Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, 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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 35
Found at i:5037414 original size:15 final size:14
Alignment explanation
Indices: 5037400--5037466 Score: 52
Period size: 15 Copynumber: 4.8 Consensus size: 14
5037390 TTTTTTTTTC
5037400 TTTTGTTCTTGTTT
1 TTTTGTTCTTGTTT
*
5037414 CTCTTT-TTCTT-TGT
1 -T-TTTGTTCTTGTTT
5037428 TTTT-TT-TTGTTT
1 TTTTGTTCTTGTTT
*
5037440 TTTTGCTTCTTTTCTT
1 TTTTG-TTCTTGT-TT
5037456 TTTTGTTCTTG
1 TTTTGTTCTTG
5037467 ATTGGATCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 2 0.05
12 11 0.26
13 1 0.02
14 4 0.10
15 14 0.33
16 10 0.24
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (14 bp):
TTTTGTTCTTGTTT
Found at i:5037456 original size:37 final size:38
Alignment explanation
Indices: 5037385--5037458 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
5037375 CTTTTTGATT
*
5037385 TTTGCTTTTTTTTTCTTTTGTTCTTGTTTCTCTTTTTC
1 TTTGCTTTTTTTTTCTTTTGTTCTTCTTTCTCTTTTTC
* *
5037423 TTTG-TTTTTTTTTGTTTTTTTGCTTCTTT-TCTTTTT
1 TTTGCTTTTTTTTTCTTTTGTT-CTTCTTTCTCTTTTT
5037459 TGTTCTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 22 0.69
38 10 0.31
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (38 bp):
TTTGCTTTTTTTTTCTTTTGTTCTTCTTTCTCTTTTTC
Found at i:5037461 original size:34 final size:37
Alignment explanation
Indices: 5037383--5037462 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 37
5037373 TTCTTTTTGA
* *
5037383 TTTTTGCTTTTTTTTTCTTTTGTTCTTGTTTCTCTTTT
1 TTTTTG-TTTTTTTTTCGTTTGTTCTTGCTTCTCTTTT
*
5037421 TCTTTGTTTTTTTTT-GTTT-TT-TTGCTTCT-TTTCT
1 TTTTTGTTTTTTTTTCGTTTGTTCTTGCTTCTCTTT-T
5037455 TTTTTGTT
1 TTTTTGTT
5037463 CTTGATTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
33 3 0.08
34 15 0.41
35 2 0.05
36 3 0.08
37 9 0.24
38 5 0.14
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (37 bp):
TTTTTGTTTTTTTTTCGTTTGTTCTTGCTTCTCTTTT
Found at i:5037465 original size:41 final size:39
Alignment explanation
Indices: 5037361--5037465 Score: 99
Period size: 39 Copynumber: 2.7 Consensus size: 39
5037351 TGCATGTGCT
* *
5037361 TTTTGTCCCTTTTTCTTTTTGATT-TTTGCTTTTTTTTTC
1 TTTTGTTCTTTTTTCTTTTTG-TTCTTTGCTTTTTTTTTC
* * *
5037400 TTTTGTTCTTGTTTCTCTTT-TTCTTTG-TTTTTTTTTG
1 TTTTGTTCTTTTTTCTTTTTGTTCTTTGCTTTTTTTTTC
*
5037437 TTTTTTTGCTTCTTTTCTTTTTTGTTCTT
1 TTTTGTT-CTT-TTTTC-TTTTTGTTCTT
5037466 GATTGGATCT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
37 17 0.32
38 7 0.13
39 20 0.38
40 4 0.08
41 5 0.09
ACGTcount: A:0.01, C:0.13, G:0.09, T:0.77
Consensus pattern (39 bp):
TTTTGTTCTTTTTTCTTTTTGTTCTTTGCTTTTTTTTTC
Found at i:5040681 original size:16 final size:18
Alignment explanation
Indices: 5040651--5040685 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
5040641 ATATAAAAAA
5040651 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
5040669 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
5040685 A
1 A
5040686 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:5040710 original size:17 final size:17
Alignment explanation
Indices: 5040619--5040713 Score: 50
Period size: 19 Copynumber: 5.2 Consensus size: 17
5040609 TAATGCAAAT
5040619 AAATA-ATAAAACAAGTA
1 AAATATATAAAA-AAGTA
* *
5040636 AAAGAATATAAAAAAATA
1 AAA-TATATAAAAAAGTA
* *
5040654 AAATATAGGATAAATA-TAA
1 AAATATA-TA-AAAAAGT-A
*
5040673 AAATAGATAAATAAATGAGTA
1 AAATATAT-AA-AAA--AGTA
5040694 AAATATATAAAAAAGTA
1 AAATATATAAAAAAGTA
5040711 AAA
1 AAA
5040714 GCATATATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
17 13 0.22
18 11 0.19
19 23 0.39
20 2 0.03
21 9 0.15
22 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.08, T:0.21
Consensus pattern (17 bp):
AAATATATAAAAAAGTA
Found at i:5040721 original size:20 final size:20
Alignment explanation
Indices: 5040696--5040733 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5040686 AATGAGTAAA
5040696 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
5040716 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
5040734 TAATAATAAT
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:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:5040750 original size:75 final size:72
Alignment explanation
Indices: 5040619--5040757 Score: 158
Period size: 75 Copynumber: 1.9 Consensus size: 72
5040609 TAATGCAAAT
*
5040619 AAATAATAAAACAAGTAAAAGAATATAAAAAAATAAAATATAGGATAAATATAAAAATAGATAAA
1 AAATAATAAAACAAGTAAAAGAATATAAAAAAATAAAATATA-GATAAATA-AAAAAAAGA-AAA
5040684 TAAATGAGTA
63 TAAATGAGTA
* * *
5040694 AAATATATAAAA-AAGTAAAAGCATATATATATAAGTAAAATAATA-AT-AATAAAAAAAAGAAA
1 AAATA-ATAAAACAAGTAAAAG-A-ATATAAAAAAATAAAAT-ATAGATAAATAAAAAAAAGAAA
5040756 AT
62 AT
5040758 CAAAAGTAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
73 4 0.07
74 8 0.14
75 18 0.32
76 9 0.16
77 14 0.25
78 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.22
Consensus pattern (72 bp):
AAATAATAAAACAAGTAAAAGAATATAAAAAAATAAAATATAGATAAATAAAAAAAAGAAAATAA
ATGAGTA
Found at i:5040803 original size:2 final size:2
Alignment explanation
Indices: 5040796--5040822 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5040786 AAAATAGGAA
5040796 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 A
5040823 ATAACACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5040867 original size:33 final size:32
Alignment explanation
Indices: 5040808--5040901 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 32
5040798 ATATATATAT
* *
5040808 ATATATATATATATAATAACACTAATAAAAAAC
1 ATATATACATATATAATAA-AATAATAAAAAAC
* **
5040841 ATATATACATATATAATAAAATTAATAGAAAGT
1 ATATATACATATATAATAAAA-TAATAAAAAAC
* *
5040874 A-ATATGCATATATAACAAGAATAATAAA
1 ATATATACATATATAATAA-AATAATAAA
5040902 GTAGGAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
32 22 0.43
33 29 0.57
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (32 bp):
ATATATACATATATAATAAAATAATAAAAAAC
Found at i:5041327 original size:34 final size:34
Alignment explanation
Indices: 5041284--5041353 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
5041274 TGAATCCTAG
5041284 TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
1 TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
* *
5041318 TAAAATTCTATCCTATTTTTAGGAGTTTGAATCC
1 TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
5041352 TA
1 TA
5041354 GTAGGACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (34 bp):
TAAAATTCTATCATATCTTTAGGAGTTTGAATCC
Found at i:5041436 original size:20 final size:17
Alignment explanation
Indices: 5041394--5041434 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
5041384 GTTGAACAAA
5041394 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
5041411 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
5041428 TTCTTCT
1 TTCTTCT
5041435 TCCTTCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.05, T:0.51
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:5041546 original size:113 final size:113
Alignment explanation
Indices: 5041411--5041660 Score: 419
Period size: 113 Copynumber: 2.2 Consensus size: 113
5041401 CATTATGAAC
*
5041411 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
*
5041476 GTAATGCTGATCCATTGAATGATGAATTCAAGAAAAAAGTTGAACAAG
66 GTAATGCTGATCCACTGAATGATGAATTCAAGAAAAAAGTTGAACAAG
* *
5041524 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCTAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* * * *
5041589 GTACTGCTGTTCCACTGAATGATGAATTTAAGCAAAAAGTTGAACAAG
66 GTAATGCTGATCCACTGAATGATGAATTCAAGAAAAAAGTTGAACAAG
*
5041637 TTCTTCTCATTATGAACTTTTTCT
1 TTCTTCTCATTATGAACTTCTTCT
5041661 GGAAAAGCTG
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 128 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
GTAATGCTGATCCACTGAATGATGAATTCAAGAAAAAAGTTGAACAAG
Found at i:5041649 original size:73 final size:73
Alignment explanation
Indices: 5041562--5041725 Score: 204
Period size: 73 Copynumber: 2.2 Consensus size: 73
5041552 TCTTTAGATG
* ** * *
5041562 AGTTCTTCTCATTATGAACTCTAACTGGTACTGCTGTTCCA-CTGAATGATGAATTTAAGCAAAA
1 AGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCATC-AAATGATGAATTTAAGCAAAA
5041626 AGTTGAACA
65 AGTTGAACA
* ** * * *
5041635 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAA
5041700 GTTGAACA
66 GTTGAACA
*
5041708 AATTCTTCTCATTATGAA
1 AGTTCTTCTCATTATGAA
5041726 TTTCTTCTTC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
73 77 0.99
74 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAA
GTTGAACA
Found at i:5042665 original size:115 final size:115
Alignment explanation
Indices: 5042489--5042830 Score: 555
Period size: 115 Copynumber: 3.0 Consensus size: 115
5042479 GATCATGCAG
* * * * * *
5042489 TTCATCTTTTAATTCTAATGATTGG-TTCTGTGGTTGC-TACCGAACCAGATCAGATAACTCAAA
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTT-CATACCAAACCAGATCAGATAACTCAAA
* *
5042552 TAACACTTCCAGAAGATTCTATTGGGTC-TCTTTATTTCTACTATGAGCACA
65 GAACACTTCCAGAAGATGCTATTGGGTCTTC-TTATTTCTACTATGAGCACA
5042603 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
5042668 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
5042718 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATATCAAATCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
5042783 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
5042831 AATGGCACTT
Statistics
Matches: 215, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
114 23 0.11
115 190 0.88
116 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:5044183 original size:5 final size:5
Alignment explanation
Indices: 5044175--5044254 Score: 82
Period size: 5 Copynumber: 16.4 Consensus size: 5
5044165 TTTTTTTCTT
5044175 TTTTC TTTTC -TTT- TTTTC TTTTC TTTTTC TTTTC --TTC TTTT- TTTTCC
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTT-C
5044222 TTTTC TTTT- TCTTTC TTTTC TTTTTC TTTTC TT
1 TTTTC TTTTC T-TTTC TTTTC -TTTTC TTTTC TT
5044255 CAAGCATAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.05
4 11 0.17
5 36 0.55
6 15 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:5044183 original size:6 final size:6
Alignment explanation
Indices: 5044167--5044251 Score: 83
Period size: 6 Copynumber: 14.7 Consensus size: 6
5044157 TTTTTCTCTT
*
5044167 TTTTTC TTTTT- TCTTTTC TTTTTT TCTTTTC TTTTTC -TTTTC TTCTTT-
1 TTTTTC TTTTTC T-TTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TT-TTTC
*
5044215 TTTTTC CTTTTC TTTTTC --TTTC -TTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
5044252 CTTCAAGCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.06
5 13 0.19
6 41 0.61
7 9 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:5044188 original size:11 final size:11
Alignment explanation
Indices: 5044158--5044254 Score: 108
Period size: 11 Copynumber: 8.6 Consensus size: 11
5044148 GACCCCCCAT
*
5044158 TTTTCTCTTT-
1 TTTTCTTTTTC
5044168 TTTTCTTTTTTC
1 TTTTC-TTTTTC
5044180 TTTTCTTTTTTTC
1 TTTTC--TTTTTC
5044193 TTTTCTTTTTC
1 TTTTCTTTTTC
*
5044204 TTTTCTTCTTTT
1 TTTTCTT-TTTC
*
5044216 TTTTCCTTTTC
1 TTTTCTTTTTC
*
5044227 TTTT-TCTTTC
1 TTTTCTTTTTC
5044237 TTTTCTTTTTC
1 TTTTCTTTTTC
5044248 TTTTCTT
1 TTTTCTT
5044255 CAAGCATAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
10 13 0.17
11 36 0.48
12 14 0.19
