAAATAAAAAA
1 CAAAATGAGCAGAAAAAAAAAA
*
1132924 -AAAATGAGTAGGAAAAAGAAAAA
1 CAAAATGAGCA-GAAAAA-AAAAA
1132947 CAAAA
1 CAAAA
1132952 ATGGGATCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.39
22 5 0.22
23 5 0.22
24 4 0.17
ACGTcount: A:0.70, C:0.06, G:0.16, T:0.08
Consensus pattern (22 bp):
CAAAATGAGCAGAAAAAAAAAA
Found at i:1133207 original size:60 final size:60
Alignment explanation
Indices: 1133133--1133299 Score: 153
Period size: 61 Copynumber: 2.8 Consensus size: 60
1133123 ATTATAGGGA
* * *
1133133 ATTATTTAAGGTATTTTTGATCAAAAACACCTTAAATAATCTCCTTCC-A-TTGTTTTTAAG
1 ATTATTCAATGTATTTTT-ACCAAAAACACCTTAAATAATCTCCTTCCAATTTG-TTTTAAG
* * * *
1133193 ATTATTCAATGTATTTTTTTACCCAAAACACCTTCAAGAATCT-CTTCCAATTTGTTTTAGG
1 ATTATTCAATGTA--TTTTTACCAAAAACACCTTAAATAATCTCCTTCCAATTTGTTTTAAG
** * *
1133254 ATTATTCAATGCGTTTTTAGCTAGAAAACACCTTGAATAAT-TCCTT
1 ATTATTCAATGTATTTTTA-CCA-AAAACACCTTAAATAATCTCCTT
1133300 ACAAAAAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
59 6 0.07
60 18 0.21
61 55 0.63
62 8 0.09
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (60 bp):
ATTATTCAATGTATTTTTACCAAAAACACCTTAAATAATCTCCTTCCAATTTGTTTTAAG
Found at i:1133271 original size:61 final size:61
Alignment explanation
Indices: 1133156--1133271 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
1133146 TTTTTGATCA
* *
1133156 AAAACACCTTAAATAATCTCCTTCCATTGTTTTTAAGATTATTCAATGTATTTTTTTACCC
1 AAAACACCTTAAAGAATCTCCTTCCATTGTTTTTAAGATTATTCAATGCATTTTTTTACCC
* * *
1133217 AAAACACCTTCAAGAATCT-CTTCCAATT-TGTTTTAGGATTATTCAATGCGTTTTT
1 AAAACACCTTAAAGAATCTCCTTCC-ATTGT-TTTTAAGATTATTCAATGCATTTTT
1133272 AGCTAGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 6 0.12
61 42 0.88
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (61 bp):
AAAACACCTTAAAGAATCTCCTTCCATTGTTTTTAAGATTATTCAATGCATTTTTTTACCC
Found at i:1139632 original size:16 final size:16
Alignment explanation
Indices: 1139613--1139647 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1139603 GAGGATGTCA
1139613 AAAATAA-TTTTCAAAT
1 AAAATAACTTTT-AAAT
1139629 AAAATAACTTTTAAAT
1 AAAATAACTTTTAAAT
1139645 AAA
1 AAA
1139648 GGTTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATAACTTTTAAAT
Found at i:1151495 original size:2 final size:2
Alignment explanation
Indices: 1151488--1151528 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1151478 ATCCTATAGA
*
1151488 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1151529 ATCAATTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1161488 original size:6 final size:6
Alignment explanation
Indices: 1161488--1161547 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
1161478 TGATGGGGAT
* * * *
1161488 GATGGG AATGGG AATGGG AATGGG GATGGG GATGGG GATGGG CATGGG
1 GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG
* *
1161536 CATGGG CATGGG
1 GATGGG GATGGG
1161548 TGTCATGGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.22, C:0.05, G:0.57, T:0.17
Consensus pattern (6 bp):
GATGGG
Found at i:1161506 original size:12 final size:12
Alignment explanation
Indices: 1161488--1161547 Score: 75
Period size: 12 Copynumber: 5.0 Consensus size: 12
1161478 TGATGGGGAT
1161488 GATGGGAATGGG
1 GATGGGAATGGG
*
1161500 AATGGGAATGGG
1 GATGGGAATGGG
*
1161512 GATGGGGATGGG
1 GATGGGAATGGG
*
1161524 GATGGGCATGGG
1 GATGGGAATGGG
* *
1161536 CATGGGCATGGG
1 GATGGGAATGGG
1161548 TGTCATGGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.22, C:0.05, G:0.57, T:0.17
