Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 43
Found at i:3936921 original size:9 final size:9
Alignment explanation
Indices: 3936907--3936971 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
3936897 TTGTCCTATA
3936907 TTATTTTAT
1 TTATTTTAT
*
3936916 TTATTTTGT
1 TTATTTTAT
3936925 TTACCTTTTTTAT
1 TTA----TTTTAT
3936938 TTCATTTT-T
1 TT-ATTTTAT
* *
3936947 TTACTTTCT
1 TTATTTTAT
3936956 TTATTTTAT
1 TTATTTTAT
3936965 TTATTTT
1 TTATTTT
3936972 TTATTTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
8 4 0.09
9 29 0.64
10 4 0.09
13 7 0.16
14 1 0.02
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (9 bp):
TTATTTTAT
Found at i:3936938 original size:22 final size:20
Alignment explanation
Indices: 3936910--3936971 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 20
3936900 TCCTATATTA
3936910 TTTTATTTATTTTGTTTACCTT
1 TTTTATTTATTTT-TTTA-CTT
3936932 TTTTATTTCATTTTTTTACTT
1 TTTTATTT-ATTTTTTTACTT
3936953 TCTTTATTTTATTTATTTT
1 T-TTTA-TTTATTT-TTTT
3936972 TTATTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.11
22 20 0.56
23 12 0.33
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTATTTATTTTTTTACTT
Found at i:3937631 original size:22 final size:22
Alignment explanation
Indices: 3937590--3937632 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3937580 AATGGACGAT
*
3937590 CGGTTTTTACCGAATTAAAAAC
1 CGGTTTTTACCGAATAAAAAAC
3937612 CGGTTTTTATCCGAA-AAAAAA
1 CGGTTTTTA-CCGAATAAAAAA
3937633 TTTGGTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (22 bp):
CGGTTTTTACCGAATAAAAAAC
Found at i:3940478 original size:23 final size:22
Alignment explanation
Indices: 3940439--3940486 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
3940429 ATATTTACAC
3940439 AATATTTTAATTATAATATCAT
1 AATATTTTAATTATAATATCAT
**
3940461 AATATTTTTTTTATTAATATCAT
1 AATATTTTAATTA-TAATATCAT
3940484 AAT
1 AAT
3940487 CTAATTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATTTTAATTATAATATCAT
Found at i:3941025 original size:14 final size:14
Alignment explanation
Indices: 3941008--3941044 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3940998 TTCGTTTACA
*
3941008 TTCGTTTGTTTATG
1 TTCGTTTATTTATG
*
3941022 TTCGTTTATTTTTG
1 TTCGTTTATTTATG
3941036 TTCGTTTAT
1 TTCGTTTAT
3941045 CATTTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (14 bp):
TTCGTTTATTTATG
Found at i:3941026 original size:47 final size:47
Alignment explanation
Indices: 3940922--3941031 Score: 116
Period size: 47 Copynumber: 2.3 Consensus size: 47
3940912 TTTATGCTCA
** ** *
3940922 TTTATGTTTATTTATTGTATTTGTTTATGTTCGTTCATTTGTGTTCG
1 TTTATGTTCGTTTATTGTATTCATTTATGTTCGTTCATTCGTGTTCG
* * *
3940969 TTAATATTCGTTTATTGTGTTCATTTATGTTCGTTTACATTCGT-TT-G
1 TTTATGTTCGTTTATTGTATTCATTTATGTTCG-TT-CATTCGTGTTCG
3941016 TTTATGTTCGTTTATT
1 TTTATGTTCGTTTATT
3941032 TTTGTTCGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
47 41 0.80
48 4 0.08
49 6 0.12
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (47 bp):
TTTATGTTCGTTTATTGTATTCATTTATGTTCGTTCATTCGTGTTCG
Found at i:3941042 original size:24 final size:24
Alignment explanation
Indices: 3940922--3941044 Score: 110
Period size: 24 Copynumber: 5.2 Consensus size: 24
3940912 TTTATGCTCA
** * *
3940922 TTTATGTTTATTTA-TTGTATTTG
1 TTTATGTTCGTTTATTTGTGTTCG
*
3940945 TTTATGTTCGTTCATTTGTGTTCG
1 TTTATGTTCGTTTATTTGTGTTCG
* * *
3940969 TTAATATTCGTTTA-TTGTGTTCA
1 TTTATGTTCGTTTATTTGTGTTCG
*
3940992 TTTATGTTCGTTTACATTCGT-TT-G
1 TTTATGTTCGTTT--ATTTGTGTTCG
*
3941016 TTTATGTTCGTTTATTTTTGTTCG
1 TTTATGTTCGTTTATTTGTGTTCG
3941040 TTTAT
1 TTTAT
3941045 CATTTAAATG
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
22 4 0.05
23 32 0.41
24 37 0.47
25 3 0.04
26 3 0.04
ACGTcount: A:0.14, C:0.08, G:0.15, T:0.63
Consensus pattern (24 bp):
TTTATGTTCGTTTATTTGTGTTCG
Found at i:3941153 original size:28 final size:28
Alignment explanation
Indices: 3941113--3941176 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
3941103 AATTTTTTTT
* *
3941113 TTCGTTTATGTTCGTGGTCGTTCATTTG
1 TTCGGTTATGTTCGTGGTCGATCATTTG
3941141 TTCGGTTATGTTCGTGGTCGATCATTTG
1 TTCGGTTATGTTCGTGGTCGATCATTTG
3941169 TTCGGTTA
1 TTCGGTTA
3941177 AAGTTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.50
Consensus pattern (28 bp):
TTCGGTTATGTTCGTGGTCGATCATTTG
Found at i:3943615 original size:14 final size:14
Alignment explanation
Indices: 3943596--3943622 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3943586 CTGATAAGTA
3943596 CAAAGTTCTTTTAT
1 CAAAGTTCTTTTAT
3943610 CAAAGTTCTTTTA
1 CAAAGTTCTTTTA
3943623 ATAGTCGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
CAAAGTTCTTTTAT
Found at i:3947959 original size:2 final size:2
Alignment explanation
Indices: 3947954--3947983 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3947944 ACATTATACC
3947954 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
3947984 GTAATACACC
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:3949772 original size:233 final size:234
Alignment explanation
Indices: 3949365--3950051 Score: 1065
Period size: 233 Copynumber: 2.9 Consensus size: 234
3949355 AAGAGGGACT
* * *
3949365 TGTGAAAACATCCTGCCTAAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTTGAAAGA
1 TGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
* * * *
3949430 CTTACAAATAACCCGAAGGATTTAGGCATCATGCTCGAAAGACTTACTGATGGCTCGAAAGACTT
66 CTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* *
3949495 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAAATTTT-
131 ATAAATTTTGAAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTTC
* * *
3949559 AGATTTAAATGAGAAACCTTTCTTATATTTCGATAGATA
196 AGATTTAAATGAGAAACCTTTCTCATATATCGATAGACA
* * *
3949598 TGTGAAAACATCATGCCCAAAGGTCTTATGGATGACCCGAATGACTTATCATCTTGCTCGAAAGA
1 TGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
** * *
3949663 CTTACAAATGACCCGAAAAATTTAATCATCATGATCGAAAGACTTACTGATGGCCCGAAGGACTT
66 CTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
*
3949728 ATAAATTTTGAAAATAGTTTACTAGATAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTTC
131 ATAAATTTTGAAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTTC
*
3949793 AGATTTAAATGAGAAATCTTTCTCATATATCGATAGACA
196 AGATTTAAATGAGAAACCTTTCTCATATATCGATAGACA
* * * * * *
3949832 TGTGAAAACATCCTACTCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGTTCGAAAGG
1 TGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
*
3949897 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
66 CTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
*
3949962 ATAAATTTT-AGAGATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTC-AATTTT
131 ATAAATTTTGA-AAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTT
**
3950025 CAGATTGGAATGAGAAACCTTTCTCAT
195 CAGATTTAAATGAGAAACCTTTCTCAT
3950052 TTCATTTTTA
Statistics
Matches: 412, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
233 208 0.50
234 204 0.50
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (234 bp):
TGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
CTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
ATAAATTTTGAAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTTC
AGATTTAAATGAGAAACCTTTCTCATATATCGATAGACA
Found at i:3949954 original size:42 final size:41
Alignment explanation
Indices: 3949847--3949962 Score: 133
Period size: 42 Copynumber: 2.8 Consensus size: 41
3949837 AAACATCCTA
* * * * *
3949847 CTCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTG
1 CTCGAAAGACTTACAGATGGCCCGAAGGACTTAGCATCATG
* * * *
3949888 TTCGAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATG
1 CTCGAAAGACTTACAGATGGCCCGAAGGACTT-AGCATCATG
*
3949930 CTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1 CTCGAAAGACTTACAGATGGCCCGAAGGACTTA
3949963 TAAATTTTAG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 27 0.44
42 34 0.56
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
CTCGAAAGACTTACAGATGGCCCGAAGGACTTAGCATCATG
Found at i:3956652 original size:2 final size:2
Alignment explanation
Indices: 3956647--3956687 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
3956637 CCGAAAAAAC
*
3956647 AT AT AT AT TT AT AT AT -T AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3956687 A
1 A
3956688 AGTATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:3956671 original size:19 final size:19
Alignment explanation
Indices: 3956647--3956687 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
3956637 CCGAAAAAAC
*
3956647 ATATATATTTATATATTAT
1 ATATATATATATATATTAT
3956666 ATATATATATATATATTAT
1 ATATATATATATATATTAT
3956685 ATA
1 ATA
3956688 AGTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATATATATATATATTAT
Found at i:3956699 original size:17 final size:18
Alignment explanation
Indices: 3956647--3956699 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
3956637 CCGAAAAAAC
3956647 ATATATAT-TTATATATT
1 ATATATATATTATATATT
3956664 ATATATATATATATATATT
1 ATATATATAT-TATATATT
3956683 ATATA-AGTATTAT-TATT
1 ATATATA-TATTATATATT
3956700 TTATTAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 12 0.36
18 5 0.15
19 16 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATATATATTATATATT
Found at i:3962254 original size:94 final size:94
Alignment explanation
Indices: 3961817--3962687 Score: 1274
Period size: 94 Copynumber: 9.0 Consensus size: 94
3961807 TTCAGAGTCT
* * * *
3961817 ATTTCAACTTCGCAGTGAAGAACATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
3961882 ACCGATGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTC----AACAA----ACAATTTC----CCA
* *
3961923 ATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3961988 ACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTC----AACAA----ACAATTTC----CCA
*
3962029 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
3962094 ACCGCTGGTTGTCAAACAAACAATTTCCCA
66 ACCGCTGGTTGTC-AACAAACAATTTCCCA
* *
3962124 ATTTCAACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
3962189 ACCGCTGGTTGTCAACAAACAATTTCCCA
66 ACCGCTGGTTGTCAACAAACAATTTCCCA
*
3962218 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
3962283 ACCGCTGGTTGTCAACAAACAATTTCCCA
66 ACCGCTGGTTGTCAACAAACAATTTCCCA
*
3962312 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
3962377 ACCGCTGGTTGTCAACAAACAATTTCCCA
66 ACCGCTGGTTGTCAACAAACAATTTCCCA
* *
3962406 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAATGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
3962471 ACCGCTGGTTGTCAACAAACAATTTCCCA
66 ACCGCTGGTTGTCAACAAACAATTTCCCA
* * *
3962500 ATTTCAACTTCACAACGAAGGACATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3962565 ACCGCTGGTTGTCAACAAACAATTTCCGA
66 ACCGCTGGTTGTCAACAAACAATTTCCCA
* * * * * *
3962594 ATTTCAATTTCACAACAAAGGACATTGGACTCCAGACAACGCAAGTTCAACTTCACAATGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3962659 ACCGCTGGTTGTCAATAAACAATTTCCCA
66 ACCGCTGGTTGTCAACAAACAATTTCCCA
3962688 GTTCCAGAGC
Statistics
Matches: 732, Mismatches: 33, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
94 467 0.64
95 78 0.11
99 7 0.01
103 6 0.01
106 174 0.24
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (94 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAACAATTTCCCA
Found at i:3963547 original size:2 final size:2
Alignment explanation
Indices: 3963542--3963583 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
3963532 CCGAAAAAAC
*
3963542 AT AT AT AT TT AT AT AT -T AT AT AT -T AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3963581 AT A
1 AT A
3963584 AGTATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:3963562 original size:7 final size:7
Alignment explanation
Indices: 3963543--3963583 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
3963533 CGAAAAAACA
3963543 TATATATT
1 TATATA-T
3963551 TATATAT
1 TATATAT
3963558 TATATAT
1 TATATAT
3963565 TATATA-
1 TATATAT
3963571 TATATAT
1 TATATAT
3963578 TATATA
1 TATATA
3963584 AGTATTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:3963574 original size:20 final size:20
Alignment explanation
Indices: 3963545--3963583 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3963535 AAAAAACATA
*
3963545 TATATTTATATATTATATAT
1 TATATATATATATTATATAT
3963565 TATATATATATATTATATA
1 TATATATATATATTATATA
3963584 AGTATTATTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATATATATATTATATAT
Found at i:3966491 original size:2 final size:2
Alignment explanation
Indices: 3966486--3966517 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3966476 CATTATACCC
3966486 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
3966518 ATACACCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3967054 original size:2 final size:2
Alignment explanation
Indices: 3967049--3967077 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3967039 CATTATACCC
3967049 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3967078 GTAATACACC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3967338 original size:563 final size:563
Alignment explanation
Indices: 3966272--3967400 Score: 2222
Period size: 563 Copynumber: 2.0 Consensus size: 563
3966262 AATACGTTAA
3966272 GACAACCCACTCAAAATAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATGTAATAATG
1 GACAACCCACTCAAAATAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATGTAATAATG
3966337 TCGAGTTATGCACATGAGAATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTA
66 TCGAGTTATGCACATGAGAATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTA
3966402 AACAACTATTATGATTAAAATATCATACAATGTTATTTTAATACCAACAATTATATACATCTTTT
131 AACAACTATTATGATTAAAATATCATACAATGTTATTTTAATACCAACAATTATATACATCTTTT
3966467 ATAACCACACATTATACCCTATATATATATATATATATATATATATATATAATACACCAATGTGA
196 ATAACCACACATTATACCCTATATATATATATATATATATATATATATATAATACACCAATGTGA
3966532 CTAAAATAAATAAAATGAAACATAACACTTAAAAATGCAAAGTTAGGAAACTAAGTAAACTATTT
261 CTAAAATAAATAAAATGAAACATAACACTTAAAAATGCAAAGTTAGGAAACTAAGTAAACTATTT
*
3966597 AAACTAGATACTAAATGATAAAGAATAGAAATTTACCATCTCAACTACAAAAATAATAACAATTG
326 AAACTAGATACTAAATGATAAAGAATAAAAATTTACCATCTCAACTACAAAAATAATAACAATTG
*
3966662 AAGTGAAAAACAAATATTACACCATTTCAATTATTAAAACTAAGATAAAATTATGTTTAATATAC
391 AAGTGAAAAAAAAATATTACACCATTTCAATTATTAAAACTAAGATAAAATTATGTTTAATATAC
3966727 GAGACTAAAAATATAATAAACCCAAACATACCTACAACCAAAATGTAACATGGAAAAACCTAAAA
456 GAGACTAAAAATATAATAAACCCAAACATACCTACAACCAAAATGTAACATGGAAAAACCTAAAA
3966792 GTCTAATATCTAAACAACATAAATTAAATAAATAAACATTTAG
521 GTCTAATATCTAAACAACATAAATTAAATAAATAAACATTTAG
3966835 GACAACCCACTCAAAATAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATGTAATAATG
1 GACAACCCACTCAAAATAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATGTAATAATG
*
3966900 TCGAGTTATGCATATGAGAATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTA
66 TCGAGTTATGCACATGAGAATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTA
3966965 AACAACTATTATGATTAAAATATCATACAATGTTATTTTAATACCAACAATTATATACATCTTTT
131 AACAACTATTATGATTAAAATATCATACAATGTTATTTTAATACCAACAATTATATACATCTTTT
*
3967030 ATAACCACACATTATACCCTATATATATATATATATATATATATATATGTAATACACCAATGTGA
196 ATAACCACACATTATACCCTATATATATATATATATATATATATATATATAATACACCAATGTGA
3967095 CTAAAATAAATAAAATGAAACATAACACTTAAAAATGCAAAGTTAGGAAACTAAGTAAACTATTT
261 CTAAAATAAATAAAATGAAACATAACACTTAAAAATGCAAAGTTAGGAAACTAAGTAAACTATTT
3967160 AAACTAGATACTAAATGATAAAGAATAAAAATTTACCATCTCAACTACAAAAATAATAACAATTG
326 AAACTAGATACTAAATGATAAAGAATAAAAATTTACCATCTCAACTACAAAAATAATAACAATTG
3967225 AAGTGAAAAAAAAATATTACACCATTTCAATTATTAAAACTAAGATAAAATTATGTTTAATATAC
391 AAGTGAAAAAAAAATATTACACCATTTCAATTATTAAAACTAAGATAAAATTATGTTTAATATAC
3967290 GAGACTAAAAATATAATAAACCCAAACATACCTACAACCAAAATGTAACATGGAAAAACCTAAAA
456 GAGACTAAAAATATAATAAACCCAAACATACCTACAACCAAAATGTAACATGGAAAAACCTAAAA
3967355 GTCTAATATCTAAACAACATAAATTAAATAAATAAACATTTAG
521 GTCTAATATCTAAACAACATAAATTAAATAAATAAACATTTAG
3967398 GAC
1 GAC
3967401 GAAAATTAAA
Statistics
Matches: 562, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
563 562 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (563 bp):
GACAACCCACTCAAAATAATTTTAAATTAAAAGGGTATTACCCTTAATCCAATTATGTAATAATG
TCGAGTTATGCACATGAGAATATCATACATATTATGCAAAATGATGTTAATGCAAAAATTAATTA
AACAACTATTATGATTAAAATATCATACAATGTTATTTTAATACCAACAATTATATACATCTTTT
ATAACCACACATTATACCCTATATATATATATATATATATATATATATATAATACACCAATGTGA
CTAAAATAAATAAAATGAAACATAACACTTAAAAATGCAAAGTTAGGAAACTAAGTAAACTATTT
AAACTAGATACTAAATGATAAAGAATAAAAATTTACCATCTCAACTACAAAAATAATAACAATTG
AAGTGAAAAAAAAATATTACACCATTTCAATTATTAAAACTAAGATAAAATTATGTTTAATATAC
GAGACTAAAAATATAATAAACCCAAACATACCTACAACCAAAATGTAACATGGAAAAACCTAAAA
GTCTAATATCTAAACAACATAAATTAAATAAATAAACATTTAG
Found at i:3968744 original size:27 final size:27
Alignment explanation
Indices: 3968714--3968765 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
3968704 CGGCAGGTTG
3968714 GTGCGGGTGCTTCACATTATGGGTGCT
1 GTGCGGGTGCTTCACATTATGGGTGCT
3968741 GTGCGGGTGCTTCACATTATGGGTG
1 GTGCGGGTGCTTCACATTATGGGTG
3968766 TTGCAGAGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.12, C:0.17, G:0.38, T:0.33
Consensus pattern (27 bp):
GTGCGGGTGCTTCACATTATGGGTGCT
Found at i:3970051 original size:7 final size:7
Alignment explanation
Indices: 3970039--3970095 Score: 114
Period size: 7 Copynumber: 8.1 Consensus size: 7
3970029 GAGAGAGAGG
3970039 GAGAAAA
1 GAGAAAA
3970046 GAGAAAA
1 GAGAAAA
3970053 GAGAAAA
1 GAGAAAA
3970060 GAGAAAA
1 GAGAAAA
3970067 GAGAAAA
1 GAGAAAA