13 12 0.16
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:5044190 original size:29 final size:29
Alignment explanation
Indices: 5044157--5044246 Score: 116
Period size: 29 Copynumber: 3.1 Consensus size: 29
5044147 TGACCCCCCA
5044157 TTTTTCTCTTTT-TTTCTTTTTTCTTTTCT
1 TTTTTCTCTTTTCTTT-TTTTTTCTTTTCT
5044186 TTTTT-TCTTTTCTTTTTCTTTTCTTCTT-T
1 TTTTTCTCTTTTCTTTTT-TTTTCTT-TTCT
*
5044215 TTTTTC-CTTTTCTTTTTCTTTCTTTTCT
1 TTTTTCTCTTTTCTTTTTTTTTCTTTTCT
5044243 TTTT
1 TTTT
5044247 CTTTTCTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
27 2 0.04
28 19 0.35
29 32 0.58
30 2 0.04
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (29 bp):
TTTTTCTCTTTTCTTTTTTTTTCTTTTCT
Found at i:5044250 original size:44 final size:42
Alignment explanation
Indices: 5044157--5044255 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 42
5044147 TGACCCCCCA
5044157 TTTTTCTCTTT-TT-TTCTTTTTTCTTTTCTTTTTTTCTTTTC
1 TTTTTCT-TTTCTTCTTCTTTTTTCTTTTCTTTTTTTCTTTTC
5044198 TTTTTCTTTTCTTCTT-TTTTTTCCTTTTCTTTTTCTTTCTTTTC
1 TTTTTCTTTTCTTCTTCTTTTTT-CTTTTC-TTTT-TTTCTTTTC
5044242 TTTTTCTTTTCTTC
1 TTTTTCTTTTCTTC
5044256 AAGCATAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
40 3 0.06
41 15 0.28
42 8 0.15
43 4 0.08
44 23 0.43
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (42 bp):
TTTTTCTTTTCTTCTTCTTTTTTCTTTTCTTTTTTTCTTTTC
Found at i:5051579 original size:15 final size:15
Alignment explanation
Indices: 5051556--5051587 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5051546 TGAAATGAAT
5051556 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
5051571 AATGTATGTATGCAA
1 AATGAATGTATGCAA
5051586 AA
1 AA
5051588 AGGTATTGAT
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:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:5054712 original size:217 final size:216
Alignment explanation
Indices: 5054340--5054757 Score: 777
Period size: 217 Copynumber: 1.9 Consensus size: 216
5054330 TTAAATTCAT
5054340 GTAATTTAATCAGTAAGAGAATAAATAAATTAAAAAGAAAGTTAGAATTCATTTCTCCTGTGTGT
1 GTAATTTAATCAGTAAGAGAATAAATAAATTAAAAAGAAAGTTAGAATTCATTTCTCCTGTGTGT
5054405 ATACCTATTTTGGACAAAATTTTGGCATGGCTTCAGATCGGAAGAGTTTCTAGGGTTTATTATAT
66 ATACCTATTTTGGACAAAATTTTGGCATGGCTTCAGATCGGAAGAGTTTCTAGGGTTTATTATAT
5054470 GCAGGGTTTCAGATCTAAGAATAAAGGTACTTGAATTGTCCTTGTTAGTG-CCCCTTAGGCTG-T
131 GCAGGGTTTCAGATCTAAGAATAAAGGTACTTGAATTGTCCTTGTTAGTGCCCCCTTAGGCTGTT
5054533 AACCCTAATTTAAATTGGACA
196 AACCCTAATTTAAATTGGACA
* *
5054554 GTAATTTAATCAGTAAGAGAATAAATAAATTAAAACCCGAAAGTTAGAGGTTCATTTCTCCTGTG
1 GTAATTTAATCAGTAAGAGAATAAATAAATTAAAA--AGAAAGTTAGA-ATTCATTTCTCCTGTG
5054619 TGTATACCTATTTTGGACAAAATTTTGGCATGGCTTCAGATCGGAAGAGTTTCTAGGGTTTATTA
63 TGTATACCTATTTTGGACAAAATTTTGGCATGGCTTCAGATCGGAAGAGTTTCTAGGGTTTATTA
5054684 TATGCAGGGTTTCAGATCTAAGAATAAAGGTACTTGAATTGTCCTTGTTAGTGCCCCCTTAGGCT
128 TATGCAGGGTTTCAGATCTAAGAATAAAGGTACTTGAATTGTCCTTGTTAGTGCCCCCTTAGGCT
5054749 GTTAACCCT
193 GTTAACCCT
5054758 CAATCCTAGT
Statistics
Matches: 197, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
214 35 0.18
216 10 0.05
217 133 0.68
218 12 0.06
219 7 0.04
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (216 bp):
GTAATTTAATCAGTAAGAGAATAAATAAATTAAAAAGAAAGTTAGAATTCATTTCTCCTGTGTGT
ATACCTATTTTGGACAAAATTTTGGCATGGCTTCAGATCGGAAGAGTTTCTAGGGTTTATTATAT
GCAGGGTTTCAGATCTAAGAATAAAGGTACTTGAATTGTCCTTGTTAGTGCCCCCTTAGGCTGTT
AACCCTAATTTAAATTGGACA
Found at i:5058315 original size:10 final size:10
Alignment explanation
Indices: 5058302--5058336 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5058292 CTAATATAAC
*
5058302 CTAATTGCAA
1 CTAAATGCAA
5058312 CTAAATGCAA
1 CTAAATGCAA
*
5058322 CTAAATACAA
1 CTAAATGCAA
5058332 CTAAA
1 CTAAA
5058337 ATGCTATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:5064776 original size:45 final size:45
Alignment explanation
Indices: 5064725--5064814 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
5064715 ATTTATAGAA
5064725 TATTGAAGGTTGACTAATCACATTTCTTCTTCATATCACACATGT
1 TATTGAAGGTTGACTAATCACATTTCTTCTTCATATCACACATGT
5064770 TATTGAAGGTTGACTAATCACATTTCTTCTTCATATCACACATGT
1 TATTGAAGGTTGACTAATCACATTTCTTCTTCATATCACACATGT
5064815 AATAGTATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (45 bp):
TATTGAAGGTTGACTAATCACATTTCTTCTTCATATCACACATGT
Found at i:5077030 original size:20 final size:20
Alignment explanation
Indices: 5077005--5077045 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5076995 AGGATGGATG
*
5077005 CCTAGTCTTTGGTATAGATA
1 CCTAGTCTTCGGTATAGATA
*
5077025 CCTAGTCTTCGGTATGGATA
1 CCTAGTCTTCGGTATAGATA
5077045 C
1 C
5077046 TATCCAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
CCTAGTCTTCGGTATAGATA
Found at i:5082404 original size:75 final size:75
Alignment explanation
Indices: 5082320--5082469 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
5082310 AGGTATGACA
5082320 TGGGATGGATTGGATTAATATCTTCGAAGTATGAAGATGTTGAAAACATTTTGGATGCTTTCAAG
1 TGGGATGGATTGGATTAATATCTTCGAAGTATGAAGATGTTGAAAACATTTTGGATGCTTTCAAG
5082385 CACTGAAGGC
66 CACTGAAGGC
5082395 TGGGATGGATTGGATTAATATCTTCGAAGTATGAAGATGTTGAAAACATTTTGGATGCTTTCAAG
1 TGGGATGGATTGGATTAATATCTTCGAAGTATGAAGATGTTGAAAACATTTTGGATGCTTTCAAG
5082460 CACTGAAGGC
66 CACTGAAGGC
5082470 ATCACTAAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.32
Consensus pattern (75 bp):
TGGGATGGATTGGATTAATATCTTCGAAGTATGAAGATGTTGAAAACATTTTGGATGCTTTCAAG
CACTGAAGGC
Found at i:5085645 original size:37 final size:37
Alignment explanation
Indices: 5085593--5085696 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
5085583 CTTTTCGTCA
5085593 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATT-
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
* * *
5085629 TGGCTAGGATTCAAACTCCTAAAAATATGATAGAGTTC
1 T-ACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
* * *
5085667 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
5085697 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 1 0.02
37 56 0.97
38 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
Found at i:5086181 original size:68 final size:66
Alignment explanation
Indices: 5086109--5086285 Score: 155
Period size: 68 Copynumber: 2.6 Consensus size: 66
5086099 CATTATTTTC
5086109 ATTATATAAATATATATACGTATATTTTTTTAAATGATTTTCAATTGATT-TTTTTT-ACACTAT
1 ATTAT-TAAATATATATAC-TATATTTTTTTAAAT-ATTTTCAATTGATTATTTTTTAACACTAT
5086172 ATATT
63 AT-TT
* ** * * * *
5086177 ATTATT-ATTATATATACATATATATTTTTATTTATTTATATTCATTTGGTTATTTTTTAATACT
1 ATTATTAAATATATATAC---TATA-TTTT-TTTAAATATTTTCAATTGATTATTTTTTAACACT
5086241 ATATTT
61 ATATTT
*
5086247 ATTATTTATATATATATA-TATACTTTTTTTAAATATTTT
1 ATTA-TTAAATATATATACTATA-TTTTTTTAAATATTTT
5086286 ACTTATAAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
66 10 0.11
67 10 0.11
68 17 0.20
69 15 0.17
70 17 0.20
71 10 0.11
72 8 0.09
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.59
Consensus pattern (66 bp):
ATTATTAAATATATATACTATATTTTTTTAAATATTTTCAATTGATTATTTTTTAACACTATATT
T
Found at i:5086201 original size:26 final size:27
Alignment explanation
Indices: 5086164--5086217 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
5086154 TGATTTTTTT
5086164 TACACTATATATTATTA-TTATTATATA
1 TACACTATATATTATTATTTATT-TATA
*
5086191 TACA-TATATATTTTTATTTATTTATA
1 TACACTATATATTATTATTTATTTATA
5086217 T
1 T
5086218 TCATTTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (27 bp):
TACACTATATATTATTATTTATTTATA
Found at i:5086254 original size:19 final size:19
Alignment explanation
Indices: 5086194--5086263 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 19
5086184 TTATATATAC
*
5086194 ATATATATTTTTATTTATTT
1 ATATATATATTTA-TTATTT
* *
5086214 ATAT-TCATTTGGTTATTTTTT
1 ATATAT-ATAT--TTATTATTT
5086235 A-ATACTATATTTATTATTT
1 ATATA-TATATTTATTATTT
5086254 ATATATATAT
1 ATATATATAT
5086264 ATATACTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
19 15 0.37
20 13 0.32
21 9 0.22
22 4 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
ATATATATATTTATTATTT
Found at i:5086556 original size:2 final size:2
Alignment explanation
Indices: 5086549--5086573 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5086539 TTTACTCATT
5086549 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 T
5086574 TAATATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5089601 original size:46 final size:46
Alignment explanation
Indices: 5089551--5089640 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
5089541 GCGAAGATCC
*
5089551 AATCAAGAACAAAAAAGCAA-ATAAGCAAAAATCAAATA-AAAAAGAG
1 AATCAAGAACAAAAAAG-AAGAGAAGCAAAAATCAAA-AGAAAAAGAG
5089597 AATCAAGAACAAAAAAGAAGAGAAGCAAAAATCAAAAGAAAAAG
1 AATCAAGAACAAAAAAGAAGAGAAGCAAAAATCAAAAGAAAAAG
5089641 GGAGAAAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
45 3 0.07
46 38 0.93
ACGTcount: A:0.70, C:0.10, G:0.13, T:0.07
Consensus pattern (46 bp):
AATCAAGAACAAAAAAGAAGAGAAGCAAAAATCAAAAGAAAAAGAG
Found at i:5089620 original size:22 final size:22
Alignment explanation
Indices: 5089551--5089620 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
5089541 GCGAAGATCC
*
5089551 AATCAAGAACAAAAAAGCAA-AT
1 AATCAAGAACAAAAAAG-AAGAG
* * *
5089573 AAGCAAAAATCAAATAAAAAAGAG
1 AATCAAGAA-CAAA-AAAGAAGAG
5089597 AATCAAGAACAAAAAAGAAGAG
1 AATCAAGAACAAAAAAGAAGAG
5089619 AA
1 AA
5089621 GCAAAAATCA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
22 17 0.45
23 10 0.26
24 11 0.29
ACGTcount: A:0.70, C:0.10, G:0.13, T:0.07
Consensus pattern (22 bp):
AATCAAGAACAAAAAAGAAGAG
Found at i:5089633 original size:22 final size:23
Alignment explanation
Indices: 5089573--5089640 Score: 84
Period size: 22 Copynumber: 2.9 Consensus size: 23
5089563 AAAAGCAAAT
5089573 AAGCAAAAATCAAATAAAAAAGAG
1 AAGCAAAAATCAAA-AAAAAAGAG
* * *
5089597 AATCAAGAA-CAAAAAAGAAGAG
1 AAGCAAAAATCAAAAAAAAAGAG
5089619 AAGCAAAAATCAAAAGAAAAAG
1 AAGCAAAAATCAAAA-AAAAAG
5089641 GGAGAAAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 15 0.42
23 9 0.25
24 12 0.33
ACGTcount: A:0.71, C:0.09, G:0.15, T:0.06
Consensus pattern (23 bp):
AAGCAAAAATCAAAAAAAAAGAG
Found at i:5090302 original size:22 final size:22
Alignment explanation
Indices: 5090228--5090304 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
5090218 GCTACCCCAT
*
5090228 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
5090250 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
5090272 CAAACCTTTGAGCATCAAATAC
1 CAAACCTTTGAGCATCAAATGC
5090294 CAAACCTTTGA
1 CAAACCTTTGA
5090305 CCAAAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:5091322 original size:106 final size:106
Alignment explanation
Indices: 5091110--5092392 Score: 1904
Period size: 106 Copynumber: 12.1 Consensus size: 106
5091100 ATATCGTGCC
* * * * * *
5091110 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-AATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5091174 AATTTCTGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
5091215 ACTCTAGACAACACAAGTTTAACTTCATGACGAAGGGACCGTTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5091280 AATTTTAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** ** *
5091321 ACTCCAGACAACATAAGTTCAACTTCGTGACGAAGGGACCGCTGGTTGTCAATAAATAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCC
5091385 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * *
5091427 ACTCCAGACAACATAAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
5091492 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5091533 ACTCCAGACAACGCCAGTTCAACTTCAAGACGAAGGGACCGCTGGTTATCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5091598 AAATTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5091639 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCCCTGGTTATCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
5091704 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
5091745 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* **
5091810 AATTTCAGAGACAATTTCAACTTCACAGCGAAATATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5091851 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGTCCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
5091916 GATTTGAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
5091957 ACTCCAGACAACGCTAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAACAAACAATTTATC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
5092022 AATTTCAGAGCCAATTTCAACTTTAGAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5092063 ACTCCACACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTACC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5092128 AATTTCAGAGCCAATTTCAACTTCACATCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
5092169 ACTCAAGACAACGCAAGTTCAACTTCACGATGAAGGGATCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
5092234 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5092275 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* **
5092340 AATTTCAGAGCCAATTTCAACTTTACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
5092381 ACTCCAGACAAC
1 ACTCCAGACAAC
5092393 TTCAAGATGA
Statistics
Matches: 1072, Mismatches: 103, Indels: 5
0.91 0.09 0.00
Matches are distributed among these distances:
105 51 0.05
106 1018 0.95
107 3 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:5092691 original size:106 final size:106
Alignment explanation
Indices: 5092449--5093959 Score: 2218
Period size: 106 Copynumber: 14.2 Consensus size: 106
5092439 AAATACACGA
* * * * *
5092449 CGAAGGATATTGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGACGGGACGGCTGGTTGT
1 CGAAGGATATTG-G--ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * * * *
5092514 CAACAAAAAATTT-CCAATTTCTGAGCCAATTTCAACATCACAT
63 CAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* *
5092557 CGAAGGATATTGGACTCCAGACAACACAAGTACAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
5092622 TAAACAATTTCCCAATTTCAGAGCCAATTTTAACTTCATAG
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * * *
5092663 CGAAGGATATTGGACTCCAGGCAACACAAGCTCAACATCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
*
5092728 TAAACAACTTTCCC-ATTTCAGAGCTAATTTCAACTTCACAG
66 TAAACAA-TTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* *
5092769 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGAGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
5092834 TAAAAAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAT
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * *
5092875 CGAAGGATATTGGAGTCCAGACAACGCAAGTTCAACTTCACAAAGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * ** * *
5092940 CAAACAACTTCTTAATTTCAGAGCCAATTTCAACTTCAAAA
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * *
5092981 TGAAGGATATTGGACTCCAGACAACGCAACTTCAACTTCACGACGAAGGGACCTCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
*
5093046 TAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* *
5093087 CGAAGGATATTGGTCTCAAGACATA-GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 CGAAGGATATTGGACTCCAGACA-ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
5093151 ATAAACAACTTCCCAATTTCAGAGCCATTTTCAACTTCACAA
65 ATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
*
5093193 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
5093258 TAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * *
5093299 CAAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * *
5093364 TAAACAGTTTCCAAATTTCAGAGCCAATTTCAACTTCAGAG
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * * *
5093405 TGAAAGATATTGGACTCAAGACAGCGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
5093470 TAAACAACTTCCCAATTTGAGAGCCAATTTCAACTTCACAG
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * *
5093511 CGAAGGATATTGGACTCCAGACAATGCTAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * ** * * *
5093576 CAAACAACTTATCAATTTCAGAGCCAATTTCAACTTTAGAA
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
5093617 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
5093682 TAAATAATTTCCCAATTTTAGAGCCAATTTCAACTTCACAG
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * *
5093723 CGTAGGATATTGGTCTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * *
5093788 TAAATAACTTCCCAATTTCAGAGCCAATTTTAACTTCACAG
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
5093829 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * * * * *
5093894 CAAAAAAATTCTCAATTTCAGAGCCAATTTCAACTTTACAA
66 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* *
5093935 CAAAGGATATTGGACTCCATACAAC
1 CGAAGGATATTGGACTCCAGACAAC
5093960 TTCATGATGA
Statistics
Matches: 1268, Mismatches: 130, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
105 62 0.05
106 1186 0.94
107 8 0.01
108 12 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
Found at i:5094244 original size:106 final size:106
Alignment explanation
Indices: 5094032--5096235 Score: 3084
Period size: 106 Copynumber: 21.0 Consensus size: 106
5094022 ATATCGTGCC
* * * * * * *
5094032 ACTCAAGACAACACAAGTTCAACTTCACAACGACGGGACAGCTGGTTGTCAACAAA-AATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5094096 AATTTCTGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5094137 ACTCTAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
5094202 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
5094243 ACTCTAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCC
*
5094307 CAATTTCAGAGCCAATTTGAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * ** *
5094349 ACTCCAGACAACGTAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACATCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
5094414 AATTTCATAGCCAATTTCAACTTCACTA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAC-AGCGAAGGATATTGG
* *
5094455 ACTCCAGACAACGCAAATTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
5094520 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
5094561 ACTCCAGACAACGCAAGTTCAAATTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5094626 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
5094667 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCTCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
5094732 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5094773 ACTCAAGACAAAGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
5094838 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
5094879 ACTCCAGACAACACAATTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
5094944 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5094985 ACTCAAGACAAAGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
5095050 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * ** **
5095091 ACTCCAGACAATGCTAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACACCTTATC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * * *
5095156 AATTTTAGAGCCAATTTCAACTTTAGAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
5095197 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*** *
5095262 AATTTCAGAGCCAATTTCAACTTCTTTGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5095303 ACTCAAGACAACGCAAGTTCAACTTCACGAGGAATGGACCGCTGGTTGTCAATAAATAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTCC
*
5095367 CAATTTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5095409 ACTCCAGACAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5095474 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
5095515 ACT-C---C-A-G--A---CAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
5095569 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
5095610 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5095675 AATTTCAGAGCCAATTTAAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5095716 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAACGCTGGTTGTCAAGAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
5095781 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5095822 ACTCTAGAGAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAAT--A-AA-----C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
5095879 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5095920 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
5095985 AATTTCAGAGCAAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
5096026 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAA-CAA-AATTT--
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
* * *
5096086 C-A-TTCAAAGTCAATTTCAACTTCACAGCGAATGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
5096126 ACTCAAGATAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
** * *
5096191 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
5096232 ACTC
1 ACTC
5096236 GGAACAATGC
Statistics
Matches: 1881, Mismatches: 183, Indels: 69
0.88 0.09 0.03
Matches are distributed among these distances:
95 83 0.04
98 90 0.05
99 1 0.00
100 79 0.04
101 8 0.00
102 7 0.00
103 3 0.00
104 6 0.00
105 60 0.03
106 1537 0.82
107 7 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:5097017 original size:37 final size:37
Alignment explanation
Indices: 5096964--5097068 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
5096954 CCTTTTTGTC
5096964 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT-AAAATT
* * * *
5097002 -TTCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
5097038 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
5097069 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
36 4 0.07
37 53 0.93
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:5097376 original size:14 final size:14
Alignment explanation
Indices: 5097359--5097419 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 14
5097349 TTTCCAATTG
5097359 ATTTTTTTTATATT
1 ATTTTTTTTATATT
*
5097373 ATTTTATTTATTATAT
1 ATTTTTTTTA-TAT-T
5097389 ATTTTTTATTTATATT
1 A-TTTTT-TTTATATT
*
5097405 CATTTGTTATTATAT
1 -ATTT-TTTTTATAT
5097420 AAATATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 9 0.24
15 3 0.08
16 12 0.32
17 10 0.26
18 4 0.11
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (14 bp):
ATTTTTTTTATATT
Found at i:5097393 original size:28 final size:29
Alignment explanation
Indices: 5097362--5097419 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
5097352 CCAATTGATT
*
5097362 TTTTTTATATTAT-TTTATTTATTA-TATA
1 TTTTTTAT-TTATATTCATTTATTATTATA
*
5097390 TTTTTTATTTATATTCATTTGTTATTATA
1 TTTTTTATTTATATTCATTTATTATTATA
5097419 T
1 T
5097420 AAATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.15
28 17 0.65
29 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTTTTATTTATATTCATTTATTATTATA
Found at i:5097409 original size:17 final size:17
Alignment explanation
Indices: 5097367--5097514 Score: 59
Period size: 18 Copynumber: 7.8 Consensus size: 17
5097357 TGATTTTTTT
5097367 TATATTATTTTATTTATTA
1 TATATT-TTTTATTTA-TA
5097386 TATATTTTTTATTTATA
1 TATATTTTTTATTTATA
5097403 T-TCATTTGTTATTATATAAATATA
1 TAT-A-TT-TT-TTAT-T---TATA
* *
5097427 TATATATTTTTTTTTAAA
1 TATAT-TTTTTATTTATA
* *
5097445 TATTTTCTTATTTTTTACATA
1 TATATT-TT-TTATTT--ATA
*
5097466 TATATTATTATATATATATA
1 TATATT-TT-T-TATTTATA
5097486 TATATTTTTTATTT-TA
1 TATATTTTTTATTTATA
*
5097502 TTTA-TTTTTATTT
1 TATATTTTTTATTT
5097515 TTTATACTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
15 9 0.09
16 6 0.06
17 9 0.09
18 21 0.20
19 16 0.15
20 13 0.12
21 13 0.12
22 6 0.06
23 3 0.03
24 7 0.07
25 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (17 bp):
TATATTTTTTATTTATA
Found at i:5097456 original size:41 final size:42
Alignment explanation
Indices: 5097384--5097474 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 42
5097374 TTTTATTTAT
* *
5097384 TATATATTTTTTATTTATATTCATTTGTTATTATATAAATATA
1 TATATATTTTTTATTTAAATT-ATTTCTTATTATATAAATATA
* * *
5097427 TATATATTTTTT-TTTAAA-TATTTTCTTATTTTTTACATATA
1 TATATATTTTTTATTTAAATTA-TTTCTTATTATATAAATATA
5097468 TAT-TATT
1 TATATATT
5097475 ATATATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
40 5 0.12
41 20 0.48
42 5 0.12
43 12 0.29
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (42 bp):
TATATATTTTTTATTTAAATTATTTCTTATTATATAAATATA
Found at i:5097601 original size:9 final size:9
Alignment explanation
Indices: 5097583--5097621 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
5097573 GGTTTATATA
5097583 TTTATTTAT
1 TTTATTTAT
*
5097592 TTTGTTTAT
1 TTTATTTAT
*
5097601 TTTATTTGT
1 TTTATTTAT
*
5097610 TTTTTTTAT
1 TTTATTTAT
5097619 TTT
1 TTT
5097622 CATATACTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (9 bp):
TTTATTTAT
Found at i:5097606 original size:18 final size:18
Alignment explanation
Indices: 5097583--5097621 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5097573 GGTTTATATA
5097583 TTTATTTATTTTGTTTAT
1 TTTATTTATTTTGTTTAT
* *
5097601 TTTATTTGTTTTTTTTAT
1 TTTATTTATTTTGTTTAT
5097619 TTT
1 TTT
5097622 CATATACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTATTTATTTTGTTTAT
Found at i:5097680 original size:18 final size:18
Alignment explanation
Indices: 5097657--5097703 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
5097647 TATTATACCA
5097657 TTATA-TTATATATATATT
1 TTATATTTAT-TATATATT
5097675 TTATATTTATTATATATT
1 TTATATTTATTATATATT
5097693 TT-TATTT-TTAT
1 TTATATTTATTAT
5097704 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.14
17 5 0.18
18 15 0.54
19 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATTTATTATATATT
Found at i:5097692 original size:11 final size:11
Alignment explanation
Indices: 5097629--5097697 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
5097619 TTTCATATAC
5097629 TATTAT-TATT
1 TATTATATATT
5097639 T-TTA-ATA-T
1 TATTATATATT
*
5097647 TATTATACCATT
1 TATTATA-TATT
*
5097659 ATATTATATATA
1 -TATTATATATT
*
5097671 TATTTTATATT
1 TATTATATATT
5097682 TATTATATATT
1 TATTATATATT
5097693 T-TTAT
1 TATTAT
5097698 TTTTATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
8 2 0.04
9 8 0.17
10 6 0.13
11 21 0.45
12 3 0.06
13 7 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATATATT
Found at i:5097696 original size:13 final size:12
Alignment explanation
Indices: 5097575--5097722 Score: 52
Period size: 12 Copynumber: 12.2 Consensus size: 12
5097565 TTATATTTGG
*
5097575 TTTATATATTTA
1 TTTATATTTTTA
*
5097587 TTTATTTTGTTTA
1 TTTATATT-TTTA
*
5097600 TTT-TATTTGTTT
1 TTTATATTT-TTA
* *
5097612 TTTTTATTTTCA
1 TTTATATTTTTA
* *
5097624 TATACTATTATTA
1 TTTA-TATTTTTA
* * *
5097637 TTTTTAATATTA
1 TTTATATTTTTA
***
5097649 -TTATACCATTA
1 TTTATATTTTTA
* *
5097660 TATTATATATATA
1 T-TTATATTTTTA
*
5097673 TTT-TATATTTA
1 TTTATATTTTTA
5097684 TTATATATTTTTA
1 TT-TATATTTTTA
*
5097697 TTTTTATTTTT-
1 TTTATATTTTTA
* *
5097708 TTTTTTTTTTTA
1 TTTATATTTTTA
5097720 TTT
1 TTT
5097723 TTTTTATTAT
Statistics
Matches: 103, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
11 28 0.27
12 38 0.37
13 37 0.36
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (12 bp):
TTTATATTTTTA
Found at i:5097706 original size:11 final size:11
Alignment explanation
Indices: 5097671--5097735 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
5097661 ATTATATATA
*
5097671 TATTTTATATT
1 TATTTTATTTT
5097682 TATTATATATTTT
1 TATT-T-TATTTT
5097695 TATTTTTATTTT
1 TA-TTTTATTTT
* *
5097707 TTTTTTTTTTT
1 TATTTTATTTT
*
5097718 TATTTTTTTTAT
1 TATTTTATTT-T
5097730 TATTTT
1 TATTTT
5097736 TATTCTTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
11 21 0.46
12 15 0.33
13 8 0.17
14 2 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:5097728 original size:9 final size:9
Alignment explanation
Indices: 5097697--5097739 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
5097687 TATATTTTTA
5097697 TTTTTATTT
1 TTTTTATTT
5097706 TTTTT-TTT
1 TTTTTATTT
5097714 TTTTTATTT
1 TTTTTATTT
*
5097723 TTTTTATTA
1 TTTTTATTT
5097732 TTTTTATT
1 TTTTTATT
5097740 CTTCATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:5097749 original size:40 final size:41
Alignment explanation
Indices: 5097673--5097764 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 41
5097663 TATATATATA
* * **
5097673 TTTTATATTTATTATATATTTTTATTTTTATTTTTTTTTTTT
1 TTTTATTTTTATTATATATTTTTATTTTCA-TTTTTTTCATT
*
5097715 TTTTATTTTTTTTAT-TATTTTTATTCTTCA-TTTTTTCATT
1 TTTTATTTTTATTATATATTTTTATT-TTCATTTTTTTCATT
*
5097755 TATTATTTTT
1 TTTTATTTTT
5097765 CATCTTATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
40 17 0.40
41 10 0.23
42 16 0.37
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (41 bp):
TTTTATTTTTATTATATATTTTTATTTTCATTTTTTTCATT
Found at i:5106627 original size:18 final size:18
Alignment explanation
Indices: 5106600--5106647 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
5106590 TGGATACCTT
*
5106600 TTTGAATAATTTGTTGTA
1 TTTGATTAATTTGTTGTA
* *
5106618 TTTGATTAATATATTGTA
1 TTTGATTAATTTGTTGTA
*
5106636 -TTGATAAATTTG
1 TTTGATTAATTTG
5106648 ACTATTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (18 bp):
TTTGATTAATTTGTTGTA
Found at i:5111586 original size:20 final size:20
Alignment explanation
Indices: 5111524--5111594 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
5111514 GAAGCCTTAA
5111524 GTATGGATACCCAATC-TTTG
1 GTATGGATA-CCAATCATTTG
* * * * *
5111544 ATATAGATATCAGTTCATCTG
1 GTATGGATACCA-ATCATTTG
5111565 GTATGGATACCAATCATTTG
1 GTATGGATACCAATCATTTG
5111585 GTATGGATAC
1 GTATGGATAC
5111595 TTGTTTATCC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
19 2 0.05
20 25 0.64
21 12 0.31
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (20 bp):
GTATGGATACCAATCATTTG
Found at i:5111752 original size:61 final size:61
Alignment explanation
Indices: 5111681--5111810 Score: 199
Period size: 61 Copynumber: 2.1 Consensus size: 61
5111671 ACTGTATCAA
* *
5111681 TATTGATAGGGAGCATCTGGTATCAAT-ACTACAACCCTTAATATTGATACCAAGGGGTCAT
1 TATTGATAGGGAGCATCTGGTATCAATGA-TACAACCCTCAATATTGACACCAAGGGGTCAT
* * *
5111742 TATTGATAGGGAGCATCTGGTATCGATGATACAACCCTCAGTATTGACACCAAGGGGTTAT
1 TATTGATAGGGAGCATCTGGTATCAATGATACAACCCTCAATATTGACACCAAGGGGTCAT
5111803 TATTGATA
1 TATTGATA
5111811 CTCATTGTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 62 0.98
62 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (61 bp):
TATTGATAGGGAGCATCTGGTATCAATGATACAACCCTCAATATTGACACCAAGGGGTCAT
Found at i:5121704 original size:20 final size:20
Alignment explanation
Indices: 5121679--5121717 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5121669 ATTTCACCAC
*
5121679 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
5121699 ATGCAACTATATGATCCTA
1 ATGCAACTATATGATCCTA
5121718 TATGAGCTCT
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:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:5129781 original size:20 final size:20
Alignment explanation
Indices: 5129752--5129790 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5129742 ATTTCACCAT
*
5129752 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
5129772 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
5129791 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:5133479 original size:49 final size:49
Alignment explanation
Indices: 5133405--5133615 Score: 316
Period size: 49 Copynumber: 4.3 Consensus size: 49
5133395 ATGTCAAATT
* *
5133405 CATTTAACTTTCATTTGTTGCACCTTTTATGCCGAAATGCACCGTTATG
1 CATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATG
* * * * *
5133454 CATTTAACTTTCATTAGTGGTACCTTTTATGCTGATATGTATCGTTATG
1 CATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATG
* * *
5133503 CATTTAACTTTCATTAGTGGCACCTTTTATGCTGAAACGCACCTTTATG
1 CATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATG
5133552 CATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCA-CGATTATG
1 CATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCG-TTATG
5133601 CATTTAACTTTCATT
1 CATTTAACTTTCATT
5133616 CATTTTAGAG
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
48 1 0.01
49 144 0.99
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (49 bp):
CATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATG
Found at i:5134569 original size:3 final size:3
Alignment explanation
Indices: 5134563--5134612 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
5134553 ATCCATTTGT
* * *
5134563 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA -AA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5134610 TTA
1 TTA
5134613 CATTTCAGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:5135934 original size:16 final size:17
Alignment explanation
Indices: 5135891--5135963 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 17
5135881 TAATACTTTC
5135891 ATTTATTTTTACAAGTTTT
1 ATTTATTTTT-CAA-TTTT
5135910 A-TTACTTTTT-AATTTT
1 ATTTA-TTTTTCAATTTT
*
5135926 ATTTATTTTAGTCATTGTTT
1 ATTTATTTT--TCAAT-TTT
5135946 ATTTATATTTT-AATTTT
1 ATTTAT-TTTTCAATTTT
5135963 A
1 A
5135964 CTTGTTTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
16 9 0.20
17 9 0.20
18 6 0.13
19 9 0.20
20 9 0.20
21 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (17 bp):
ATTTATTTTTCAATTTT
Found at i:5136081 original size:45 final size:49
Alignment explanation
Indices: 5135993--5136083 Score: 118
Period size: 47 Copynumber: 1.9 Consensus size: 49
5135983 ATTATTGTTA
5135993 TTATTATTATATATTCATATAAATATGTATAATAAATAATATTTATTTAC
1 TTATTATTATATATTCATATAAATATGTAT-ATAAATAATATTTATTTAC
* **
5136043 TTATT-TT-TATATT-ATATATATATGTAT-TAAATCCTATTTAT
1 TTATTATTATATATTCATATAAATATGTATATAAATAATATTTAT
5136084 AAATTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 12 0.32
47 13 0.34
48 6 0.16
49 2 0.05
50 5 0.13
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (49 bp):
TTATTATTATATATTCATATAAATATGTATATAAATAATATTTATTTAC
Found at i:5136096 original size:45 final size:47
Alignment explanation
Indices: 5136002--5136096 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 47
5135992 ATTATTATTA
** *
5136002 TATATTCATATAAATATGTATAATAAATAATATTTATTTACTTATTTT
