Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 5 of 125
Found at i:698467 original size:13 final size:13
Alignment explanation
Indices: 698446--698481 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
698436 GACTTTTTTG
698446 ACTAAAAAAATTAA
1 ACTAAAAAAA-TAA
698460 AC-AAAAAAATAA
1 ACTAAAAAAATAA
698472 ACTAAAAAAA
1 ACTAAAAAAA
698482 ATTTAAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 14 0.67
14 2 0.10
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (13 bp):
ACTAAAAAAATAA
Found at i:701581 original size:2 final size:2
Alignment explanation
Indices: 701574--701604 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
701564 AACAATGTAC
701574 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
701605 AATACCTAAT
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:707008 original size:20 final size:20
Alignment explanation
Indices: 706983--707063 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 20
706973 CAAGAATGTT
706983 ATGCAAATATATTAATTATC
1 ATGCAAATATATTAATTATC
*
707003 ATGC-AATA-ATAACATT-T-
1 ATGCAAATATATTA-ATTATC
*
707020 ATGTAAATATA-TAA-TATC
1 ATGCAAATATATTAATTATC
* *
707038 ATGCAAATATATTAATAATT
1 ATGCAAATATATTAATTATC
707058 ATGCAA
1 ATGCAA
707064 TAATATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
16 1 0.02
17 5 0.10
18 19 0.40
19 11 0.23
20 12 0.25
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (20 bp):
ATGCAAATATATTAATTATC
Found at i:707069 original size:20 final size:19
Alignment explanation
Indices: 707024--707070 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
707014 ACATTTATGT
707024 AAATATATAATATCATGC-
1 AAATATATAATATCATGCA
*
707042 AAATATATTAATAATTATGCA
1 AAATATA-TAAT-ATCATGCA
707063 ATAATATA
1 A-AATATA
707071 AAAGGCATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.29
19 4 0.17
20 6 0.25
21 1 0.04
22 6 0.25
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATATATAATATCATGCA
Found at i:707310 original size:28 final size:28
Alignment explanation
Indices: 707279--707350 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
707269 AACCATGCAA
* *
707279 ATAAATATATTAATAATAAT-ATAATCAT
1 ATAAATAAATAAATAA-AATCATAATCAT
*
707307 ATAAATAAATAAATAAATTCATAATCAT
1 ATAAATAAATAAATAAAATCATAATCAT
* *
707335 ATAATTAAATATATAA
1 ATAAATAAATAAATAA
707351 TCATGCAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAAATAAATAAATAAAATCATAATCAT
Found at i:707338 original size:20 final size:20
Alignment explanation
Indices: 707245--707370 Score: 79
Period size: 20 Copynumber: 6.5 Consensus size: 20
707235 AAAATCATGC
707245 AATA-ATAATCATATAAAT-
1 AATATATAATCATATAAATA
* **
707263 -ATATATAACCATGCAAATA
1 AATATATAATCATATAAATA
707282 AATATATTAAT-A-AT-AATA
1 AATATA-TAATCATATAAATA
*
707300 TAATCATATAAAT-AAATAAATA
1 -AAT-ATAT-AATCATATAAATA
*
707322 AAT-TCATAATCATATAATTA
1 AATAT-ATAATCATATAAATA
** *
707342 AATATATAATCATGCAATTA
1 AATATATAATCATATAAATA
707362 AATATATAA
1 AATATATAA
707371 ACATGTAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.03
18 15 0.17
19 8 0.09
20 47 0.55
21 9 0.10
22 4 0.05
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
AATATATAATCATATAAATA
Found at i:707371 original size:28 final size:28
Alignment explanation
Indices: 707237--707399 Score: 70
Period size: 28 Copynumber: 5.7 Consensus size: 28
707227 TAAATAAAAA
*
707237 AATCATGCAATAATAATCATATAAATATATAT
1 AATCATGCAATTA-AAT-ATAT-AA-ATATAT
* * *
707269 AACCATGCAAATAAATATATTAATA-AT
1 AATCATGCAATTAAATATATAAATATAT
* * * *
707296 AAT-AT--AATCATATAAATAAATAAAT
1 AATCATGCAATTAAATATATAAATATAT
* *
707321 AAATTCAT--AATCATATA-ATTAAATATAT
1 -AA-TCATGCAATTAAATATA-TAAATATAT
*
707349 AATCATGCAATTAAATATATAAACATGTAAT
1 AATCATGCAATTAAATATAT-AA-ATAT-AT
* *
707380 AAACATGCAATTTAATATAT
1 AATCATGCAATTAAATATAT
707400 GAACTATGCA
Statistics
Matches: 104, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
24 12 0.12
25 2 0.02
26 8 0.08
27 8 0.08
28 30 0.29
29 4 0.04
30 7 0.07
31 23 0.22
32 10 0.10
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.34
Consensus pattern (28 bp):
AATCATGCAATTAAATATATAAATATAT
Found at i:707375 original size:20 final size:20
Alignment explanation
Indices: 707337--707375 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
707327 ATAATCATAT
*
707337 AATTAAATATATAATCATGC
1 AATTAAATATATAAACATGC
707357 AATTAAATATATAAACATG
1 AATTAAATATATAAACATG
707376 TAATAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAAATATATAAACATGC
Found at i:707461 original size:32 final size:31
Alignment explanation
Indices: 707347--707606 Score: 138
Period size: 32 Copynumber: 8.7 Consensus size: 31
707337 AATTAAATAT
* *
707347 ATAATCATGCAATTAAATATATAAACATGTA
1 ATAAACATGCAATTAAATATATAAACATGCA
* *
707378 ATAAACATGCAATTTAATATATGAACTATGCAA
1 ATAAACATGCAATTAAATATATAAAC-ATGC-A
* * * * *
707411 ATAAATATACAATCAAATATATGATCATGCA
1 ATAAACATGCAATTAAATATATAAACATGCA
* *
707442 ATTAGACATGCAATTAAATATATAATCATGCA
1 A-TAAACATGCAATTAAATATATAAACATGCA
* * * *
707474 A-ATA-AT--AA-T-ATTA-ATAATCATACAA
1 ATAAACATGCAATTAAATATATAAACATGC-A
* **
707499 ATAAACATACAATTAAATATATAATTATGC-
1 ATAAACATGCAATTAAATATATAAACATGCA
707529 ---AA-AT--AA--AAATATATAAACCATGCAA
1 ATAAACATGCAATTAAATATATAAA-CATGC-A
* * * *
707554 ATAAATACGCAATTAAATATATAATCATACAA
1 ATAAACATGCAATTAAATATATAAACATGC-A
*
707586 ATAAATATGCAATTAAATATA
1 ATAAACATGCAATTAAATATA
707607 ATCATGCAAA
Statistics
Matches: 180, Mismatches: 27, Indels: 43
0.72 0.11 0.17
Matches are distributed among these distances:
22 10 0.06
23 4 0.02
24 11 0.06
25 5 0.03
26 5 0.03
27 6 0.03
28 2 0.01
29 5 0.03
30 3 0.02
31 30 0.17
32 67 0.37
33 32 0.18
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (31 bp):
ATAAACATGCAATTAAATATATAAACATGCA
Found at i:707501 original size:12 final size:12
Alignment explanation
Indices: 707463--707510 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
707453 AATTAAATAT
*
707463 ATAATCATGCAA
1 ATAATCATACAA
* **
707475 ATAATAATATTA
1 ATAATCATACAA
707487 ATAATCATACAA
1 ATAATCATACAA
*
707499 ATAAACATACAA
1 ATAATCATACAA
707511 TTAAATATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.27
Consensus pattern (12 bp):
ATAATCATACAA
Found at i:707514 original size:56 final size:55
Alignment explanation
Indices: 707447--707590 Score: 191
Period size: 55 Copynumber: 2.6 Consensus size: 55
707437 ATGCAATTAG
* *
707447 ACATGCAATTAAATATATAATCATGCAAATAATAATAT-TAATAATCATACAAATAA
1 ACATGCAATTAAATATATAATCATGCAAATAAAAATATAT-A-AACCATACAAATAA
* * *
707503 ACATACAATTAAATATATAATTATGCAAATAAAAATATATAAACCATGCAAATAA
1 ACATGCAATTAAATATATAATCATGCAAATAAAAATATATAAACCATACAAATAA
* * *
707558 ATACGCAATTAAATATATAATCATACAAATAAA
1 ACATGCAATTAAATATATAATCATGCAAATAAA
707591 TATGCAATTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
55 40 0.52
56 36 0.47
57 1 0.01
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.28
Consensus pattern (55 bp):
ACATGCAATTAAATATATAATCATGCAAATAAAAATATATAAACCATACAAATAA
Found at i:707625 original size:32 final size:30
Alignment explanation
Indices: 707547--707619 Score: 110
Period size: 32 Copynumber: 2.4 Consensus size: 30
707537 ATATATAAAC
*
707547 CATGCAAATAAATACGCAATTAAATATATAAT
1 CATGCAAATAAATATGCAATT-AA-ATATAAT
*
707579 CATACAAATAAATATGCAATTAAATATAAT
1 CATGCAAATAAATATGCAATTAAATATAAT
707609 CATGCAAATAA
1 CATGCAAATAA
707620 TAATATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 17 0.45
31 2 0.05
32 19 0.50
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.27
Consensus pattern (30 bp):
CATGCAAATAAATATGCAATTAAATATAAT
Found at i:707631 original size:14 final size:14
Alignment explanation
Indices: 707614--707661 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 14
707604 ATAATCATGC
707614 AAATAATAATATAT
1 AAATAATAATATAT
*
707628 AAATAATGCAATCATGT
1 AAATAAT--AAT-ATAT
707645 AAATAATAATATAT
1 AAATAATAATATAT
707659 AAA
1 AAA
707662 CCATGCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 13 0.45
15 3 0.10
16 3 0.10
17 10 0.34
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:707649 original size:17 final size:15
Alignment explanation
Indices: 707599--707654 Score: 62
Period size: 14 Copynumber: 3.7 Consensus size: 15
707589 AATATGCAAT
707599 TAAAT-ATAATCATG
1 TAAATAATAATCATG
* *
707613 CAAATAATAAT-ATA
1 TAAATAATAATCATG
707627 TAAATAATGCAATCATG
1 TAAATAAT--AATCATG
707644 TAAATAATAAT
1 TAAATAATAAT
707655 ATATAAACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 13 0.38
15 8 0.24
16 3 0.09
17 10 0.29
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.32
Consensus pattern (15 bp):
TAAATAATAATCATG
Found at i:707659 original size:85 final size:88
Alignment explanation
Indices: 707465--707702 Score: 244
Period size: 85 Copynumber: 2.8 Consensus size: 88
707455 TTAAATATAT
* * *
707465 AATCATGCAAATAATAATAT-TAATAATCATACAAATAAACATACAATTAAATATATAATTATGC
1 AATCATGTAAATAATAATATAT-ATAATCATACAAATAAATATGCAATTAAATATATAATTATGC
*
707529 AAATAAAAATATATAAACCATGCA
65 AAATAAAAATATATAAACAATGCA
** *** *
707553 AAT-AAATACGCAATTAA-ATATATAATCATACAAATAAATATGCAATT-AA-ATATAATCATGC
1 AATCATGTAAATAA-TAATATATATAATCATACAAATAAATATGCAATTAAATATATAATTATGC
* *
707614 AAATAATAATATATAAATAATGC-
65 AAATAAAAATATATAAACAATGCA
* * * *
707637 AATCATGTAAATAATAATATATA-AACCATGC--A-AAATATGCAATTGAATATATAATTATACA
1 AATCATGTAAATAATAATATATATAATCATACAAATAAATATGCAATTAAATATATAATTATGCA
707698 AATAA
66 AATAA
707703 CATGTAGTTA
Statistics
Matches: 123, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
81 12 0.10
82 3 0.02
83 16 0.13
84 12 0.10
85 41 0.33
86 2 0.02
87 30 0.24
88 7 0.06
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (88 bp):
AATCATGTAAATAATAATATATATAATCATACAAATAAATATGCAATTAAATATATAATTATGCA
AATAAAAATATATAAACAATGCA
Found at i:707668 original size:31 final size:31
Alignment explanation
Indices: 707606--707669 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
707596 AATTAAATAT
*
707606 AATCATGCAAATAATAATATATAAATAATGC
1 AATCATGCAAATAATAATATATAAACAATGC
* *
707637 AATCATGTAAATAATAATATATAAACCATGC
1 AATCATGCAAATAATAATATATAAACAATGC
707668 AA
1 AA
707670 AATATGCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (31 bp):
AATCATGCAAATAATAATATATAAACAATGC
Found at i:707748 original size:24 final size:24
Alignment explanation
Indices: 707718--707878 Score: 137
Period size: 24 Copynumber: 7.0 Consensus size: 24
707708 AGTTAAATGT