3970074 GAGAAAA
1 GAGAAAA
3970081 GAGAAAA
1 GAGAAAA
3970088 GAGAAAA
1 GAGAAAA
3970095 G
1 G
3970096 GGTGAGAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
GAGAAAA
Found at i:3970514 original size:21 final size:23
Alignment explanation
Indices: 3970476--3970525 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
3970466 CTTATAAAAA
*
3970476 TTTAATGTAATTCTAATTTTAT-
1 TTTAATGTAATTCTAATTATATC
3970498 TTTAATGT-A-TCTAAATTATATC
1 TTTAATGTAATTCT-AATTATATC
3970520 TTTAAT
1 TTTAAT
3970526 TTTATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 8 0.32
22 14 0.56
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTAATGTAATTCTAATTATATC
Found at i:3981663 original size:22 final size:23
Alignment explanation
Indices: 3981622--3981664 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3981612 GTTTGAGTAG
*
3981622 TCATAGGGGGTATTGATACCCAA
1 TCATAGGGGGTATCGATACCCAA
*
3981645 TCATA-GGGGTATCGGTACCC
1 TCATAGGGGGTATCGATACCC
3981665 GGGGTATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (23 bp):
TCATAGGGGGTATCGATACCCAA
Found at i:3981686 original size:37 final size:37
Alignment explanation
Indices: 3981628--3981700 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
3981618 GTAGTCATAG
*
3981628 GGGGTATTGATACCCAATCATAGGGGTATCGGTACCC
1 GGGGTATTGATACACAATCATAGGGGTATCGGTACCC
*
3981665 GGGGTATTGATACACATTCATAGGGGTATCGGTACC
1 GGGGTATTGATACACAATCATAGGGGTATCGGTACC
3981701 TCTTAGTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
GGGGTATTGATACACAATCATAGGGGTATCGGTACCC
Found at i:3983110 original size:18 final size:19
Alignment explanation
Indices: 3983071--3983110 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3983061 TCATTTTGAT
3983071 TTTCAAAATCAACTTTAAC
1 TTTCAAAATCAACTTTAAC
*
3983090 TTTCAAAATCAA-TTTATC
1 TTTCAAAATCAACTTTAAC
3983108 TTT
1 TTT
3983111 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTCAAAATCAACTTTAAC
Found at i:3984749 original size:15 final size:15
Alignment explanation
Indices: 3984729--3984769 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
3984719 GTAGGTGTTT
*
3984729 ACAAGAATTAAGTTC
1 ACAAGAATAAAGTTC
*
3984744 ACAAGAACAAAGTTC
1 ACAAGAATAAAGTTC
3984759 ACAAGAATAAA
1 ACAAGAATAAA
3984770 ATATTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.17
Consensus pattern (15 bp):
ACAAGAATAAAGTTC
Found at i:3985198 original size:22 final size:22
Alignment explanation
Indices: 3985158--3985199 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3985148 GTTTGAGTAG
*
3985158 TCATAGGGGTATTGATACCCAA
1 TCATAGGGGTATCGATACCCAA
*
3985180 TCATAGGGGTATCGGTACCC
1 TCATAGGGGTATCGATACCC
3985200 GAGTATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (22 bp):
TCATAGGGGTATCGATACCCAA
Found at i:3985206 original size:36 final size:36
Alignment explanation
Indices: 3985166--3985234 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
3985156 AGTCATAGGG
*
3985166 GTATTGATACCCAATCATAGGGGTATCGGTACCCGA
1 GTATTAATACCCAATCATAGGGGTATCGGTACCCGA
* *
3985202 GTATTAATACCCATTCATAGGGGTATTGGTACC
1 GTATTAATACCCAATCATAGGGGTATCGGTACC
3985235 TATTAGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (36 bp):
GTATTAATACCCAATCATAGGGGTATCGGTACCCGA
Found at i:3988233 original size:19 final size:18
Alignment explanation
Indices: 3988189--3988239 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
3988179 AGGAGAAATA
3988189 TTATTTTTGA-TTTATTCC
1 TTATTTTT-ATTTTATTCC
**
3988207 TTCCTTTTATTTTATTTCC
1 TTATTTTTATTTTA-TTCC
3988226 TTATTTTTACTTTT
1 TTATTTTTA-TTTT
3988240 CTCTCTCCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 11 0.42
20 4 0.15
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTTTTATTTTATTCC
Found at i:3990904 original size:24 final size:24
Alignment explanation
Indices: 3990877--3990995 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
3990867 AAACATAAAT
*
3990877 CAGGTCAAGTATCATATCA-AACTC
1 CAGGTCAAGTATCAGATCAGAA-TC
3990901 CAGGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
3990925 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
* * *
3990949 TATGTC-AGATATTAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
* *
3990973 CATGTCATGTATCAGATCAGAAT
1 CAGGTCAAGTATCAGATCAGAAT
3990996 TCAAATCAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
23 2 0.02
24 79 0.94
25 3 0.04
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:3993468 original size:18 final size:18
Alignment explanation
Indices: 3993445--3993479 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3993435 ACGGGTCAAC
*
3993445 GGTCAATGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCA
3993463 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
3993480 GGGTTATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.46, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCA
Found at i:3994977 original size:9 final size:10
Alignment explanation
Indices: 3994950--3994980 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
3994940 TTTGTTTAAA
3994950 AGCTCATTTT
1 AGCTCATTTT
3994960 AGCTCATTTT
1 AGCTCATTTT
3994970 AG-TCATTTT
1 AGCTCATTTT
3994979 AG
1 AG
3994981 GATAATGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (10 bp):
AGCTCATTTT
Found at i:3997290 original size:20 final size:20
Alignment explanation
Indices: 3997265--3997325 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
3997255 ACAAAGAAAC
*
3997265 TAGCTTAGGAGTAGCTGAAG
1 TAGCTTAAGAGTAGCTGAAG
** *
3997285 TAGCTTAATTGTAGCTGACAC
1 TAGCTTAAGAGTAGCTGA-AG
*
3997306 TAGCTGAAGAGTAGCTGAAG
1 TAGCTTAAGAGTAGCTGAAG
3997326 GTAGGTGGAG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (20 bp):
TAGCTTAAGAGTAGCTGAAG
Found at i:3997551 original size:20 final size:20
Alignment explanation
Indices: 3997526--3997563 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3997516 CTATGCTTGC
3997526 TGCCATATGCTTCATTAACA
1 TGCCATATGCTTCATTAACA
*
3997546 TGCCATGTGCTTCATTAA
1 TGCCATATGCTTCATTAA
3997564 AATGGCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (20 bp):
TGCCATATGCTTCATTAACA
Found at i:4000782 original size:21 final size:22
Alignment explanation
Indices: 4000758--4000801 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4000748 ATAAGGCTAA
* *
4000758 ATTCAACCTCA-AATTGTCTAG
1 ATTCAACCACATAATTATCTAG
*
4000779 ATTCATCCACATAATTATCTAG
1 ATTCAACCACATAATTATCTAG
4000801 A
1 A
4000802 ATATTCATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (22 bp):
ATTCAACCACATAATTATCTAG
Found at i:4002775 original size:4 final size:4
Alignment explanation
Indices: 4002760--4002806 Score: 85
Period size: 4 Copynumber: 11.5 Consensus size: 4
4002750 CATGTAACAA
4002760 ATAC ACTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
4002807 GTCATTATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 38 0.90
5 4 0.10
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:4004446 original size:20 final size:22
Alignment explanation
Indices: 4004421--4004478 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
4004411 TTCTCCTTGA
4004421 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
4004441 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
4004464 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4004479 CTACCTATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:4004580 original size:64 final size:63
Alignment explanation
Indices: 4004466--4004606 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
4004456 TCTTTAACAT
* * *
4004466 GTGCATCGATGCACTACCTATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTACCTATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * *
4004529 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTTGGTGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-TATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
4004593 GTGCATCGATGCAC
1 GTGCATCGATGCAC
4004607 ATTGTGCATC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCTATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:4004678 original size:12 final size:12
Alignment explanation
Indices: 4004661--4004692 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4004651 GAAAACCATA
4004661 AATTCTTCATTC
1 AATTCTTCATTC
4004673 AATTCTTCATTC
1 AATTCTTCATTC
4004685 AATTCTTC
1 AATTCTTC
4004693 TATTTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTCTTCATTC
Found at i:4007940 original size:20 final size:19
Alignment explanation
Indices: 4007895--4007951 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
4007885 GCACTGAATA
4007895 TTTGTCCCGAAGGACCAC-
1 TTTGTCCCGAAGGACCACT
**
4007913 CATGTCCCGAAGGACCACTT
1 TTTGTCCCGAAGGACCAC-T
*
4007933 TTTGTCCCGAAAGACCACT
1 TTTGTCCCGAAGGACCACT
4007952 GATAATCCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.50