Consensus pattern (12 bp):
GATGGGAATGGG
Found at i:1171616 original size:14 final size:13
Alignment explanation
Indices: 1171599--1171657 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 13
1171589 TTTTAAATTT
1171599 TATATTTAATTATA
1 TATATTTAA-TATA
1171613 TATATTT-ATATA
1 TATATTTAATATA
* *
1171625 TATAATTTTATATT
1 TAT-ATTTAATATA
*
1171639 TATATTTAAAATA
1 TATATTTAATATA
1171652 -ATATTT
1 TATATTT
1171658 TATTAATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 13 0.33
13 12 0.31
14 14 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATTTAATATA
Found at i:1171620 original size:20 final size:18
Alignment explanation
Indices: 1171597--1171647 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 18
1171587 TTTTTTAAAT
1171597 TTTATATTTAATTATATATA
1 TTTATATTTAATT-T-TATA
1171617 TTTATATATATAATTTTATA
1 TTTATAT-T-TAATTTTATA
1171637 TTTATATTTAA
1 TTTATATTTAA
1171648 AATAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.10
19 1 0.03
20 18 0.62
21 2 0.07
22 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATTTAATTTTATA
Found at i:1178198 original size:13 final size:13
Alignment explanation
Indices: 1178162--1178236 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 13
1178152 TTATACATAT
**
1178162 TATATTAATAAAA
1 TATATTAATTTAA
1178175 T-TATT-ATTTAA
1 TATATTAATTTAA
1178186 TATATTAATTTAA
1 TATATTAATTTAA
1178199 TTAAATATTATATTT-A
1 -T--ATATTA-ATTTAA
1178215 TATA-TAA-TTAA
1 TATATTAATTTAA
1178226 TATA-TAATTTA
1 TATATTAATTTA
1178237 CATTGAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
10 2 0.04
11 14 0.27
12 13 0.25
13 10 0.19
14 1 0.02
15 1 0.02
16 7 0.13
17 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATTAATTTAA
Found at i:1178210 original size:21 final size:23
Alignment explanation
Indices: 1178149--1178231 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 23
1178139 ATTATTTATT
*
1178149 TAATTATACATATTATATTAATA
1 TAATTATATATATTATATTAATA
* * * *
1178172 AAATTATTATTTAATATATTAATT
1 TAATTA-TATATATTATATTAATA
1178196 TAATTA-A-ATATTATATTTATATA
1 TAATTATATATATTATA-TTA-ATA
1178219 TAATTAATATATA
1 TAATT-ATATATA
1178232 ATTTACATTG
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
21 6 0.13
22 4 0.09
23 12 0.27
24 19 0.42
25 1 0.02
26 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTATATATATTATATTAATA
Found at i:1178224 original size:47 final size:47
Alignment explanation
Indices: 1178141--1178233 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
1178131 TATACTTTAT
* * *
1178141 TATTTATTTAATTATACATATTATATTAATAAAATTATTATTTAATA
1 TATTAATTTAATTATACATATTATATTAATAAAATTAATATATAATA
*
1178188 TATTAATTTAATTA-A-ATATTATATTTATATATAATTAATATATAAT
1 TATTAATTTAATTATACATATTATA-TTA-ATAAAATTAATATATAAT
1178234 TTACATTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
45 8 0.20
46 4 0.10
47 28 0.70
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (47 bp):
TATTAATTTAATTATACATATTATATTAATAAAATTAATATATAATA
Found at i:1178546 original size:13 final size:14
Alignment explanation
Indices: 1178522--1178553 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
1178512 TTTTAATTAT
1178522 ATTTAGAAAAATAA
1 ATTTAGAAAAATAA
1178536 ATTTA-AAAAATAA
1 ATTTAGAAAAATAA
1178549 ATTTA
1 ATTTA
1178554 TATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
ATTTAGAAAAATAA
Found at i:1179248 original size:2 final size:2
Alignment explanation
Indices: 1179241--1179275 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1179231 TGCTTTTATT