1 TATATTCATATAAATATGTAT-ATAAATAATATTTATAAACTTAATTT
* ** *
5136050 TATATT-ATATATATATGTAT-TAAATCCTATTTATAAATTTAATTT
1 TATATTCATATAAATATGTATATAAATAATATTTATAAACTTAATTT
5136095 TA
1 TA
5136097 CATAAATTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
45 21 0.52
47 13 0.32
48 6 0.15
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (47 bp):
TATATTCATATAAATATGTATATAAATAATATTTATAAACTTAATTT
Found at i:5136231 original size:144 final size:142
Alignment explanation
Indices: 5136101--5136366 Score: 340
Period size: 144 Copynumber: 1.8 Consensus size: 142
5136091 ATTTTACATA
*
5136101 AATTACTTTTAAGACAAATAATCATATT-TTAATATTTATTTA-TTTTTAATATTAAGAAATGTG
1 AATTA-TTTTAAG--AAA-AAT-ATATTATTAATATTTATTTATTTTTTAATATTAAGAAATGGG
5136164 CTATCTTAAAGCACCCAGAAGTCATTTTCTGATA-TTCTTAAATAAATAAATATCATATTGTTAT
61 CTATCTTAAAGCACCCAGAAGTCATTTTCTGATATTTC-TAAATAAATAAATATCATATTGTTAT
5136228 AAATTATATATTAATTTAT
125 AAATTATATATTAA-TTAT
** * * * * *
5136247 TTTTATTTTTAGAAAAATGTTTTATTAATATTTATTTATTTTTTTAATATTAAGAAATGGGTTGT
1 AATTATTTTAAGAAAAATATATTATTAATATTTATTTA-TTTTTTAATATTAAGAAATGGGCTAT
* * *
5136312 CTTAAAGCACCTAGAGGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATT
65 CTTAAAGCACCCAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCATATT
5136367 TATAAAAATA
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
141 3 0.03
142 17 0.16
143 3 0.03
144 70 0.67
145 9 0.09
146 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (142 bp):
AATTATTTTAAGAAAAATATATTATTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTATC
TTAAAGCACCCAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCATATTGTTATAAATTA
TATATTAATTAT
Found at i:5136922 original size:28 final size:26
Alignment explanation
Indices: 5136891--5136949 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
5136881 TAATCCTTTC
*
5136891 TTTTAAAAATTTTTATATATACTTATT
1 TTTTAAAAATATTTATATATA-TTATT
* *
5136918 ATTTTCATAATATTTATATATATTATT
1 -TTTTAAAAATATTTATATATATTATT
5136945 TTTTA
1 TTTTA
5136950 TTAATATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 5 0.19
28 18 0.67
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTAAAAATATTTATATATATTATT
Found at i:5136962 original size:28 final size:28
Alignment explanation
Indices: 5136902--5136956 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
5136892 TTTAAAAATT
5136902 TTTATATATACTTATTATTTTCATAATA
1 TTTATATATACTTATTATTTTCATAATA
5136930 TTTATATATA-TTATT-TTTT-ATTAATA
1 TTTATATATACTTATTATTTTCA-TAATA
5136956 T
1 T
5136957 CTTTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 1 0.04
26 10 0.38
27 5 0.19
28 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATATATACTTATTATTTTCATAATA
Found at i:5140243 original size:15 final size:15
Alignment explanation
Indices: 5140223--5140254 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5140213 GATCAATACC
5140223 TTTTGCATACACTCA
1 TTTTGCATACACTCA
*
5140238 TTTTGCATACATTCA
1 TTTTGCATACACTCA
5140253 TT
1 TT
5140255 ATTCATTGCA
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:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACACTCA
Found at i:5148669 original size:21 final size:22
Alignment explanation
Indices: 5148643--5148699 Score: 98
Period size: 21 Copynumber: 2.6 Consensus size: 22
5148633 TATATCTACA
5148643 CTCTTCAAAGATGATAGATTC-
1 CTCTTCAAAGATGATAGATTCT
5148664 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
5148686 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
5148700 AAGCTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:5149221 original size:123 final size:121
Alignment explanation
Indices: 5149081--5149483 Score: 479
Period size: 124 Copynumber: 3.4 Consensus size: 121
5149071 ATTGTCAGGT
5149081 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
5149146 CAACCTTTTGCTCGATTCTATCCCAGAAGAAGATAAATCAGCATCAACATTGCCAGGT
66 CAACCTTTTGCTCGATTCTATCCCAGAAG-AGATAAATCAGCATCAACATTGCCA-GA
* *
5149204 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTAT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * *
5149269 TCAACCTTTTGCTCGAATTC-AT--C-----A-CTCACT-AG-ATCAACATTTCCAGA
65 TCAACCTTTTGCTCG-ATTCTATCCCAGAAGAGATAAATCAGCATCAACATTGCCAGA
* * * * *
5149316 AGTGTTCATAATGAGATGAACACATCTGAAGAGGAAGAAGAAGTTCATAAAGAGAAGAACTGGTT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
5149381 TAACCTTTTACTCGATTCTATCCAAGAAGGAGATAAATCAGCACCAACATTTCCAGA
66 CAACCTTTTGCTCGATTCTATCCCAGAA-GAGATAAATCAGCATCAACATTGCCAGA
* *
5149438 AGGAGTTCATAA-GTAGAAGAACTCATATGAATAAGGAAGAAGAAGT
1 A-GAGTTCATAATG-AGAAGAACTCATCTGAA-GAGGAAGAAGAAGT
5149484 GTCCATCCTG
Statistics
Matches: 237, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
110 4 0.02
111 44 0.19
112 29 0.12
113 12 0.05
114 2 0.01
115 3 0.01
116 1 0.00
119 1 0.00
120 3 0.01
121 2 0.01
122 17 0.07
123 54 0.23
124 61 0.26
125 4 0.02
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (121 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCGATTCTATCCCAGAAGAGATAAATCAGCATCAACATTGCCAGA
Found at i:5152660 original size:13 final size:13
Alignment explanation
Indices: 5152622--5152652 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5152612 GTCATGAATC
*
5152622 TATGACGCGCATT
1 TATGACGTGCATT
5152635 TATGACGTGCATT
1 TATGACGTGCATT
5152648 TATGA
1 TATGA
5152653 TGCTCATTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (13 bp):
TATGACGTGCATT
Found at i:5152716 original size:30 final size:30
Alignment explanation
Indices: 5152680--5152749 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
5152670 TGAAGTCCCC
5152680 GTCATAAATTAAGATGACACACATTTGTAT
1 GTCATAAATTAAGATGACACACATTTGTAT
*
5152710 GTCATAAATTAAGATGACACACATTTGTGT
1 GTCATAAATTAAGATGACACACATTTGTAT
5152740 GTCATAAATT
1 GTCATAAATT
5152750 TATGACACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (30 bp):
GTCATAAATTAAGATGACACACATTTGTAT
Found at i:5152754 original size:28 final size:29
Alignment explanation
Indices: 5152680--5152757 Score: 113
Period size: 30 Copynumber: 2.7 Consensus size: 29
5152670 TGAAGTCCCC
5152680 GTCATAAATTAAGATGACACACATTTGTAT
1 GTCATAAATT-AGATGACACACATTTGTAT
*
5152710 GTCATAAATTAAGATGACACACATTTGTGT
1 GTCATAAATT-AGATGACACACATTTGTAT
*
5152740 GTCATAAATT-TATGACAC
1 GTCATAAATTAGATGACAC
5152758 GCATGTATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 7 0.15
30 39 0.85
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (29 bp):
GTCATAAATTAGATGACACACATTTGTAT
Found at i:5152853 original size:85 final size:85
Alignment explanation
Indices: 5152724--5152884 Score: 268
Period size: 85 Copynumber: 1.9 Consensus size: 85
5152714 TAAATTAAGA
*
5152724 TGACACACATTTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGAGCGTCATTGAA
1 TGACACACATTTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGAGCGTAATTGAA
* *
5152789 GCCCCCGTCATAAATCTGCT
66 GCACACGTCATAAATCTGCT
* * *
5152809 TGACATACATTTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGTGTAATTGAA
1 TGACACACATTTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGAGCGTAATTGAA
5152874 GCACACGTCAT
66 GCACACGTCAT
5152885 TAAAAAAGAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (85 bp):
TGACACACATTTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGAGCGTAATTGAA
GCACACGTCATAAATCTGCT
Found at i:5152925 original size:2 final size:2
Alignment explanation
Indices: 5152918--5152968 Score: 86
Period size: 2 Copynumber: 25.5 Consensus size: 2
5152908 ATTTCGTAAT
5152918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5152960 CT- TA TA TA T
1 -TA TA TA TA T
5152969 TAACAAATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5158876 original size:15 final size:15
Alignment explanation
Indices: 5158826--5158896 Score: 97
Period size: 15 Copynumber: 4.7 Consensus size: 15
5158816 GATGCTTTCT
5158826 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTTGACG
* *
5158842 TTTTATTATTTGACG
1 TTTTCTTCTTTGACG
5158857 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
5158872 TTTTCTTCTTAGACG
1 TTTTCTTCTTTGACG
*
5158887 TTGTCTTCTT
1 TTTTCTTCTT
5158897 ACCCCATGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
15 45 0.92
16 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:5160415 original size:187 final size:187
Alignment explanation
Indices: 5160191--5160564 Score: 748
Period size: 187 Copynumber: 2.0 Consensus size: 187
5160181 TCTGAATTGA
5160191 GTGGTGCCACAAATTGATACAATGTATACAATGACATCGAATAAGATATGAATTTGGATCATTAT
1 GTGGTGCCACAAATTGATACAATGTATACAATGACATCGAATAAGATATGAATTTGGATCATTAT
5160256 TTTGTGCAAAGTCTAGAAAGGTGTTTACACCCACTTCATATCCATCAGATAACCTATCAGATGAA
66 TTTGTGCAAAGTCTAGAAAGGTGTTTACACCCACTTCATATCCATCAGATAACCTATCAGATGAA
5160321 ATCCATGCTTTATCCATCAACCATTACTTACCAACCTAAATAATTATAAAGTATTAG
131 ATCCATGCTTTATCCATCAACCATTACTTACCAACCTAAATAATTATAAAGTATTAG
5160378 GTGGTGCCACAAATTGATACAATGTATACAATGACATCGAATAAGATATGAATTTGGATCATTAT
1 GTGGTGCCACAAATTGATACAATGTATACAATGACATCGAATAAGATATGAATTTGGATCATTAT
5160443 TTTGTGCAAAGTCTAGAAAGGTGTTTACACCCACTTCATATCCATCAGATAACCTATCAGATGAA
66 TTTGTGCAAAGTCTAGAAAGGTGTTTACACCCACTTCATATCCATCAGATAACCTATCAGATGAA
5160508 ATCCATGCTTTATCCATCAACCATTACTTACCAACCTAAATAATTATAAAGTATTAG
131 ATCCATGCTTTATCCATCAACCATTACTTACCAACCTAAATAATTATAAAGTATTAG
5160565 CAAAACTATA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 187 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (187 bp):
GTGGTGCCACAAATTGATACAATGTATACAATGACATCGAATAAGATATGAATTTGGATCATTAT
TTTGTGCAAAGTCTAGAAAGGTGTTTACACCCACTTCATATCCATCAGATAACCTATCAGATGAA
ATCCATGCTTTATCCATCAACCATTACTTACCAACCTAAATAATTATAAAGTATTAG
Found at i:5161647 original size:20 final size:21
Alignment explanation
Indices: 5161617--5161661 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
5161607 CCCTTAAAAA
5161617 ATTTCCTTAACTTATTATTAT
1 ATTTCCTTAACTTATTATTAT
5161638 ATTT-CTTAACTTATTATTAT
1 ATTTCCTTAACTTATTATTAT
5161658 ATTT
1 ATTT
5161662 TTATCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTCCTTAACTTATTATTAT
Found at i:5169669 original size:45 final size:45
Alignment explanation
Indices: 5169618--5169708 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
5169608 CATTTCTCTC
* *
5169618 ACTATGTTGGACCTATTACTAACATTACCCAACTTATTCCCTAAG
1 ACTATGTTGGAACTATTACCAACATTACCCAACTTATTCCCTAAG
5169663 ACTATGTTGGAACTATTACCAACATTACCCAACTTATTCCCTAAG
1 ACTATGTTGGAACTATTACCAACATTACCCAACTTATTCCCTAAG
5169708 A
1 A
5169709 TCACTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (45 bp):
ACTATGTTGGAACTATTACCAACATTACCCAACTTATTCCCTAAG
Found at i:5187879 original size:45 final size:45
Alignment explanation
Indices: 5187820--5187909 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
5187810 GAGATAGAGA
* * *
5187820 CCTTAAGAAATAAGTTAGGTAATGTTGGTAATAGCTCCATCATAG
1 CCTTAAGAAATAAGTTAGGTAATGATGATAATAGCTCCAACATAG
* * *
5187865 CCTTAGGAACTAAGTTGGGTAATGATGATAATAGCTCCAACATAG
1 CCTTAAGAAATAAGTTAGGTAATGATGATAATAGCTCCAACATAG
5187910 TGGGAGAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
CCTTAAGAAATAAGTTAGGTAATGATGATAATAGCTCCAACATAG
Found at i:5188859 original size:20 final size:20
Alignment explanation
Indices: 5188834--5188882 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
5188824 TATGTTTACT
5188834 TTGATACTTCTTTTATGAGC
1 TTGATACTTCTTTTATGAGC