19 1 0.03
20 15 0.47
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (19 bp):
TTTGTCCCGAAGGACCACT
Found at i:4009258 original size:64 final size:63
Alignment explanation
Indices: 4009171--4009311 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
4009161 TCTTTAACAT
* *
4009171 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * *
4009234 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGGTGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
4009298 GTGCATCGATGCAC
1 GTGCATCGATGCAC
4009312 ATCGAATGTG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 21 0.31
64 46 0.69
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:4011535 original size:17 final size:17
Alignment explanation
Indices: 4011494--4011537 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4011484 ATTTAAACAT
* *
4011494 GTAGTTCATTTAGCTAT
1 GTAGTTCATTTAACTAA
* *
4011511 GCATTTCATTTAACTAA
1 GTAGTTCATTTAACTAA
4011528 GTAGTTCATT
1 GTAGTTCATT
4011538 GATTAAACTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (17 bp):
GTAGTTCATTTAACTAA
Found at i:4012280 original size:179 final size:178
Alignment explanation
Indices: 4011941--4012345 Score: 470
Period size: 180 Copynumber: 2.3 Consensus size: 178
4011931 CGACAAATGT
* *
4011941 TATTTGTAATTATATATTTTAATTATAGTGACAATATATA-T-TCACAAATGATTATCTCCAATT
1 TATTTGTAGTTATATATTTTAATTATAGTGACAATATATATTGTCATAAATGATTATCTCCAATT
* ** * **
4012004 TTTGGTACAAAAATAAAATCATATAGTGACACGTTTTGTAATTATAAGCTATAATTATTGTAATG
66 TTTGGCACAAAAATAAAATCATATAGTGACAAATTTTGTAACTATAAGCTATAATTATTACAA-G
4012069 AAAAAGTTGTTAAAACAAAAAATGAAATTCAAGTTTTTAGTGA-AAA-AA
130 AAAAAGTTGTTAAAACAAAAAATGAAATTCAAGTTTTT-GTGATAAATAA
* *
4012117 TGTTTGTAGTTATATATTTTAATTATAGTGACAAAATATATTGTCATAAA-GATT-TCCCTCCAT
1 TATTTGTAGTTATATATTTTAATTATAGTGACAATATATATTGTCATAAATGATTAT--CTCCA-
* *
4012180 ATTTTTTGGCGCAAAAAT-AAATCATATAGTGACAAATTTTGTAACTATAAGTGTTGATAATTAT
63 A-TTTTTGGCACAAAAATAAAATCATATAGTGACAAATTTTGTAACTATAA--GCT-ATAATTAT
* * * * *
4012244 TACAA-AAAACA-TTGTTACAA-AAATAATTATATTCAAGTTTTTGTGATAAATTA
124 TACAAGAAAA-AGTTGTTAAAACAAAAAATGAAATTCAAGTTTTTGTGATAAATAA
* * *
4012297 TATTTATAGTTATAAATTTTAATTATAGTGATAATATATATTGTCATAA
1 TATTTGTAGTTATATATTTTAATTATAGTGACAATATATATTGTCATAA
4012346 CTAGTTTTCT
Statistics
Matches: 195, Mismatches: 22, Indels: 20
0.82 0.09 0.08
Matches are distributed among these distances:
176 38 0.19
177 5 0.03
178 15 0.08
179 52 0.27
180 71 0.36
181 3 0.02
182 11 0.06
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (178 bp):
TATTTGTAGTTATATATTTTAATTATAGTGACAATATATATTGTCATAAATGATTATCTCCAATT
TTTGGCACAAAAATAAAATCATATAGTGACAAATTTTGTAACTATAAGCTATAATTATTACAAGA
AAAAGTTGTTAAAACAAAAAATGAAATTCAAGTTTTTGTGATAAATAA
Found at i:4012313 original size:19 final size:19
Alignment explanation
Indices: 4012286--4012330 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4012276 TCAAGTTTTT
*
4012286 GTGATAAATTATATTTATA
1 GTGATAAATTATAATTATA
* *
4012305 GTTATAAATTTTAATTATA
1 GTGATAAATTATAATTATA
4012324 GTGATAA
1 GTGATAA
4012331 TATATATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
GTGATAAATTATAATTATA
Found at i:4014534 original size:39 final size:39
Alignment explanation
Indices: 4014476--4014550 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
4014466 AACTAATAAA
*
4014476 ATTATCTATTCAATCTGTGTTGCTGCTTGTCTTTGTTTC
1 ATTATCTATTCAATCTGTGTTACTGCTTGTCTTTGTTTC
*
4014515 ATTATCTATTCAATTTGTGTTACTGCTTGTCTTTGT
1 ATTATCTATTCAATCTGTGTTACTGCTTGTCTTTGT
4014551 GTACACCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.15, C:0.16, G:0.15, T:0.55
Consensus pattern (39 bp):
ATTATCTATTCAATCTGTGTTACTGCTTGTCTTTGTTTC
Found at i:4015294 original size:14 final size:14
Alignment explanation
Indices: 4015272--4015305 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4015262 GAAAAGAATA
4015272 ATAAAAATATTAAT
1 ATAAAAATATTAAT
*
4015286 ATAATAATATTAAT
1 ATAAAAATATTAAT
4015300 A-AAAAA
1 ATAAAAA
4015306 GAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAAATATTAAT
Found at i:4015828 original size:20 final size:19
Alignment explanation
Indices: 4015797--4015834 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4015787 CCTACAAAAA
4015797 TAATAAAATAAAAATATAT
1 TAATAAAATAAAAATATAT
*
4015816 TAATAATAATAAATATATA
1 TAATAA-AATAAAAATATA
4015835 AATAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATAAAATAAAAATATAT
Found at i:4015831 original size:18 final size:17
Alignment explanation
Indices: 4015792--4015839 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
4015782 CGGGGCCTAC
4015792 AAAAATA-AT-AA-AAT
1 AAAAATATATAAATAAT
*
4015806 AAAAATATATTAATAAT
1 AAAAATATATAAATAAT
4015823 AATAAATATATAAATAA
1 AA-AAATATATAAATAA
4015840 ATATATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 7 0.24
15 2 0.07
16 2 0.07
17 5 0.17
18 13 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATATATAAATAAT
Found at i:4015840 original size:12 final size:12
Alignment explanation
Indices: 4015823--4015852 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
4015813 TATTAATAAT
4015823 AATAAATATATA
1 AATAAATATATA
4015835 AATAAATATATA
1 AATAAATATATA
4015847 ATATAA
1 A-ATAA
4015853 TAAAATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAATATATA
Found at i:4016335 original size:84 final size:80
Alignment explanation
Indices: 4016189--4016623 Score: 424
Period size: 81 Copynumber: 5.3 Consensus size: 80
4016179 TACGCCCTTG
* * * * *
4016189 AGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTGCA
*
4016254 AATTATGGTGCCTTTC
66 AATGAT-GTGCCTTTC
* * * * * * *
4016270 AGCTGAGTGGAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTCGACTTGAGCTATGCT
* *
4016335 GTAAATGATGTGCC-CTC
63 GCAAATGATGTGCCTTTC
* * *
4016352 GAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCTCTTCTCGACTTGAGCTATGCTG
1 --AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTG
* *
4016417 TAAATGATGTGCC-CTC
64 CAAATGATGTGCCTTTC
* * * *
4016433 GAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTG
1 --AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTG
**
4016498 CAAATGATGTGCCTTAG
64 CAAATGATGTGCCTTTC
** * * * *
4016515 AGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTGAGCTATGC
**
4016580 TGCAAATGATGTGCCTTGG
62 TGCAAATGATGTGCCTTTC
* *
4016599 AGCTGAGCGTAGTCGAACTCGAAGG
1 AGCTGAGTGTAATCGAACTCGAAGG
4016624 CCTTCGGTGG
Statistics
Matches: 309, Mismatches: 35, Indels: 17
0.86 0.10 0.05
Matches are distributed among these distances:
80 22 0.07
81 144 0.47
82 4 0.01
83 6 0.02
84 133 0.43
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (80 bp):
AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTGCA
AATGATGTGCCTTTC
Found at i:4016553 original size:165 final size:163
Alignment explanation
Indices: 4016199--4016623 Score: 462
Period size: 165 Copynumber: 2.6 Consensus size: 163
4016189 AGCTGAATGG
* * * *
4016199 AATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATTATGGTG
1 AATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTGCAAATGAT-GTG
* * * * *
4016264 CCTTTC-AGCTGAGTGGAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAG
65 CC-CTCGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG-TGACAGATAACCCTTCTAGACTTAAG
* * * **
4016328 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGT
128 CTATGCTGCAAATGATGTGCCCTAGAAGCTGAGCAT
* * * *
4016364 AATCAAACTCGAGGGTCTTTGGCAGATAGCTCTTCTCGACTTGAGCTATGCTGTAAATGATGTGC
1 AATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGC
* * * * * *
4016429 CCTCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTG-G-CAGATAGCTCTTCTCGACTTAAGCT
66 CCTCG-AGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTGACAGATAACCCTTCTAGACTTAAGCT
*
4016492 ATGCTGCAAATGATGTGCCTTAG-AGCTGAGCAT
130 ATGCTGCAAATGATGTGCCCTAGAAGCTGAGCAT
* * * *
4016525 AGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTGCAAATGAT
* * *
4016590 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
62 GTGCCCTCGAGCTGAGTGTAGTCGAACTCGAAGG
4016624 CCTTCGGTGG
Statistics
Matches: 215, Mismatches: 39, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
161 22 0.10
162 39 0.18
163 4 0.02
164 26 0.12
165 124 0.58
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (163 bp):
AATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGC
CCTCGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTGACAGATAACCCTTCTAGACTTAAGCTA
TGCTGCAAATGATGTGCCCTAGAAGCTGAGCAT
Found at i:4016647 original size:84 final size:84
Alignment explanation
Indices: 4016219--4016634 Score: 301
Period size: 84 Copynumber: 5.0 Consensus size: 84
4016209 GAAGGTCTTT
* * * * * * ** ***