1179241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1179276 TTGTTGCTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1184548 original size:21 final size:21
Alignment explanation
Indices: 1184506--1184550 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1184496 TTGGTAAAAT
*
1184506 ATTAAAATTTTAATTTTAATA
1 ATTAAAATTTCAATTTTAATA
*
1184527 ATTAAAA-TTCAATTTGTGATA
1 ATTAAAATTTCAATTT-TAATA
1184548 ATT
1 ATT
1184551 TCGAATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTAAAATTTCAATTTTAATA
Found at i:1203835 original size:3 final size:3
Alignment explanation
Indices: 1203827--1203893 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
1203817 TATCTACACT
*
1203827 ATC ATC ATC ATC ATC AAT- ATC AGC ATC -TGC ATC A-C TATC ATC ATC
1 ATC ATC ATC ATC ATC -ATC ATC ATC ATC AT-C ATC ATC -ATC ATC ATC
*
1203872 ATC ATC ATC ATC GTC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC A
1203894 GCAACCATGC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 4 0.07
3 46 0.85
4 4 0.07
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:1203853 original size:18 final size:18
Alignment explanation
Indices: 1203826--1203893 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
1203816 TTATCTACAC
1203826 TATCATCATCATCATCAA
1 TATCATCATCATCATCAA
* *
1203844 TATCAGCATC-TGCATCAC
1 TATCATCATCAT-CATCAA
1203862 TATCATCATCATCATC-A
1 TATCATCATCATCATCAA
*
1203879 TCATCGTCATCATCA
1 T-ATCATCATCATCA
1203894 GCAACCATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
17 2 0.05
18 39 0.93
19 1 0.02
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.32
Consensus pattern (18 bp):
TATCATCATCATCATCAA
Found at i:1204965 original size:16 final size:16
Alignment explanation
Indices: 1204944--1204986 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
1204934 TTGATTGATA
1204944 TTTATTTTATTAAATT
1 TTTATTTTATTAAATT
*
1204960 TTTATTTT-TGAAATT
1 TTTATTTTATTAAATT
*
1204975 TATAATTTTATT
1 T-TTATTTTATT
1204987 TATTTAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 7 0.32
16 14 0.64
17 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTTTATTAAATT
Found at i:1219743 original size:64 final size:64
Alignment explanation
Indices: 1219646--1219813 Score: 264
Period size: 64 Copynumber: 2.6 Consensus size: 64
1219636 AGAGAGTAAC
* *
1219646 TAAATTAAAATGACACATAAAATGAATATTTATTTAAAGATTCGATATAAAAAAATATAATAAA
1 TAAATTAAAATGACACATAAAACGAATATTTATTTAAAGATTCGATATAAAAAAAGATAATAAA
* * * * *
1219710 TAAATTAAAATAACACATGAAACGAATATTTATTAAAAGATTCTATATAAAAAAAGATAATAAC
1 TAAATTAAAATGACACATAAAACGAATATTTATTTAAAGATTCGATATAAAAAAAGATAATAAA
*
1219774 TAAATTGAAATGACACATAAAACGAATATTTATTTAAAGA
1 TAAATTAAAATGACACATAAAACGAATATTTATTTAAAGA
1219814 ACTTTTTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 93 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (64 bp):
TAAATTAAAATGACACATAAAACGAATATTTATTTAAAGATTCGATATAAAAAAAGATAATAAA
Found at i:1225253 original size:16 final size:16
Alignment explanation
Indices: 1225223--1225265 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1225213 AAAAAAAATT
* * *
1225223 TTTATAAAAAGAACTG
1 TTTATAAATATAACTA
1225239 TTTATAAATATAACTA
1 TTTATAAATATAACTA
*
1225255 TTTATTAATAT
1 TTTATAAATAT
1225266 TTTTTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (16 bp):
TTTATAAATATAACTA
Found at i:1225313 original size:18 final size:18
Alignment explanation
Indices: 1225286--1225625 Score: 117