5188854 TTGATACTTCTTTTATGAGC
1 TTGATACTTCTTTTATGAGC
5188874 TTGATACTT
1 TTGATACTT
5188883 TATGATAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (20 bp):
TTGATACTTCTTTTATGAGC
Found at i:5188886 original size:16 final size:18
Alignment explanation
Indices: 5188842--5188887 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
5188832 CTTTGATACT
5188842 TCTTTTATGAGCTTGATA
1 TCTTTTATGAGCTTGATA
5188860 CTTCTTTTATGAGCTTGATA
1 --TCTTTTATGAGCTTGATA
5188880 -C-TTTATGA
1 TCTTTTATGA
5188888 TAGTGAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.27
17 1 0.04
20 18 0.69
ACGTcount: A:0.22, C:0.13, G:0.15, T:0.50
Consensus pattern (18 bp):
TCTTTTATGAGCTTGATA
Found at i:5190268 original size:2 final size:2
Alignment explanation
Indices: 5190261--5190290 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5190251 TCTGATCTGA
5190261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5190291 CCAAATGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5202986 original size:22 final size:21
Alignment explanation
Indices: 5202944--5202983 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5202934 GAGTTTATTT
*
5202944 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
5202965 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
5202984 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:5208068 original size:13 final size:13
Alignment explanation
Indices: 5208050--5208083 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
5208040 TTTGTTCTTT
5208050 TTTTATTTGTTTA
1 TTTTATTTGTTTA
5208063 TTTTATTTGTTTA
1 TTTTATTTGTTTA
5208076 TTTTATTT
1 TTTTATTT
5208084 CTTATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:5208101 original size:8 final size:8
Alignment explanation
Indices: 5208047--5208108 Score: 61
Period size: 9 Copynumber: 7.1 Consensus size: 8
5208037 CTTTTTGTTC
5208047 TTTTTTTA
1 TTTTTTTA
*
5208055 TTTGTTTA
1 TTTTTTTA
*
5208063 TTTTATTTG
1 TTTT-TTTA
5208072 TTTATTTTA
1 TTT-TTTTA
5208081 TTTCTTATTA
1 TTT-TT-TTA
5208091 TTTTTTTA
1 TTTTTTTA
5208099 TTTTGTTTA
1 TTTT-TTTA
5208108 T
1 T
5208109 ACGTTATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 17 0.38
9 21 0.47
10 7 0.16
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:5208157 original size:41 final size:40
Alignment explanation
Indices: 5208088--5208217 Score: 119
Period size: 38 Copynumber: 3.2 Consensus size: 40
5208078 TTATTTCTTA
*
5208088 TTATTTTTTTATT-TT-GTTTATA-CGTTATTATATATATT
1 TTATTTATTTATTATTAGTTTATATC-TTATTATATATATT
*
5208126 TTATTTATTT-TTATTAGTTTA-ATCCTT-TTATTATTATTTAT
1 TTATTTATTTATTATTAGTTTATAT-CTTATTA-TA-TATAT-T
* * *
5208167 TTGTTTATTTTATTTTTATTTTATATCTTATTATATATATT
1 TTATTTA-TTTATTATTAGTTTATATCTTATTATATATATT
5208208 TTATTTATTT
1 TTATTTATTT
5208218 CTTTTTATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
37 2 0.03
38 15 0.20
39 9 0.12
40 8 0.11
41 14 0.19
42 7 0.09
43 14 0.19
44 5 0.07
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (40 bp):
TTATTTATTTATTATTAGTTTATATCTTATTATATATATT
Found at i:5208177 original size:23 final size:23
Alignment explanation
Indices: 5208064--5208187 Score: 74
Period size: 23 Copynumber: 5.1 Consensus size: 23
5208054 ATTTGTTTAT
*
5208064 TTTATTTGTTTATTTTATTTCTTA
1 TTTATTTGTTTATTTTA-TTATTA
* *
5208088 -TTATTTTTTTATTTTGTT-TATA
1 TTTATTTGTTTATTTTATTAT-TA
* * *
5208110 CGTTATTATATATATTTTATTTATT-
1 -TTTATT-TGTTTATTTTA-TTATTA
*
5208135 TTTATTAGTTTAATCCTTTTATTATTA
1 TTTATTTGTTT-A---TTTTATTATTA
*
5208162 TTTATTTGTTTATTTTATTTTTA
1 TTTATTTGTTTATTTTATTATTA
5208185 TTT
1 TTT
5208188 TATATCTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 23
0.70 0.10 0.21
Matches are distributed among these distances:
21 1 0.01
22 4 0.05
23 29 0.37
24 11 0.14
25 8 0.10
26 9 0.12
27 16 0.21
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTATTTGTTTATTTTATTATTA
Found at i:5208281 original size:31 final size:29
Alignment explanation
Indices: 5208246--5208303 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 29
5208236 TACTAATATT
5208246 TTTTACCTAATATTATATTTATATTTATTTG
1 TTTTACCTAATATTATA--TATATTTATTTG
*
5208277 TTTTACCTAGTATTATATATATTTATT
1 TTTTACCTAATATTATATATATTTATT
5208304 ATTCTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.38
31 16 0.62
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTTACCTAATATTATATATATTTATTTG
Found at i:5208312 original size:31 final size:30
Alignment explanation
Indices: 5208241--5208313 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
5208231 GTTATTACTA
5208241 ATATTTTTTACCTAATATTATATTTATATTT
1 ATATTTTTTACCTAATATTATA-TTATATTT
*
5208272 AT-TTGTTTTACCTAGTATTATA-TATATTT
1 ATATT-TTTTACCTAATATTATATTATATTT
5208301 ATTATTCTTTTAC
1 A-TATT-TTTTAC
5208314 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 8 0.22
30 3 0.08
31 26 0.70
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (30 bp):
ATATTTTTTACCTAATATTATATTATATTT
Found at i:5208352 original size:2 final size:2
Alignment explanation
Indices: 5208345--5208383 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5208335 ACACTACATC
5208345 AT 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 AT A
5208384 CACACAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5208510 original size:27 final size:27
Alignment explanation
Indices: 5208478--5208531 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
5208468 TTAATTTTTA
*
5208478 TTTTTTTTATCTTTGTTTTATT-TTTTCC
1 TTTTTCTTAT-TTTG-TTTATTATTTTCC
*
5208506 TTTTTCTTGTTTTGTTTATTATTTTC
1 TTTTTCTTATTTTGTTTATTATTTTC
5208532 ATATTTGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 9 0.39
28 8 0.35
ACGTcount: A:0.07, C:0.09, G:0.06, T:0.78
Consensus pattern (27 bp):
TTTTTCTTATTTTGTTTATTATTTTCC
Found at i:5219651 original size:20 final size:20
Alignment explanation
Indices: 5219622--5219661 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5219612 CGGTTTAGAC
5219622 TTAATCCGGGTTAGGTTTAG
1 TTAATCCGGGTTAGGTTTAG
*
5219642 TTAATTCGGGTTAGGTTTAG
1 TTAATCCGGGTTAGGTTTAG
5219662 GCCAGGTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.42
Consensus pattern (20 bp):
TTAATCCGGGTTAGGTTTAG
Found at i:5227066 original size:836 final size:837
Alignment explanation
Indices: 5225446--5227110 Score: 3080
Period size: 836 Copynumber: 2.0 Consensus size: 837
5225436 ATAGGAAACC
*
5225446 CGATCTCTATGCCTAGTAGGTGGTATCGATACTGAATGAATGTATCAATACCACAAATGGCTACT
1 CGATCTCTATGCCTAGTAGGTGGTATCGATACTGAATGAATGTATCAATACCAAAAATGGCTACT
*
5225511 AAAATTTTGGTTTTTGATGTATGGCACTTGTACCTTATCGATTGATTATGGATCTAGGAAGGAAG
66 AAAATTTTGGTTTTTGATGTATGGCACTTGTACCTTATCGATTGATTATGGATCTAGGAAAGAAG
5225576 CAAAACAACATGCATAAGTGAATGGCTCAAAACAGATGGTTAAGGGTGGTAAACGTATAGGTGAA
131 CAAAACAACATGCATAAGTGAATGGCTCAAAACAGATGGTTAAGGGTGGTAAACGTATAGGTGAA
5225641 TAGGTAGGTTGTTTAATAAATGAGAGATGGAAGCGGAAGATGATTGATATGGCGATGGGTTTGGT
196 TAGGTAGGTTGTTTAATAAATGAGAGATGGAAGCGGAAGATGATTGATATGGCGATGGGTTTGGT
5225706 TAATGAAACAATGGGATGGTTGTGAGGATAATATCTTAAAGAAGACTCAAAGAAGAACCAATGCT
261 TAATGAAACAATGGGATGGTTGTGAGGATAATATCTTAAAGAAGACTCAAAGAAGAACCAATGCT
* *
5225771 ATAGAGAGCAAAGACCCAAACTTAATATTGCTTCTTTAAGGGGTGATATAAAGGACTTTGACCCA
326 ATAGAGAGCAAAGACCCAAACTTAATATTGCTTCTTTAAAGGGTAATATAAAGGACTTTGACCCA
5225836 CTAGTTATAAGAACTAGGAACCAGAAGTATCAAGGAGAAAGGGGTTGACGCCACAAGTATAAAAT
391 CTAGTTATAAGAACTAGGAACCAGAAGTATCAAGGAGAAAGGGGTTGACGCCACAAGTATAAAAT
*
5225901 ACTTGATAAGTCGATAAAAGTCACCATGACTTAAGAAAGAGAATAATCTCACTTAATTTAATCAA
456 ACTTGATAAGTCGATAAAAGTCACCAGGACTTAAGAAAGAGAATAATCTCACTTAATTTAATCAA
5225966 AAAGGTCTGATTACAAATGAAATATGATGGCCTATTTATAGGAAATGGAAAGGCATGGCCGAATA
521 AAAGGTCTGATTACAAATGAAATATGATGGCCTATTTATAGGAAATGGAAAGGCATGGCCGAATA
* *
5226031 GATACATGGTGGTTCAGCCAACCCTTTTGTCTTCTTATAAAGTCATAATTTAATTACAAATAAAG
586 GATACATGGTGGTTCAGCCAACCCTTTTGTCTTCCTATAAAGTCATAATTTAATTAAAAATAAAG
5226096 ATGATGGTTCAGTTTAAATGGAGGGTAATAACCCTTGGCCGAATAGCTCTTGTGTCCCTTCAAAT
651 ATGATGGTTCAGTTTAAATGGAGGGTAATAACCCTTGGCCGAATAGCTCTTGTGTCCCTTCAAAT
*
5226161 TGGCGCCAAAAAGGAGGATAAATAATGCTTGGACGAATAGTGAGAGGGCTCTTCATCTTGGCGCC
716 TGGCGCCAAAAAGGAGGAGAAATAATGCTTGGACGAATAGTGAGAGGGCTCTTCATCTTGGCGCC
*
5226226 TAAATGATACCACATGCAAGGCACATGGGGGCTGGTCATATGGAACACATACAAGGA
781 TAAATGATACCACATGCAAGGCACATGGGGGCTGGTCATATAGAACACATACAAGGA
*
5226283 CGATCTCTATGCCTAGTAGGTGGTATCGATACTGAATGAATGTATTAATACCAAAAATGGCTACT
1 CGATCTCTATGCCTAGTAGGTGGTATCGATACTGAATGAATGTATCAATACCAAAAATGGCTACT
*
5226348 AAAATTTTTGTTTTTGATGTATGGCACTTGTACCTTATCGATTGATTATGGATCTAGGAAAGAAG
66 AAAATTTTGGTTTTTGATGTATGGCACTTGTACCTTATCGATTGATTATGGATCTAGGAAAGAAG
*
5226413 CAAAACAACCTGCATAAGTGAATGGCTCAAAACAGATGGTTAAGGGTGGTAAACGTATAGGTGAA
131 CAAAACAACATGCATAAGTGAATGGCTCAAAACAGATGGTTAAGGGTGGTAAACGTATAGGTGAA
* *
5226478 TAGGTAGGTTGTTTAATAAATGAGAGATGGAAGTGGAAGATGATTGATATGGCTATGGGTTTGGT
196 TAGGTAGGTTGTTTAATAAATGAGAGATGGAAGCGGAAGATGATTGATATGGCGATGGGTTTGGT
* *
5226543 TAATTAAACAATGGGATGGTTGTGAGGATAATATCTTAAAG-AGACTCAAAGAAGAACCAATTCT
261 TAATGAAACAATGGGATGGTTGTGAGGATAATATCTTAAAGAAGACTCAAAGAAGAACCAATGCT
* *
5226607 ATAGAGAGCAAAGACCCATACTTTATATTGCTTCTTTAAAGGGTAATATAAAGGACTTTGACCCA
326 ATAGAGAGCAAAGACCCAAACTTAATATTGCTTCTTTAAAGGGTAATATAAAGGACTTTGACCCA
* *
5226672 CTAGTTATAAGAACTAGGAACCAGAAGTATCAAGGGGAAAGGGGTTGAGGCCACAAGTATAAAAT
391 CTAGTTATAAGAACTAGGAACCAGAAGTATCAAGGAGAAAGGGGTTGACGCCACAAGTATAAAAT
*
5226737 ACTTGATAAGTTGATAAAAGTCACCAGGACTTAAGAAAGAGAATAATCTCACTTAATTTAATCAA
456 ACTTGATAAGTCGATAAAAGTCACCAGGACTTAAGAAAGAGAATAATCTCACTTAATTTAATCAA
*
5226802 AAAGGTCTGATTACAAATGAAATATGATGGCCTATTTATAGGAAATGGAGAGGCATGGCCGAATA
521 AAAGGTCTGATTACAAATGAAATATGATGGCCTATTTATAGGAAATGGAAAGGCATGGCCGAATA
* * *
5226867 GATACATGGTGGTTCGGCTAGCCCTTTTGTCTTCCTATAAAGTCATAATTTAATTAAAAATAAAG
586 GATACATGGTGGTTCAGCCAACCCTTTTGTCTTCCTATAAAGTCATAATTTAATTAAAAATAAAG
5226932 ATGATGGTTCAGTTTAAATGGAGGGTAATAACCCTTGGCCGAATAGCTCTTGTGTCCCTTCAAAT
651 ATGATGGTTCAGTTTAAATGGAGGGTAATAACCCTTGGCCGAATAGCTCTTGTGTCCCTTCAAAT
* *
5226997 TGGCGCCAAAAAGGATGAGAAATAATGCTTGGACGAATAGTGAGAGGGCTCTTCATCTTGGCTCC
716 TGGCGCCAAAAAGGAGGAGAAATAATGCTTGGACGAATAGTGAGAGGGCTCTTCATCTTGGCGCC
5227062 TAAATGATACCACATGCAAGGCACATGGGGGCTGGTCATATAGAACACA
781 TAAATGATACCACATGCAAGGCACATGGGGGCTGGTCATATAGAACACA
5227111 CATGGGTGTT
Statistics
Matches: 801, Mismatches: 27, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
836 508 0.63
837 293 0.37
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (837 bp):
CGATCTCTATGCCTAGTAGGTGGTATCGATACTGAATGAATGTATCAATACCAAAAATGGCTACT
AAAATTTTGGTTTTTGATGTATGGCACTTGTACCTTATCGATTGATTATGGATCTAGGAAAGAAG
CAAAACAACATGCATAAGTGAATGGCTCAAAACAGATGGTTAAGGGTGGTAAACGTATAGGTGAA
TAGGTAGGTTGTTTAATAAATGAGAGATGGAAGCGGAAGATGATTGATATGGCGATGGGTTTGGT
TAATGAAACAATGGGATGGTTGTGAGGATAATATCTTAAAGAAGACTCAAAGAAGAACCAATGCT
ATAGAGAGCAAAGACCCAAACTTAATATTGCTTCTTTAAAGGGTAATATAAAGGACTTTGACCCA
CTAGTTATAAGAACTAGGAACCAGAAGTATCAAGGAGAAAGGGGTTGACGCCACAAGTATAAAAT
ACTTGATAAGTCGATAAAAGTCACCAGGACTTAAGAAAGAGAATAATCTCACTTAATTTAATCAA
AAAGGTCTGATTACAAATGAAATATGATGGCCTATTTATAGGAAATGGAAAGGCATGGCCGAATA
GATACATGGTGGTTCAGCCAACCCTTTTGTCTTCCTATAAAGTCATAATTTAATTAAAAATAAAG
ATGATGGTTCAGTTTAAATGGAGGGTAATAACCCTTGGCCGAATAGCTCTTGTGTCCCTTCAAAT
TGGCGCCAAAAAGGAGGAGAAATAATGCTTGGACGAATAGTGAGAGGGCTCTTCATCTTGGCGCC