707718 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
707742 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
707766 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
*
707788 TATAATCATAGC-AACAAATATATTA
1 -ATAATCAT-GCAAATAAATATATTA
*
707813 ATAATCA-G---ACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
**
707833 ATAAATCACACAAATAAATATA-T-
1 AT-AATCATGCAAATAAATATATTA
*
707856 -TAATCATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
707879 GGCAAATAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
20 14 0.12
21 21 0.19
22 4 0.04
23 16 0.14
24 49 0.43
25 9 0.08
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:707812 original size:71 final size:65
Alignment explanation
Indices: 707711--707878 Score: 189
Period size: 71 Copynumber: 2.5 Consensus size: 65
707701 AACATGTAGT
* * *
707711 TAAATGTATAATCATGCAAATAAATATATTAATAATCAAGCAATTAAATATATTAAT-AATCATG
1 TAAATATATAATCATGCAAACAAATATATTAATAATC-AG--A-CAAATATATTAATAAATCA--
707775 CAATCAAA
60 C-A-CAAA
*
707783 TTAA-ATATAATCATAGC-AACAAATATATTAATAATCAGACAAATATATTAATAAATCACACAA
1 TAAATATATAATCAT-GCAAACAAATATATTAATAATCAGACAAATATATTAATAAATCACACAA
707846 A
65 A
707847 TAAATATATTAATCATGCAAACAAATATATTA
1 TAAATATA-TAATCATGCAAACAAATATATTA
707879 GGCAAATAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
64 7 0.08
65 6 0.07
66 21 0.24
67 12 0.14
68 6 0.07
70 2 0.02
71 27 0.31
72 5 0.06
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (65 bp):
TAAATATATAATCATGCAAACAAATATATTAATAATCAGACAAATATATTAATAAATCACACAAA
Found at i:707824 original size:20 final size:21
Alignment explanation
Indices: 707801--707848 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
707791 AATCATAGCA
*
707801 ACAAATATATTAAT-AATCAG
1 ACAAATATATTAATAAATCAC
707821 ACAAATATATTAATAAATCAC
1 ACAAATATATTAATAAATCAC
707842 ACAAATA
1 ACAAATA
707849 AATATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.27
Consensus pattern (21 bp):
ACAAATATATTAATAAATCAC
Found at i:707833 original size:47 final size:46
Alignment explanation
Indices: 707742--707878 Score: 140
Period size: 47 Copynumber: 2.9 Consensus size: 46
707732 AAATATATTA
*
707742 ATAATCAAGCAATTAAATATATTAATAATCATG-C-AATCAAATTAAAT
1 ATAATCAAGCAA-TAAATATATTAATAATCA-GACAAAT-ATATTAAAT
*
707789 ATAATCATAGCAACAAATATATTAATAATCAGACAAATATATT-AAT
1 ATAATCA-AGCAATAAATATATTAATAATCAGACAAATATATTAAAT
* *
707835 A-AATCACA-CAAATAAATATATTAATCATGCAAACAAATATATTA
1 ATAATCA-AGC-AATAAATATATTAATAAT-CAGACAAATATATTA
707879 GGCAAATAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
44 1 0.01
45 22 0.28
46 18 0.23
47 29 0.37
48 8 0.10
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.30
Consensus pattern (46 bp):
ATAATCAAGCAATAAATATATTAATAATCAGACAAATATATTAAAT
Found at i:707860 original size:21 final size:20
Alignment explanation
Indices: 707801--707861 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
707791 AATCATAGCA
* * *
707801 ACAAATATATTAATAATCAG
1 ACAAATAAATTATTAATCAC
* *
707821 ACAAATATATTAATAAATCAC
1 ACAAATAAATT-ATTAATCAC
707842 ACAAATAAATATATTAATCA
1 ACAAATAAAT-TATTAATCA
707862 TGCAAACAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 11 0.32
21 22 0.65
22 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
ACAAATAAATTATTAATCAC
Found at i:708981 original size:42 final size:43
Alignment explanation
Indices: 708837--709053 Score: 282
Period size: 42 Copynumber: 5.1 Consensus size: 43
708827 TTTTTTTTTT
708837 AAATGCTCTCCT-ACAACTAAGGCTTTGAAACTTTTGAAAAATA
1 AAATGCTC-CCTCACAACTAAGGCTTTGAAACTTTTGAAAAATA
* *
708880 AAATGCTCCTCTCAAAACTAAGGCTTTGAAACATTTGAAAAATA
1 AAATGCTCC-CTCACAACTAAGGCTTTGAAACTTTTGAAAAATA
* *
708924 AAATGCTCCCCCACAACTAAGGCGTTGAAACTTTTG-AAAATA
1 AAATGCTCCCTCACAACTAAGGCTTTGAAACTTTTGAAAAATA
**
708966 AAATGCTCCCTCACAACCGAGGCTTTGAAAC-TTTGAAAAATA
1 AAATGCTCCCTCACAACTAAGGCTTTGAAACTTTTGAAAAATA
* * * * *
709008 AAATACCCCCT-AC-ACTGAGGCTTTAAAACTTTTGGAAAATA
1 AAATGCTCCCTCACAACTAAGGCTTTGAAACTTTTGAAAAATA
709049 AAATG
1 AAATG
709054 AGATCCTTTT
Statistics
Matches: 154, Mismatches: 16, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
40 14 0.09
41 20 0.13
42 49 0.32
43 33 0.21
44 38 0.25
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (43 bp):
AAATGCTCCCTCACAACTAAGGCTTTGAAACTTTTGAAAAATA
Found at i:710495 original size:12 final size:13
Alignment explanation
Indices: 710480--710510 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
710470 TTTTTTTTCT
710480 TTTTTTATTTTG-
1 TTTTTTATTTTGC
710492 TTTTTTATTTTGC
1 TTTTTTATTTTGC
710505 TTTTTT
1 TTTTTT
710511 TTACAAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTGC
Found at i:710841 original size:20 final size:20
Alignment explanation
Indices: 710803--710841 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
710793 CTTCATCATT
* *
710803 TCTCTTTTTGTCTTTTTTTC
1 TCTCTTTTTGTCATATTTTC
*
710823 TCTCTTTTTTTCATATTTT
1 TCTCTTTTTGTCATATTTT
710842 TTTGATTTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (20 bp):
TCTCTTTTTGTCATATTTTC
Found at i:716562 original size:20 final size:20
Alignment explanation
Indices: 716525--716562 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
716515 ATAATTATTC
*
716525 AATAATATAAAAGGCCATTG
1 AATAATATAAAAGACCATTG
*
716545 AATAATATAAAATACCAT
1 AATAATATAAAAGACCAT
716563 GCAAATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
AATAATATAAAAGACCATTG
Found at i:716640 original size:18 final size:18
Alignment explanation
Indices: 716570--716641 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
716560 CATGCAAATG
*
716570 TATAATCATGAAATCAAA
1 TATAATCATGAAATTAAA
**
716588 TATAATCACACAAATATATAA
1 TATAATCA-TGAAAT-TA-AA
* * *
716609 -GTAATTATGTAATTAAA
1 TATAATCATGAAATTAAA
716626 TATAATCATGAAATTA
1 TATAATCATGAAATTA
716642 TGCACAAATG
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
17 2 0.05
18 22 0.56
19 7 0.18
20 6 0.15
21 2 0.05
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (18 bp):
TATAATCATGAAATTAAA
Found at i:716839 original size:20 final size:21
Alignment explanation
Indices: 716814--716858 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
716804 TAAACATGTA
* *
716814 ATAAA-CATGCAATTTAATAT
1 ATAAACCATGCAAATAAATAT
716834 ATAAACCATGCAAATAAATAT
1 ATAAACCATGCAAATAAATAT
716855 ATAA
1 ATAA
716859 TTAAATATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (21 bp):
ATAAACCATGCAAATAAATAT
Found at i:716893 original size:32 final size:32
Alignment explanation
Indices: 716782--717123 Score: 279
Period size: 32 Copynumber: 11.1 Consensus size: 32
716772 TAAATAAATT
* * * * *
716782 AATAATCATGTAAGTAAATATATAAACATG-T
1 AATAAACATGCAATTAAATATATAATCATGCA
* *
716813 AATAAACATGCAATTTAATATATAAACCATGCA
1 AATAAACATGCAATTAAATATAT-AATCATGCA
* ** *
716846 AATAAATATATAATTAAATATACAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
* * *
716878 ATTAGACATGCAATTAAATATATAATCAAGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
*
716910 AAT--A-AT--AA-T-ATTA-ATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
* *
716934 AATAAACATGCAAATAATAATATTAATAATTATGCA
1 AATAAACATGC-AATTA-AATA-T-ATAATCATGCA
*
716970 AATAAACATGTAATTAAATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
* * *
717002 AATAAGCATGCAATTAAATATATAATCAAGTA
1 AATAAACATGCAATTAAATATATAATCATGCA
*
717034 AAT-AA-A---AA-T--ATATA-AACCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
** *
717057 AATAATTATGCAATTAAATATACAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
*
717089 AATAAATATGCAATTAAATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
717121 AAT
1 AAT
717124 TATAATATAT
Statistics
Matches: 248, Mismatches: 40, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
23 9 0.04
24 19 0.08
25 4 0.02
26 3 0.01
27 6 0.02
28 2 0.01
29 3 0.01
30 4 0.02
31 25 0.10
32 123 0.50
33 22 0.09
34 4 0.02
35 4 0.02
36 20 0.08
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (32 bp):
AATAAACATGCAATTAAATATATAATCATGCA
Found at i:716937 original size:12 final size:12
Alignment explanation
Indices: 716899--717014 Score: 60
Period size: 12 Copynumber: 10.0 Consensus size: 12
716889 AATTAAATAT
*
716899 ATAATCAAGCAA
1 ATAATCATGCAA
* ***
716911 ATAATAATATTA
1 ATAATCATGCAA
716923 ATAATCATGCAA
1 ATAATCATGCAA
*
716935 ATAAACATGCAA
1 ATAATCATGCAA
* ***
716947 ATAATAATATTA
1 ATAATCATGCAA
*
716959 ATAATTATGCAA
1 ATAATCATGCAA
* *
716971 ATAAACATGTAA
1 ATAATCATGCAA
* *
716983 TTAA--AT--AT
1 ATAATCATGCAA
716991 ATAATCATGCAA
1 ATAATCATGCAA
*
717003 ATAAGCATGCAA
1 ATAATCATGCAA
717015 TTAAATATAT
Statistics
Matches: 73, Mismatches: 27, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
8 4 0.05
10 4 0.05
12 65 0.89
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.28
Consensus pattern (12 bp):
ATAATCATGCAA
Found at i:716947 original size:36 final size:36
Alignment explanation
Indices: 716907--717014 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 36
716897 ATATAATCAA
716907 GCAAATAATAATATTAATAATCATGCAAATAAACAT
1 GCAAATAATAATATTAATAATCATGCAAATAAACAT
*
716943 GCAAATAATAATATTAATAATTATGCAAATAAACAT
1 GCAAATAATAATATTAATAATCATGCAAATAAACAT
* * *
716979 G-TAATTA-AATA-T-ATAATCATGCAAATAAGCAT
1 GCAAATAATAATATTAATAATCATGCAAATAAACAT
717011 GCAA
1 GCAA
717015 TTAAATATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
32 19 0.29
33 2 0.03
34 4 0.06
35 4 0.06
36 36 0.55
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (36 bp):
GCAAATAATAATATTAATAATCATGCAAATAAACAT
Found at i:716969 original size:124 final size:119
Alignment explanation
Indices: 716797--717235 Score: 409
Period size: 124 Copynumber: 3.7 Consensus size: 119
716787 TCATGTAAGT
* * * *
716797 AAATATATAAA-CATG-TAATAAACATGCAATTTAATATATA-AACCATGCAAATAAATATATAA
1 AAATATATAAACCATGCAAATAAACATGCAA--TAAAATATACAATCATGCAAATAAATATGTAA
* *
716859 TTAAATATACAATCATGC-AATTAGACATGCAATTAAATATATAATCAAGCAAATAA
64 TTAAATATATAATCATGCAAATAAG-CATGCAATTAAATATATAATCAAGCAAATAA
* * * * *
716915 TAATAT-TAATAATCATGCAAATAAACATGCAAATAATAATATTAATAATTATGCAAATAAACAT
1 AAATATAT-A-AACCATGCAAATAAACATGC-AATAA-AATA-T-ACAATCATGCAAATAAATAT
*
716979 GTAATTAAATATATAATCATGCAAATAAGCATGCAATTAAATATATAATCAAGTAAATAA
60 GTAATTAAATATATAATCATGCAAATAAGCATGCAATTAAATATATAATCAAGCAAATAA
** * *
717039 AAATATATAAACCATGCAAATAATTATGCAATTAAATATACAATCATGCAAATAAATATGCAATT
1 AAATATATAAACCATGCAAATAAACATGCAATAAAATATACAATCATGCAAATAAATATGTAATT
* ** * * * *