4016219 GGCAAATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATTATGGTGCCTTTCAGCTGAGTGGAGTC
1 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT-GTGCCTTAGAGCTGAGCATAGTC
* * * *
4016284 AAACTCGAAGGTCTT-TGTT
65 GAACTCGAAGGCCTTCGGTG
* * * * * * * * ** *
4016303 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
1 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAG-AGCTGAGCATAGTC
* * *
4016368 AAACTCGAGGGTCTT---T-
65 GAACTCGAAGGCCTTCGGTG
* * * * * * * ** *
4016384 GGCAGATAGCTCTTCTCGACTTGAGCTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATC
1 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAG-AGCTGAGCATAGTC
* *
4016449 GAACTCGAGGGTCTT---T-
65 GAACTCGAAGGCCTTCGGTG
* *
4016465 GGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCATAGTCG
1 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCATAGTCG
* * *
4016530 AACTCGAAGGTCTTTGGTT
66 AACTCGAAGGCCTTCGGTG
* * *
4016549 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
1 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCATAGTCG
4016614 AACTCGAAGGCCTTCGGTG
66 AACTCGAAGGCCTTCGGTG
4016633 GG
1 GG
4016635 TACGATTCCC
Statistics
Matches: 289, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
80 24 0.08
81 119 0.41
82 1 0.00
83 7 0.02
84 138 0.48
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (84 bp):
GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCATAGTCG
AACTCGAAGGCCTTCGGTG
Found at i:4016945 original size:110 final size:110
Alignment explanation
Indices: 4016747--4017282 Score: 857
Period size: 110 Copynumber: 4.9 Consensus size: 110
4016737 TTTTGCTGTT
* * *
4016747 TCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTC---A-GAAACTGGAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
**
4016808 TGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* *
4016853 TCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
4016918 TGATAGTCAGTCGCCCCTTGGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
*
4016963 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
4017028 TGACAGTCAGTCGCCCCTTCGCTGTGAAGCTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
*
4017073 TCGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
4017138 TGACAGTCAGTTGCCCCTTCGCTGTAAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * *
4017183 TCGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTATTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* *
4017248 TGATC-GTTAGTCGCCCCTTCGCTATGAAGTTGAGC
66 TGA-CAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
4017283 AACCACCATC
Statistics
Matches: 399, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
106 37 0.09
109 1 0.00
110 360 0.90
111 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (110 bp):
TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
Found at i:4018281 original size:2 final size:2
Alignment explanation
Indices: 4018274--4018305 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4018264 CACAAATAAT
4018274 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
4018306 AGTAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4018494 original size:16 final size:15
Alignment explanation
Indices: 4018464--4018510 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
4018454 CATAAGAATA
*
4018464 ATTAAGAATATATAC
1 ATTAACAATATATAC
4018479 ATTAACAATGATATAC
1 ATTAACAAT-ATATAC
*
4018495 AAATAA-AATATATAC
1 -ATTAACAATATATAC
4018510 A
1 A
4018511 AAAAATACGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 1 0.04
15 14 0.50
16 9 0.32
17 4 0.14
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (15 bp):
ATTAACAATATATAC
Found at i:4018509 original size:15 final size:16
Alignment explanation
Indices: 4018470--4018512 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
4018460 AATAATTAAG
*
4018470 AATATATAC-ATTAAC
1 AATATATACAAATAAC
4018485 AATGATATACAAATAA-
1 AAT-ATATACAAATAAC
4018501 AATATATACAAA
1 AATATATACAAA
4018513 AAATACGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 9 0.36
17 4 0.16
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (16 bp):
AATATATACAAATAAC
Found at i:4018552 original size:23 final size:23
Alignment explanation
Indices: 4018525--4018570 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4018515 ATACGCACAT
*
4018525 AGTAAAATA-AATAAATAATATAA
1 AGTAAAATACAAT-AATAACATAA
*
4018548 AGTAATATACAATAATAACATAA
1 AGTAAAATACAATAATAACATAA
4018571 GGATTAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
AGTAAAATACAATAATAACATAA
Found at i:4021841 original size:9 final size:10
Alignment explanation
Indices: 4021823--4021847 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4021813 TCTTTTGTTC
4021823 TTTTCTTTTT
1 TTTTCTTTTT
4021833 TTTTCTTTTT
1 TTTTCTTTTT
4021843 TTTTC
1 TTTTC
4021848 AATTTAGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:4021933 original size:17 final size:17
Alignment explanation
Indices: 4021884--4021926 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4021874 ACCCTAAACG
*
4021884 TTTTTC-TTTTTG-TGT
1 TTTTTCTTTTTTGTTCT
4021899 TTTTTCTTTTTTGTTCT
1 TTTTTCTTTTTTGTTCT
4021916 TTTTTCTTTTT
1 TTTTTCTTTTT
4021927 CTTTCTTCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 6 0.24
16 6 0.24
17 13 0.52
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTTCTTTTTTGTTCT
Found at i:4032372 original size:3 final size:3
Alignment explanation
Indices: 4032364--4032420 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
4032354 GTGAAAACAA
4032364 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4032412 AAT -AT AAT A
1 AAT AAT AAT A
4032421 GTAAAGCACC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4032446 original size:2 final size:2
Alignment explanation
Indices: 4032439--4032469 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4032429 CCGAAAATGA
4032439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4032470 CACACAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4032550 original size:16 final size:15
Alignment explanation
Indices: 4032520--4032566 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
4032510 CATAAGAATA
*
4032520 ATTAAGAATATATAC
1 ATTAACAATATATAC
4032535 ATTAACAATGATATAC
1 ATTAACAAT-ATATAC
*
4032551 AAATAA-AATATATAC
1 -ATTAACAATATATAC
4032566 A
1 A
4032567 AAAAATACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 1 0.04
15 14 0.50
16 9 0.32
17 4 0.14
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (15 bp):
ATTAACAATATATAC
Found at i:4032565 original size:15 final size:16
Alignment explanation
Indices: 4032526--4032568 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
4032516 AATAATTAAG
*
4032526 AATATATAC-ATTAAC
1 AATATATACAAATAAC
4032541 AATGATATACAAATAA-
1 AAT-ATATACAAATAAC
4032557 AATATATACAAA
1 AATATATACAAA
4032569 AAATACTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 9 0.36
17 4 0.16
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (16 bp):
AATATATACAAATAAC
Found at i:4037059 original size:39 final size:39
Alignment explanation
Indices: 4037012--4037102 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 39
4037002 AAAGAATAAT
* *
4037012 AAAAAAATATTAATATA-ATAATATTAATAAAAA-AAAGA
1 AAAAAAATATTAATATATATAACAAT-ATAAAAAGAAAGA
* *
4037050 AAAATAAATA-TATATATATATAACAATGTAAAAAGAAATA
1 AAAA-AAATATTA-ATATATATAACAATATAAAAAGAAAGA
4037090 AAAAAAATATTAA
1 AAAAAAATATTAA
4037103 AATTAGGTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
38 6 0.14
39 22 0.50
40 16 0.36
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (39 bp):
AAAAAAATATTAATATATATAACAATATAAAAAGAAAGA
Found at i:4037471 original size:34 final size:34
Alignment explanation
Indices: 4037433--4037519 Score: 126
Period size: 33 Copynumber: 2.6 Consensus size: 34
4037423 AGTCCTACTT
4037433 GGACTCAAA-ATGTTTCGGTTTTAGTATTTCAATA
1 GGACTCAAATATGTTT-GGTTTTAGTATTTCAATA
* *
4037467 GGACTCAAATACG-TTGGTTTTAGTGTTTCAATA
1 GGACTCAAATATGTTTGGTTTTAGTATTTCAATA
4037500 GGACTCAAATATG-TTGGTTT
1 GGACTCAAATATGTTTGGTTT
4037520 ATTTTCTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 36 0.73
34 11 0.22
35 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (34 bp):
GGACTCAAATATGTTTGGTTTTAGTATTTCAATA
Found at i:4037595 original size:6 final size:6
Alignment explanation
Indices: 4037586--4037612 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4037576 AAATAAAAAT
4037586 ATATTA ATATTA ATATTA ATATTA ATA
1 ATATTA ATATTA ATATTA ATATTA ATA
4037613 ATAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:4037621 original size:4 final size:4
Alignment explanation
Indices: 4037612--4037653 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
4037602 TAATATTAAT
*
