Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 41 of 373
Found at i:11773000 original size:82 final size:82
Alignment explanation
Indices: 11772863--11773124 Score: 366
Period size: 82 Copynumber: 3.2 Consensus size: 82
11772853 GAGTAATATG
**
11772863 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAATTTTTAGCGGCGTTTTACCGAAA
1 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTACCGAAA
11772928 ACGCCGCTAATGCTCCT
66 ACGCCGCTAATGCTCCT
*
11772945 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGACTTTTAGCGGCGTTTTACCGAAA
1 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTACCGAAA
* * *
11773010 GCGCCACTAATGCTCCG
66 ACGCCGCTAATGCTCCT
* * * * **
11773027 ACTTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCTCTG-TTTTTAGCAGCGTTTTAACAAAA
1 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTT-ACCGAA
*
11773091 AACGCCGCTATTGCT-CT
65 AACGCCGCTAATGCTCCT
**
11773108 GTTTTTAGCGGCGTTTT
1 ACTTTTAGCGGCGTTTT
11773125 TGGTAAAACG
Statistics
Matches: 159, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
81 29 0.18
82 130 0.82
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (82 bp):
ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTACCGAAA
ACGCCGCTAATGCTCCT
Found at i:11773097 original size:123 final size:123
Alignment explanation
Indices: 11772861--11773124 Score: 372
Period size: 123 Copynumber: 2.2 Consensus size: 123
11772851 AAGAGTAATA
* * *
11772861 TGACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAATTTTTAGCGGCGTTTTACCGA
1 TGACTTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCCAACTTTTAGCGGCATTTTACCGA
* ** *
11772926 AAACGCCGCTAATGCTCCTACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTC
66 AAACGCCGCTAATGCTCCTACTTTTAGCAGCGTTTTACAAAAAACGCCGCTAATGCTC
*
11772984 TGACTTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCCGACTTTTAGCGGCATTTTACC-A
1 TGACTTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCCAACTTTTAGCGGCATTTTACCGA
* ** *
11773048 AAAGCGCCGCTATTGCT-CTGTTTTTAGCAGCGTTTTAACAAAAAACGCCGCTATTGCTC
66 AAA-CGCCGCTAATGCTCCTACTTTTAGCAGCGTTTT-ACAAAAAACGCCGCTAATGCTC
*
11773107 TG-TTTTTAGCGGCGTTTT
1 TGACTTTTAGCGGCGTTTT
11773125 TGGTAAAACG
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
122 35 0.28
123 91 0.72
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (123 bp):
TGACTTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCCAACTTTTAGCGGCATTTTACCGA
AAACGCCGCTAATGCTCCTACTTTTAGCAGCGTTTTACAAAAAACGCCGCTAATGCTC
Found at i:11773155 original size:41 final size:40
Alignment explanation
Indices: 11772865--11773155 Score: 316
Period size: 41 Copynumber: 7.1 Consensus size: 40
11772855 GTAATATGAC
* *
11772865 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAAT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCT-CTAT
*
11772906 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCCTAC
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCT-CTAT
* *
11772947 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGAC
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCT-AT
* * * *
11772988 TTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCCGAC
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCT-CTAT
* * *
11773029 TTTTAGCGGCATTTTACC-AAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCGAAAA-CGCCGCTAATGCTCTAT
* ** * *
11773069 TTTTAGCAGCGTTTTAACAAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTT-ACCGAAAACGCCGCTAATGCTCTAT
** *
11773110 TTTTAGCGGCGTTTT-TGGTAAAACGCCGCTATTGCTCTAT
1 TTTTAGCGGCGTTTTACCG-AAAACGCCGCTAATGCTCTAT
11773150 GTTTTA
1 -TTTTA
11773156 CAATTTTTGC
Statistics
Matches: 222, Mismatches: 21, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
40 39 0.18
41 178 0.80
42 5 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTAT
Found at i:11779525 original size:11 final size:10
Alignment explanation
Indices: 11779509--11779556 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
11779499 ATGATAATAA
11779509 ATAATTTAAT
1 ATAATTTAAT
11779519 CATAATTTAAT
1 -ATAATTTAAT
11779530 ATAA--TAAT
1 ATAATTTAAT
*
11779538 -T-ATTAAAT
1 ATAATTTAAT
11779546 ATAATTTAAT
1 ATAATTTAAT
11779556 A
1 A
11779557 ACATTAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.03
7 1 0.03
8 7 0.23
9 1 0.03
10 11 0.35
11 10 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:11779535 original size:24 final size:22
Alignment explanation
Indices: 11779485--11779557 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 22
11779475 ACTATTAAAT
* *
11779485 ATAATTTAATAAAAATGATAATAA
1 ATAATTTAAT-ATAAT-TTAATAA
11779509 ATAATTTAATCATAATTTAATATA
1 ATAATTTAAT-ATAATTTAATA-A
11779533 ATAATTATTAAATATAATTTAATAA
1 ATAA-T-TT-AATATAATTTAATAA
11779558 CATTAGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 5 0.12
24 19 0.45
25 2 0.05
26 13 0.31
27 3 0.07
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (22 bp):
ATAATTTAATATAATTTAATAA
Found at i:11779545 original size:35 final size:36
Alignment explanation
Indices: 11779485--11779555 Score: 85
Period size: 35 Copynumber: 2.0 Consensus size: 36
11779475 ACTATTAAAT
11779485 ATAATTTAATAAAAATGATAAT-AA-ATAATTTAATC
1 ATAATTTAATAAAAAT-ATAATAAATATAATTTAATC
*
11779520 ATAATTTAATATAATAAT-TATTAAATATAATTTAAT
1 ATAATTTAATA-AA-AATATAATAAATATAATTTAAT
11779556 AACATTAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
35 14 0.45
36 4 0.13
37 13 0.42
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (36 bp):
ATAATTTAATAAAAATATAATAAATATAATTTAATC
Found at i:11779549 original size:26 final size:28
Alignment explanation
Indices: 11779502--11779556 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
11779492 AATAAAAATG
*
11779502 ATAATAAATAATTTAATCATAATTTAAT
1 ATAATAAATAATTAAATCATAATTTAAT
*
11779530 ATAAT-AATTATTAAAT-ATAATTTAAT
1 ATAATAAATAATTAAATCATAATTTAAT
11779556 A
1 A
11779557 ACATTAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 9 0.36
28 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAATAAATAATTAAATCATAATTTAAT
Found at i:11779611 original size:15 final size:15
Alignment explanation
Indices: 11779588--11779650 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
11779578 TTATATTAAA
11779588 TTATATTAAAATATT
1 TTATATTAAAATATT
*
11779603 TTATTTTAAATTATATT
1 TTATATTAAA--ATATT
*
11779620 TTGA-AATAAAATATT
1 TT-ATATTAAAATATT
11779635 TTATATTAAAATATT
1 TTATATTAAAATATT
11779650 T
1 T
11779651 CAAATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 27 0.68
17 11 0.28
18 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTATATTAAAATATT
Found at i:11786015 original size:14 final size:15
Alignment explanation
Indices: 11785996--11786025 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11785986 TAAAAACCTT
11785996 AATCCTAA-TAATAA
1 AATCCTAATTAATAA
11786010 AATCCTAATTAATAA
1 AATCCTAATTAATAA
11786025 A
1 A
11786026 CCCTAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCTAATTAATAA
Found at i:11787000 original size:21 final size:22
Alignment explanation
Indices: 11786976--11787016 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
11786966 TTATTATTTT
11786976 TTTAAATATTT-AT-ATTTTTAA
1 TTTAAA-ATTTAATAATTTTTAA
11786997 TTTAAAATTTAATAATTTTT
1 TTTAAAATTTAATAATTTTT
11787017 TTCATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAAAATTTAATAATTTTTAA
Found at i:11789165 original size:23 final size:23
Alignment explanation
Indices: 11789119--11789165 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11789109 AATATCAAGA
*
11789119 TGAGTACAAACCATTGCATGCAT
1 TGAGTACAAACCATTGCATACAT
*
11789142 TGAGTACAAACCATTGTATACAT
1 TGAGTACAAACCATTGCATACAT
11789165 T
1 T
11789166 TGGCTTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (23 bp):
TGAGTACAAACCATTGCATACAT
Found at i:11791639 original size:53 final size:53
Alignment explanation
Indices: 11791576--11791679 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
11791566 ATCAAACTTC
11791576 TCGATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTGGA
1 TCGATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTGGA
*
11791629 TCGATGTTATACCTCATTACCAACTCTGAATGGGTTGAATGCAAAAAATTG
1 TCGATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTG
11791680 AATCAAATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (53 bp):
TCGATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTGGA
Found at i:11791901 original size:10 final size:10
Alignment explanation
Indices: 11791886--11791911 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11791876 CAAAATACAA
11791886 AAATTCCCAC
1 AAATTCCCAC
11791896 AAATTCCCAC
1 AAATTCCCAC
11791906 AAATTC
1 AAATTC
11791912 TCTCTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (10 bp):
AAATTCCCAC
Found at i:11799972 original size:17 final size:17
Alignment explanation
Indices: 11799916--11799975 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
11799906 TCTTATTTAT
11799916 ATATTTAATATTTCACAATA
1 ATATTTAA-A-TT-ACAATA
* * *
11799936 AAATTTATTATTA-AAAA
1 ATATTTA-AATTACAATA
11799953 ATATTTAAATTACAATA
1 ATATTTAAATTACAATA
11799970 ATATTT
1 ATATTT
11799976 CACAATACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.12
17 18 0.56
18 1 0.03
19 2 0.06
20 7 0.22
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTTAAATTACAATA
Found at i:11800585 original size:9 final size:9
Alignment explanation
Indices: 11800555--11800603 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
11800545 TTGGTTATAC
11800555 TTTAACATTT
1 TTTAA-ATTT
*
11800565 TTTAAAATT
1 TTTAAATTT
11800574 TTTAAATTTT
1 TTTAAA-TTT
*
11800584 TTTAAGTTT
1 TTTAAATTT
11800593 TTTGAAATTT
1 TTT-AAATTT
11800603 T
1 T
11800604 AAATATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 15 0.45
10 18 0.55
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTAAATTT
Found at i:11800964 original size:21 final size:21
Alignment explanation
Indices: 11800940--11800984 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11800930 ATTAGAATGT
11800940 AATACAGTTTAT-AATAATTAA
1 AATA-AGTTTATAAATAATTAA
**
11800961 AATATTTTTATAAATAATTAA
1 AATAAGTTTATAAATAATTAA
11800982 AAT
1 AAT
11800985 TTTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AATAAGTTTATAAATAATTAA
Found at i:11800992 original size:21 final size:20
Alignment explanation
Indices: 11800947--11801007 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
11800937 TGTAATACAG
11800947 TTTATAATAATTAAAATATT
1 TTTATAATAATTAAAATATT
11800967 TTTATAAATAATTAAAAT-TT
1 TTTAT-AATAATTAAAATATT
* *
11800987 TATTATTTATAATTGAAATAT
1 T-TTA-TAATAATTAAAATAT
11801008 ATTAAGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.23
21 25 0.71
22 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATAATAATTAAAATATT
Found at i:11802313 original size:4 final size:4
Alignment explanation
Indices: 11802304--11802328 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11802294 GGGTTTTGTT
11802304 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
11802329 CGAGAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:11811437 original size:3 final size:3
Alignment explanation
Indices: 11811400--11811474 Score: 78
Period size: 3 Copynumber: 24.3 Consensus size: 3
11811390 TCCTATTAAA
* * * * **
11811400 TAT TCT TAT TATT TAT ATAA TAT TAG TAC TAT TAT TAT TAT TGC TAT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11811447 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11811475 GTGTATTAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
3 54 0.92
4 5 0.08
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:11813243 original size:30 final size:30
Alignment explanation
Indices: 11813186--11813243 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11813176 ATTTTTTTTG
*
11813186 TTTTCTTCTTTTACCAATTTTCTTACTTAA
1 TTTTCTTCTTCTACCAATTTTCTTACTTAA
* *
11813216 TTTTGTTCTTCTACCGATGTTTC-TACTT
1 TTTTCTTCTTCTACCAAT-TTTCTTACTT
11813244 TAGTTTGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTTCTTCTTCTACCAATTTTCTTACTTAA
Found at i:11813914 original size:22 final size:22
Alignment explanation
Indices: 11813886--11813927 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11813876 TTCGATTAAC
11813886 TAAAGATTTATTAACCACTAAT
1 TAAAGATTTATTAACCACTAAT
*
11813908 TAAAGATTTGTTAACCACTA
1 TAAAGATTTATTAACCACTA
11813928 CACCACTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAAGATTTATTAACCACTAAT
Found at i:11816471 original size:5 final size:5
Alignment explanation
Indices: 11816461--11816486 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11816451 ACTAATAATA
11816461 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
11816487 TAAAATAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:11820058 original size:24 final size:24
Alignment explanation
Indices: 11820010--11820063 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
11820000 GATTGGGGAG
* **
11820010 ATAATTTATCTTGATTATCTGAGC
1 ATAATTTATCTTGACTATCAAAGC
*
11820034 ATAATTTATCTTGGCTATCAAAGC
1 ATAATTTATCTTGACTATCAAAGC
*
11820058 AGAATT
1 ATAATT
11820064 GGCTTCTAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (24 bp):
ATAATTTATCTTGACTATCAAAGC