717104 AAATATATAATCATGCAAATTATAAT---ATATAAATA-ATGCCATTATGTAAATAA
66 AAATATATAATCATGCAAATAAGCATGCAAT-TAAATATAT--AATCAAGCAAATAA
* * * * * * *
717157 TAATATATAAAGCATGC--A-AAATATGTAATTAAATATATAATCATGCAAACAAA-ATGTAATT
1 AAATATATAAACCATGCAAATAAACATGCAATAAAATATACAATCATGCAAATAAATATGTAATT
717218 AAATATATAATCATGCAA
66 AAATATATAATCATGCAA
717236 TTAAATATAT
Statistics
Matches: 275, Mismatches: 32, Indels: 32
0.81 0.09 0.09
Matches are distributed among these distances:
114 25 0.09
115 31 0.11
116 5 0.02
117 7 0.03
118 32 0.12
119 47 0.17
120 8 0.03
121 18 0.07
122 7 0.03
123 18 0.07
124 71 0.26
125 6 0.02
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (119 bp):
AAATATATAAACCATGCAAATAAACATGCAATAAAATATACAATCATGCAAATAAATATGTAATT
AAATATATAATCATGCAAATAAGCATGCAATTAAATATATAATCAAGCAAATAA
Found at i:717068 original size:55 final size:54
Alignment explanation
Indices: 716985--717094 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 54
716975 ACATGTAATT
* * *
716985 AAATATATAATCATGCAAATAAGCATGCAATTAAATATATAATCAAGTAAATAA
1 AAATATATAACCATGCAAATAAGCATGCAATTAAATATACAATCAAGCAAATAA
** *
717039 AAATATATAAACCATGCAAATAATTATGCAATTAAATATACAATCATGCAAATAA
1 AAATATAT-AACCATGCAAATAAGCATGCAATTAAATATACAATCAAGCAAATAA
717094 A
1 A
717095 TATGCAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
54 8 0.16
55 41 0.84
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.27
Consensus pattern (54 bp):
AAATATATAACCATGCAAATAAGCATGCAATTAAATATACAATCAAGCAAATAA
Found at i:717084 original size:87 final size:87
Alignment explanation
Indices: 716965--717136 Score: 254
Period size: 87 Copynumber: 2.0 Consensus size: 87
716955 ATTAATAATT
* * *
716965 ATGCAAATAAACATGTAATTAAATATATAATCATGCAAATAAGCATGCAATTAAATATATAATCA
1 ATGCAAATAAACATGCAATTAAATATACAATCATGCAAATAAACATGCAATTAAATATATAATCA
*
717030 AGTAAATAAAAATATATAAACC
66 AGCAAATAAAAATATATAAACC
** *
717052 ATGCAAATAATTATGCAATTAAATATACAATCATGCAAATAAATATGCAATTAAATATATAATCA
1 ATGCAAATAAACATGCAATTAAATATACAATCATGCAAATAAACATGCAATTAAATATATAATCA
* * *
717117 TGCAAATTATAATATATAAA
66 AGCAAATAAAAATATATAAA
717137 TAATGCCATT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (87 bp):
ATGCAAATAAACATGCAATTAAATATACAATCATGCAAATAAACATGCAATTAAATATATAATCA
AGCAAATAAAAATATATAAACC
Found at i:717133 original size:22 final size:20
Alignment explanation
Indices: 717058--717135 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
717048 AACCATGCAA
*
717058 ATAATTATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
*
717078 ACAATCATGC-----AA-AT
1 ATAATCATGCAATTAAATAT
717092 A-AAT-ATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
717110 ATAATCATGCAAATTATAATAT
1 ATAATCATGC-AATTA-AATAT
717132 ATAA
1 ATAA
717136 ATAATGCCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
12 4 0.09
13 3 0.07
14 3 0.07
15 2 0.04
17 2 0.04
18 3 0.07
19 3 0.07
20 12 0.26
21 5 0.11
22 9 0.20
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:717147 original size:22 final size:21
Alignment explanation
Indices: 717090--717148 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
717080 AATCATGCAA
717090 ATAAATATGCAATTA-AATAT
1 ATAAATATGCAATTATAATAT
717110 AT-AATCATGCAAATTATAATAT
1 ATAAAT-ATGC-AATTATAATAT
*
717132 ATAAATAATGCCATTAT
1 ATAAAT-ATGCAATTAT
717149 GTAAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 5 0.15
22 12 0.36
23 7 0.21
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (21 bp):
ATAAATATGCAATTATAATAT
Found at i:717165 original size:87 final size:86
Alignment explanation
Indices: 716981--717210 Score: 245
Period size: 87 Copynumber: 2.7 Consensus size: 86
716971 ATAAACATGT
** * *
716981 AATTAAATATATAATCATGCAAATAAGCATGCAATTAAATATATAATCAAGTAAATAAAAATATA
1 AATTAAATATA-AATCATGCAAATAAATATGCAATTAAATATATAATCATGCAAATAAAAATATA
* **
717046 TAAACCATGCAAATAATTATGC
65 TAAACAATGCAAATAATTAAAC
* *
717068 AATTAAATATACAATCATGCAAATAAATATGCAATTAAATATATAATCATGCAAATTATAATATA
1 AATTAAATATA-AATCATGCAAATAAATATGCAATTAAATATATAATCATGCAAATAAAAATATA
* * * *
717133 TAAATAATGC-CATTATGTAAAT
65 TAAACAATGCAAATAAT-TAAAC
* * *
717155 AA-TAATATATAAAGCATGC--A-AAATATGTAATTAAATATATAATCATGCAAACAAAA
1 AATTAA-ATATAAATCATGCAAATAAATATGCAATTAAATATATAATCATGCAAATAAAA
717211 TGTAATTAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
83 32 0.26
84 1 0.01
86 14 0.11
87 75 0.61
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.30
Consensus pattern (86 bp):
AATTAAATATAAATCATGCAAATAAATATGCAATTAAATATATAATCATGCAAATAAAAATATAT
AAACAATGCAAATAATTAAAC
Found at i:717217 original size:31 final size:30
Alignment explanation
Indices: 717158--717235 Score: 113
Period size: 31 Copynumber: 2.6 Consensus size: 30
717148 TGTAAATAAT
* *
717158 AATATATAAAGCATGC-AAAATATGTAATTA
1 AATATAT-AATCATGCAAAAAAATGTAATTA
717188 AATATATAATCATGCAAACAAAATGTAATTA
1 AATATATAATCATGCAAA-AAAATGTAATTA
717219 AATATATAATCATGCAA
1 AATATATAATCATGCAA
717236 TTAAATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 7 0.16
30 9 0.20
31 28 0.64
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (30 bp):
AATATATAATCATGCAAAAAAATGTAATTA
Found at i:717247 original size:29 final size:29
Alignment explanation
Indices: 717184--717273 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 29
717174 AAAATATGTA
** *
717184 ATTAAATATATAATCATGCAAACAAAATGT
1 ATTAAATATATAATCATGC-AATTAAATAT
717214 AATTAAATATATAATCATGCAATTAAATAT
1 -ATTAAATATATAATCATGCAATTAAATAT
* *
717244 ATT-AATA-ATCATGCAATGGAATTAAATAT
1 ATTAAATATATAAT-C-ATGCAATTAAATAT
717273 A
1 A
717274 ATCGTACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 17 0.33
30 7 0.13
31 19 0.37
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (29 bp):
ATTAAATATATAATCATGCAATTAAATAT
Found at i:717251 original size:24 final size:23
Alignment explanation
Indices: 717224--717344 Score: 90
Period size: 24 Copynumber: 5.2 Consensus size: 23
717214 AATTAAATAT
717224 ATAATCATGCAATTAAATATATTA
1 ATAATCATGCAA-TAAATATATTA
* *
717248 ATAATCATGCAATGGAAT-TA-AA
1 ATAATCATGCAAT-AAATATATTA
* *
717270 TATAATCGTACAAATAAATATATTA
1 -ATAATCATGC-AATAAATATATTA
*
717295 ATAATTATGC---AAATATATTA
1 ATAATCATGCAATAAATATATTA
**
717315 ATAAATCACACTAATAAATATATTA
1 AT-AATCATGC-AATAAATATATTA
717340 ATAAT
1 ATAAT
717345 GCAAACAAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
20 12 0.16
21 5 0.07
22 1 0.01
23 14 0.19
24 30 0.40
25 13 0.17
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (23 bp):
ATAATCATGCAATAAATATATTA
Found at i:717291 original size:47 final size:46
Alignment explanation
Indices: 717222--717360 Score: 149
Period size: 47 Copynumber: 3.0 Consensus size: 46
717212 GTAATTAAAT
* *
717222 ATATAATCATGCAATTAAATATATTAATAATCATGC-AATGGA-ATTAA
1 ATATAATCATACAAATAAATATATTAATAATCATGCAAAT--ATATT-A
* *
717269 ATATAATCGTACAAATAAATATATTAATAATTATGCAAATATATTA
1 ATATAATCATACAAATAAATATATTAATAATCATGCAAATATATTA
* * **
717315 ATA-AATCACACTAATAAATATATTAATAATGCAAACAAATATATTA
1 ATATAATCATACAAATAAATATATTAATAAT-CATGCAAATATATTA
717361 GGCAAATAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
45 24 0.30
46 17 0.22
47 35 0.44
48 3 0.04
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.34
Consensus pattern (46 bp):
ATATAATCATACAAATAAATATATTAATAATCATGCAAATATATTA
Found at i:717297 original size:12 final size:12
Alignment explanation
Indices: 717282--717343 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
717272 TAATCGTACA
717282 AATAAATATATT
1 AATAAATATATT
*
717294 AAT-AAT-TATG
1 AATAAATATATT
*
717304 CA--AATATATT
1 AATAAATATATT
* *
717314 AATAAATCACACT
1 AATAAAT-ATATT
717327 AATAAATATATT
1 AATAAATATATT
717339 AATAA
1 AATAA
717344 TGCAAACAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
9 3 0.08
10 8 0.21
11 3 0.08
12 14 0.37
13 10 0.26
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (12 bp):
AATAAATATATT
Found at i:717354 original size:21 final size:20
Alignment explanation
Indices: 717280--717360 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 20
717270 TATAATCGTA
*
717280 CAAATAAATATATTAATAAT
1 CAAACAAATATATTAATAAT
* **
717300 TATGCAAATATATTAATAAAT
1 CAAACAAATATATTAAT-AAT
*
717321 CACACTAATAAATATATTAATAAT
1 --CA--AACAAATATATTAATAAT
717345 GCAAACAAATATATTA
1 -CAAACAAATATATTA
717361 GGCAAATAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
20 13 0.28
21 15 0.33
23 3 0.07
24 3 0.07
25 12 0.26
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (20 bp):
CAAACAAATATATTAATAAT
Found at i:717355 original size:25 final size:25
Alignment explanation
Indices: 717305--717355 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
717295 ATAATTATGC
* *
717305 AAATATATTAATAAATCACACTAAT
1 AAATATATTAATAAATCAAACAAAT
717330 AAATATATTAAT-AATGCAAACAAAT
1 AAATATATTAATAAAT-CAAACAAAT
717355 A
1 A
717356 TATTAGGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (25 bp):
AAATATATTAATAAATCAAACAAAT
Found at i:717413 original size:17 final size:18
Alignment explanation
Indices: 717364--717424 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 18
717354 TATATTAGGC
*
717364 AAATAAATGATCATGCAA
1 AAATAAATAATCATGCAA
*
717382 ATATAATATTAATCATGCAA
1 AAATAA-A-TAATCATGCAA
717402 AAATAAAT-ATCATGCAA
1 AAATAAATAATCATGCAA
717419 TAAATA
1 -AAATA
717425 TAAAAATAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.24
18 11 0.30
19 2 0.05
20 15 0.41
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.28
Consensus pattern (18 bp):
AAATAAATAATCATGCAA
Found at i:718360 original size:17 final size:19
Alignment explanation
Indices: 718322--718357 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
718312 AAAATACAAA
718322 AATATAAAATATTATTTTT
1 AATATAAAATATTATTTTT
*
718341 AATATAAATTA-TATTTT
1 AATATAAAATATTATTTT
718358 AATTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATAAAATATTATTTTT
Found at i:718833 original size:15 final size:15
Alignment explanation
Indices: 718805--718846 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
718795 AAAATATAAC
718805 AAAA-TAAAATAAATT
1 AAAATTAAAA-AAATT
*
718820 AAATTTAAAAAAATT
1 AAAATTAAAAAAATT
718835 AAAATTAAAAAA
1 AAAATTAAAAAA
718847 GGGTCAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTAAAAAAATT
Found at i:719227 original size:31 final size:30
Alignment explanation
Indices: 719182--719250 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
719172 TATTAAATTA
* *
719182 ATATATTAAAAT-AAATTTATTAATATAATGT
1 ATATA-TAAAATAAAATTAAATAA-ATAATGT