4037612 AATA AATA AATA AATA AATA AATA AATA TAT- AATA TAATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA -AATA AA
4037654 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.82
5 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:4038617 original size:17 final size:17
Alignment explanation
Indices: 4038568--4038619 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
4038558 TCTTATAGTG
*
4038568 AGTTCATTAATTAAACC
1 AGTTCATTAATTAAACT
* * *
4038585 AGTTTATTCATCAAACT
1 AGTTCATTAATTAAACT
*
4038602 AGTTCATTTATTAAACT
1 AGTTCATTAATTAAACT
4038619 A
1 A
4038620 ACTCTTAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (17 bp):
AGTTCATTAATTAAACT
Found at i:4038829 original size:12 final size:12
Alignment explanation
Indices: 4038812--4038836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4038802 TTAGCTTTCC
4038812 AACACCTTTTGA
1 AACACCTTTTGA
4038824 AACACCTTTTGA
1 AACACCTTTTGA
4038836 A
1 A
4038837 TTATTGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AACACCTTTTGA
Found at i:4039336 original size:21 final size:22
Alignment explanation
Indices: 4039312--4039355 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4039302 ATAAGGCTAA
* *
4039312 ATTCAACCTC-AAATTATCTAG
1 ATTCAACCACAAAATAATCTAG
*
4039333 ATTCATCCACAAAATAATCTAG
1 ATTCAACCACAAAATAATCTAG
4039355 A
1 A
4039356 ATATTCATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (22 bp):
ATTCAACCACAAAATAATCTAG
Found at i:4041445 original size:90 final size:89
Alignment explanation
Indices: 4041331--4041505 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
4041321 TCCTGAATAT
* * * *
4041331 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAATCCCTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAAACCCTAATATGACTAG
4041396 GGCAACTTGGATATAAAAGGATTA
66 GGCAACTTGGATATAAAAGGATTA
*
4041420 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAAACCCTAATATGACTA
* *
4041485 GGGTAACTTGGCTATAAAAGG
65 GGGCAACTTGGATATAAAAGG
4041506 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAAACCCTAATATGACTAG
GGCAACTTGGATATAAAAGGATTA
Found at i:4048202 original size:90 final size:90
Alignment explanation
Indices: 4048073--4048239 Score: 280
Period size: 90 Copynumber: 1.9 Consensus size: 90
4048063 ATTTAATTTT
* * *
4048073 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
4048138 GGATATAAAAGGATTATTAAATTCC
66 GGATATAAAAGGATTATTAAATTCC
* *
4048163 AATTAATTAAATATATATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAATTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
*
4048228 GGCTATAAAAGG
66 GGATATAAAAGG
4048240 GTGTGTTAGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
GGATATAAAAGGATTATTAAATTCC
Found at i:4054520 original size:16 final size:17
Alignment explanation
Indices: 4054483--4054538 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 17
4054473 AAAAGTTGTT
*
4054483 ATATTCTTTTTATAAAT-
1 ATATTATTTTTA-AAATA
4054500 A-ATTA-TTTTAAAATA
1 ATATTATTTTTAAAATA
4054515 ATATTATATTTTTAAAATA
1 ATA-T-TATTTTTAAAATA
4054534 ATATT
1 ATATT
4054539 TATATAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 4 0.12
17 3 0.09
18 3 0.09
19 13 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTATTTTTAAAATA
Found at i:4054529 original size:19 final size:20
Alignment explanation
Indices: 4054505--4054543 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4054495 TAAATAATTA
4054505 TTTTAAAATAATA-TTATAT
1 TTTTAAAATAATATTTATAT
4054524 TTTTAAAATAATATTTATAT
1 TTTTAAAATAATATTTATAT
4054544 AATTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATAATATTTATAT
Found at i:4056403 original size:21 final size:21
Alignment explanation
Indices: 4056334--4056403 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
4056324 GCCACCACTA
* *
4056334 CAGGGTTACATTCTTAGCCCA
1 CAGGGTTACATTCCTAGCCCG
* * *
4056355 CATGGG-TACATACCCAGCTCG
1 CA-GGGTTACATTCCTAGCCCG
*
4056376 CAAGGTTACATTCCTAGCCCG
1 CAGGGTTACATTCCTAGCCCG
*
4056397 TAGGGTT
1 CAGGGTT
4056404 TTATGAACCC
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.86
22 3 0.08
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (21 bp):
CAGGGTTACATTCCTAGCCCG
Found at i:4058103 original size:17 final size:17
Alignment explanation
Indices: 4058081--4058133 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
4058071 AATTAAGAGA
4058081 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
4058098 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
4058115 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
4058132 TA
1 TA
4058134 ACATTCTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:4058760 original size:17 final size:18
Alignment explanation
Indices: 4058723--4058760 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4058713 GTAATTTTGT
* *
4058723 AATGTTTTTTAAATGTTA
1 AATGTTTTTAAAATGTCA
4058741 AATGTTTTTAAAAT-TCA
1 AATGTTTTTAAAATGTCA
4058758 AAT
1 AAT
4058761 TCAACTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (18 bp):
AATGTTTTTAAAATGTCA
Found at i:4059078 original size:21 final size:19
Alignment explanation
Indices: 4059048--4059090 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4059038 ATTTAAATAA
4059048 TAATTAATATATTCGAATGAC
1 TAATTAATAT-TT-GAATGAC
*
4059069 TAATTCATATTTGAATGAC
1 TAATTAATATTTGAATGAC
4059088 TAA
1 TAA
4059091 ATCGAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (19 bp):
TAATTAATATTTGAATGAC
Found at i:4059424 original size:137 final size:137
Alignment explanation
Indices: 4059177--4059549 Score: 444
Period size: 137 Copynumber: 2.7 Consensus size: 137
4059167 ATCTTCTAAT
* * * * ** * *
4059177 CCATCAAACATAATATGCGTTGACGTGAATTGTGCCCCGCAAGGGGACATCACACATAATAGGGA
1 CCATCAAACATAATAGGTGTTGACATGAATAGTGCCCCGCTGGGGGACATCACAAATAATAGGGC
* * * * * *
4059242 AATTATAACATATTCTTTGACAAAAAAGAAATGCACGTCCTACAAGAAATGCTTTCACCACATTG
66 AATTATAACCTATTCTCTGACAAAAAAGAAAAGCACGTCCCACAAGAAACGCTTTCACCACATCG
*
4059307 TTGTGTC
131 TGGTGTC
* *
4059314 CCATCAAACATAATAGGTGTAGACATGAATAGTGCCCCGCTGGGGGGCATCACAAATAATAGGGC
1 CCATCAAACATAATAGGTGTTGACATGAATAGTGCCCCGCTGGGGGACATCACAAATAATAGGGC
* * * * * *
4059379 AATTATAACCTATTCTCTGACAAAAAGGAAAAGCGCTTCCCACAAGTAGCGCTTTCACCATATCG
66 AATTATAACCTATTCTCTGACAAAAAAGAAAAGCACGTCCCACAAGAAACGCTTTCACCACATCG
4059444 TGGTGTC
131 TGGTGTC
* * *
4059451 CCATCAAACATAATAGGTGTTGACATGGATAGTGCCCCG-TCGGGGGACATCACATATATTAGGG
1 CCATCAAACATAATAGGTGTTGACATGAATAGTGCCCCGCT-GGGGGACATCACAAATAATAGGG
* * *
4059515 CAATTACAAACCTATTTTCTGA-AGAAAAAAAAAAG
65 CAATTA-TAACCTATTCTCTGACA-AAAAAGAAAAG
4059550 GAAAGGCACG
Statistics
Matches: 201, Mismatches: 32, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
136 1 0.00
137 178 0.89
138 22 0.11
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (137 bp):
CCATCAAACATAATAGGTGTTGACATGAATAGTGCCCCGCTGGGGGACATCACAAATAATAGGGC
AATTATAACCTATTCTCTGACAAAAAAGAAAAGCACGTCCCACAAGAAACGCTTTCACCACATCG
TGGTGTC
Found at i:4062813 original size:27 final size:26
Alignment explanation
Indices: 4062737--4062862 Score: 87
Period size: 26 Copynumber: 4.9 Consensus size: 26
4062727 ATCGAACCTT
*
4062737 ACCCTAAACCACTTTAACCT-ATAAA
1 ACCCTAAACCACTTTAACCTAAAAAA
** * *
4062762 A-CCTTGACCACTCTCACCATAAAAAA
1 ACCCTAAACCACTTTAACC-TAAAAAA
*
4062788 ACCCTAAACCACTTTAACCT-ACAAA
1 ACCCTAAACCACTTTAACCTAAAAAA
* ** * * *
4062813 ATCCTTCACCACTTTCACCTTAACAA
1 ACCCTAAACCACTTTAACCTAAAAAA
** *
4062839 ACCCTGTACCACTTTAATCTAAAA
1 ACCCTAAACCACTTTAACCTAAAA
4062863 TCACCCCAAC
Statistics
Matches: 74, Mismatches: 23, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
24 13 0.18
25 22 0.30
26 26 0.35
27 13 0.18
ACGTcount: A:0.40, C:0.34, G:0.02, T:0.25
Consensus pattern (26 bp):
ACCCTAAACCACTTTAACCTAAAAAA
Found at i:4062841 original size:51 final size:51
Alignment explanation
Indices: 4062737--4062855 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
4062727 ATCGAACCTT
* *
4062737 ACCCTAAACCACTTTAACCTATAAAACCTTGACCACTCTCACCATAAAAAA
1 ACCCTAAACCACTTTAACCTACAAAACCTTCACCACTCTCACCATAAAAAA
* * *
4062788 ACCCTAAACCACTTTAACCTACAAAATCCTTCACCACTTTCACC-TTAACAA
1 ACCCTAAACCACTTTAACCTACAAAA-CCTTCACCACTCTCACCATAAAAAA
**
4062839 ACCCTGTACCACTTTAA
1 ACCCTAAACCACTTTAA
4062856 TCTAAAATCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 45 0.75
52 15 0.25
ACGTcount: A:0.39, C:0.35, G:0.02, T:0.24
Consensus pattern (51 bp):
ACCCTAAACCACTTTAACCTACAAAACCTTCACCACTCTCACCATAAAAAA
Found at i:4064381 original size:60 final size:61
Alignment explanation
Indices: 4064278--4064430 Score: 161
Period size: 60 Copynumber: 2.6 Consensus size: 61
4064268 CTTGGATTAT
* * * *** **
4064278 TTTAGGGATGAGATTAAAAGA-TTCAAAAGTTTGGGGACCAATTTAGAATGAGGGTCATAG
1 TTTAGAGATGAAATTAAAATATTTCAAAAGTTTAAAGACCAATTTAGAATGAAAGTCATAG