Found at i:11825697 original size:15 final size:15
Alignment explanation
Indices: 11825677--11825706 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11825667 AAATGTCATG
11825677 TTAATTTTAATTAAT
1 TTAATTTTAATTAAT
*
11825692 TTAATTTTACTTAAT
1 TTAATTTTAATTAAT
11825707 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTAAT
Found at i:11826881 original size:16 final size:16
Alignment explanation
Indices: 11826860--11826890 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11826850 CTATGCATGC
*
11826860 AAAATATAAAAGACAG
1 AAAATAAAAAAGACAG
11826876 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
11826891 TAATAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAG
Found at i:11830926 original size:11 final size:11
Alignment explanation
Indices: 11830910--11830934 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11830900 CTAAACCACC
11830910 AAATTGTGATA
1 AAATTGTGATA
11830921 AAATTGTGATA
1 AAATTGTGATA
11830932 AAA
1 AAA
11830935 GATAAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
AAATTGTGATA
Found at i:11832185 original size:37 final size:36
Alignment explanation
Indices: 11832139--11832219 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
11832129 AAATTATTAA
11832139 ATTAAATTAAAATTTATC-TATATCTACTATTTATATT
1 ATTAAATTAAAATTTA-CAT-TATCTACTATTTATATT
* * *
11832176 ATTAAATTAAATTTTACATTTTGTACTATTTATATT
1 ATTAAATTAAAATTTACATTATCTACTATTTATATT
*
11832212 ATTGAATT
1 ATTAAATT
11832220 GTTTAATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 23 0.59
37 16 0.41
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (36 bp):
ATTAAATTAAAATTTACATTATCTACTATTTATATT
Found at i:11832875 original size:72 final size:71
Alignment explanation
Indices: 11832773--11832911 Score: 206
Period size: 72 Copynumber: 1.9 Consensus size: 71
11832763 TGGCCGAATG
* *
11832773 TGCCAATAGCATGTTTTGATATGTTAAACTATAAGTGCAATTAGTATGTTCTGATAAGTTTTATT
1 TGCCAATAGCATGTTTTGATATGTTAAACTATAAGTGCAACTAGTACGTTCTGATAAGTTTTATT
11832838 TGACTA
66 TGACTA
* * * **
11832844 TGCCAATAGCATGTTTTTGATCTGTTAAACTATATGTGCAACTAGTACGTTTTGATCTGTTTTAT
1 TGCCAATAGCATG-TTTTGATATGTTAAACTATAAGTGCAACTAGTACGTTCTGATAAGTTTTAT
11832909 TTG
65 TTG
11832912 CATATGGGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
71 13 0.22
72 47 0.78
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (71 bp):
TGCCAATAGCATGTTTTGATATGTTAAACTATAAGTGCAACTAGTACGTTCTGATAAGTTTTATT
TGACTA
Found at i:11836933 original size:23 final size:23
Alignment explanation
Indices: 11836903--11837001 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
11836893 CTGATGAACA
* *
11836903 GTAAGCTCTATTGATCTTAAACG
1 GTAAGCTCTATTGAGCTAAAACG
*
11836926 GTAAGCTCTATTGAGCTAAAACT
1 GTAAGCTCTATTGAGCTAAAACG
* * *
11836949 GTAAGCTCTATCGAGCT-GAACA
1 GTAAGCTCTATTGAGCTAAAACG
* *
11836971 GTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-TGAGCTAAAACG
11836994 GTAAGCTC
1 GTAAGCTC
11837002 CAATGAGTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 47 0.71
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTAAAACG
Found at i:11836972 original size:68 final size:69
Alignment explanation
Indices: 11836897--11837061 Score: 183
Period size: 68 Copynumber: 2.3 Consensus size: 69
11836887 CCTGAGCTGA
* * * * *
11836897 TGAACAGTAAGCTC-TATTGATCTTAAACGGTAAGCTCTATTGAGCT-AAAACT-GTAAGCTCTA
1 TGAACAGTAAGCTCATA-CGAGCTGAAACGGTAAGCTCCAATGAGCTGAAAA-TAGTAAGCTCTA
11836959 TCGAGC
64 TCGAGC
* *
11836965 TGAACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGTTGAAAATAGTAAGCTCTTTC
1 TGAACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGCTGAAAATAGTAAGCTCTATC
*
11837030 GAGT
66 GAGC
11837034 TGATACATCGGTAAGCTCATACGAGCTG
1 TGA-ACA---GTAAGCTCATACGAGCTG
11837062 TGGTGAGTCG
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
68 38 0.46
69 23 0.28
70 3 0.04
73 18 0.22
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (69 bp):
TGAACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGCTGAAAATAGTAAGCTCTATC
GAGC
Found at i:11836987 original size:45 final size:46
Alignment explanation
Indices: 11836903--11837001 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 46
11836893 CTGATGAACA
* * * * *
11836903 GTAAGCTCTATTGATCTTAAACGGTAAGCTCTATTGAGCTAAAACT
1 GTAAGCTCTATCGAGCTTAAACAGTAAGCTCTATCGAGCTAAAACG
* *
11836949 GTAAGCTCTATCGAGC-TGAACAGTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTATCGAGCTTAAACAGTAAGCTCTAT-CGAGCTAAAACG
11836994 GTAAGCTC
1 GTAAGCTC
11837002 CAATGAGTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 2 0.04
45 29 0.64
46 14 0.31
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (46 bp):
GTAAGCTCTATCGAGCTTAAACAGTAAGCTCTATCGAGCTAAAACG
Found at i:11837013 original size:23 final size:22
Alignment explanation
Indices: 11836889--11837014 Score: 83
Period size: 23 Copynumber: 5.5 Consensus size: 22
11836879 AAGCTCCTCC
* *
11836889 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACGGTAAGCTC-AA
* * *
11836914 TGATCTTAAACGGTAAGCTCTAT
1 TGAGCTGAAACGGTAAGCTC-AA
* * *
11836937 TGAGCTAAAACTGTAAGCTCTA
1 TGAGCTGAAACGGTAAGCTCAA
*
11836959 TCGAGCTG-AACAGTAAGCTCATA
1 T-GAGCTGAAACGGTAAGCTCA-A
*
11836982 CGAGCTGAAACGGTAAGCTCCAA
1 TGAGCTGAAACGGTAAGCT-CAA
*
11837005 TGAGTTGAAA
1 TGAGCTGAAA
11837015 ATAGTAAGCT
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
22 18 0.22
23 56 0.68
24 2 0.02
25 6 0.07
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (22 bp):
TGAGCTGAAACGGTAAGCTCAA
Found at i:11838291 original size:138 final size:139
Alignment explanation
Indices: 11838042--11838330 Score: 501
Period size: 138 Copynumber: 2.1 Consensus size: 139
11838032 AATCATGGTC
*
11838042 AAATTTCAGTATAAGGACTTTTACTTTAATAATTCATAGCTATTTAATACATTTAAACAATAGAA
1 AAATTTCAGTATAAGGACTTTTACTTTAATAATCCATAGCTATTTAATACATTTAAACAATAGAA
* *
11838107 CTCAACTTTTACGCGTTATGCGATTTAGTTCTTTTTACTGAATTAAGCATTTAAACGGTAAAATT
66 CTCAACTTATACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
**
11838172 TCTTAATGA
131 TCTTAACAA
* *
11838181 AAATTTTAGTATAAGGAC-TTTACTTTAATGATCCATAGCTATTTAATACATTTAAACAATAGAA
1 AAATTTCAGTATAAGGACTTTTACTTTAATAATCCATAGCTATTTAATACATTTAAACAATAGAA
11838245 CTCAACTTATACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
66 CTCAACTTATACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
11838310 TCTTAACAA
131 TCTTAACAA
11838319 AAATTTCA-TATA
1 AAATTTCAGTATA
11838331 GTTAATCTAT
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
137 4 0.03
138 121 0.85
139 17 0.12
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (139 bp):