719213 ATATATAAATATAAAATTAAATAAATAATGT
1 ATATATAAA-ATAAAATTAAATAAATAATGT
*
719244 GTATATA
1 ATATATA
719251 TACCCGGGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 4 0.12
31 20 0.61
32 9 0.27
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (30 bp):
ATATATAAAATAAAATTAAATAAATAATGT
Found at i:722801 original size:35 final size:35
Alignment explanation
Indices: 722752--722818 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
722742 ATATGTCAAA
722752 TCAGTTGTAGATTTATACCTAAAAAATATTTGATG
1 TCAGTTGTAGATTTATACCTAAAAAATATTTGATG
* *
722787 TCAGTTGTATATTTATGCCTAAAAAATATTTG
1 TCAGTTGTAGATTTATACCTAAAAAATATTTG
722819 GTTTATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (35 bp):
TCAGTTGTAGATTTATACCTAAAAAATATTTGATG
Found at i:726056 original size:12 final size:12
Alignment explanation
Indices: 726039--726088 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
726029 ATTCAAAAAC
726039 ACCATTCAACAT
1 ACCATTCAACAT
*
726051 ACCATTCAGCAT
1 ACCATTCAACAT
** *
726063 ATAATTCAGCAT
1 ACCATTCAACAT
*
726075 ACGATTCAACAT
1 ACCATTCAACAT
726087 AC
1 AC
726089 TAATAACATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (12 bp):
ACCATTCAACAT
Found at i:726075 original size:24 final size:25
Alignment explanation
Indices: 726042--726099 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
726032 CAAAAACACC
*
726042 ATTCAACATACCATTCAGCATA-TA
1 ATTCAACATACCATTCAACATACTA
* *
726066 ATTCAGCATACGATTCAACATACTA
1 ATTCAACATACCATTCAACATACTA
726091 A-T-AACATAC
1 ATTCAACATAC
726100 AATACCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 6 0.21
24 20 0.69
25 3 0.10
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (25 bp):
ATTCAACATACCATTCAACATACTA
Found at i:727063 original size:187 final size:184
Alignment explanation
Indices: 726823--727558 Score: 724
Period size: 187 Copynumber: 4.0 Consensus size: 184
726813 TATAACAAAT
* **
726823 TATTGAAGGCATTTTTTACTAAAAGACATCTTTAATAATCTCAAAAATTTTTAAAGGAAATTATT
1 TATTGAAGGCATTTTTTAGTAAAAGACGCCTTTAATAATCTC-AAAATTTTTAAAGGAAATTATT
* *
726888 AAAGGCATTTGTTCTAAAAACTTACCTTCAATAATTATGTACA-AATATTAAAACG-AATTAGTA
65 AAAGGCATTTGTTATAAAAA-ATACCTTCAATAATTATGTACATAA-ATTAAAA-GAAATTAGTA
*
726951 AAGGCGTTTTTCTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTACTAATA
127 AAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTACTAATA
* * *
727009 TATTGAAGGCATTTTTTTAGTAGAAGATGCCTTTAATAATC-CTAAAATTTTTTAAAAAGAAATT
1 TATTGAAGGCA-TTTTTTAGTAAAAGACGCCTTTAATAATCTC-AAAA-TTTTT-AAAGGAAATT
* * *
727073 ATTGAAGGCATTTGTTATAAAAAATATCTTCAATAATTATGTACA-AAATTTAAAAGAAATTATT
62 ATTAAAGGCATTTGTTATAAAAAATACCTTCAATAATTATGTACATAAA-TTAAAAGAAATTAGT
* * *
727137 AAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGCACTGATA
126 AAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTACTAATA
* *
727196 TATTGAAGGCATTTTTTAGTAAAAGATGACTTTAATAATCTCAAAATTTTTAGAA-GAAATTATT
1 TATTGAAGGCATTTTTTAGTAAAAGACGCCTTTAATAATCTCAAAATTTTTA-AAGGAAATTATT
* * ** * * * * *
727260 GAAGAGG--GTTGTTATCATAAAACGCCTTCAATAATTATGTACATAAATTAAATGTAATCAATG
65 -AA-AGGCATTTGTTAT-AAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAATTAGTA
** * * * **
727323 AAGGTGTTTTTCTAGAATAAAC-CAACTTCATTAACCA--TAAAAATTTTAAGTTGTGAA-A
127 AAGGCATTTTTCTAGAATAAACGC--CTTCACTAACCATTTTAAAA-TTTGAGTACT-AATA
* * ** * *
727381 TATTGAAGGCATTTTTCATTGGAAGACGCCTTTAATAATACT-AAAAATTTTAATAGAAAATTAT
1 TATTGAAGGCATTTTTTAGTAAAAGACGCCTTTAATAAT-CTCAAAATTTTTAA-AGGAAATTAT
* * * * * * *
727445 TAAATGCATTTGTTCTAAAAAATGCCTACAATAATTATATACATAAGTTAAAAGGAATTAGTAAA
64 TAAAGGCATTTGTTATAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAATTAGT-AA
* * * * *
727510 AGAACATTTTTCTACAATAAATGCCTTCACTTAATC-GTTTAAAATTTGA
128 AG-GCATTTTTCTAGAATAAACGCCTTCAC-TAACCATTTTAAAATTTGA
727559 ACAGTGAAAT
Statistics
Matches: 456, Mismatches: 68, Indels: 51
0.79 0.12 0.09
Matches are distributed among these distances:
184 26 0.06
185 151 0.33
186 91 0.20
187 152 0.33
188 36 0.08
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (184 bp):
TATTGAAGGCATTTTTTAGTAAAAGACGCCTTTAATAATCTCAAAATTTTTAAAGGAAATTATTA
AAGGCATTTGTTATAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAATTAGTAAAGG
CATTTTTCTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTACTAATA
Found at i:727182 original size:61 final size:62
Alignment explanation
Indices: 726930--727184 Score: 146
Period size: 61 Copynumber: 4.1 Consensus size: 62
726920 AATTATGTAC
* * * *
726930 AAATATTAAAACG-AATTAGTAAAGGCGTTTTTCTAGAATAAACGCCTTCACTAACCATTTTA
1 AAAT-TTAAAAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTA
* ** ** * * * * * ** *
726992 AAATTTGAGTACTAATATATTGAAGGCATTTTTTTAGTAGAAGATGCCTT---TAATAATCCTA
1 AAATTTAAAAAGAAAT-TATTAAAGGCATTTTTCTAGAATAA-ACGCCTTCACTAACCATCTTA
* * *** * ** *
727053 AAATTTTTTAAAAAGAAATTATTGAAGGCATTTGTTATA-AA-AAATATCTTCAATAATTATGTA
1 AAA---TTTAAAAAGAAATTATTAAAGGCATTT-TTCTAGAATAAACGCCTTCACTAACCATCT-
*
727116 CA
61 TA
727118 AAATTT-AAAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTA
1 AAATTTAAAAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTA
727179 AAATTT
1 AAATTT
727185 GAGCACTGAT
Statistics
Matches: 141, Mismatches: 39, Indels: 27
0.68 0.19 0.13
Matches are distributed among these distances:
60 4 0.03
61 49 0.35
62 26 0.18
63 34 0.24
64 24 0.17
65 4 0.03
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (62 bp):
AAATTTAAAAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTA
Found at i:727386 original size:372 final size:370
Alignment explanation
Indices: 726823--727574 Score: 866
Period size: 372 Copynumber: 2.0 Consensus size: 370
726813 TATAACAAAT
726823 TATTGAAGGCATTTTTTACTAAAAGACATCTTTAATAATCTCAAAAATTTTTAAAGGAAATTATT
1 TATTGAAGGCATTTTTTACTAAAAGACATCTTTAATAATCTCAAAAATTTTTAAAGGAAATTATT
* * * *
726888 AAAGGCATTTGTTCTAAAAACTTACCTTCAATAATTATGTACAAATATTAAAACGAATTAGTAAA
66 AAAGG-AGTTGTTATAAAAAC-TACCTTCAATAATTATGTACAAATATTAAAACGAATCAATAAA
* *
726953 GGCGTTTTTCTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTACTAATATATTGAAGG
129 GGCGTTTTTCTAGAATAAACGCCTTCACTAACCA-TTAAAAATTTAAGTACTAATATATTGAAGG
* * * * *
727018 CATTTTTTTAGTAGAAGATGCCTTTAATAATCCTAAAATTTTTTAAAA-AGAAATTATTGAAGGC
193 CA-TTTTTCAGTAGAAGACGCCTTTAATAATACTAAAA-ATTTTAAAAGA-AAATTATTAAAGGC
* * * * * *
727082 ATTTGTTATAAAAAATATCTTCAATAATTATGTACAAAATTTAAAAGAAATTA-TTAAAG-GCAT
255 ATTTGTTATAAAAAATACCTACAATAATTATATACAAAAGTTAAAAGAAATTAGTAAAAGAACAT
* * *
727145 TTTTCTAGAATAAACGCCTTCAC-TAACCATCTTAAAATTTGAGCACTGATA
320 TTTTCTACAATAAACGCCTTCACTTAACCAT-TTAAAATTTGAACACTGAAA
* *
727196 TATTGAAGGCATTTTTTAGTAAAAGATGA-CTTTAATAATCTC-AAAATTTTTAGAA-GAAATTA
1 TATTGAAGGCATTTTTTACTAAAAGA-CATCTTTAATAATCTCAAAAATTTTTA-AAGGAAATTA
* *
727258 TTGAAGAGG-GTTGTTATCATAAAAC-GCCTTCAATAATTATGTACATAA-ATT-AAATGTAATC
64 TT-AA-AGGAGTTGTTAT-A-AAAACTACCTTCAATAATTATGTACA-AATATTAAAACG-AATC
* * * **
727319 AATGAAGGTGTTTTTCTAGAATAAAC-CAACTTCATTAACCA-TAAAAATTTTAAGTTGTGAA-A
123 AATAAAGGCGTTTTTCTAGAATAAACGC--CTTCACTAACCATTAAAAA-TTTAAGTACT-AATA
* * *
727381 TATTGAAGGCATTTTTCATTGGAAGACGCCTTTAATAATACTAAAAATTTTAATAGAAAATTATT
184 TATTGAAGGCATTTTTCAGTAGAAGACGCCTTTAATAATACTAAAAATTTTAAAAGAAAATTATT
* * * * *
727446 AAATGCATTTGTTCTAAAAAATGCCTACAATAATTATATACATAAGTTAAAAGGAATTAGTAAAA
249 AAAGGCATTTGTTATAAAAAATACCTACAATAATTATATACAAAAGTTAAAAGAAATTAGTAAAA
* * * *
727511 GAACATTTTTCTACAATAAATGCCTTCACTTAATCGTTTAAAATTTGAACAGTGAAA
314 GAACATTTTTCTACAATAAACGCCTTCACTTAACCATTTAAAATTTGAACACTGAAA
727568 TATTGAA
1 TATTGAA
727575 AGGTGTTTTG
Statistics
Matches: 322, Mismatches: 41, Indels: 33
0.81 0.10 0.08
Matches are distributed among these distances:
370 64 0.20
371 46 0.14
372 140 0.43
373 63 0.20
374 9 0.03
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (370 bp):
TATTGAAGGCATTTTTTACTAAAAGACATCTTTAATAATCTCAAAAATTTTTAAAGGAAATTATT
AAAGGAGTTGTTATAAAAACTACCTTCAATAATTATGTACAAATATTAAAACGAATCAATAAAGG
CGTTTTTCTAGAATAAACGCCTTCACTAACCATTAAAAATTTAAGTACTAATATATTGAAGGCAT
TTTTCAGTAGAAGACGCCTTTAATAATACTAAAAATTTTAAAAGAAAATTATTAAAGGCATTTGT
TATAAAAAATACCTACAATAATTATATACAAAAGTTAAAAGAAATTAGTAAAAGAACATTTTTCT
ACAATAAACGCCTTCACTTAACCATTTAAAATTTGAACACTGAAA
Found at i:735402 original size:130 final size:130
Alignment explanation
Indices: 735163--735409 Score: 295
Period size: 130 Copynumber: 1.9 Consensus size: 130
735153 CATTTTTTTT
* * **
735163 ATACAAACGCCACCAAAGCAATGGTGTGTTTCTCATAAAAATACCACTAAATTAACGGCGTCTCA
1 ATACAAACACCACCAAAGCAATCGTGTGTTTCTCATAAAAATACCACTAAATTAACAACGTCTCA
* *
735228 AATATACAAATATCGCTAATATAGAGGCATTTTTAGATACAAACGCCACTAAAAAATATTTTTAG
66 AAGATACAAATATCGCTAATATAGACGCATTTTTAGATACAAACGCCACTAAAAAATATTTTTAG
* * * * * *
735293 ATACAAATACCACCAAAGCAA-CGTCGTTTTTCTCATAAAAATGCCACTAAATTAGCAATGTCTT
1 ATACAAACACCACCAAAGCAATCGT-GTGTTTCTCATAAAAATACCACTAAATTAACAACGTCTC
* * *
735357 AAAGATACAAAT-GCTGCTAATATAG-CG-ATGTTTTCATATATAAACGCCACTAA
65 AAAGATACAAATATC-GCTAATATAGACGCAT-TTTT-AGATACAAACGCCACTAA
735410 TATTGTGACG
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
128 2 0.02
129 8 0.08
130 88 0.90
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (130 bp):
ATACAAACACCACCAAAGCAATCGTGTGTTTCTCATAAAAATACCACTAAATTAACAACGTCTCA
AAGATACAAATATCGCTAATATAGACGCATTTTTAGATACAAACGCCACTAAAAAATATTTTTAG
Found at i:737869 original size:62 final size:63
Alignment explanation
Indices: 737577--737869 Score: 158
Period size: 62 Copynumber: 4.7 Consensus size: 63
737567 AAATTTTTTT
*
737577 AAAGAAAATTATTAAAGGCATTTGTTCT--AA-AAACTTACCTTCAATAATTATGTAC-AAATAT
1 AAAG-AAATTATTAAAGGCATTT-TTCTAGAATAAAC--GCCTTCAATAATTATGTACAAAAT-T
737638 TAA
61 TAA
* * * * ** ** *
737641 AACG-AATTAGTAAAGGCGTTTTTCTAGAATAAACGCCTTCACTAACCAT-TTTAAAATTTGA
1 AAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCAATAATTATGTACAAAATTTAA
** ** * * * * * * ** *
737702 GTACTAATATATTGAAGGCATTTTTTTAGTAGAAGATGCCTTTAATAA-T-CCTA-AAATTTTTT
1 AAAGAAAT-TATTAAAGGCATTTTTCTAGAATAA-ACGCCTTCAATAATTATGTACAAA--ATTT
737764 AA
62 AA
* * * ***
737766 AAAGAAATTATTGAAGGCATTTGTTATA-AAAAAATATCTTCAATAATTATGTACAAAATTT-A
1 AAAGAAATTATTAAAGGCATTT-TTCTAGAATAAACGCCTTCAATAATTATGTACAAAATTTAA
737828 AAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCA
1 AAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCA
737870 CTAACCATCT
Statistics
Matches: 167, Mismatches: 47, Indels: 32
0.68 0.19 0.13
Matches are distributed among these distances:
61 12 0.07
62 78 0.47
63 43 0.26
64 31 0.19