TAAATGATACCACATGCAAGGCACATGGGGGCTGGTCATATAGAACACATACAAGGA
Found at i:5231217 original size:24 final size:24
Alignment explanation
Indices: 5231186--5231240 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
5231176 CTTTCTTTTT
*
5231186 TTTTCTTCTTTTTGAGTGCTTGAC
1 TTTTCTTCTTTTGGAGTGCTTGAC
5231210 TTTTCTTCTTTTGGAGTGCTTGAC
1 TTTTCTTCTTTTGGAGTGCTTGAC
5231234 TTTTCTT
1 TTTTCTT
5231241 TGCTGATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.07, C:0.16, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTTCTTCTTTTGGAGTGCTTGAC
Found at i:5237026 original size:16 final size:17
Alignment explanation
Indices: 5237005--5237038 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5236995 GTGCATAACC
5237005 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
5237021 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
5237038 T
1 T
5237039 ATACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:5247307 original size:23 final size:23
Alignment explanation
Indices: 5247293--5247376 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
5247283 CATTTCTATG
5247293 CGGCACTACGGTGCAATTCTACA
1 CGGCACTACGGTGCAATTCTACA
*
5247316 CTGCACTACGGTGCAATTCTACA
1 CGGCACTACGGTGCAATTCTACA
* * *
5247339 CGGCACTTCAGTGCAATTCTATA
1 CGGCACTACGGTGCAATTCTACA
*
5247362 CGGCACTTCGGTGCA
1 CGGCACTACGGTGCA
5247377 TTTATACGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (23 bp):
CGGCACTACGGTGCAATTCTACA
Found at i:5247435 original size:16 final size:17
Alignment explanation
Indices: 5247414--5247447 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5247404 GTGCTCAACC
5247414 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
5247430 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
5247447 T
1 T
5247448 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:5249022 original size:53 final size:53
Alignment explanation
Indices: 5248942--5249316 Score: 592
Period size: 53 Copynumber: 7.1 Consensus size: 53
5248932 ACTAAGGTAA
* * * *
5248942 TGAAATGATAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTAC
1 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
* *
5248995 TGAAATGGTAATTCACAATCTCATTATGAATACCATGGATGCACACATAGTGC
1 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
*
5249048 TGAAATGGTAATTCACAAACTCATTAGGAATACCATGGACGCACACATAGTGC
1 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
* *
5249101 CGAAATGGTAATTCACAAACTCATTATG-ATACCATGGACGCACATATAGTGC
1 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
* *
5249153 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCATACATAGTG-
1 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
5249205 TCGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
1 T-GAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
* * *
5249259 CGAAATGGTAATTCACAAACTCATTATGAATATCATGGATGCACACATAGTGC
1 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
*
5249312 CGAAA
1 TGAAA
5249317 GTACACATAG
Statistics
Matches: 302, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
52 51 0.17
53 251 0.83
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (53 bp):
TGAAATGGTAATTCACAAACTCATTATGAATACCATGGACGCACACATAGTGC
Found at i:5249237 original size:158 final size:159
Alignment explanation
Indices: 5248943--5249316 Score: 626
Period size: 158 Copynumber: 2.4 Consensus size: 159
5248933 CTAAGGTAAT
* * * *
5248943 GAAATGATAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTACTGAAATGGTAATT
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAATGGTAATT
* *
5249008 CACAATCTCATTATGAATACCATGGATGCACACATAGTGCTGAAATGGTAATTCACAAACTCATT
66 CACAAACTCATTATGAATACCATGGACGCACACATAGTGCTGAAATGGTAATTCACAAACTCATT
5249073 AGGAATACCATGGACGCACACATAGTGCC
131 AGGAATACCATGGACGCACACATAGTGCC
* *
5249102 GAAATGGTAATTCACAAACTCATTATG-ATACCATGGACGCACATATAGTGCCGAAATGGTAATT
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAATGGTAATT
*
5249166 CACAAACTCATTATGAATACCATGGACGCATACATAGTG-TCGAAATGGTAATTCACAAACTCAT
66 CACAAACTCATTATGAATACCATGGACGCACACATAGTGCT-GAAATGGTAATTCACAAACTCAT
*
5249230 TATGAATACCATGGACGCACACATAGTGCC
130 TAGGAATACCATGGACGCACACATAGTGCC
*
5249260 GAAATGGTAATTCACAAACTCATTATGAATATCATGGATGCACACATAGTGCCGAAA
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAA
5249317 GTACACATAG
Statistics
Matches: 200, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
157 1 0.00
158 147 0.74
159 52 0.26
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (159 bp):
GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAATGGTAATT
CACAAACTCATTATGAATACCATGGACGCACACATAGTGCTGAAATGGTAATTCACAAACTCATT
AGGAATACCATGGACGCACACATAGTGCC
Found at i:5249921 original size:18 final size:19
Alignment explanation
Indices: 5249870--5249921 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
5249860 ACCCCTTCTA
*
5249870 CAGTATCGATACTTCTCTT
1 CAGTATCGATACTTCACTT
*
5249889 CTATGGTACCGATAC-TCACTT
1 C-A--GTATCGATACTTCACTT
5249910 CAGTATCGATAC
1 CAGTATCGATAC
5249922 CATTTTTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 9 0.33
19 1 0.04
20 2 0.07
21 6 0.22
22 9 0.33
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (19 bp):
CAGTATCGATACTTCACTT
Found at i:5253161 original size:103 final size:103
Alignment explanation
Indices: 5252982--5253187 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
5252972 TTTCTATGCA
5252982 TGCAAAAATTATTTTCGGATAAAAATTCTATGGTTGAGCTCCATAGTTCTAGGGTTGCATCGACT
1 TGCAAAAATTATTTTCGGATAAAAATTCTATGGTTGAGCTCCATAGTTCTAGGGTTGCATCGACT
5253047 TTTGTAACACTAAATGTAACCCCCATTATATTAGGTCG
66 TTTGTAACACTAAATGTAACCCCCATTATATTAGGTCG
5253085 TGCAAAAATTATTTTCGGATAAAAATTCTATGGTTGAGCTCCATAGTTCTAGGGTTGCATCGACT
1 TGCAAAAATTATTTTCGGATAAAAATTCTATGGTTGAGCTCCATAGTTCTAGGGTTGCATCGACT
5253150 TTTGTAACACTAAATGTAACCCCCATTATATTAGGTCG
66 TTTGTAACACTAAATGTAACCCCCATTATATTAGGTCG
5253188 GATCCAAAGA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (103 bp):
TGCAAAAATTATTTTCGGATAAAAATTCTATGGTTGAGCTCCATAGTTCTAGGGTTGCATCGACT
TTTGTAACACTAAATGTAACCCCCATTATATTAGGTCG
Found at i:5261810 original size:23 final size:21
Alignment explanation
Indices: 5261780--5261831 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
5261770 GTTTGAGATA
* *
5261780 CAACATCACCACCATCTCCATTT
1 CAACATCAACACCATCACCA--T
5261803 CAACATCAACACCATCACCAT
1 CAACATCAACACCATCACCAT
5261824 CAACATCA
1 CAACATCA
5261832 TCTATCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
23 18 0.67
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (21 bp):
CAACATCAACACCATCACCAT
Found at i:5266917 original size:14 final size:15
Alignment explanation
Indices: 5266898--5266948 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
5266888 GAAAATAATA
5266898 AATAAATAAAT-TAT
1 AATAAATAAATATAT
5266912 AATAAAT-AATATAT
1 AATAAATAAATATAT
* *
5266926 AATATAT-AATATAC
1 AATAAATAAATATAT
5266940 ATATAAATA
1 A-ATAAATA
5266949 TTTTCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 3 0.10
14 23 0.74
15 5 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATAAATATAT
Found at i:5266937 original size:7 final size:7
Alignment explanation
Indices: 5266892--5266938 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
5266882 GAAAATGAAA
*
5266892 ATAATAA
1 ATAATAT
5266899 ATAA-AT
1 ATAATAT
5266905 A-AAT-T
1 ATAATAT
*
5266910 ATAATAA
1 ATAATAT
5266917 ATAATAT
1 ATAATAT
5266924 ATAATAT
1 ATAATAT
5266931 ATAATAT
1 ATAATAT
5266938 A
1 A
5266939 CATATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.12
6 5 0.15
7 25 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:5266969 original size:26 final size:27
Alignment explanation
Indices: 5266934--5266984 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
5266924 ATAATATATA
*
5266934 ATATACATATAAATATTTTCAAAAACT
1 ATATACATATAAATATATTCAAAAACT
*
5266961 ATATA-ATATATATATATTCAAAAA
1 ATATACATATAAATATATTCAAAAA
5266985 TGTTTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATACATATAAATATATTCAAAAACT
Found at i:5267001 original size:27 final size:28
Alignment explanation
Indices: 5266984--5267050 Score: 118
Period size: 27 Copynumber: 2.4 Consensus size: 28
5266974 ATATTCAAAA
5266984 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
*
5267012 ATGTTTTC-AAATCTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
5267039 ATGTTTTCAAAA
1 ATGTTTTCAAAA
5267051 TGTTTTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 26 0.70
28 11 0.30
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.48
Consensus pattern (28 bp):
ATGTTTTCAAAAACTATATATTATATAT
Found at i:5267078 original size:39 final size:39
Alignment explanation
Indices: 5267012--5267213 Score: 279
Period size: 39 Copynumber: 5.3 Consensus size: 39
5267002 TATTATATAT
*
5267012 ATGTTTTC-AAATCTATATATTATATATATGTTTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
5267050 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
* * ** *
5267089 ACGTTTTCAAAAATTATATATTA-A-ATACATTTTCCAA
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
5267126 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
* * *
5267165 ATGTTTTCAAAAAC--TCTGTTATGTATATGTTTTCAAA
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
*
5267202 ATATTTTCAAAA
1 ATGTTTTCAAAA
5267214 GCAACCCCTT
Statistics
Matches: 146, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
37 62 0.42
38 10 0.07
39 74 0.51
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (39 bp):
ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAA
Found at i:5267198 original size:76 final size:73
Alignment explanation
Indices: 5267029--5267213 Score: 253
Period size: 76 Copynumber: 2.4 Consensus size: 73
5267019 CAAATCTATA
5267029 TATTATATATATGTTTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAACGTT
1 TATTAT-TATATGTTTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAACGTT
5267094 TTCAAAAAT
65 TTCAAAAAT
** * *
5267103 TATATATTAAATACATTTTCCAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATG
1 TAT-TATT--ATATGTTTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAACG
5267168 TTTTCAAAAACT
63 TTTTCAAAAA-T
* *
5267180 CTGTTATGTATATGTTTTCAAAATATTTTCAAAA
1 -TATTAT-TATATGTTTTCAAAATGTTTTCAAAA
5267214 GCAACCCCTT
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
74 4 0.04
75 3 0.03
76 82 0.85
77 4 0.04
78 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.45
Consensus pattern (73 bp):
TATTATTATATGTTTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAACGTTT
TCAAAAAT
Found at i:5269977 original size:166 final size:166
Alignment explanation
Indices: 5269703--5270035 Score: 666
Period size: 166 Copynumber: 2.0 Consensus size: 166
5269693 CCAAATAGAT
5269703 AAATAACATCCGTGGACGTCGACGATGAGACAGAGTAGTGAGAGATAAGAGGAGGGGCATGTGGT
1 AAATAACATCCGTGGACGTCGACGATGAGACAGAGTAGTGAGAGATAAGAGGAGGGGCATGTGGT
5269768 CAAATTTCATACATACTAAATGTTGAACGTAAGATGTAAAGAAAGCTTCAAGCCAAACTAAATTA
66 CAAATTTCATACATACTAAATGTTGAACGTAAGATGTAAAGAAAGCTTCAAGCCAAACTAAATTA
5269833 CCTAGACAACGATCAAGGCGAACAAAGCATGGCCCC
131 CCTAGACAACGATCAAGGCGAACAAAGCATGGCCCC
5269869 AAATAACATCCGTGGACGTCGACGATGAGACAGAGTAGTGAGAGATAAGAGGAGGGGCATGTGGT
1 AAATAACATCCGTGGACGTCGACGATGAGACAGAGTAGTGAGAGATAAGAGGAGGGGCATGTGGT
5269934 CAAATTTCATACATACTAAATGTTGAACGTAAGATGTAAAGAAAGCTTCAAGCCAAACTAAATTA