Period size: 18 Copynumber: 18.6 Consensus size: 18
1225276 AATTTTATTT
*
1225286 ATAAAAAATATTATATAA
1 ATAAATAATATTATATAA
1225304 ATAAATAATATTATAT--
1 ATAAATAATATTATATAA
*
1225320 -T--ACAATA-TAT-T-A
1 ATAAATAATATTATATAA
* *
1225332 ATAAATAATATT-CATGA
1 ATAAATAATATTATATAA
*
1225349 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATAA
1225367 ATATAAT-ATATTA-ATAA
1 ATA-AATAATATTATATAA
*
1225384 ATGACATAATATTA-ATAA
1 AT-AAATAATATTATATAA
* **
1225402 ATAATATATTAAAAATATTAA
1 ATAA-ATAAT-ATTATA-TAA
*
1225423 TATAAATAA-AATATAT-A
1 -ATAAATAATATTATATAA
* *
1225440 CT-AAT-ATATTAATATTA
1 ATAAATAATATT-ATATAA
*
1225457 ATAAATTATATTATTATAATA
1 ATAAATAATATTA-TAT-A-A
*
1225478 ATAAATAATATTATATTA
1 ATAAATAATATTATATAA
1225496 ATAAATCATATATTA-ATAA
1 ATAAAT-A-ATATTATATAA
* * * *
1225515 AGAATATTATAATATATTA
1 ATAA-ATAATATTATATAA
* *
1225534 ATAGATAATA-TACTATTA
1 ATAAATAATATTA-TATAA
1225552 ATAAATAATATTATAATACAAA
1 ATAAATAATATTAT-AT---AA
*
1225574 ATAAATAATA-TATTATTA
1 ATAAATAATATTA-TATAA
*
1225592 ATGAATAATATATTAGTATATTA
1 ATAAAT-A-ATATTA-TATA--A
1225615 ATAAATAATAT
1 ATAAATAATAT
1225626 AAAGAATAAT
Statistics
Matches: 245, Mismatches: 35, Indels: 81
0.68 0.10 0.22
Matches are distributed among these distances:
11 1 0.00
12 3 0.01
13 6 0.02
14 1 0.00
15 11 0.04
16 8 0.03
17 24 0.10
18 84 0.34
19 37 0.15
20 15 0.06
21 32 0.13
22 17 0.07
23 6 0.02
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAAATAATATTATATAA
Found at i:1225366 original size:45 final size:47
Alignment explanation
Indices: 1225298--1225410 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 47
1225288 AAAAAATATT
*
1225298 ATATAAATAAATAATAT-TA-TATTACAATATATTAATAAAT-A-ATA
1 ATATGAATAAATAATATATATTA-TACAATATATTAATAAATGACATA
* *
1225342 TTCATGAATAAATAATATACTATTAATATAATATATTAATAAATGACATA
1 AT-ATGAATAAATAATATA-TATT-ATACAATATATTAATAAATGACATA
*
1225392 ATATTAATAAATAATATAT
1 ATATGAATAAATAATATAT
1225411 TAAAAATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
44 1 0.02
45 14 0.25
47 2 0.04
48 19 0.33
49 17 0.30
50 4 0.07
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (47 bp):
ATATGAATAAATAATATATATTATACAATATATTAATAAATGACATA
Found at i:1225378 original size:35 final size:34
Alignment explanation
Indices: 1225323--1225417 Score: 92
Period size: 35 Copynumber: 2.9 Consensus size: 34
1225313 ATTATATTAC
* *
1225323 AATA-TATTAATA-AATAATATTCATGAAT-AAAT
1 AATATTATTAATATAAT-ATATTAATAAATGAAAT
*
1225355 AATATACTATTAATATAATATATTAATAAATGACAT
1 AATAT--TATTAATATAATATATTAATAAATGAAAT
*
1225391 AATATTAATAA-ATAATATATTAA-AAAT
1 AATATTATTAATATAATATATTAATAAAT
1225418 ATTAATATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
32 8 0.15
33 12 0.22
34 5 0.09
35 18 0.33
36 11 0.20
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (34 bp):
AATATTATTAATATAATATATTAATAAATGAAAT
Found at i:1225450 original size:129 final size:107
Alignment explanation
Indices: 1225373--1225606 Score: 197
Period size: 96 Copynumber: 2.2 Consensus size: 107
1225363 ATTAATATAA
*
1225373 TATATTAATAAATGACATAATATTAATAAATAATATATTAAAAATATTAATATAAATAAAATATA
1 TATATTAATAAAT--CAT-ATATTAATAAAGAATATATTAAAAATATT-ATATAAAT-AAATA-A
* *
1225438 TACTAATATATTAATATTAATAAATTATATTATTATAATAATAAATAATAT
60 TA-T--TATATTAATATTAATAAATAATATTATAATAATAATAAATAATAT
* *
1225489 TATATTAATAAATCATATATTAATAAAG-A-ATATT-ATAATA-TAT-T-AAT--A-GATA--AT
1 TATATTAATAAATCATATATTAATAAAGAATATATTAAAAATATTATATAAATAAATAATATTAT