65 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (63 bp):
AAAGAAATTATTAAAGGCATTTTTCTAGAATAAACGCCTTCAATAATTATGTACAAAATTTAA
Found at i:737870 original size:188 final size:186
Alignment explanation
Indices: 737525--738308 Score: 793
Period size: 187 Copynumber: 4.2 Consensus size: 186
737515 TATAACAAAT
* ** *
737525 TATTGAAGGCATTTTTTACTA-AAGACATCTTTAATAATCTCAAAATTTTTTTAAAGAAAATTAT
1 TATTGAAGGCATTTTTTAGTAGAAGACGCCTTTAATAATCTCAAAATTTTTTAAAAGAAAATTAT
* **
737589 TAAAGGCATTTGTTCTAAAAACTTACCTTCAATAATTATGTAC-AAATATTAAAACGAATTAGTA
66 TAAAGGCATTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAAT-TTAAAA-GAATTAGTA
* *
737653 AAGGCGTTTTTCTAGAATAAACGCCTTCACTAACCATTTTAAAATTTGAGTACTAATA
129 AAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAATA
*
737711 TATTGAAGGCATTTTTTTAGTAGAAGATGCCTTTAATAATC-CTAAAATTTTTTAAAA-AGAAAT
1 TATTGAAGGCA-TTTTTTAGTAGAAGACGCCTTTAATAATCTC-AAAATTTTTTAAAAGA-AAAT
* * *
737774 TATTGAAGGCATTTGTTATAAAAAAATATCTTCAATAATTATGTACAAAATTTAAAAGAAATTAT
63 TATTAAAGGCATTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAATTTAAAAG-AATTAG
* *
737839 TAAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGCACTGATA
127 TAAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAATA
* * * * *
737899 TATTGAAGGCATTTTTTAGTAAAAGATGACTTTAATAATCTCAAAATTTTTTAGAAGAAAACTAT
1 TATTGAAGGCATTTTTTAGTAGAAGACGCCTTTAATAATCTCAAAATTTTTTAAAAGAAAATTAT
* * * * * * *
737964 TGAAGAGG--GTTGTTATCATAAAACACCTTCAATAATTATGTACATAAA-TTAAATGTAATCAA
66 T-AA-AGGCATTTGTTATAAAAAAATACCTTCAATAATTATGTACA-AAATTTAAAAG-AATTAG
* ** * * ** * **
738026 TGAAGGTGTTTTTCTAGAATAAACACCTTCATTAACCAT-AAAAAATTTTAAGTTGTGAA-A
127 TAAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAA-TTTGAGTACT-AATA
* * * *
738086 TATTGAAGGCATTTTTCATTGGAAGACGCCTTTAATAATACT-AAAA--TTTTAATAGAAAATTA
1 TATTGAAGGCATTTTTTAGTAGAAGACGCCTTTAATAAT-CTCAAAATTTTTTAAAAGAAAATTA
* * * * * * *
738148 TTAAATGCATTTGTTCTAAAAAAATGCCTACAATAATTATATACATAAGTTAAAAGGAATTAGTA
65 TTAAAGGCATTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAATTTAAAA-GAATTAGTA
* * * * * ** *
738213 AAGACATTTTTCTACAATAAATGCCTTCACTAATCGTCTTAAAATTTGAACAGTGAA-A
129 AAGGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACT-AATA
* ** **
738271 TATTGAAAGTGTTTTGCAGTAGAAGACGCCTTTAATAA
1 TATTGAAGGCATTTTTTAGTAGAAGACGCCTTTAATAA
738309 ATTATTTCAA
Statistics
Matches: 494, Mismatches: 85, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
183 2 0.00
184 4 0.01
185 123 0.25
186 20 0.04
187 178 0.36
188 160 0.32
189 7 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (186 bp):
TATTGAAGGCATTTTTTAGTAGAAGACGCCTTTAATAATCTCAAAATTTTTTAAAAGAAAATTAT
TAAAGGCATTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAATTAGTAAA
GGCATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTAATA
Found at i:740763 original size:21 final size:21
Alignment explanation
Indices: 740726--740778 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
740716 TCATATTACA
*
740726 TAAA-TTGGTGATATTGATAT
1 TAAAGTTGATGATATTGATAT
* *
740746 TAAAGTTGATGATCTTGATGT
1 TAAAGTTGATGATATTGATAT
740767 TCAAAG-TGATGA
1 T-AAAGTTGATGA
740779 AGAGAACGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 4 0.14
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.40
Consensus pattern (21 bp):
TAAAGTTGATGATATTGATAT
Found at i:747064 original size:19 final size:17
Alignment explanation
Indices: 747018--747069 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
747008 AATTTTGATT
*
747018 TTTTTATATTGTTTATTA
1 TTTTTAT-TTATTTATTA
747036 TTTTTA-TTATTTCATTA
1 TTTTTATTTATTT-ATTA
747053 GTTTTTATTTATTTATT
1 -TTTTTATTTATTTATT
747070 TATTCAGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.17
17 4 0.13
18 15 0.50
19 6 0.20
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTTTATTTATTTATTA
Found at i:747527 original size:56 final size:55
Alignment explanation
Indices: 747411--747570 Score: 153
Period size: 55 Copynumber: 2.9 Consensus size: 55
747401 TGCTATATTA
* * ** *
747411 TTTTTTTAT-TAGTTTACATTGATTTGTTAGATTGTTTTAATTTAATATGCACCTT
1 TTTTTTTATAT-GTTTACATTGATCTATTAGATAATTTAAATTTAATATGCACCTT
* * **
747466 ATTTTTTTATATGTTTGCATT-ATCTATTATATAATTTAAATTTAATATGCTGCTT
1 -TTTTTTTATATGTTTACATTGATCTATTAGATAATTTAAATTTAATATGCACCTT
* * * * *
747521 GTTTTTTTATTTGTTTACATTGGTTTATTAGATTATTTTAATTTAATATG
1 -TTTTTTTATATGTTTACATTGATCTATTAGATAATTTAAATTTAATATG
747571 ATATTTATGT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
55 44 0.52
56 40 0.47
57 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.59
Consensus pattern (55 bp):
TTTTTTTATATGTTTACATTGATCTATTAGATAATTTAAATTTAATATGCACCTT
Found at i:747584 original size:56 final size:56
Alignment explanation
Indices: 747408--747615 Score: 222
Period size: 56 Copynumber: 3.7 Consensus size: 56
747398 ATATGCTATA
* * * *
747408 TTATTTTTTTATTAGTTTACATTGATTTGTTAGATTGTTTTAATTTAATATGCA-CC
1 TTATTTTTTTATTTGTTTACATTGATTTATTAGATTATTTTAATTTAATATG-ATAC
* * * * * * * *
747464 TTATTTTTTTATATGTTTGCATT-ATCTATTATATAATTTAAATTTAATATGCTGC
1 TTATTTTTTTATTTGTTTACATTGATTTATTAGATTATTTTAATTTAATATGATAC
* * *
747519 TTGTTTTTTTATTTGTTTACATTGGTTTATTAGATTATTTTAATTTAATATGATAT
1 TTATTTTTTTATTTGTTTACATTGATTTATTAGATTATTTTAATTTAATATGATAC
* * * *
747575 TTATGTTTTTATTTGTTTGCATTGATTTCTTACATTATTTT
1 TTATTTTTTTATTTGTTTACATTGATTTATTAGATTATTTT
747616 TTTTATAAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
55 43 0.35
56 79 0.65
ACGTcount: A:0.25, C:0.06, G:0.10, T:0.60
Consensus pattern (56 bp):
TTATTTTTTTATTTGTTTACATTGATTTATTAGATTATTTTAATTTAATATGATAC
Found at i:749450 original size:14 final size:14
Alignment explanation
Indices: 749431--749459 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
749421 TAATTAGAAA
749431 TATTTTCTTTTTTT
1 TATTTTCTTTTTTT
749445 TATTTTCTTTTTTT
1 TATTTTCTTTTTTT
749459 T
1 T
749460 TAATTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (14 bp):
TATTTTCTTTTTTT
Found at i:749458 original size:15 final size:15
Alignment explanation
Indices: 749431--749467 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
749421 TAATTAGAAA
749431 TATTTTC-TTTTTTT
1 TATTTTCTTTTTTTT
749445 TATTTTCTTTTTTTT
1 TATTTTCTTTTTTTT
*
749460 TAATTTCT
1 TATTTTCT
749468 AAATTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (15 bp):
TATTTTCTTTTTTTT
Found at i:749707 original size:17 final size:17
Alignment explanation
Indices: 749687--749720 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
749677 TCTAAAAAAA
749687 TATTTTATT-TTTTTTTC
1 TATTTT-TTATTTTTTTC
749704 TATTTTTTATTTTTTTC
1 TATTTTTTATTTTTTTC
749721 CAAATTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TATTTTTTATTTTTTTC
Found at i:749764 original size:12 final size:12
Alignment explanation
Indices: 749737--749778 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
749727 GAATCATGCA
749737 AAAATACTTAAA-
1 AAAATAC-TAAAT
749749 AAAA-ACATAAAT
1 AAAATAC-TAAAT
749761 AAAATACTAAAT
1 AAAATACTAAAT
749773 AAAATA
1 AAAATA
749779 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 6 0.22
12 19 0.70
13 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATACTAAAT
Found at i:749797 original size:12 final size:11
Alignment explanation
Indices: 749745--749800 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
749735 CAAAAATACT
*
749745 TAAAAAAAACA
1 TAAAAAAAATA
*
749756 TAAATAAAATA
1 TAAAAAAAATA
*
749767 CTAAATAAAATA
1 -TAAAAAAAATA
749779 -AATAAAAAATA
1 TAA-AAAAAATA
*
749790 TCAAAAAAATA
1 TAAAAAAAATA
749801 GAAATGGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
10 2 0.05
11 24 0.63
12 12 0.32
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (11 bp):
TAAAAAAAATA
Found at i:750312 original size:31 final size:31
Alignment explanation
Indices: 750235--750311 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
750225 AAAGTCACCG
* *
750235 AAAAGTCACCAAAAAATTCAATCGACATAAA
1 AAAATTCACTAAAAAATTCAATCGACATAAA
* ** *
750266 AAAATTCACTAAAAAATTCGATCGATGTCAA
1 AAAATTCACTAAAAAATTCAATCGACATAAA
750297 AAAATTCA-TAAAAAA
1 AAAATTCACTAAAAAA
750312 ACTAAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 7 0.17
31 33 0.82
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.21
Consensus pattern (31 bp):
AAAATTCACTAAAAAATTCAATCGACATAAA
Found at i:750515 original size:13 final size:13
Alignment explanation
Indices: 750483--750516 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
750473 CTATATGTTT
* *
750483 TTTTCTCTGTGTT
1 TTTTCTTTGTGTC
750496 TTTTCTTTGTGTC
1 TTTTCTTTGTGTC
750509 TTTTCTTT
1 TTTTCTTT
750517 TATCAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.74
Consensus pattern (13 bp):
TTTTCTTTGTGTC
Found at i:750847 original size:20 final size:19
Alignment explanation
Indices: 750819--750905 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 19
750809 ATAAAACCAA
*
750819 AAAAAAAAATAATATAATAT
1 AAAATAAAATAATATAA-AT
750839 AAAAT-AAA-AATGGATAAAT
1 AAAATAAAATAAT--ATAAAT
* * *
750858 AAAACTAAAAAAATGTAGAAC
1 AAAA-TAAAATAATATA-AAT
750879 AAAATAAAATAATATAAA-
1 AAAATAAAATAATATAAAT
750897 AAAATAAAA
1 AAAATAAAA
750906 ATGAAAATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
18 12 0.21
19 11 0.20
20 21 0.38
21 9 0.16
22 3 0.05
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAATAAAATAATATAAAT
Found at i:751222 original size:43 final size:44
Alignment explanation
Indices: 751150--751483 Score: 308
Period size: 43 Copynumber: 7.7 Consensus size: 44
751140 ACTCATAACT
*
751150 TTTGAAAAAGTAAACAAGGCTCC-TCTAATCAGAGGCACAACAAC
1 TTTGAAAAA-TAAACAAGGCTCCTTCTAATCAGAGGCTCAACAAC
* ***
751194 TTTGAAAAATAAACAAGGC-CCTTATAATCAGAGGCTTGTCAAC
1 TTTGAAAAATAAACAAGGCTCCTTCTAATCAGAGGCTCAACAAC
* * * * *
751237 TTTGAAAAAAAAAATAAGACT-TTTCTAATTAGAGGCTCAACAAC
1 TTTG-AAAAATAAACAAGGCTCCTTCTAATCAGAGGCTCAACAAC
* * **
751281 TTTGAAAAATAAACAAAGCTCCTT-TAAACAGAGGCTCAATGAC
1 TTTGAAAAATAAACAAGGCTCCTTCTAATCAGAGGCTCAACAAC
* *
751324 TTTGAAAAATAAACAAAGCTCC-TCTAATTAGAGGCTCAACAAC
1 TTTGAAAAATAAACAAGGCTCCTTCTAATCAGAGGCTCAACAAC
* * * **
751367 TTTGAAAAATAAATAGGGCT-CATCTAAAT-AGAGGCTCAATGAC
1 TTTGAAAAATAAACAAGGCTCCTTCT-AATCAGAGGCTCAACAAC
* * * * *
751410 TTTGAAAAATAAACAGGGCTTC-TCTAAACAGAGGCTTAACGAC
1 TTTGAAAAATAAACAAGGCTCCTTCTAATCAGAGGCTCAACAAC
* * *
751453 TTTAAAAAAATAAATAAAGCTCC-TCTAATCA
1 TTT-GAAAAATAAACAAGGCTCCTTCTAATCA
751484 TGTCTAGAGG
Statistics
Matches: 238, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