AAATTTCAGTATAAGGACTTTTACTTTAATAATCCATAGCTATTTAATACATTTAAACAATAGAA
CTCAACTTATACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
TCTTAACAA
Found at i:11839598 original size:22 final size:21
Alignment explanation
Indices: 11839556--11839599 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
11839546 TAAAAAATGT
* *
11839556 ATAAAATTATTAAATATTAAA
1 ATAAAATTATTAAAAAATAAA
*
11839577 ATAAATATTTTTAAAAAATAAA
1 ATAAA-ATTATTAAAAAATAAA
11839599 A
1 A
11839600 ATAATTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAATTATTAAAAAATAAA
Found at i:11846104 original size:42 final size:42
Alignment explanation
Indices: 11846054--11846168 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
11846044 CTTCATTTTC
** * *
11846054 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
11846097 T-GATGCCATAGCCCAACTATGGTGTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
11846138 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
11846169 GAATCACATA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:11846200 original size:46 final size:47
Alignment explanation
Indices: 11846139--11846258 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 47
11846129 ATTCATATAT
* * * *
11846139 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATAACTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAACACAC
* * * * * *
11846185 TGATGCCATATCCCAGAAATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAACACAC
11846232 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
11846259 TACGGAAATC
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
46 25 0.41
47 36 0.59
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAACACAC
Found at i:11846315 original size:31 final size:31
Alignment explanation
Indices: 11846280--11846459 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
11846270 CTTGTCACTT
* *
11846280 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
11846311 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
11846342 GTAGCCGGAGCTAGCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
11846373 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
11846404 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
11846435 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
11846460 TGTCATTTGT
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 3 0.02
31 132 0.96
32 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:11846541 original size:50 final size:51
Alignment explanation
Indices: 11846435--11846563 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
11846425 CACTGATCAG
* * *
11846435 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
11846486 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
11846536 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
11846564 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:11855150 original size:34 final size:34
Alignment explanation
Indices: 11855111--11855180 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
11855101 TCTTACATAC
11855111 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
1 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
11855145 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
1 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
11855179 TG
1 TG
11855181 GTATTGCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.56
Consensus pattern (34 bp):
TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
Found at i:11863485 original size:50 final size:50
Alignment explanation
Indices: 11863428--11863531 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
11863418 TAACCACAAA
11863428 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
1 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
11863478 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
1 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
11863528 TTTT
1 TTTT
11863532 CACTTCTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (50 bp):
TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
Found at i:11864534 original size:11 final size:11
Alignment explanation
Indices: 11864505--11864548 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
11864495 ACTTAATCAT
11864505 TAATAAATATAA
1 TAATAAA-ATAA
*
11864517 AAATAAAATAA
1 TAATAAAATAA
*
11864528 TAGTAAAATAA
1 TAATAAAATAA
11864539 TAATAAAATA
1 TAATAAAATA
11864549 TTTTAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 22 0.79
12 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:11882307 original size:16 final size:16
Alignment explanation
Indices: 11882286--11882317 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11882276 ACTTGGTTTG
*
11882286 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
11882302 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
11882318 TAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:11901638 original size:18 final size:19
Alignment explanation
Indices: 11901591--11901640 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
11901581 CGATCAAATG
*
11901591 TTCAGTAACAATT-AGTTA
1 TTCAGTAACAGTTGAGTTA
*
11901609 TTCAGTATCAGTTGA-TTA
1 TTCAGTAACAGTTGAGTTA
11901627 TTCAGTAACAGTTG
1 TTCAGTAACAGTTG
11901641 GTATCATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (19 bp):
TTCAGTAACAGTTGAGTTA
Found at i:11901775 original size:6 final size:6
Alignment explanation
Indices: 11901764--11901795 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11901754 AGTCAAAAAA
*
11901764 TAACAG TAACAG TGACAG TAACAG TAACAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
11901796 CGGTACAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
TAACAG
Found at i:11903012 original size:16 final size:17
Alignment explanation
Indices: 11902974--11903066 Score: 63
Period size: 16 Copynumber: 5.7 Consensus size: 17
11902964 TACACTTGTC
*
11902974 ATAAT-TAAATTTATTT
1 ATAATATAAATATATTT
*
11902990 ATTATATAAATAT-TTT
1 ATAATATAAATATATTT
*
11903006 ATAATAT-AAT-TACTT
1 ATAATATAAATATATTT
* *
11903021 A-ATTAATAAATATCTTT
1 ATAAT-ATAAATATATTT
* *
11903038 AATAATAAAAATATATTA
1 -ATAATATAAATATATTT
11903056 ATAAT-TAAATA
1 ATAATATAAATA
11903067 CATGTATTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
14 3 0.05
15 8 0.14
16 21 0.36
17 14 0.24
18 10 0.17
19 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATAAATATATTT
Found at i:11903043 original size:20 final size:18
Alignment explanation
Indices: 11903020--11903064 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
11903010 TATAATTACT
*
11903020 TAATTAATAAATATCTTTAA