* *
1225543 A-TACTATTAATAAATAATATTATAATACAAAATAAATAATA-
66 ATTAATATTAATAAATAATATTATAATA-ATAATAAATAATAT
* *
1225584 TATTATTAATGAATAATATATTA
1 TA-TATTAATAAATCATATATTA
1225607 GTATATTAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
95 25 0.23
96 33 0.31
101 3 0.03
103 1 0.01
106 3 0.03
107 1 0.01
108 2 0.02
109 1 0.01
110 5 0.05
111 5 0.05
112 1 0.01
113 11 0.10
114 3 0.03
116 13 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (107 bp):
TATATTAATAAATCATATATTAATAAAGAATATATTAAAAATATTATATAAATAAATAATATTAT
ATTAATATTAATAAATAATATTATAATAATAATAAATAATAT
Found at i:1225514 original size:83 final size:76
Alignment explanation
Indices: 1225323--1225536 Score: 184
Period size: 83 Copynumber: 2.6 Consensus size: 76
1225313 ATTATATTAC
* * *
1225323 AATATATTAATAAATAATATTCATGAAT-AAATAATATACTATTAATATAATATATTAATAAATG
1 AATATATTAATAAAT-ATA-T-ATAAATAAAAT-ATATACTAAT-ATATTA-ATATTAATAAATG
*
1225387 ACATAATATTAATAAAT
60 ACATAATAATAATAAAT
* *
1225404 AATATATTAA-AAATATTAATATAAATAAAATATATACTAATATATTAATATTAATAAATTATAT
1 AATATATTAATAAATA-T-ATATAAATAAAATATATACTAATATATTAATATTAATAAATGACA-
1225468 TATTATAATAATAAAT
63 TA--ATAATAATAAAT
*
1225484 AATATTATATTAATAAATCATATATTAATAAAGA-ATATTA-TAATATATTAATA
1 -A-A-TATATTAATAAAT-ATATATAAATAAA-ATATA-TACTAATATATTAATA
1225537 GATAATATAC
Statistics
Matches: 113, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
77 14 0.12
78 7 0.06
79 15 0.13
80 21 0.19
81 12 0.11
82 1 0.01
83 34 0.30
84 8 0.07
85 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (76 bp):
AATATATTAATAAATATATATAAATAAAATATATACTAATATATTAATATTAATAAATGACATAA
TAATAATAAAT
Found at i:1225568 original size:15 final size:14
Alignment explanation
Indices: 1225285--1225604 Score: 141
Period size: 15 Copynumber: 22.2 Consensus size: 14
1225275 TAATTTTATT
* *
1225285 TATAAAAAATATTA
1 TATAATAAATAATA
1225299 TATAAATAAATAATA
1 TAT-AATAAATAATA
*
1225314 TTATATTACAAT-ATA
1 -TATAATA-AATAATA
1225329 T-TAATAAATAATA
1 TATAATAAATAATA
1225342 TTCATGAATAAATAATA
1 -T-AT-AATAAATAATA
*
1225359 TACTATTAATATAATA
1 TA-TAATAA-ATAATA
1225375 TATTAATAAATGACATAA
1 TA-TAATAAAT-A-AT-A
1225393 TATTAATAAATAATA
1 TA-TAATAAATAATA
*
1225408 TATTAA-AAATATTAA
1 TA-TAATAAATAAT-A
1225423 TATAAATAAA-ATATA
1 TAT-AATAAATA-ATA
*
1225438 TACTAATATATTAATA
1 TA-TAATA-AATAATA
*
1225454 T-TAATAAATTATA
1 TATAATAAATAATA
*
1225467 T-TATTATAATAATA
1 TATAATA-AATAATA
* *
1225481 AATAAT--ATTATA
1 TATAATAAATAATA
*
1225493 T-TAATAAATCATA
1 TATAATAAATAATA
*
1225506 TATTAATAAAGAATA
1 TA-TAATAAATAATA
*
1225521 TTATAATATATTAATA
1 -TATAATA-AATAATA
* *
1225537 GATAAT--ATACTA
1 TATAATAAATAATA
1225549 T-TAATAAATAATA
1 TATAATAAATAATA
*
1225562 TTATAATACA-AA-A
1 -TATAATAAATAATA
*
1225575 TA-AATAATATATTA
1 TATAATAA-ATAATA
*
1225589 T-TAATGAATAATA
1 TATAATAAATAATA
1225602 TAT
1 TAT
1225605 TAGTATATTA
Statistics
Matches: 236, Mismatches: 33, Indels: 74
0.69 0.10 0.22
Matches are distributed among these distances:
11 12 0.05
12 15 0.06
13 36 0.15
14 33 0.14
15 71 0.30
16 42 0.18
17 15 0.06
18 12 0.05
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (14 bp):
TATAATAAATAATA
Found at i:1225593 original size:40 final size:41
Alignment explanation
Indices: 1225506--1225626 Score: 138
Period size: 41 Copynumber: 3.0 Consensus size: 41
1225496 ATAAATCATA
* * * *
1225506 TATTAATAAAGAATATTATAATATATTAATAGATAATATAC
1 TATTAATAAATAATATTATAATACATAAATAAATAATATAC
*
1225547 TATTAATAAATAATATTATAATACA-AAATAAATAATATAT