42 6 0.03
43 163 0.68
44 69 0.29
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (44 bp):
TTTGAAAAATAAACAAGGCTCCTTCTAATCAGAGGCTCAACAAC
Found at i:751244 original size:87 final size:86
Alignment explanation
Indices: 751135--751476 Score: 348
Period size: 86 Copynumber: 3.9 Consensus size: 86
751125 CTCCCCTAAG
* * *
751135 CAGAGACTC-ATAACTTTTGAAAAAGTAAACAAGGCTCCTCTAATCAGAGGCACAACAACTTTGA
1 CAGAGGCTCAATAAC-TTTGAAAAA-TAAACAAGGCTCCTCTAATTAGAGGCTCAACAACTTTGA
* *
751199 AAAATAAACAAGGC-CCTTATAAT
64 AAAATAAACAAAGCTCCTT-TAAA
** * * * **
751222 CAGAGGCT-TGTCAACTTTGAAAAAAAAAATAAGACTTTTCTAATTAGAGGCTCAACAACTTTGA
1 CAGAGGCTCAAT-AACTTTG-AAAAATAAACAAGGCTCCTCTAATTAGAGGCTCAACAACTTTGA
751286 AAAATAAACAAAGCTCCTTTAAA
64 AAAATAAACAAAGCTCCTTTAAA
* *
751309 CAGAGGCTCAATGACTTTGAAAAATAAACAAAGCTCCTCTAATTAGAGGCTCAACAACTTTGAAA
1 CAGAGGCTCAATAACTTTGAAAAATAAACAAGGCTCCTCTAATTAGAGGCTCAACAACTTTGAAA
* ** * *
751374 AATAAATAGGGCTCATCTAAA
66 AATAAACAAAGCTCCTTTAAA
* * * * ** * * *
751395 TAGAGGCTCAATGACTTTGAAAAATAAACAGGGCTTCTCTAAACAGAGGCTTAACGACTTTAAAA
1 CAGAGGCTCAATAACTTTGAAAAATAAACAAGGCTCCTCTAATTAGAGGCTCAACAACTTT-GAA
*
751460 AAATAAATAAAGCTCCT
65 AAATAAACAAAGCTCCT
751477 CTAATCATGT
Statistics
Matches: 212, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
86 109 0.51
87 90 0.42
88 13 0.06
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (86 bp):
CAGAGGCTCAATAACTTTGAAAAATAAACAAGGCTCCTCTAATTAGAGGCTCAACAACTTTGAAA
AATAAACAAAGCTCCTTTAAA
Found at i:751577 original size:15 final size:15
Alignment explanation
Indices: 751557--751587 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
751547 TTTACTTCGA
*
751557 AATTCAAAGGTTCAC
1 AATTCAAAGATTCAC
751572 AATTCAAAGATTCAC
1 AATTCAAAGATTCAC
751587 A
1 A
751588 CAAATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (15 bp):
AATTCAAAGATTCAC
Found at i:752181 original size:20 final size:21
Alignment explanation
Indices: 752156--752227 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
752146 GGTTTCACAT
752156 CTCAAAGA-TTTTATTTAAAA
1 CTCAAAGAGTTTTATTTAAAA
* * *
752176 CTCAAAGAGTATCATTGAATAA
1 CTCAAAGAGTTTTATTTAA-AA
* *
752198 CATCAAAGATTTTTATTTGAAA
1 C-TCAAAGAGTTTTATTTAAAA
*
752220 CTTAAAGA
1 CTCAAAGA
752228 TTCTCATATG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
20 8 0.20
21 13 0.32
22 6 0.15
23 13 0.32
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (21 bp):
CTCAAAGAGTTTTATTTAAAA
Found at i:753848 original size:15 final size:16
Alignment explanation
Indices: 753811--753851 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
753801 TTTTCCCTTT
753811 TTTTTCCTTTGTTTTAC
1 TTTTT-CTTTGTTTTAC
753828 TTTTTCTTT-TTTT-C
1 TTTTTCTTTGTTTTAC
753842 TTCTTTCTTT
1 TT-TTTCTTT
753852 ATCTTTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.13
15 11 0.48
16 4 0.17
17 5 0.22
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTCTTTGTTTTAC
Found at i:757462 original size:15 final size:16
Alignment explanation
Indices: 757417--757462 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
757407 ATATTTTCTT
757417 TTTTTTTGAATTTCTAA
1 TTTTTTTGAATTT-TAA
* *
757434 TTTTTTT-ATTTTTTA
1 TTTTTTTGAATTTTAA
757449 TTTTTTTGAATTTT
1 TTTTTTTGAATTTT
757463 TAAATTCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 9 0.36
16 9 0.36
17 7 0.28
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTTTTGAATTTTAA
Found at i:757462 original size:16 final size:16
Alignment explanation
Indices: 757417--757464 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
757407 ATATTTTCTT
*
757417 TTTTTTTGAATTTCTAA
1 TTTTTTTGAATTT-TTA
*
757434 TTTTTTT-ATTTTTTA
1 TTTTTTTGAATTTTTA
757449 TTTTTTTGAATTTTTA
1 TTTTTTTGAATTTTTA
757465 AATTCTCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTTTTTGAATTTTTA
Found at i:759162 original size:5 final size:5
Alignment explanation
Indices: 759149--759247 Score: 64
Period size: 5 Copynumber: 20.2 Consensus size: 5
759139 AATAATCAGC
* * *
759149 ATAAG ATAAA ATAAA A-AAA ATAAT ATAAA ATAAA A-ATAG AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA
* * * * *
759197 ACAAAA AAAAA AGTAGA ATAAA ATAAA ATAAT ATAAA A-AAT A-AAA ATAAA
1 A-TAAA ATAAA A-TAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
759247 A
1 A
759248 ATGGACAATT
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
4 14 0.19
5 53 0.72
6 7 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:759218 original size:41 final size:38
Alignment explanation
Indices: 759161--759249 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 38
759151 AAGATAAAAT
759161 AAAAAAAATAATATAAAATAAAAATAGATA-AATAAAACAA
1 AAAAAAAATAATATAAAAT-AAAATA-ATATAA-AAAACAA
*
759201 AAAAAAAAGTAGA-ATAAAATAAAATAATATAAAAAATAA
1 AAAAAAAA-TA-ATATAAAATAAAATAATATAAAAAACAA
759240 AAATAAAAAT
1 AAA-AAAAAT
759250 GGACAATTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
39 13 0.30
40 21 0.48
41 9 0.20
42 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (38 bp):
AAAAAAAATAATATAAAATAAAATAATATAAAAAACAA
Found at i:761426 original size:2 final size:2
Alignment explanation
Indices: 761421--761454 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
761411 CAAATGACTA
*
761421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
761455 TTATGATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:763996 original size:18 final size:18
Alignment explanation
Indices: 763973--764016 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
763963 TACTTTATTG
*
763973 AAATAAAATTCAAATTAA
1 AAATAAAATTCAAAATAA
* * *
763991 AAATAAATTTTAAAATAT
1 AAATAAAATTCAAAATAA
764009 AAATAAAA
1 AAATAAAA
764017 AATTAAAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAAAATTCAAAATAA
Found at i:766381 original size:17 final size:17
Alignment explanation
Indices: 766359--766391 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
766349 TTATTAAACT
766359 TAATTTTTATTTTTATA
1 TAATTTTTATTTTTATA
766376 TAATTTTTATTTTTAT
1 TAATTTTTATTTTTAT
766392 TTTTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TAATTTTTATTTTTATA
Found at i:766391 original size:23 final size:23
Alignment explanation
Indices: 766361--766427 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 23
766351 ATTAAACTTA
766361 ATTTTTATTTTTATATAATTTTT
1 ATTTTTATTTTTATATAATTTTT
766384 ATTTTTATTTTTATATATAAATTTTT
1 ATTTTTA-TTTT-TATAT-AATTTTT
* *
766410 ATTTCTAATTTTTGTATA
1 ATTT-TTATTTTTATATA
766428 TATGTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.18
24 5 0.13
25 9 0.24
26 15 0.39
27 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (23 bp):
ATTTTTATTTTTATATAATTTTT
Found at i:766408 original size:25 final size:25
Alignment explanation
Indices: 766361--766429 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 25
766351 ATTAAACTTA
766361 ATTTTTA-TTTTTATAT-AATTTTT
1 ATTTTTATTTTTTATATAAATTTTT
766384 ATTTTTATTTTTATATATAAATTTTT
1 ATTTTTATTTTT-TATATAAATTTTT
*
766410 ATTTCTAATTTTTGTATATA
1 ATTT-TTATTTTT-TATATA
766430 TGTTAATTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.17
24 4 0.10
25 5 0.12
26 11 0.28
27 13 0.32
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (25 bp):
ATTTTTATTTTTTATATAAATTTTT
Found at i:767026 original size:116 final size:116
Alignment explanation
Indices: 766835--767043 Score: 289
Period size: 116 Copynumber: 1.8 Consensus size: 116
766825 AAAAGGATTG
* *
766835 ATTTGTTTTTTATACAAAATGCAATCTTGGGTTAAAAATCCATAAAACAGATCGATCCCCCTACA
1 ATTTGTTTTTTATACAAAATGCAATCCTGGGTTAAAAATCCACAAAACAGATCGATCCCCCTACA
*
766900 AAGGGGATCGATCACCTAAGCATGGGATTGATTCCTCTCTTAAAGGGATCA
66 AAGGGGATCGATCACCTAAGAATGGGATTGATTCCTCTCTTAAAGGGATCA
* * * * **
766951 ATTTGTTTTTTATAGAGAATGCAATCCTGGTTTGAAAATCCACAAAA-AGGATCGATTTTCCC-A
1 ATTTGTTTTTTATACAAAATGCAATCCTGGGTTAAAAATCCACAAAACA-GATCGA-TCCCCCTA
767014 CATAA-GGGATCGATCACCTAAGAATGGGAT
64 CA-AAGGGGATCGATCACCTAAGAATGGGAT
767044 CGATCAAATA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
115 1 0.01
116 74 0.91
117 6 0.07
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (116 bp):
ATTTGTTTTTTATACAAAATGCAATCCTGGGTTAAAAATCCACAAAACAGATCGATCCCCCTACA
AAGGGGATCGATCACCTAAGAATGGGATTGATTCCTCTCTTAAAGGGATCA
Found at i:767757 original size:41 final size:42
Alignment explanation
Indices: 767682--767769 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 42
767672 TATCTCTATC
*
767682 TTTTGTTTTTAAGATTGTTAGTTTACTCTCATTTATTGTGTTCAT
1 TTTTGTTTTTAAGA---TTAGTTTACTCTAATTTATTGTGTTCAT
*
767727 TTTTGTTTTTAAGA-TAGTTTACTGTAATTTATTGTGTTCAT
1 TTTTGTTTTTAAGATTAGTTTACTCTAATTTATTGTGTTCAT
767768 TT
1 TT
767770 GCTCAGATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 27 0.66
45 14 0.34
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (42 bp):
TTTTGTTTTTAAGATTAGTTTACTCTAATTTATTGTGTTCAT
Found at i:773932 original size:17 final size:17
Alignment explanation
Indices: 773910--773954 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
773900 AACAATTGCA
773910 TTTCAACTACTAGACAT
1 TTTCAACTACTAGACAT
773927 TTTCAACTACTAGACAT
1 TTTCAACTACTAGACAT
*
773944 ATTCAACTACT
1 TTTCAACTACT
773955 TCATACTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (17 bp):
TTTCAACTACTAGACAT
Found at i:782423 original size:18 final size:18
Alignment explanation
Indices: 782400--782437 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
782390 TTTCTATTTG
* *
782400 ATTGATGGTCTTGATGGT
1 ATTGATGATCTTGATAGT
782418 ATTGATGATCTTGATAGT
1 ATTGATGATCTTGATAGT
782436 AT
1 AT
782438 GAAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (18 bp):
ATTGATGATCTTGATAGT
Found at i:782474 original size:36 final size:36
Alignment explanation
Indices: 782420--782517 Score: 160
Period size: 36 Copynumber: 2.7 Consensus size: 36
782410 TTGATGGTAT
*
782420 TGATGATCTTGATAGTATGAAAAATTTTTATTTGAC
1 TGATGATCTTGATGGTATGAAAAATTTTTATTTGAC
* *
782456 TGATGATCTTGTTGGTATGAAAAATTTTTATTTGAT
1 TGATGATCTTGATGGTATGAAAAATTTTTATTTGAC
*
782492 TAATGATCTTGATGGTATGAAAAATT
1 TGATGATCTTGATGGTATGAAAAATT
782518 CCCACTTGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (36 bp):
TGATGATCTTGATGGTATGAAAAATTTTTATTTGAC
Found at i:786611 original size:17 final size:17
Alignment explanation
Indices: 786586--786618 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
786576 TGTAAATAAT
*
786586 AAATTAATATATTCAAC
1 AAATAAATATATTCAAC
786603 AAATAAATATATTCAA
1 AAATAAATATATTCAA
786619 GAAGGCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAATATATTCAAC
Found at i:787647 original size:10 final size:10
Alignment explanation
Indices: 787617--787679 Score: 58
Period size: 10 Copynumber: 6.4 Consensus size: 10
787607 AAATTTATTG
787617 AATATAAAA-
1 AATATAAAAT
* *
787626 ACT-TAAATT
1 AATATAAAAT
787635 AATATAAAAT
1 AATATAAAAT
*
787645 AATATAATAT
1 AATATAAAAT
* *
787655 GAATTTTAAAT
1 -AATATAAAAT
787666 AATATAAAAT
1 AATATAAAAT
787676 AATA
1 AATA
787680 CAATTAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 26 0.63
11 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AATATAAAAT
Found at i:791925 original size:17 final size:19
Alignment explanation
Indices: 791884--791926 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
791874 TTATTTAAAG
791884 AAATTAAAATTGATAAAAT
1 AAATTAAAATTGATAAAAT
* *
791903 ATATTAAAA-TG-TATAAT
1 AAATTAAAATTGATAAAAT
791920 AAATTAA
1 AAATTAA
791927 TTATTTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 11 0.52
18 2 0.10
19 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATTAAAATTGATAAAAT
Found at i:792350 original size:21 final size:19
Alignment explanation
Indices: 792314--792385 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
792304 TTGAATTGTT
792314 TAAAATATATATTTATTTA
1 TAAAATATATATTTATTTA
792333 TAAAATATAT-TTTA-TTA
1 TAAAATATATATTTATTTA
* * * * *
792350 TTAAATTTAAATGTATTAAA
1 TAAAATATATATTTATT-TA
*
792370 TAAAATAAATATTTAT
1 TAAAATATATATTTAT
792386 AAATATATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 10 0.25
18 7 0.17
19 11 0.28
20 12 0.30
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (19 bp):
TAAAATATATATTTATTTA
Found at i:792354 original size:18 final size:18
Alignment explanation
Indices: 792312--792354 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
792302 AATTGAATTG
792312 TTTAAAATATATATTTAT
1 TTTAAAATATATATTTAT
792330 TTATAAAATATAT-TTTAT
1 TT-TAAAATATATATTTAT
792348 TATTAAA
1 T-TTAAA
792355 TTTAAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAAATATATATTTAT
Found at i:793384 original size:16 final size:18
Alignment explanation
Indices: 793365--793405 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
793355 ATAACAAAAA
*
793365 TAAAAAAAAA-TTAAA-T
1 TAAAAAAAAAGTAAAATT
793381 TAAAAAAAAAGTAAAATT
1 TAAAAAAAAAGTAAAATT
793399 TAAAAAA
1 TAAAAAA
793406 TCAAGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
TAAAAAAAAAGTAAAATT
Found at i:793386 original size:17 final size:18
Alignment explanation
Indices: 793366--793405 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
793356 TAACAAAAAT
*
793366 AAAAAAAAATTAAA-TTA
1 AAAAAAAAATAAAATTTA
*
793383 AAAAAAAAGTAAAATTTA
1 AAAAAAAAATAAAATTTA
793401 AAAAA
1 AAAAA
793406 TCAAGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAAAAAATAAAATTTA
Found at i:793411 original size:19 final size:19
Alignment explanation
Indices: 793365--793416 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 19
793355 ATAACAAAAA
793365 TAAAAAAAAA-TT-AAA-T
1 TAAAAAAAAAGTTAAAATT
793381 TAAAAAAAAAG-TAAAATT
1 TAAAAAAAAAGTTAAAATT
*
793399 TAAAAAATCAAGTTAAAA
1 TAAAAAA-AAAGTTAAAA
793417 AAGAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 3 0.10
20 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (19 bp):
TAAAAAAAAAGTTAAAATT
Found at i:793605 original size:33 final size:33
Alignment explanation
Indices: 793567--793633 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
793557 ATCAAGTTTT
*
793567 TTATATATCCGACTCCCAGCCAACATATATATG
1 TTATATATCCGACTCCAAGCCAACATATATATG
* *
793600 TTATATATCTGACTCCAAGCCGACATATATATG
1 TTATATATCCGACTCCAAGCCAACATATATATG
793633 T
1 T
793634 GTAACATGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (33 bp):
TTATATATCCGACTCCAAGCCAACATATATATG
Found at i:793843 original size:16 final size:15
Alignment explanation
Indices: 793804--793843 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
793794 AATATAATGT
793804 ATATATAAATATAAA
1 ATATATAAATATAAA
*
793819 ATTAAATAAATAATAAA
1 A-TATATAAAT-ATAAA
793836 ATATATAA
1 ATATATAA
793844 TTTTATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATATAAATATAAA
Found at i:794743 original size:15 final size:15
Alignment explanation
Indices: 794725--794756 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
794715 AACAAATACC
*
794725 AAAAAAGATAAAATA
1 AAAAAAGAAAAAATA
794740 AAAAAAGAAAAAATA
1 AAAAAAGAAAAAATA
794755 AA
1 AA
794757 TTCAAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAAAGAAAAAATA
Found at i:794948 original size:20 final size:20
Alignment explanation
Indices: 794920--794957 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
794910 GAAAAAAAGG
* *
794920 ATAATAGAAAAACTTAAAAA
1 ATAAGAGAAAAAATTAAAAA
794940 ATAAGAGAAAAAATTAAA
1 ATAAGAGAAAAAATTAAA
794958 GAAAAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
ATAAGAGAAAAAATTAAAAA
Found at i:795811 original size:31 final size:32
Alignment explanation
Indices: 795776--795845 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
795766 ATTTTCAGAA
* * *
795776 TCCGGCGAA-ACTTCCGGCGAA-ATTTGAATTT
1 TCCGGCGAACAATTCCGACGAACA-TTGAAGTT
795807 TCCGGC-AACAATTCCGACGAACATTGAAGTT
1 TCCGGCGAACAATTCCGACGAACATTGAAGTT
795838 TCCGGCGA
1 TCCGGCGA
795846 CCAGTCCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 29 0.88
32 2 0.06
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (32 bp):
TCCGGCGAACAATTCCGACGAACATTGAAGTT
Found at i:796291 original size:12 final size:11
Alignment explanation
Indices: 796267--796315 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
796257 CTCCAGGTTT
*
796267 TTTTTTTTTTA
1 TTTTTTATTTA
*
796278 TTTCTTTGTTTA
1 TTT-TTTATTTA
796290 TTTGTTTATTTTA
1 TTT-TTTA-TTTA
796303 TTTTTTATTTA
1 TTTTTTATTTA
796314 TT
1 TT
796316 AGATTAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 9 0.27
12 17 0.52
13 7 0.21
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:796549 original size:121 final size:124
Alignment explanation
Indices: 796388--796746 Score: 506
Period size: 121 Copynumber: 2.9 Consensus size: 124
796378 AATAAAAAAA
*
796388 TTCAAAAAAAATA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAAT-AAATTT
1 TTCAAAAAAAA-AGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATCAAATTT
*
796450 TCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAA-T
64 TCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATT
* *
796510 TTC-CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 TTCAAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTC
*
796574 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTCCCTT---AG--AAATAAATT
66 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATT
** * *
796630 TTCAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTC
1 TTCAAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTT
*
796695 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTAAAA-AAAA
65 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAA
796747 TCATTCTTTC
Statistics
Matches: 211, Mismatches: 13, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
119 7 0.03
120 46 0.22
121 96 0.45
122 18 0.09
123 1 0.00
124 43 0.20
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (124 bp):
TTCAAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTC
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATT
Found at i:796592 original size:60 final size:58
Alignment explanation
Indices: 796383--796747 Score: 434
Period size: 61 Copynumber: 6.1 Consensus size: 58
796373 ATAAAAATAA
* *
796383 AAAAATTCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT
1 AAAATTTC-AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AAT
* * *
796444 AAATTTTC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAA
1 AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---A-AAAT
*
796504 ATAAATTTCCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 A-AAATTT-CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT
*
796565 CAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTCCCTTAGAAAT
1 -AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAAT
* *
796625 AAATTTTCAAAAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAATTTCAAAAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT
* * *
796686 CGAAATTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTAAAA-
1 -AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAT
796743 AAAAT
1 AAAAT
796748 CATTCTTTCC
Statistics
Matches: 269, Mismatches: 19, Indels: 37
0.83 0.06 0.11
Matches are distributed among these distances:
56 4 0.01
57 38 0.14
58 10 0.04
59 49 0.18
60 52 0.19
61 64 0.24
62 11 0.04
64 41 0.15
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (58 bp):
AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAT
Found at i:799988 original size:15 final size:15
Alignment explanation
Indices: 799968--799997 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
799958 TTTAAATATG
*
799968 ATGAATGAGAATGCA
1 ATGAATGAAAATGCA
799983 ATGAATGAAAATGCA
1 ATGAATGAAAATGCA
799998 TGTATGCGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (15 bp):
ATGAATGAAAATGCA
Found at i:802193 original size:4 final size:4
Alignment explanation
Indices: 802186--802211 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
802176 TAAATAAATA
802186 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
802212 AACGCCACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:803355 original size:59 final size:59
Alignment explanation
Indices: 803278--803593 Score: 329
Period size: 59 Copynumber: 5.2 Consensus size: 59
803268 CATTTGAAAG
* *
803278 TTTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATA-TTTTTTTTACAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTTA-AA
* * *
803336 TTTTTATTTTTAAGAAAAATTGGTATTTTCAACTTTTCCCCCAAAAATATTTTTTTCTTGAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT--CCTAAAAATATTTTTTT-TT-AAA
* * *
803399 TTTTAATTTTGAAG-AAAATTGAT-CTTTCAACTTTTTCTCAAAAATATTTTTTTTTTGAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCT-AAAAATA-TTTTTTTTT-AAA
803459 -TTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGTTTTTGAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCT-AAAAATA---TTTT-TTTTT-AAA
* * * *
803522 TTTTTATTTTTTAAGGAAAATTAATACTTTCAACTTTTCCCTAAAAATATATATTTTTAGAA
1 TTTTTA-TTTTTAAGAAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTTTA-AA
803584 TTTTTATTTT
1 TTTTTATTTT
803594 AGGAAAATCA
Statistics