1 TAATTAA-AAATAT-ATTAA
11903040 TAA-TAAAAATATATTAA
1 TAATTAAAAATATATTAA
11903057 TAATTAAA
1 TAATTAAA
11903065 TACATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 3 0.13
20 3 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAAAATATATTAA
Found at i:11905227 original size:18 final size:20
Alignment explanation
Indices: 11905185--11905221 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11905175 ATATTTTATG
*
11905185 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
11905204 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
11905222 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:11907435 original size:46 final size:46
Alignment explanation
Indices: 11907383--11907506 Score: 212
Period size: 46 Copynumber: 2.7 Consensus size: 46
11907373 GTGTGCTCTT
11907383 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
* *
11907429 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
*
11907475 TGATATGAAACGTGTAAGACCATGGTATGAAA
1 TGATATGAAATGTGTAAGACCATGGT-TGAAA
11907507 CGTGTAAGAC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 69 0.93
47 5 0.07
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
Found at i:11907504 original size:22 final size:22
Alignment explanation
Indices: 11907478--11907527 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
11907468 GGCAGCCTGA
11907478 TATGAAACGTGTAAGACCATGG
1 TATGAAACGTGTAAGACCATGG
11907500 TATGAAACGTGTAAGACCATGG
1 TATGAAACGTGTAAGACCATGG
11907522 T-TGAAA
1 TATGAAA
11907528 GATACCATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (22 bp):
TATGAAACGTGTAAGACCATGG
Found at i:11907513 original size:68 final size:68
Alignment explanation
Indices: 11907432--11907573 Score: 268
Period size: 68 Copynumber: 2.1 Consensus size: 68
11907422 GACAACCTGA
*
11907432 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
11907497 TGG
66 TGG
11907500 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
11907565 TGG
66 TGG
11907568 T-TGAAA
1 TATGAAA
11907574 GATACCATGG
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 5 0.07
68 68 0.93
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (68 bp):
TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
TGG
Found at i:11907550 original size:46 final size:46
Alignment explanation
Indices: 11907501--11907728 Score: 269
Period size: 46 Copynumber: 5.0 Consensus size: 46
11907491 AGACCATGGT
* * * * *
11907501 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
11907547 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
11907593 GGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
11907639 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
11907685 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
11907729 TCAAAGATAA
Statistics
Matches: 158, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 1 0.01
46 157 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:11907607 original size:114 final size:114
Alignment explanation
Indices: 11907386--11907619 Score: 344
Period size: 114 Copynumber: 2.1 Consensus size: 114
11907376 TGCTCTTTGA
* *
11907386 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAACGTGTAAGACCA
* * * * ***
11907451 TGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGG
66 TGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGG
* *
11907500 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAACGTGTAAGACCA
* *
11907565 TGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGG
66 TGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGG
11907614 T-TGAAA
1 TATGAAA
11907620 GATACCATGG
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 5 0.05
114 102 0.95
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (114 bp):
TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAACGTGTAAGACCA
TGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGG
Found at i:11907668 original size:92 final size:92
Alignment explanation
Indices: 11907511--11907723 Score: 309
Period size: 92 Copynumber: 2.3 Consensus size: 92
11907501 ATGAAACGTG
* **
11907511 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* * *
11907576 TACCATGGCAACATGACGGGAAATAAA
66 TACCATGACAACATGACAGAAAATAAA
* *
11907603 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* *
11907668 TACCATGACAACATGACAGAAAATGAG
66 TACCATGACAACATGACAGAAAATAAA
* * *
11907695 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
11907724 TCATGTCAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 108 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
TACCATGACAACATGACAGAAAATAAA
Found at i:11909820 original size:30 final size:30
Alignment explanation
Indices: 11909762--11909820 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
11909752 ATTTTCGGGC
* * **
11909762 CTAGGGGTAAAATAGTTATTTTGTCAAAGT
1 CTAGGGGCAAAATAGTCATTTTACCAAAGT
*
11909792 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATAGTCATTTTACCAAAG
11909821 ATATAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATAGTCATTTTACCAAAGT
Found at i:11910274 original size:46 final size:43
Alignment explanation
Indices: 11910223--11910345 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 43
11910213 GACAAGTGTT
*
11910223 AGTGTAAGACATGTCTAGGACATGTATCGGCCT-CGAG-TCGTAAGCC
1 AGTGTAAGACATGTCT-GGACATGCATCGG-CTACGAGAT-GT--GCC
* *
11910269 AGTGTAAAACATGTCTGAGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTG-GACATGCATCGGCTACGAGATGTGCC
11910313 AGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCT-GGACAT-GCATCGGC
11910346 ACAGATATGC
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
44 10 0.15
45 15 0.22
46 41 0.61
47 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCTACGAGATGTGCC
Found at i:11911387 original size:28 final size:28
Alignment explanation
Indices: 11911355--11911421 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
11911345 TACAAGGGCT
11911355 AGGACACGGGCATGTCATGGCCGTGTGA
1 AGGACACGGGCATGTCATGGCCGTGTGA
11911383 AGGACACGGGCATGTCATGGCCGTGTGA
1 AGGACACGGGCATGTCATGGCCGTGTGA
11911411 AGGACACGGGC
1 AGGACACGGGC
11911422 CAAGAACACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.40, T:0.15
Consensus pattern (28 bp):
AGGACACGGGCATGTCATGGCCGTGTGA
Found at i:11921111 original size:20 final size:20
Alignment explanation
Indices: 11921075--11921114 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11921065 TTGAAATGCT
*
11921075 AATAGAGGCACCGAAGTGCA
1 AATAGAGGCACCAAAGTGCA
*
11921095 AATAGAGGCACTAAAGTGCA
1 AATAGAGGCACCAAAGTGCA
11921115 CTCCCATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.12