1 TATTAATAAATAATATTATAATACATAAATAAATAATATAC
* * * *
1225587 TATTAATGAATAATA-TATTAGTATATTAATAAATAATATA
1 TATTAATAAATAATATTA-TAATACATAAATAAATAATATA
1225627 AAGAATAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.03
40 31 0.45
41 36 0.52
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (41 bp):
TATTAATAAATAATATTATAATACATAAATAAATAATATAC
Found at i:1225699 original size:19 final size:19
Alignment explanation
Indices: 1225652--1225699 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1225642 TTTTATTTTA
*
1225652 AATATTTTTATATTAACAT
1 AATATTTTAATATTAACAT
1225671 AATATTTTAATATTAA-AT
1 AATATTTTAATATTAACAT
*
1225689 AGTATTATTAA
1 AATATT-TTAA
1225700 AATATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
AATATTTTAATATTAACAT
Found at i:1225730 original size:16 final size:16
Alignment explanation
Indices: 1225655--1225745 Score: 51
Period size: 19 Copynumber: 5.2 Consensus size: 16
1225645 TATTTTAAAT
1225655 ATTTTT-ATATTAACATA
1 ATTTTTAATATT-A-ATA
1225672 ATATTTTAATATTAAATA
1 AT-TTTTAATATT-AATA
* *
1225690 GTATTATTAAAATATAATTA
1 --ATTTTTAATAT-TAA-TA
*
1225710 TTTTTTAATATTAATA
1 ATTTTTAATATTAATA
*
1225726 A-TTTTAATAATAAATA
1 ATTTTTAAT-ATTAATA
1225742 ATTT
1 ATTT
1225746 CAATATATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
15 7 0.12
16 9 0.15
17 7 0.12
18 15 0.25
19 16 0.27
20 5 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (16 bp):
ATTTTTAATATTAATA
Found at i:1225732 original size:15 final size:15
Alignment explanation
Indices: 1225712--1225752 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
1225702 TATAATTATT
*
1225712 TTTTAATATTAATAA
1 TTTTAATATAAATAA
1225727 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
1225743 TTTCAATATA
1 TTTTAATATA
1225753 TTTTAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:1225755 original size:26 final size:25
Alignment explanation
Indices: 1225722--1225771 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
1225712 TTTTAATATT
1225722 AATAATTTTAATAATAAATAATTTC
1 AATAATTTTAATAATAAATAATTTC
*
1225747 AATATATTTTAATCATAAATAATTT
1 AATA-ATTTTAATAATAAATAATTT
1225772 TTAATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
AATAATTTTAATAATAAATAATTTC
Found at i:1226962 original size:83 final size:84
Alignment explanation
Indices: 1226818--1226982 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 84
1226808 GTCCCCCTCT
*
1226818 CACAGAAAATTTGGACTTAGCTATCATTATTTTAGTTAATCATGTTGTAGTATTTTTTTTTT-CT
1 CACACAAAATTTGGACTTAGCTATCATTATTTTAGTTAATCATGTTGTAGTATTTTTTTTTTCCT
1226882 TGTCATGTTAATTTCATAG
66 TGTCATGTTAATTTCATAG
* * *
1226901 CACACAAAATTTGGACTTAGCTGTCATTATTTTAGTTAATTATGTTGTAGTTTTTTTTTTTTCCT
1 CACACAAAATTTGGACTTAGCTATCATTATTTTAGTTAATCATGTTGTAGTATTTTTTTTTTCCT
1226966 TGTCATGTTAATTTCAT
66 TGTCATGTTAATTTCAT
1226983 GGCAATCATT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 58 0.75
84 19 0.25
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.51
Consensus pattern (84 bp):
CACACAAAATTTGGACTTAGCTATCATTATTTTAGTTAATCATGTTGTAGTATTTTTTTTTTCCT
TGTCATGTTAATTTCATAG
Found at i:1227585 original size:2 final size:2
Alignment explanation
Indices: 1227578--1227602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1227568 TGATGTAACT
1227578 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1227603 TATTGGTATT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1231436 original size:2 final size:2
Alignment explanation