* * *
4064338 TTT-GCAGATGAAATTCAAAT-TTTCAAAAGTTTAAAGACTAATTTAGAATGAAAGTCATAT
1 TTTAG-AGATGAAATTAAAATATTTCAAAAGTTTAAAGACCAATTTAGAATGAAAGTCATAG
*
4064398 TTTAGGGATGAAATTAAAATATTT-AAAAGTTTA
1 TTTAGAGATGAAATTAAAATATTTCAAAAGTTTA
4064431 TGGACAAACT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
59 1 0.01
60 71 0.93
61 4 0.05
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (61 bp):
TTTAGAGATGAAATTAAAATATTTCAAAAGTTTAAAGACCAATTTAGAATGAAAGTCATAG
Found at i:4064456 original size:60 final size:60
Alignment explanation
Indices: 4064275--4064456 Score: 147
Period size: 60 Copynumber: 3.0 Consensus size: 60
4064265 ATACTTGGAT
* ** *** * * **
4064275 TATTTTAGGGATGAGATTAAAAGATTCAAAAGTTTGGGGACCAATTTAGAATGAGGGTCA
1 TATTTTAGGGATGAAATTAAAATTTTCAAAAGTTTAAAGACAAATTCAGAATGAAAGTCA
* * * * *
4064335 TAGTTT-GCAGATGAAATTCAAATTTTCAAAAGTTTAAAGACTAATTTAGAATGAAAGTCA
1 TATTTTAG-GGATGAAATTAAAATTTTCAAAAGTTTAAAGACAAATTCAGAATGAAAGTCA
**
4064395 TATTTTAGGGATGAAATTAAAATATTT-AAAAGTTTATGGACAAACTTCA-AAT-AAAGATCA
1 TATTTTAGGGATGAAATTAAAAT-TTTCAAAAGTTTAAAGACAAA-TTCAGAATGAAAG-TCA
4064455 TA
1 TA
4064457 GCTTGATGAT
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
59 5 0.05
60 86 0.88
61 7 0.07
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.32
Consensus pattern (60 bp):
TATTTTAGGGATGAAATTAAAATTTTCAAAAGTTTAAAGACAAATTCAGAATGAAAGTCA
Found at i:4066330 original size:2 final size:2
Alignment explanation
Indices: 4066325--4066355 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4066315 ACACACACAT
4066325 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4066356 TATTGATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4069697 original size:22 final size:23
Alignment explanation
Indices: 4069651--4069705 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
4069641 GCAGCCTACC
*
4069651 TTTGAATTC--TAAGCAGCCCCG
1 TTTGAATTCAATAAGCAGCCCCA
*
4069672 TTTGAATTCAATAA-CATCCCCA
1 TTTGAATTCAATAAGCAGCCCCA
4069694 TTTGAATTCAAT
1 TTTGAATTCAAT
4069706 TTTAACAGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 9 0.30
22 18 0.60
23 3 0.10
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (23 bp):
TTTGAATTCAATAAGCAGCCCCA
Found at i:4075402 original size:3 final size:3
Alignment explanation
Indices: 4075394--4075419 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4075384 AAAAATGGAA
4075394 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4075420 CATAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4075493 original size:14 final size:15
Alignment explanation
Indices: 4075476--4075508 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4075466 TAAAAGGAGG
4075476 AAAAGAAAAT-AAAA
1 AAAAGAAAATGAAAA
*
4075490 AAAATAAAATGAAAA
1 AAAAGAAAATGAAAA
4075505 AAAA
1 AAAA
4075509 ATCAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAGAAAATGAAAA
Found at i:4075506 original size:15 final size:15
Alignment explanation
Indices: 4075476--4075544 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
4075466 TAAAAGGAGG
*
4075476 AAAAGAAAAT-AAAA
1 AAAATAAAATGAAAA
4075490 AAAATAAAATGAAAA
1 AAAATAAAATGAAAA
*
4075505 AAAA-ATCAATGAAATTA
1 AAAATA-AAATGAAA--A
* * *
4075522 ATATTAAAATGAAAC
1 AAAATAAAATGAAAA
4075537 AAAATAAA
1 AAAATAAA
4075545 CTATAAAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
14 10 0.24
15 21 0.50
17 10 0.24
18 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAATAAAATGAAAA
Found at i:4075662 original size:11 final size:10
Alignment explanation
Indices: 4075648--4075716 Score: 59
Period size: 11 Copynumber: 6.4 Consensus size: 10
4075638 GGTTAGCTAG
4075648 AAATAAAAAA
1 AAATAAAAAA
4075658 GAAATAAAAATA
1 -AAATAAAAA-A
*
4075670 AAATAAAATA
1 AAATAAAAAA
4075680 AAATAAAAATTA
1 AAATAAAAA--A
4075692 AAA-AGAAGAAA
1 AAATA-AA-AAA
*
4075703 AAATAAATAA
1 AAATAAAAAA
4075713 AAAT
1 AAAT
4075717 TAAATTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 15 0.31
11 24 0.49
12 8 0.16
13 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:4075695 original size:7 final size:6
Alignment explanation
Indices: 4075648--4075716 Score: 56
Period size: 5 Copynumber: 11.7 Consensus size: 6
4075638 GGTTAGCTAG
*
4075648 AAATAA AAA-AG AAATAA AAAT-A AAAT-A AAAT-A AAATAA AAATTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TAA
* *
4075693 AAAGAA GAAAAAA TAAATAA AAAT
1 AAATAA -AAATAA -AAATAA AAAT
4075717 TAAATTAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
5 19 0.36
6 18 0.34
7 16 0.30
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:4075714 original size:10 final size:10
Alignment explanation
Indices: 4075648--4075736 Score: 53
Period size: 10 Copynumber: 8.9 Consensus size: 10
4075638 GGTTAGCTAG
*
4075648 AAATAAAAAAG
1 AAAT-AAAAAT
4075659 AAATAAAAAT
1 AAATAAAAAT
4075669 AAA-ATAAAAT
1 AAATA-AAAAT
4075679 AAAATAAAAAT
1 -AAATAAAAAT
*
4075690 ---TAAAAAG
1 AAATAAAAAT
4075697 AAGA-AAAAAT
1 AA-ATAAAAAT
4075707 AAATAAAAATT
1 AAATAAAAA-T
* *
4075718 AAATTAAATT
1 AAATAAAAAT
*
4075728 AAATTAAAA
1 AAATAAAAA
4075737 CGTAAATTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
7 6 0.10
9 2 0.03
10 34 0.54
11 20 0.32
12 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:4075767 original size:5 final size:5
Alignment explanation
Indices: 4075713--4075751 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
4075703 AAATAAATAA
*
4075713 AAATT AAATT AAATT AAATT AAAACGT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT -AAA-TT AAATT AAATT AA
4075752 GAATGACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 23 0.77
6 6 0.20
7 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (5 bp):
AAATT
Found at i:4078720 original size:13 final size:14
Alignment explanation
Indices: 4078693--4078733 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
4078683 TTGAACCCAG
4078693 CTTATTTTC-TTTT
1 CTTATTTTCTTTTT
4078706 CTT-TTTTCTTTTT
1 CTTATTTTCTTTTT
*
4078719 CTTATTTTTTTTTT
1 CTTATTTTCTTTTT
4078733 C
1 C
4078734 AATTTAGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 5 0.20
13 10 0.40
14 10 0.40
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (14 bp):
CTTATTTTCTTTTT
Found at i:4088184 original size:22 final size:24
Alignment explanation
Indices: 4088133--4088184 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
4088123 TTTCTTTTCT
4088133 TTTCTTCTTTTTGAGTGCTTTCAA
1 TTTCTTCTTTTTGAGTGCTTTCAA
*
4088157 TTTCTTC-TTTTGAGTGC-TTCGA
1 TTTCTTCTTTTTGAGTGCTTTCAA
4088179 TTTCTT
1 TTTCTT
4088185 TGCTGGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.37
23 10 0.37
24 7 0.26
ACGTcount: A:0.10, C:0.17, G:0.13, T:0.60
Consensus pattern (24 bp):
TTTCTTCTTTTTGAGTGCTTTCAA
Found at i:4091005 original size:3 final size:3
Alignment explanation
Indices: 4090997--4091022 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4090987 AGAAAATGGA
4090997 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4091023 CATAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4091100 original size:16 final size:15
Alignment explanation
Indices: 4091075--4091118 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
4091065 TGAAAGAAGG
4091075 AAAA-GAAAATAACAA
1 AAAATGAAAATAA-AA
*
4091090 AATATGAAAATAAAA
1 AAAATGAAAATAAAA
4091105 AAAAT-AAAATAAAA
1 AAAATGAAAATAAAA
4091119 TCAACGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.35
15 9 0.35
16 8 0.31
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (15 bp):
AAAATGAAAATAAAA
Found at i:4091110 original size:17 final size:16
Alignment explanation
Indices: 4091079--4091118 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4091069 AGAAGGAAAA
*
4091079 GAAAATAACAAAATAT
1 GAAAATAAAAAAATAT
4091095 GAAAATAAAAAAA-AT
1 GAAAATAAAAAAATAT
4091110 -AAAATAAAA
1 GAAAATAAAA
4091119 TCAACGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 12 0.52
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (16 bp):
GAAAATAAAAAAATAT
Found at i:4091221 original size:19 final size:20
Alignment explanation
Indices: 4091189--4091226 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
4091179 AATGGGCTAA
* *
4091189 AAAAAGAAATAAATGAAATC
1 AAAAAGAAAGAAATCAAATC
4091209 AAAAA-AAAGAAATCAAAT
1 AAAAAGAAAGAAATCAAAT
4091227 AAGGTTAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAAGAAAGAAATCAAATC
Found at i:4091316 original size:17 final size:17
Alignment explanation
Indices: 4091296--4091337 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4091286 AAGAAAAAAA
4091296 TAAAAATTAAATTAAAT
1 TAAAAATTAAATTAAAT
**
4091313 TAAAACGTAAATTAAAT
1 TAAAAATTAAATTAAAT
4091330 TAAGAAAT
1 TAA-AAAT
4091338 GACTAAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (17 bp):