Consensus pattern (20 bp):
AATAGAGGCACCAAAGTGCA
Found at i:11937197 original size:11 final size:11
Alignment explanation
Indices: 11937181--11937220 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11937171 GTGGTGTTTG
*
11937181 GATATGAATTT
1 GATATGTATTT
11937192 GATATGTATTT
1 GATATGTATTT
*
11937203 GGTATGTATTT
1 GATATGTATTT
*
11937214 GGTATGT
1 GATATGT
11937221 TTGTAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (11 bp):
GATATGTATTT
Found at i:11937213 original size:22 final size:23
Alignment explanation
Indices: 11937177--11937220 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11937167 CTTGGTGGTG
11937177 TTTGGATATGAATTTGATATGTA
1 TTTGGATATGAATTTGATATGTA
* *
11937200 TTTGG-TATGTATTTGGTATGT
1 TTTGGATATGAATTTGATATGT
11937221 TTGTAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (23 bp):
TTTGGATATGAATTTGATATGTA
Found at i:11940146 original size:138 final size:138
Alignment explanation
Indices: 11939892--11940260 Score: 432
Period size: 138 Copynumber: 2.8 Consensus size: 138
11939882 ATGAAATGTG
* *
11939892 TAAGACCATGGTTGAAAGATACCATGGCAAC----CTG----TGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
* * * *
11939949 TACCATGGCAACCT-A-TG----TG--TAAGACCATGGTTGAAAGATATCATGGAAACCTGATAT
66 TACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGACAT
* **
11940006 GAAATGTG
131 GAAAAGAA
* * * *
11940014 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AGATGTGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATGGTTGAAAG
* * *
11940078 ATACCATGGCAACGTGACATGAAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
65 ATACCATGGCAACATGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGAC
11940142 ATGAAAAGAA
129 ATGAAAAGAA
11940152 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
* *
11940217 TACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAA
66 TACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAA
11940261 AACACTATGG
Statistics
Matches: 210, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
122 31 0.15
127 1 0.00
130 36 0.17
131 1 0.00
133 1 0.00
136 1 0.00
137 6 0.03
138 133 0.63
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGACAT
GAAAAGAA
Found at i:11940272 original size:46 final size:47
Alignment explanation
Indices: 11939967--11940260 Score: 420
Period size: 46 Copynumber: 6.4 Consensus size: 47
11939957 CAACCTATGT
* * * * *
11939967 GTAAGACCATGGTTGAAAGATATCATGGAAACCTGATATG-AAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
* * * *
11940013 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
11940059 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
* *
11940105 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
11940151 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
11940197 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
11940243 GTAAGACCATAGTTGAAA
1 GTAAGACCATGGTTGAAA
11940261 AACACTATGG
Statistics
Matches: 235, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
45 5 0.02
46 228 0.97
47 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
Found at i:11940578 original size:23 final size:25
Alignment explanation
Indices: 11940533--11940579 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11940523 AATAAATATA
*
11940533 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
11940558 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
11940580 ATGAAGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:11945293 original size:19 final size:21
Alignment explanation
Indices: 11945266--11945308 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11945256 TTTTAATAAG
*
11945266 CCTA-ATTTT-TTTGTCTAAA
1 CCTATATTTTATTTGTCCAAA
*
11945285 CCTATTTTTTATTTGTCCAAA
1 CCTATATTTTATTTGTCCAAA
11945306 CCT
1 CCT
11945309 TTCTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
CCTATATTTTATTTGTCCAAA
Found at i:11945320 original size:21 final size:22
Alignment explanation
Indices: 11945274--11945322 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
11945264 AGCCTAATTT
* * *
11945274 TTTTGTCTAAACCTATTTTTTA
1 TTTTGTCCAAACCTATTCTATA
11945296 -TTTGTCCAAACCT-TTCTATA
1 TTTTGTCCAAACCTATTCTATA
11945316 TTTTGTC
1 TTTTGTC
11945323 AGGTTTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTTGTCCAAACCTATTCTATA
Found at i:11953267 original size:204 final size:204
Alignment explanation
Indices: 11952917--11953528 Score: 1197
Period size: 204 Copynumber: 3.0 Consensus size: 204
11952907 GTAAAGTAGT
11952917 TAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCCA
1 TAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCCA
11952982 TTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACCA
66 TTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACCA
11953047 AGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCACAACCTCAAAGAACCAAACA
131 AGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCACAACCTCAAAGAACCAAACA
11953112 ACAATTACC
196 ACAATTACC
11953121 TAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCCA
1 TAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCCA
11953186 TTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACCA
66 TTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACCA
11953251 AGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCACAACCTCAAAGAACCAAACA
131 AGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCACAACCTCAAAGAACCAAACA
11953316 ACAATTACC
196 ACAATTACC
11953325 TAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCCA
1 TAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCCA
11953390 TTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACCA
66 TTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACCA
* * *
11953455 AGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCAAAACCACAAAGAACGAAACA
131 AGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCACAACCTCAAAGAACCAAACA
11953520 ACAATTACC
196 ACAATTACC
11953529 ATACATATGA
Statistics
Matches: 405, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
204 405 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (204 bp):
TAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCCA
TTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACCA
AGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCACAACCTCAAAGAACCAAACA
ACAATTACC
Found at i:11960741 original size:19 final size:19
Alignment explanation
Indices: 11960717--11960755 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11960707 ATAATTTGAT
*
11960717 TTTTAAGTTAAAACTTTAA
1 TTTTAAATTAAAACTTTAA