Indices: 1231423--1231460 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1231413 GTGCACCTCC
*
1231423 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1231461 TGGCAGTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1232503 original size:15 final size:15
Alignment explanation
Indices: 1232471--1232515 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1232461 AAGTTTATCA
* * *
1232471 TCATTGTCATCGTCG
1 TCATCGTCATCATTG
1232486 TCATCGTCATCATTG
1 TCATCGTCATCATTG
*
1232501 TCATCCTCATCATTG
1 TCATCGTCATCATTG
1232516 GGCCTGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.40
Consensus pattern (15 bp):
TCATCGTCATCATTG
Found at i:1232729 original size:3 final size:3
Alignment explanation
Indices: 1232721--1232748 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1232711 TTGGGGTTTA
1232721 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1232749 GCTTAACTTC
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:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:1233297 original size:23 final size:28
Alignment explanation
Indices: 1233269--1233325 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
1233259 GATAATCAAG
1233269 AAATAACAT-A-TTTT-T-TAAAA-AAA
1 AAATAACATCATTTTTCTCTAAAAGAAA
*
1233292 AAATAACGTCATTTTTCTCTAAAAGAAA
1 AAATAACATCATTTTTCTCTAAAAGAAA
1233320 AAATAA
1 AAATAA
1233326 AGAATGGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.29
24 1 0.04
25 4 0.14
26 1 0.04
27 5 0.18
28 9 0.32
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (28 bp):
AAATAACATCATTTTTCTCTAAAAGAAA
Found at i:1233479 original size:30 final size:32
Alignment explanation
Indices: 1233421--1233480 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1233411 TATCTTTTTG
1233421 AAAAATTATAAAATTTTTTAAAATAAATTTTCA
1 AAAAATTATAAAATTTTTT-AAATAAATTTTCA
*
1233454 AAAAATTAT-AAATTTTTT-CATAAATTT
1 AAAAATTATAAAATTTTTTAAATAAATTT
1233481 GATTTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
32 9 0.35
33 9 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (32 bp):
AAAAATTATAAAATTTTTTAAATAAATTTTCA
Found at i:1238492 original size:3 final size:3
Alignment explanation
Indices: 1238484--1238526 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
1238474 TACCTTCTAA
* *
1238484 AAT AAT AAT AAC AAT AAT AAT AAT AGT AAT ATAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
1238527 TAACACAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1238824 original size:3 final size:3
Alignment explanation
Indices: 1238816--1238859 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1238806 GGTTGTCCGT
* *
1238816 TTC TTC TTC TTC TTC TTG GTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1238860 TATGTCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:1241276 original size:347 final size:338
Alignment explanation
Indices: 1240640--1241329 Score: 988
Period size: 347 Copynumber: 2.0 Consensus size: 338
1240630 CAGCTTGTCG
*
1240640 TAAGCAAAGATACGTTATAGGAATGTGCATGTTTCTAGTAAAATCGTGATATGCCTTGAAATTAA
1 TAAGCAAAGATACGTTATAGGAATGTGCATGTTTCTAGTAAAATCGTGATATACCTTGAAATTAA
* * ** * * *
1240705 TCAAATTAACGTTACCATTTAGGTGTATGTTCATGATCATAAGAACATATCTAATTGATGATGAT
66 TCAAATTAACGTTACCATTGAGGTATATCATCATGATCATAAGAAAATATCAAATTGATGATCAT
* * *
1240770 TTGATAATAGTATATTAATTCTTATGATTAACCTTAATAAACTTTGTTTAGGCCCATATAATGAA
131 TTCAGAATAGTATATTAATTCTTACGATTAACCTTAATAAACTTTGTTTAGGCCCATATAATGAA
* *
1240835 GATTTTAGCATTCCAACGCACAAGTAATTAATTAGCTTGGTCACCTCAAAAGGGTTATTGGATCA