TAAAAATTAAATTAAAT
Found at i:4095286 original size:16 final size:18
Alignment explanation
Indices: 4095255--4095288 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
4095245 ACATGTGTCG
4095255 TATTTTAGTAATTTTAAA
1 TATTTTAGTAATTTTAAA
4095273 TATTTTA-T-ATTTTAAA
1 TATTTTAGTAATTTTAAA
4095289 AAAAACCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TATTTTAGTAATTTTAAA
Found at i:4095621 original size:79 final size:79
Alignment explanation
Indices: 4095478--4095625 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 79
4095468 TCAGATTTTG
* ** * ** *
4095478 AATACCCAAAAATTCTACGCACTATTTCGATGAATGCTCCATTGTTTTGCAGGGGGATAAGAATG
1 AATACCCAAAAATTCTACCCACTATTGAGATAAATGCTCCATTAATTTGCAGGGGGACAAGAATG
4095543 AAAAACATTTAACA
66 AAAAACATTTAACA
* * * **
4095557 AATACCTAGAAATTCTACCCACTGTTGAGATAAATGCTCCATTAATTTGCAGGGGGACGGGAATG
1 AATACCCAAAAATTCTACCCACTATTGAGATAAATGCTCCATTAATTTGCAGGGGGACAAGAATG
4095622 AAAA
66 AAAA
4095626 CAAGCATCAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 57 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (79 bp):
AATACCCAAAAATTCTACCCACTATTGAGATAAATGCTCCATTAATTTGCAGGGGGACAAGAATG
AAAAACATTTAACA
Found at i:4114792 original size:16 final size:17
Alignment explanation
Indices: 4114773--4114805 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4114763 CCATTAACCC
4114773 GTTGACC-GCGTTGACT
1 GTTGACCGGCGTTGACT
4114789 GTTGACCGGCGTTGACT
1 GTTGACCGGCGTTGACT
4114806 TCCGTTGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.30
Consensus pattern (17 bp):
GTTGACCGGCGTTGACT
Found at i:4122729 original size:20 final size:21
Alignment explanation
Indices: 4122704--4122763 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
4122694 TTTGGTGCAG
*
4122704 AGGGAATCGATTCCCCCTTT-
1 AGGGAACCGATTCCCCCTTTA
*
4122724 AGGGAACCAATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCTTT-A
4122746 AGGGGAACCGATTCCCCC
1 A-GGGAACCGATTCCCCC
4122764 CACAGGGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 15 0.44
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCTTTA
Found at i:4122772 original size:21 final size:21
Alignment explanation
Indices: 4122746--4122785 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4122736 CCCCCTTTGA
*
4122746 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
4122767 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
4122786 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:4124758 original size:17 final size:17
Alignment explanation
Indices: 4124723--4124766 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4124713 TTTTAACATT
*
4124723 TTGAATATTTTGGAATGA
1 TTGAAT-TTGTGGAATGA
*
4124741 TTGAATTTGTGGATTGA
1 TTGAATTTGTGGAATGA
*
4124758 TTGACTTTG
1 TTGAATTTG
4124767 AATTTGTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (17 bp):
TTGAATTTGTGGAATGA
Found at i:4126762 original size:24 final size:24
Alignment explanation
Indices: 4126730--4126812 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
4126720 AATTATGTTA
*
4126730 TGATACTTGACCTGGATTCTGATT
1 TGATACTTGACATGGATTCTGATT
* *
4126754 TGATACTTGACATGGATTTTGATA
1 TGATACTTGACATGGATTCTGATT
*
4126778 TGATATTTGACATGGATTCTGATT
1 TGATACTTGACATGGATTCTGATT
4126802 TGATACTTGAC
1 TGATACTTGAC
4126813 CTGAATTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (24 bp):
TGATACTTGACATGGATTCTGATT
Found at i:4126835 original size:24 final size:24
Alignment explanation
Indices: 4126721--4126829 Score: 121
Period size: 24 Copynumber: 4.5 Consensus size: 24
4126711 TTCGATTTGA
*
4126721 ATTATG-TTATGATACTTGACCTGG
1 ATTATGATT-TGATACTTGACATGG
*
4126745 ATTCTGATTTGATACTTGACATGG
1 ATTATGATTTGATACTTGACATGG
* * *
4126769 ATTTTGATATGATATTTGACATGG
1 ATTATGATTTGATACTTGACATGG
* * *
4126793 ATTCTGATTTGATACTTGACCTGA
1 ATTATGATTTGATACTTGACATGG
*
4126817 ATTATGTTTTGAT
1 ATTATGATTTGAT
4126830 TTTTGATATA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
24 70 0.97
25 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (24 bp):
ATTATGATTTGATACTTGACATGG
Found at i:4126835 original size:48 final size:48
Alignment explanation
Indices: 4126718--4126835 Score: 164
Period size: 48 Copynumber: 2.5 Consensus size: 48
4126708 ATTTTCGATT
* *
4126718 TGAATTATGTTATGATACTTGACCTGGATTCTGATTTGATACTTGACA
1 TGAATTATGTTATGATATTTGACATGGATTCTGATTTGATACTTGACA
* * * *
4126766 TGGATTTTGATATGATATTTGACATGGATTCTGATTTGATACTTGACC
1 TGAATTATGTTATGATATTTGACATGGATTCTGATTTGATACTTGACA
* *
4126814 TGAATTATGTTTTGATTTTTGA
1 TGAATTATGTTATGATATTTGA
4126836 TATATTCATT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.46
Consensus pattern (48 bp):
TGAATTATGTTATGATATTTGACATGGATTCTGATTTGATACTTGACA
Found at i:4127003 original size:2 final size:2
Alignment explanation
Indices: 4126996--4127025 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4126986 GGTAGTGTTC
4126996 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
4127026 CTTTTAAAAG
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:4128956 original size:20 final size:20
Alignment explanation
Indices: 4128920--4128958 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4128910 ACCGACCCAA
*
4128920 TCCGTTGACCGGCGTTGACT
1 TCCGTTGACCGACGTTGACT
4128940 TCCGTTGACC-ACAGTTGAC
1 TCCGTTGACCGAC-GTTGAC
4128959 CAGAACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.15, C:0.31, G:0.26, T:0.28
Consensus pattern (20 bp):
TCCGTTGACCGACGTTGACT
Found at i:4131266 original size:24 final size:24
Alignment explanation
Indices: 4131232--4131314 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
4131222 TGAATTTTGT
* *
4131232 TATGATACTTGACGTGGATTCTAA
1 TATGATACTTGACATGGATTCTGA
* *
4131256 TTTGATACTTGACTTGGATTCTGA
1 TATGATACTTGACATGGATTCTGA
*
4131280 TATGATATTTGACATGGATTCTGA
1 TATGATACTTGACATGGATTCTGA
4131304 TATGATACTTG
1 TATGATACTTG
4131315 GCCTGAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATACTTGACATGGATTCTGA
Found at i:4131339 original size:48 final size:48
Alignment explanation
Indices: 4131222--4131339 Score: 128
Period size: 48 Copynumber: 2.5 Consensus size: 48
4131212 ATTTTTTATT
* * * * *
4131222 TGAATTTTGTTATGATACTTGACGTGGATTCTAATTTGATACTTGACT
1 TGAATTATGTTATGATATTTGACATGGATTCTAATATGATACTTGACC
* * * * *
4131270 TGGATTCTGATATGATATTTGACATGGATTCTGATATGATACTTGGCC
1 TGAATTATGTTATGATATTTGACATGGATTCTAATATGATACTTGACC
* *
4131318 TGAATTATGTTTTGATTTTTGA
1 TGAATTATGTTATGATATTTGA
4131340 TATATCCTTT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (48 bp):
TGAATTATGTTATGATATTTGACATGGATTCTAATATGATACTTGACC
Found at i:4133204 original size:21 final size:21
Alignment explanation
Indices: 4133155--4133197 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4133145 TACAAGTAAA
4133155 GGGAGTTCGAATATATATTGG
1 GGGAGTTCGAATATATATTGG
4133176 GGGAGTTCGAATATATATTGG
1 GGGAGTTCGAATATATATTGG
4133197 G
1 G
4133198 TGTGTTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.33
Consensus pattern (21 bp):
GGGAGTTCGAATATATATTGG
Found at i:4135873 original size:7 final size:7
Alignment explanation
Indices: 4135863--4135893 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4135853 TAAACTCACT
4135863 AATAAGA
1 AATAAGA
4135870 AATAAGA
1 AATAAGA
4135877 AATAAGA
1 AATAAGA
4135884 AATAAGA
1 AATAAGA
4135891 AAT
1 AAT
4135894 TCACCCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (7 bp):
AATAAGA
Found at i:4139933 original size:12 final size:12
Alignment explanation
Indices: 4139916--4139940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4139906 TATGGTTAGG
4139916 GGAGAAGGACGA
1 GGAGAAGGACGA
4139928 GGAGAAGGACGA
1 GGAGAAGGACGA
4139940 G
1 G
4139941 AGGACGATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.52, T:0.00
Consensus pattern (12 bp):
GGAGAAGGACGA
Found at i:4146092 original size:21 final size:21
Alignment explanation
Indices: 4146066--4146105 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4146056 AATCTCAAAT
4146066 CTTAAACCCTACACCATAAAC
1 CTTAAACCCTACACCATAAAC
4146087 CTTAAACCCTACACCATAA
1 CTTAAACCCTACACCATAA
4146106 CCCTAAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (21 bp):
CTTAAACCCTACACCATAAAC
Found at i:4146119 original size:7 final size:7
Alignment explanation
Indices: 4146068--4146125 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
4146058 TCTCAAATCT
4146068 TAAACCC
1 TAAACCC
* *
4146075 TACACCA
1 TAAACCC
*
4146082 TAAACCT
1 TAAACCC
4146089 TAAACCC
1 TAAACCC
* *
4146096 TACACCA
1 TAAACCC
4146103 T-AACCC
1 TAAACCC
*
4146109 TAAATCC
1 TAAACCC
4146116 TAAACCC
1 TAAACCC
4146123 TAA
1 TAA
4146126 CTCTAAAAAG
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
6 4 0.10
7 35 0.90
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Done.