66 CAAATTTCATACATACTAAATGTTGAACGTAAGATGTAAAGAAAGCTTCAAGCCAAACTAAATTA
5269999 CCTAGACAACGATCAAGGCGAACAAAGCATGGCCCC
131 CCTAGACAACGATCAAGGCGAACAAAGCATGGCCCC
5270035 A
1 A
5270036 TGTACCAAAT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 167 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (166 bp):
AAATAACATCCGTGGACGTCGACGATGAGACAGAGTAGTGAGAGATAAGAGGAGGGGCATGTGGT
CAAATTTCATACATACTAAATGTTGAACGTAAGATGTAAAGAAAGCTTCAAGCCAAACTAAATTA
CCTAGACAACGATCAAGGCGAACAAAGCATGGCCCC
Found at i:5275891 original size:27 final size:26
Alignment explanation
Indices: 5275839--5275887 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
5275829 ATGGCCCTAA
5275839 AAACATGAAAATAATAAAAATAAATG
1 AAACATGAAAATAATAAAAATAAATG
* *
5275865 AAACATTAAAATAA-ATAAATAAA
1 AAACATGAAAATAATAAAAATAAA
5275888 AATGCATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (26 bp):
AAACATGAAAATAATAAAAATAAATG
Found at i:5283386 original size:55 final size:55
Alignment explanation
Indices: 5283327--5283571 Score: 341
Period size: 55 Copynumber: 4.5 Consensus size: 55
5283317 GTTGTTTTGT
* * * * * * *
5283327 ACACATAGTGTCGATACAGTAATTCACAAACTCATTATGAATTACGTGGGGTTAC
1 ACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGC
* *
5283382 ACACATAGTGCCAATGC-GAAAATTTATAAACTCATTATGAATTTCGTGAGGTTGC
1 ACACATAGTGCCAATACAG-AAATTCATAAACTCATTATGAATTTCGTGAGGTTGC
* *
5283437 ACACATAGTGCCAATA-AGGAAATTCATAAACTCGTTATGAATTTCGTGAGTTTGC
1 ACACATAGTGCCAATACA-GAAATTCATAAACTCATTATGAATTTCGTGAGGTTGC
* *
5283492 ACACATAGTGGCAATACAGAAATTCATAAATTCATTATGAATTTCGTGAGGTTGC
1 ACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGC
5283547 ACACATAGTGCCAATACAGAAATTC
1 ACACATAGTGCCAATACAGAAATTC
5283572 CAACATATAC
Statistics
Matches: 168, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.01
55 165 0.98
56 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (55 bp):
ACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGC
Found at i:5290157 original size:55 final size:54
Alignment explanation
Indices: 5290085--5290629 Score: 321
Period size: 55 Copynumber: 9.9 Consensus size: 54
5290075 ATATTTCAAC
* * * * *
5290085 TAATTATAAATTTTGTGGTTTTGTACACTTAGTGCCGATACAGTAATTCACAAAA
1 TAATTATGAATTATGTGG-GTTGCACACATAGTGCCGATACAGTAATTCACAAAA
* * * * * *
5290140 TAATTATGAATTATGTGGGGTTGCACACATAGTTCCAATACGGAAATTCATAAAC
1 TAATTATGAATTATGT-GGGTTGCACACATAGTGCCGATACAGTAATTCACAAAA
* *
5290195 TCATTATGAATT-TCGTGAGGATGCACACATAGTG-CGAATACAGTAATTCACAAAA
1 TAATTATGAATTAT-GTG-GGTTGCACACATAGTGCCG-ATACAGTAATTCACAAAA
* * * * * * *
5290250 TCATTATGAATTATGTGGGGTTGCACACATAGTTCCAATACGGAAATTCATAAAC
1 TAATTATGAATTATGT-GGGTTGCACACATAGTGCCGATACAGTAATTCACAAAA
* * * * * *
5290305 TCATTATGAATT-TCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAAC
1 TAATTATGAATTAT-GTG-GGTTGCACACATAGTGCCGATACAGTAATTCACAAAA
* * * * * * * *
5290360 TCATTATTAATTTTGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAAC
1 TAATTATGAATTATGTG-GGTTGCACACATAGTGCCGATACAGTAATTCACAAAA
* ** * * * * *
5290415 TCATTATGAATT-TCGTGAGGTTGCACGTATAGTGTCAATAC-GAAAATTCATAAAC
1 TAATTATGAATTAT-GTG-GGTTGCACACATAGTGCCGATACAG-TAATTCACAAAA
* * * * * * * * * *
5290470 TCATTATCAATTTTGTGAGGTTGTACACATAGTGCCAACACGGAAATTCATAAAC
1 TAATTATGAATTATGTG-GGTTGCACACATAGTGCCGATACAGTAATTCACAAAA
* * * * * * *
5290525 TCATTATGAATT-TCGTGAGGTTGCACACATAGTGTCAATACGGAAATTCATAAAC
1 TAATTATGAATTAT-GTG-GGTTGCACACATAGTGCCGATACAGTAATTCACAAAA
* * * *
5290580 TCATTATGAATT-TCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCA
1 TAATTATGAATTAT-GTG-GGTTGCACACATAGTGCCGATACAGTAATTCA
5290630 AACATATACA
Statistics
Matches: 432, Mismatches: 43, Indels: 30
0.86 0.09 0.06
Matches are distributed among these distances:
54 8 0.02
55 416 0.96
56 8 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (54 bp):
TAATTATGAATTATGTGGGTTGCACACATAGTGCCGATACAGTAATTCACAAAA
Found at i:5290280 original size:110 final size:110
Alignment explanation
Indices: 5290122--5290629 Score: 761
Period size: 110 Copynumber: 4.6 Consensus size: 110
5290112 CTTAGTGCCG
* * * * * *
5290122 ATACAGTAATTCACAAAATAATTATGAATTATGTGGGGTTGCACACATAGTTCCAATACGGAAAT
1 ATACAGAAATTCATAAACTCATTATGAATTATGTGAGGTTGCACACATAGTGCCAATACGGAAAT
*
5290187 TCATAAACTCATTATGAATTTCGTGAGGATGCACACATAGTG-CGA
66 TCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGTC-A
* * * * *
5290232 ATACAGTAATTCACAAAATCATTATGAATTATGTGGGGTTGCACACATAGTTCCAATACGGAAAT
1 ATACAGAAATTCATAAACTCATTATGAATTATGTGAGGTTGCACACATAGTGCCAATACGGAAAT
*
5290297 TCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCA
66 TCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGTCA
* * *
5290342 ATACGGAAATTCATAAACTCATTATTAATTTTGTGAGGTTGCACACATAGTGCCAATACGGAAAT
1 ATACAGAAATTCATAAACTCATTATGAATTATGTGAGGTTGCACACATAGTGCCAATACGGAAAT
**
5290407 TCATAAACTCATTATGAATTTCGTGAGGTTGCACGTATAGTGTCA
66 TCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGTCA
* * * *
5290452 ATAC-GAAAATTCATAAACTCATTATCAATTTTGTGAGGTTGTACACATAGTGCCAACACGGAAA
1 ATACAG-AAATTCATAAACTCATTATGAATTATGTGAGGTTGCACACATAGTGCCAATACGGAAA
5290516 TTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGTCA
65 TTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGTCA
*
5290562 ATACGGAAATTCATAAACTCATTATGAATT-TCGTGAGGTTGCACACATAGTGCCAATACGGAAA
1 ATACAGAAATTCATAAACTCATTATGAATTAT-GTGAGGTTGCACACATAGTGCCAATACGGAAA
5290626 TTCA
65 TTCA
5290630 AACATATACA
Statistics
Matches: 373, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
109 2 0.01
110 369 0.99
111 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (110 bp):
ATACAGAAATTCATAAACTCATTATGAATTATGTGAGGTTGCACACATAGTGCCAATACGGAAAT
TCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGTCA
Found at i:5290421 original size:165 final size:164
Alignment explanation
Indices: 5290142--5290629 Score: 746
Period size: 165 Copynumber: 3.0 Consensus size: 164
5290132 TCACAAAATA
* *
5290142 ATTATGAATTATGTGGGGTTGCACACATAGTTCCAATACGGAAATTCATAAACTCATTATGAATT
1 ATTATGAATT-TGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATT
* * * * * * *
5290207 TCGTGAGGATGCACACATAGTGCGAATACAGTAATTCACAAAATCATTATGAATTAT-GTGGGGT
65 TCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATT-TCGTGAGGT
5290271 TGCACACATAGTTCCAATACGGAAATTCATAAACTC
129 TGCACACATAGTTCCAATACGGAAATTCATAAACTC
*
5290307 ATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATTAATT
1 ATTATGAATTT-GTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATT
*
5290372 TTGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTT
65 TCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTT
** *
5290437 GCACGTATAGTGT-CAATACGAAAATTCATAAACTC
130 GCACACATAGT-TCCAATACGGAAATTCATAAACTC
* * *
5290472 ATTATCAATTTTGTGAGGTTGTACACATAGTGCCAACACGGAAATTCATAAACTCATTATGAATT
1 ATTATGAA-TTTGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATT
*
5290537 TCGTGAGGTTGCACACATAGTGTCAATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTT
65 TCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTT
*
5290602 GCACACATAGTGCCAATACGGAAATTCA
130 GCACACATAGTTCCAATACGGAAATTCA
5290630 AACATATACA
Statistics
Matches: 294, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
164 2 0.01
165 288 0.98
166 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (164 bp):
ATTATGAATTTGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTT
CGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTTG
CACACATAGTTCCAATACGGAAATTCATAAACTC
Found at i:5295638 original size:16 final size:16
Alignment explanation
Indices: 5295604--5295651 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
5295594 GGAGATGAAT
*
5295604 ATTTTTTTATAATACTTA
1 ATTTTATTATAAT--TTA
5295622 ATTTTATTATAATTTA
1 ATTTTATTATAATTTA
*
5295638 AATTTA-TATAATTT
1 ATTTTATTATAATTT
5295652 TATAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 8 0.29
16 8 0.29
18 12 0.43
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTATTATAATTTA
Found at i:5295653 original size:16 final size:16
Alignment explanation
Indices: 5295619--5295651 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5295609 TTTATAATAC
*
5295619 TTAATTTTATTATAAT
1 TTAAATTTATTATAAT
5295635 TTAAATTTA-TATAAT
1 TTAAATTTATTATAAT
5295650 TT
1 TT
5295652 TATAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAAATTTATTATAAT
Found at i:5296700 original size:50 final size:50
Alignment explanation
Indices: 5296641--5296746 Score: 212
Period size: 50 Copynumber: 2.1 Consensus size: 50
5296631 GATTTTAGGG
5296641 GAAAAAAGTATTTAATGATGAAAATATAATCAAAATGATATTTTGAATGT
1 GAAAAAAGTATTTAATGATGAAAATATAATCAAAATGATATTTTGAATGT
5296691 GAAAAAAGTATTTAATGATGAAAATATAATCAAAATGATATTTTGAATGT
1 GAAAAAAGTATTTAATGATGAAAATATAATCAAAATGATATTTTGAATGT
5296741 GAAAAA
1 GAAAAA
5296747 GTAGTCTATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (50 bp):
GAAAAAAGTATTTAATGATGAAAATATAATCAAAATGATATTTTGAATGT
Found at i:5297288 original size:2 final size:2
Alignment explanation
Indices: 5297281--5297309 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5297271 TAATCATACT
5297281 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5297310 AACCCTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5302497 original size:38 final size:38
Alignment explanation
Indices: 5302446--5302518 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
5302436 GGAAAGGATG
*
5302446 ACATGTTCTCTTTTGCGGTATGTAAATTTATATGCTTC
1 ACATGTTCTCTTTTGCAGTATGTAAATTTATATGCTTC
5302484 ACATGTTCTCTTTTGCAGTATGTAAATTTATATGC
1 ACATGTTCTCTTTTGCAGTATGTAAATTTATATGC
5302519 ATGGTTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (38 bp):
ACATGTTCTCTTTTGCAGTATGTAAATTTATATGCTTC
Found at i:5307612 original size:14 final size:14
Alignment explanation
Indices: 5307584--5307617 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5307574 TTTTAAAAAT
5307584 AAAATA-TTATTTA
1 AAAATATTTATTTA
*
5307597 AAAATATTTTTTTA
1 AAAATATTTATTTA
5307611 AAAATAT
1 AAAATAT
5307618 AGATATTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATATTTATTTA
Found at i:5309830 original size:69 final size:69
Alignment explanation
Indices: 5309704--5309842 Score: 170
Period size: 69 Copynumber: 2.0 Consensus size: 69
5309694 CGAGTTATAC
* ** * *
5309704 TAGTGTTGCCACATGTTCTAATGCTTCTGGTGTTTCAATGAATTCTACAACTATTAGTGCTGCAG
1 TAGTGTTGCCACAAGTTCTAATGCTTCCAGTGTTGCAATGAATTCTACAACTATTAGTGCTGAAG
5309769 CTGG
66 CTGG
* * * ** * *
5309773 TAGTGTTGCCGCAAGTTCTAGTGCTTCCAGTGTTGCAATGAGTTCTACTTCTGTTAGTGTTGAAG
1 TAGTGTTGCCACAAGTTCTAATGCTTCCAGTGTTGCAATGAATTCTACAACTATTAGTGCTGAAG
5309838 CTGG
66 CTGG
5309842 T
1 T
5309843 TTGAATGCTG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (69 bp):
TAGTGTTGCCACAAGTTCTAATGCTTCCAGTGTTGCAATGAATTCTACAACTATTAGTGCTGAAG
CTGG
Found at i:5315335 original size:16 final size:17
Alignment explanation
Indices: 5315316--5315370 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
5315306 ATTTATTTGA
5315316 TTAAACT-AAAAGTAAT
1 TTAAACTAAAAAGTAAT
5315332 TTAAA-TAAAAAGTAAT
1 TTAAACTAAAAAGTAAT
* * *
5315348 TCAAAATGAAAA-TAAT
1 TTAAACTAAAAAGTAAT
*
5315364 TTGAACT
1 TTAAACT
5315371 TAATTTACCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 1 0.03
16 26 0.81
17 5 0.16
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.31
Consensus pattern (17 bp):
TTAAACTAAAAAGTAAT
Done.