196 AATTTTAGCATTCCAACGCACAAGTAATTAATTAGCTTGGTCACCTCAAAAGGATTATTGGATCA
* * * *
1240900 CTAGCTTTTTTTTTTGTCAGCCTTGTCGATATTCTTTACCCATGCAAAGGGGCCCCATTTGTTTT
261 CTAGCTTTTTTTTTTCTCAGCCTTGTCGATATCCTTTACCCATGCAAAGGGACCCCATTTGTTGT
1240965 TCTATGCTTTTTC
326 TCTATGCTTTTTC
* * * *
1240978 TAAGCAAAGATACGTTATAGGATTGTGCATGTTTCTAGTGACATCGTGGTATACCTTGAAATTAA
1 TAAGCAAAGATACGTTATAGGAATGTGCATGTTTCTAGTAAAATCGTGATATACCTTGAAATTAA
*
1241043 TC-AATTAATCAAATTGACATTATCATTGAGGTATATCATCATGATCATAAGAAAATATCAAATT
66 TCAAATTAA-C-----G---TTACCATTGAGGTATATCATCATGATCATAAGAAAATATCAAATT
* * *
1241107 GATGATCATTTCAGATTAGTATATTAATTCTTGCGATTAACCTTAATAAACTTTGTTTTAGGTCC
122 GATGATCATTTCAGAATAGTATATTAATTCTTACGATTAACCTTAATAAACTTTG-TTTAGGCCC
* *
1241172 ATCTAATGAAAATTTTAGCATTCCAACGCATC-AGTAATTAATTAGCTTGGTCATCTCAAAAGGA
186 ATATAATGAAAATTTTAGCATTCCAACGCA-CAAGTAATTAATTAGCTTGGTCACCTCAAAAGGA
* * *
1241236 TTATTGGGTTACTAGCTTTTTTTTTTCTCAGCTTTGTCGATATCCTTTACCCATGCAAAGGGACC
250 TTATTGGATCACTAGCTTTTTTTTTTCTCAGCCTTGTCGATATCCTTTACCCATGCAAAGGGACC
*
1241301 CCATTTGTTGTTCTATGCTTTTTG
315 CCATTTGTTGTTCTATGCTTTTTC
1241325 TAAGC
1 TAAGC
1241330 TCTAGAAAAA
Statistics
Matches: 310, Mismatches: 31, Indels: 13
0.88 0.09 0.04
Matches are distributed among these distances:
337 6 0.02
338 63 0.20
343 1 0.00
346 87 0.28
347 152 0.49
348 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (338 bp):
TAAGCAAAGATACGTTATAGGAATGTGCATGTTTCTAGTAAAATCGTGATATACCTTGAAATTAA
TCAAATTAACGTTACCATTGAGGTATATCATCATGATCATAAGAAAATATCAAATTGATGATCAT
TTCAGAATAGTATATTAATTCTTACGATTAACCTTAATAAACTTTGTTTAGGCCCATATAATGAA
AATTTTAGCATTCCAACGCACAAGTAATTAATTAGCTTGGTCACCTCAAAAGGATTATTGGATCA
CTAGCTTTTTTTTTTCTCAGCCTTGTCGATATCCTTTACCCATGCAAAGGGACCCCATTTGTTGT
TCTATGCTTTTTC
Found at i:1243057 original size:2 final size:2
Alignment explanation
Indices: 1243052--1243091 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1243042 TATATATATA
1243052 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1243092 AGAGAGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1243096 original size:2 final size:2
Alignment explanation
Indices: 1243091--1243117 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1243081 GTGTGTGTGT
1243091 GA 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 GA G
1243118 TTTCGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1244867 original size:8 final size:9
Alignment explanation
Indices: 1244845--1244870 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1244835 TAATAGTGTA
1244845 TAAAAATAT
1 TAAAAATAT
1244854 TAAAAATAT
1 TAAAAATAT
1244863 TAAAAATA
1 TAAAAATA
1244871 AATTACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATAT
Found at i:1245157 original size:22 final size:20
Alignment explanation
Indices: 1245118--1245159 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
1245108 AGTATTTCAT
1245118 TTATAATTTTTATTATAATA
1 TTATAATTTTTATTATAATA
1245138 TTATAATTATTTGATTATAATA
1 TTATAATT-TTT-ATTATAATA
1245160 AAAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATAATTTTTATTATAATA
Found at i:1245234 original size:19 final size:18
Alignment explanation
Indices: 1245207--1245244 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
1245197 TTCAAATAAT
1245207 TTTAAATTATAATTAATTA
1 TTTAAATTATAATT-ATTA
*
1245226 TTTATATTATAATTATTA
1 TTTAAATTATAATTATTA
1245244 T
1 T
1245245 AAGTAACACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATTATAATTATTA
Done.