Matches: 222, Mismatches: 18, Indels: 33
0.81 0.07 0.12
Matches are distributed among these distances:
58 12 0.05
59 42 0.19
60 35 0.16
61 30 0.14
62 32 0.14
63 27 0.12
64 6 0.03
66 35 0.16
67 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.52
Consensus pattern (59 bp):
TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTTAAA
Found at i:803448 original size:60 final size:61
Alignment explanation
Indices: 803270--803600 Score: 352
Period size: 60 Copynumber: 5.4 Consensus size: 61
803260 CCTTAAAGCA
* * *
803270 TTTGAAAGTTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCT-TAAAATA-TTTTTT
1 TTTGAAA-TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
** * * * * *
803330 TTACAATTTTTATTTTTAAGAAAAATTGGTATTTTCAACTTTTCCCCCAAAAATATTTTTTT
1 TTTGAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTT
* *
803392 CTTGAAATTTTAATTTTGAAG-AAAATTGAT-CTTTCAACTTTTTCTCAAAAATATTTTTTT
1 TTTGAAATTTTAATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
803452 TTTGAAATTTT-ATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGTT
1 TTTGAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTT-TT
* * * * *
803515 TTTGAAATTTTTATTTTTTAAGGAAAATTAATACTTTCAACTTTTCC-CTAAAAATATATATTT
1 TTTGAAA-TTTTA-ATTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTT
* * *
803578 TTAG-AATTTTTATTTTAGGAAAA
1 TTTGAAATTTTAATTTTAAGAAAA
803601 TCATTAAAAA
Statistics
Matches: 227, Mismatches: 31, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
58 3 0.01
59 46 0.20
60 62 0.27
61 21 0.09
62 33 0.15
63 17 0.07
64 7 0.03
65 1 0.00
66 37 0.16
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTGAAATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
Found at i:804195 original size:22 final size:23
Alignment explanation
Indices: 804140--804197 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 23
804130 CTGGATTCTG
**
804140 AAAAATTTTTAAAAATTTTCCAA
1 AAAAATTTTTCTAAATTTTCCAA
**
804163 AAAAA--ACTCTAAATTTT-CAA
1 AAAAATTTTTCTAAATTTTCCAA
804183 AAAAATTTTTCTAAA
1 AAAAATTTTTCTAAA
804198 AACTCTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 8 0.30
21 8 0.30
22 6 0.22
23 5 0.19
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATTTTTCTAAATTTTCCAA
Found at i:804503 original size:4 final size:4
Alignment explanation
Indices: 804496--804595 Score: 71
Period size: 4 Copynumber: 24.5 Consensus size: 4
804486 ATTAATAGAT
* * *
804496 AATA AATA AATA AATA AATA TATT AATA GATA AAT- AATA AA-A AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * *
804542 TTAATA GATA AAT- AATA AATA TTTATT AATA AATA AATA AATA ATAAA
1 --AATA AATA AATA AATA AATA --AATA AATA AATA AATA AATA A-ATA
804590 AATA AA
1 AATA AA
804596 AATACAAATG
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
3 9 0.12
4 56 0.76
5 3 0.04
6 6 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (4 bp):
AATA
Found at i:804520 original size:31 final size:30
Alignment explanation
Indices: 804482--804562 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 30
804472 ATAGATAAAT
804482 ATATATTAATAGATAATAAATAAATAAATAA
1 ATATATTAATAGATAATAAATAAATAAA-AA
804513 ATATATTAATAG---ATAAAT-AAT-AAAA
1 ATATATTAATAGATAATAAATAAATAAAAA
804538 A-ATATTAATAGATAA-ATAATAAATA
1 ATATATTAATAGATAATA-AATAAATA
804563 TTTATTAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
24 10 0.23
25 3 0.07
26 3 0.07
27 7 0.16
28 9 0.20
31 12 0.27
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (30 bp):
ATATATTAATAGATAATAAATAAATAAAAA
Found at i:804604 original size:12 final size:13
Alignment explanation
Indices: 804465--804599 Score: 51
Period size: 15 Copynumber: 9.5 Consensus size: 13
804455 AAGTCAAAAA
804465 AAAAAT-AATAGAT
1 AAAAATAAATA-AT
* *
804478 AAATATATATTAAT
1 AAAAATA-AATAAT
*
804492 AGATAATAAATAA-
1 A-AAAATAAATAAT
*
804505 ATAAATAAATATATT
1 AAAAATAAATA-A-T
*
804520 AATAGATAAATAAT
1 AA-AAATAAATAAT
804534 AAAAAATATTAATAGAT
1 -AAAAATA--AATA-AT
*
804551 AAATAATAAATATTT
1 AAA-AATAAATA-AT
**
804566 ATTAATAAATAAAT
1 AAAAATAAAT-AAT
804580 AAATAATAAA-AAT
1 AAA-AATAAATAAT
804593 AAAAATA
1 AAAAATA
804600 CAAATGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 29
0.66 0.12 0.21
Matches are distributed among these distances:
12 12 0.13
13 13 0.14
14 21 0.23
15 24 0.26
16 15 0.16
17 6 0.07
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAATAAATAAT
Found at i:805097 original size:27 final size:28
Alignment explanation
Indices: 804965--805106 Score: 108
Period size: 28 Copynumber: 4.9 Consensus size: 28
804955 CAAAATTAAA
* *
804965 AAAATCCAAAACCCTAAACCCTCAAAACCCT
1 AAAAT-CAAAACCCTAAAACCTC-AAA-CTT
* * * * **
804996 AATATCGAAACCCTAAAACTTTAAAACCC
1 AAAATCAAAACCCTAAAAC-CTCAAACTT
* *
805025 AAAATCGAAACCC-CAAACCTCAAACCTT
1 AAAATCAAAACCCTAAAACCTCAAA-CTT
805053 AAAATCAAAACCCTAAAACCTCAAACTT
1 AAAATCAAAACCCTAAAACCTCAAACTT
* *
805081 GAAA-CTAAACCCTAAAACCTCTAAAC
1 AAAATCAAAACCCTAAAACCTC-AAAC
805107 CCCAAAATTG
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
27 20 0.22
28 27 0.30
29 24 0.26
30 15 0.16
31 5 0.05
ACGTcount: A:0.49, C:0.32, G:0.02, T:0.16
Consensus pattern (28 bp):
AAAATCAAAACCCTAAAACCTCAAACTT
Found at i:805107 original size:35 final size:36
Alignment explanation
Indices: 805059--805148 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 36
805049 CCTTAAAATC
* *
805059 AAAACCCTAAAACCTCAAACTTGAAA-CTAAACCCT
1 AAAACCCTAAAACCCCAAAATTGAAACCTAAACCCT
805094 AAAACCTCT-AAACCCCAAAATTGAAACCCTAAACCCT
1 AAAACC-CTAAAACCCCAAAATTGAAA-CCTAAACCCT
805131 AAAA--CTAAAAACCCCAAA
1 AAAACCCT-AAAACCCCAAA
805149 CCTTAATCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
34 2 0.04
35 21 0.44
36 12 0.25
37 13 0.27
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.14
Consensus pattern (36 bp):
AAAACCCTAAAACCCCAAAATTGAAACCTAAACCCT
Found at i:805142 original size:22 final size:21
Alignment explanation
Indices: 805094--805150 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
805084 ACTAAACCCT
*
805094 AAAACCTCTAAACCCCAAAATT
1 AAAACC-CTAAACCCCAAAATA
* *
805116 GAAACCCTAAACCCTAAAACTA
1 AAAACCCTAAACCCCAAAA-TA
*
805138 AAAACCCCAAACC
1 AAAACCCTAAACC
805151 TTAATCGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.51, C:0.35, G:0.02, T:0.12
Consensus pattern (21 bp):
AAAACCCTAAACCCCAAAATA
Found at i:808183 original size:21 final size:22
Alignment explanation
Indices: 808144--808195 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
808134 TTCTCTCCCT
808144 TTTTTTTTAAATGCCTTTTTTTC
1 TTTTTTTTAAATG-CTTTTTTTC
*
808167 TTTTTTTTAGATG-TTTTTTTC
1 TTTTTTTTAAATGCTTTTTTTC
*
808188 TCTTTTTT
1 TTTTTTTT
808196 CCTTCTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 15 0.56
23 12 0.44
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTTTTTAAATGCTTTTTTTC
Found at i:809118 original size:144 final size:146
Alignment explanation
Indices: 808628--809168 Score: 474
Period size: 145 Copynumber: 3.7 Consensus size: 146
808618 TTAAAACACA
* * ** * * *
808628 AAAAATCATGAAATATTATAGGATTATA-ATCTGAAAAATTT-TGTGAAATTTTGAGCTCAAAAA
1 AAAAATCATGAAATATTATAGAATTA-AGATCTGAAAAGTTTCACTAAAATTTAGAGCTCGAAAA
* * * * * * * * * *
808691 AGTTAAATTATGAAAATACCCATTTGAGAGTATTTTGGTAATTTCACACTTCTCGAGGTACTATT
65 GGCTAAATTACGAAAATACCCCTATAAGGGTATTTTAGTAATTTCACACTTCTCGGGGTACTACT
* *
808756 ATAATTTCAAATGTATC
130 ATGATTTCAAATGCATC
* * * * * *
808773 AAAAATTATGAAATATTATA-AATCTAGGATATGAAAAGTTTCA-TGAAATTTAGAGCCCGGAAA
1 AAAAATCATGAAATATTATAGAAT-TAAGATCTGAAAAGTTTCACTAAAATTTAGAGCTCGAAAA
* * * * * *
808836 GGCCAAATTACGAAAATA-CTCTTTAAAGGGTATTTTAGTAATTTCATACTTCTCGGGATATTAC
65 GGCTAAATTACGAAAATACCCCTAT-AAGGGTATTTTAGTAATTTCACACTTCTCGGGGTACTAC
* * *
808900 TATGATTCTGAACT-CACC
129 TATGATT-TCAAATGCATC
* * * * * *
808918 AAAAATAATGAAATATTACAAAAGTAAGATCTGTAAAGTTTCAC-AAAATTTCGAGCTCGAAAAG
1 AAAAATCATGAAATATTATAGAATTAAGATCTGAAAAGTTTCACTAAAATTTAGAGCTCGAAAAG
* * ** *
808982 GCTAAATTACAAAAATACCCCTATAAGGGTAGTTTAGTAATTTCACAC-TCTCGGGGTACCGCTG
66 GCTAAATTACGAAAATACCCCTATAAGGGTATTTTAGTAATTTCACACTTCTCGGGGTACTACTA
809046 TGACTTT-AAATGCATC
131 TGA-TTTCAAATGCATC
* * * * **
809062 AAAAATCATGAAATATTATAGGATTAAGATCTGAAAGGTTTCACTAAAATCT-GAGCTAGGGAAG
1 AAAAATCATGAAATATTATAGAATTAAGATCTGAAAAGTTTCACTAAAATTTAGAGCTCGAAAAG
* *
809126 G-TCAAATTACGAAAATACCCCCATAAGGGTATTTTGGTAATTT
66 GCT-AAATTACGAAAATACCCCTATAAGGGTATTTTAGTAATTT
809169 GACCTTTTCC
Statistics
Matches: 317, Mismatches: 67, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
143 4 0.01
144 107 0.34
145 196 0.62
146 10 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (146 bp):
AAAAATCATGAAATATTATAGAATTAAGATCTGAAAAGTTTCACTAAAATTTAGAGCTCGAAAAG
GCTAAATTACGAAAATACCCCTATAAGGGTATTTTAGTAATTTCACACTTCTCGGGGTACTACTA
TGATTTCAAATGCATC
Found at i:809789 original size:21 final size:22
Alignment explanation
Indices: 809744--809796 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
809734 TTTATACAAT
* *
809744 TTATCATTTTTT-TTATTTTGT
1 TTATCATTTTTTATAATTTTGA
809765 TTATCATTTTTTATAATTTT-A
1 TTATCATTTTTTATAATTTTGA
809786 TTAT--TTTTTTA
1 TTATCATTTTTTA
809797 GCAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.24
21 16 0.55
22 6 0.21
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (22 bp):
TTATCATTTTTTATAATTTTGA
Found at i:809929 original size:18 final size:18
Alignment explanation
Indices: 809908--809948 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
809898 ATATTATATT
809908 TTTTAGGTCTATATTTTA
1 TTTTAGGTCTATATTTTA
* * *
809926 TTTTAGTTCTGTTTTTTA
1 TTTTAGGTCTATATTTTA
809944 TTTTA
1 TTTTA
809949 TTTATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.68
Consensus pattern (18 bp):
TTTTAGGTCTATATTTTA
Found at i:809960 original size:18 final size:19
Alignment explanation
Indices: 809919--809960 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
809909 TTTAGGTCTA
*
809919 TATTTTATTTTAGTTCTGT
1 TATTTTATTTTAGTTATGT
*
809938 T-TTTTATTTTATTTAT-T
1 TATTTTATTTTAGTTATGT
809955 TATTTT
1 TATTTT
809961 CAAAAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
TATTTTATTTTAGTTATGT
Found at i:809985 original size:3 final size:3
Alignment explanation
Indices: 809979--810035 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
809969 TTATTACTAG
809979 TAA TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
810025 TAA CAA TAA TA
1 TAA TAA TAA TA
810036 TCACAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Done.