* *
11960736 TTTTAAATTGAAATTTTAA
1 TTTTAAATTAAAACTTTAA
11960755 T
1 T
11960756 CTAATCTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAAATTAAAACTTTAA
Found at i:11962349 original size:14 final size:17
Alignment explanation
Indices: 11962308--11962353 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
11962298 AAAGTTGTTT
11962308 TTATATATATTAATAAA
1 TTATATATATTAATAAA
11962325 TTATATATATTAATAAA
1 TTATATATATTAATAAA
*
11962342 TT-TATATTTTAA
1 TTATATATATTAA
11962354 ATTATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATATATATTAATAAA
Found at i:11963832 original size:43 final size:43
Alignment explanation
Indices: 11963771--11963881 Score: 177
Period size: 43 Copynumber: 2.6 Consensus size: 43
11963761 TTAAAAAAAT
*
11963771 GCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAAGTCATGGCTTTTAGCAGCGTTTGTGGGAAAAGC
* *
11963814 GCCGCTAAAAGTCATGGCTTTTAGCAGCTTTTGTGGTAAAAGC
1 GCCGCTAAAAGTCATGGCTTTTAGCAGCGTTTGTGGGAAAAGC
* *
11963857 ACCGCTACAAGTCATGGCTTTTAGC
1 GCCGCTAAAAGTCATGGCTTTTAGC
11963882 TGCGCTTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGGCTTTTAGCAGCGTTTGTGGGAAAAGC
Found at i:11963995 original size:31 final size:31
Alignment explanation
Indices: 11963960--11964040 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
11963950 TTTCCTGCAT
* * *
11963960 TAAAATCCAACCAAATACAGCAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * *
11963991 TAAAATGCAGCCAAAAACAACAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
11964022 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
11964041 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:11964297 original size:21 final size:21
Alignment explanation
Indices: 11964273--11964334 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
11964263 TCTGCTGCCA
**
11964273 TCGCTGCTGCCTTTGCCTTCC-
1 TCGCTGCTGCCGCTGCC-TCCT
11964294 TCGCT-CGTGCCGCTGCCTCCT
1 TCGCTGC-TGCCGCTGCCTCCT
*
11964315 TCGCTGCTGCCACTGCCTCC
1 TCGCTGCTGCCGCTGCCTCC
11964335 CTCTCTACTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 4 0.11
21 30 0.86
22 1 0.03
ACGTcount: A:0.02, C:0.47, G:0.21, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCGCTGCCTCCT
Found at i:11964345 original size:21 final size:21
Alignment explanation
Indices: 11964286--11964346 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
11964276 CTGCTGCCTT
* *
11964286 TGCCTTCCTCGCT-CGTGCCGC
1 TGCCTCCCTCGCTAC-TGCCAC
* *
11964307 TGCCTCCTTCGCTGCTGCCAC
1 TGCCTCCCTCGCTACTGCCAC
*
11964328 TGCCTCCCTCTCTACTGCC
1 TGCCTCCCTCGCTACTGCC
11964347 TCCGCTCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.03, C:0.49, G:0.18, T:0.30
Consensus pattern (21 bp):
TGCCTCCCTCGCTACTGCCAC
Found at i:11964787 original size:13 final size:14
Alignment explanation
Indices: 11964762--11964790 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11964752 TGATTAATTG
11964762 AATTAAACAATTAT
1 AATTAAACAATTAT
11964776 AATTAAAC-ATTAT
1 AATTAAACAATTAT
11964789 AA
1 AA
11964791 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:11969976 original size:9 final size:9
Alignment explanation
Indices: 11969962--11970469 Score: 552
Period size: 9 Copynumber: 57.4 Consensus size: 9
11969952 TATTTAAGTA
*
11969962 TTATGTAAG
1 TTATATAAG
*
11969971 TTATGTAAG
1 TTATATAAG
11969980 TTATATAAG
1 TTATATAAG
*
11969989 TTATGATATG
1 TTAT-ATAAG
* *
11969999 ATATAT-AT
1 TTATATAAG
*
11970007 TTATGTAAG
1 TTATATAAG
* *
11970016 TAATAT-AT
1 TTATATAAG
*
11970024 TTATCTAAG
1 TTATATAAG
*
11970033 TTATAGAAG
1 TTATATAAG
*
11970042 TTATGTAAG
1 TTATATAAG
*
11970051 TTATAT-AT
1 TTATATAAG
11970059 TTATCA-AAG
1 TTAT-ATAAG
*
11970068 TTATATCAG
1 TTATATAAG
11970077 TTATATAAG
1 TTATATAAG
*
11970086 TTATGTAAG
1 TTATATAAG
11970095 TTATATAAG
1 TTATATAAG
11970104 TTATATAAG
1 TTATATAAG
*
11970113 TTATAT-AT
1 TTATATAAG
*
11970121 TTATCTAAG
1 TTATATAAG
11970130 TTATATAAG
1 TTATATAAG
*
11970139 TTATGTAAG
1 TTATATAAG
11970148 TTATATAAG
1 TTATATAAG
*
11970157 TTATGTAAG
1 TTATATAAG
*
11970166 TTATAT-AT
1 TTATATAAG
*
11970174 TTATCTAAG
1 TTATATAAG
11970183 TTATATAAG
1 TTATATAAG
11970192 TTATATAAG
1 TTATATAAG
*
11970201 TTATGTAAG
1 TTATATAAG
11970210 TTATATAAG
1 TTATATAAG
*
11970219 TTATGTAAG
1 TTATATAAG
*
11970228 TTATAT-AT
1 TTATATAAG
*
11970236 TTATCTAAG
1 TTATATAAG
11970245 TTATATAAG
1 TTATATAAG
11970254 TTATATAAG
1 TTATATAAG
*
11970263 TTATGTAAG
1 TTATATAAG
11970272 TTATATAAG
1 TTATATAAG
*
11970281 TTATAT-AT
1 TTATATAAG
*
11970289 TTATCTAAG
1 TTATATAAG
11970298 TTATATAAG
1 TTATATAAG
*
11970307 TTATGTAAG
1 TTATATAAG
*
11970316 TTATGTAAG
1 TTATATAAG
*
11970325 TTATAT-AT
1 TTATATAAG
*
11970333 TTATCTAAG
1 TTATATAAG
11970342 TTATATAAG
1 TTATATAAG
*
11970351 TTATGTAAG
1 TTATATAAG
*
11970360 TTATGTAAG
1 TTATATAAG
*
11970369 TTATAT-AT
1 TTATATAAG
*
11970377 TTATCTAAG
1 TTATATAAG
11970386 TTATATAAG
1 TTATATAAG
11970395 TTATATAAG
1 TTATATAAG
*
11970404 TTATGTAAG
1 TTATATAAG
11970413 TTATATAAG
1 TTATATAAG
*
11970422 TTATAT-AT
1 TTATATAAG
*
11970430 TTATCTAAG
1 TTATATAAG
11970439 TTATATAAG
1 TTATATAAG
*
11970448 TTATGTAAG
1 TTATATAAG
* *
11970457 TTTTGTAAG
1 TTATATAAG
11970466 TTAT
1 TTAT
11970470 GTTAAATATT
Statistics
Matches: 414, Mismatches: 72, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
8 57 0.14
9 350 0.85
10 7 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:11970086 original size:53 final size:54
Alignment explanation
Indices: 11969962--11970471 Score: 549
Period size: 53 Copynumber: 9.6 Consensus size: 54
11969952 TATTTAAGTA
* * * * *
11969962 TTATGTAAGTTATGTAAGTTATA-TAAGTTATGATATGATATATATTTATGTAAG
1 TTATATAAGTTATATAAGTTATAGTAAGTTATG-TAAGTTATATATTTATCTAAG
* * * *
11970016 TAATAT-ATTTATCTAAGTTATAG-AAGTTATGTAAGTTATATATTTATCAAAG
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATATATTTATCTAAG
* *
11970068 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATATTTATCTAAG
1 TTATATAAGTTATATAAGTTA--T-AG-----TAAGTTATGTAAGTTATATATTTATCTAAG
*
11970130 TTATATAAGTTATGTAAGTTATA-TAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATATATTTATCTAAG
* * * * *
11970183 TTATATAAGTTATATAAGTTAT-GTAAGTTATATAAGTTATGTAAGTTATAT-AT
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATAT-ATTTATCTAAG
* * * *
11970236 TTATCTAAGTTATATAAGTTATA-TAAGTTATGTAAGTTATATAAGTTATAT-AT
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATAT-ATTTATCTAAG
*
11970289 TTATCTAAGTTATATAAGTTAT-GTAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATATATTTATCTAAG
11970342 -T-TA-------TATAAGTTAT-GTAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATATATTTATCTAAG
*
11970386 TTATATAAGTTATATAAGTTAT-GTAAGTTATATAAGTTATATATTTATCTAAG
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATATATTTATCTAAG
* *
11970439 TTATATAAGTTATGTAAGTT-TTGTAAGTTATGT
1 TTATATAAGTTATATAAGTTATAGTAAGTTATGT
11970472 TAAATATTTA
Statistics
Matches: 398, Mismatches: 32, Indels: 53
0.82 0.07 0.11
Matches are distributed among these distances:
44 41 0.10
45 1 0.00
46 2 0.01
51 1 0.00
52 30 0.08
53 262 0.66
54 10 0.03
55 1 0.00
56 2 0.01
59 1 0.00
60 1 0.00
62 46 0.12
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (54 bp):
TTATATAAGTTATATAAGTTATAGTAAGTTATGTAAGTTATATATTTATCTAAG
Found at i:11970469 original size:44 final size:45
Alignment explanation
Indices: 11969967--11970467 Score: 474
Period size: 44 Copynumber: 11.3 Consensus size: 45
11969957 AAGTATTATG
* * * * * * *
11969967 TAAGTTATGTAAGTTATATAAGTTATGATATGATATAT-ATTTATG
1 TAAGTTATATAAGTTTTATAAGTTAT-ATAAGTTATGTAAGTTATA
* * *
11970012 TAAGTAATAT-A-TTTATCTAAGTTATAGAAGTTATGTAAGTTATA
1 TAAGTTATATAAGTTT-TATAAGTTATATAAGTTATGTAAGTTATA
* * *
11970056 T-ATTTATCA-AAGTTATATCAGTTATATAAGTTATGTAAGTTATA
1 TAAGTTAT-ATAAGTTTTATAAGTTATATAAGTTATGTAAGTTATA
* * * * *
11970100 TAAGTTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTATG
1 TAAGTTATATAAGTTTTATAAGTTATATAAGTTATGTAAGTTATA
* * * *
11970144 TAAGTTATATAAGTTATGTAAGTTATAT-ATTTATCTAAGTTATA
1 TAAGTTATATAAGTTTTATAAGTTATATAAGTTATGTAAGTTATA
* *
11970188 TAAGTTATATAAGTTATGTAAGTTATATAAGTTATGTAAGTTATA
1 TAAGTTATATAAGTTTTATAAGTTATATAAGTTATGTAAGTTATA
* * *
11970233 T-ATTTATCTAAGTTATATAAGTTATATAAGTTATGTAAGTTATA
1 TAAGTTATATAAGTTTTATAAGTTATATAAGTTATGTAAGTTATA
* *
11970277 TAAGTTATAT-A-TTTATCTAAGTTATATAAGTTATGTAAGTTATG
1 TAAGTTATATAAGTTT-TATAAGTTATATAAGTTATGTAAGTTATA
* *
11970321 TAAGTTATAT-A-TTTATCTAAGTTATATAAGTTATGTAAGTTATG
1 TAAGTTATATAAGTTT-TATAAGTTATATAAGTTATGTAAGTTATA
* * *
11970365 TAAGTTATAT-A-TTTATCTAAGTTATATAAGTTATATAAGTTATG
1 TAAGTTATATAAGTTT-TATAAGTTATATAAGTTATGTAAGTTATA
* * * * *
11970409 TAAGTTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTATG
1 TAAGTTATATAAGTTTTATAAGTTATATAAGTTATGTAAGTTATA
* *
11970453 TAAGTTTTGTAAGTT
1 TAAGTTATATAAGTT
11970468 ATGTTAAATA
Statistics
Matches: 399, Mismatches: 44, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
43 15 0.04
44 328 0.82
45 54 0.14
46 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (45 bp):
TAAGTTATATAAGTTTTATAAGTTATATAAGTTATGTAAGTTATA
Found at i:11970601 original size:15 final size:15
Alignment explanation
Indices: 11970581--11970636 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
11970571 TAAGTTGCGG
11970581 ATTAAATAATATTTA
1 ATTAAATAATATTTA
*
11970596 ATTAAATAATATTGA
1 ATTAAATAATATTTA
** *
11970611 AAAAAATTAT-TTTA
1 ATTAAATAATATTTA
11970625 ATTAAATAATAT
1 ATTAAATAATAT
11970637 ACATGTCATT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 10 0.31
15 22 0.69
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:11970842 original size:24 final size:24
Alignment explanation
Indices: 11970810--11970880 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
11970800 TTAACTTAAA
11970810 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
11970834 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
11970858 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
11970881 CAATAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:11971002 original size:64 final size:64
Alignment explanation
Indices: 11970928--11971060 Score: 239
Period size: 64 Copynumber: 2.1 Consensus size: 64
11970918 ATATTTTATT
* * *
11970928 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
11970992 AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
1 AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
11971056 AAATA
1 AAATA
11971061 TAGAAATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (64 bp):
AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
Found at i:11974216 original size:13 final size:13
Alignment explanation
Indices: 11974200--11974225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11974190 CCTTTTCCCC
11974200 CTTTCTTTCTTTT
1 CTTTCTTTCTTTT
11974213 CTTTCTTTCTTTT
1 CTTTCTTTCTTTT
11974226 TCTCCCCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTCTTTCTTTT
Found at i:11976763 original size:22 final size:21
Alignment explanation
Indices: 11976734--11976847 Score: 88
Period size: 22 Copynumber: 5.1 Consensus size: 21
11976724 TGCACTAATG
*
11976734 AACAGAGAGTACTGAAGTGCT
1 AACAGAGAGCACTGAAGTGCT
*
11976755 ATACAGAGAGCAC-AAATGTGCT
1 A-ACAGAGAGCACTGAA-GTGCT
*
11976777 AATCAGAGAGCACTGACGTGCT
1 AA-CAGAGAGCACTGAAGTGCT
*
11976799 AAATATCAGAGAGCAC-AAATGTGCT
1 --A-A-CAGAGAGCACTGAA-GTGCT
*
11976824 AATCAGAGAGCACTGATGTGCT
1 AA-CAGAGAGCACTGAAGTGCT
11976846 AA
1 AA
11976848 ATATTAGAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.05
22 50 0.66
23 3 0.04
24 2 0.03
25 17 0.22
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (21 bp):
AACAGAGAGCACTGAAGTGCT
Found at i:11976811 original size:25 final size:24
Alignment explanation
Indices: 11976736--11976935 Score: 196
Period size: 25 Copynumber: 8.4 Consensus size: 24
11976726 CACTAATGAA
* *
11976736 CAGAGAGTACTGAAGTGCT-ATA-
1 CAGAGAGCACTGACGTGCTAATAT
** *
11976758 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
11976780 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
** *
11976805 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
*
11976827 CAGAGAGCACTGATGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
* *
11976852 TAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGACGTGCTAATA-T
*
11976877 CAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGACGTGCTAATA-T
*
11976902 CAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGACGTGCTAATA-T
11976927 CAGAGAGCA
1 CAGAGAGCA
11976936 TGCTGAGGTC
Statistics
Matches: 154, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
21 1 0.01
22 51 0.33
23 1 0.01
24 6 0.04
25 95 0.62
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTAATAT
Found at i:11976812 original size:47 final size:46
Alignment explanation
Indices: 11976736--11976911 Score: 203
Period size: 47 Copynumber: 3.7 Consensus size: 46
11976726 CACTAATGAA
* *
11976736 CAGAGAGTACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
11976780 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
* * ****
11976827 CAGAGAGCACTGATGTGCTAAATATTAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCT-A-A-T
*
11976877 CAGAGAGCACTGGCGTGCTAATATTCAGAGAGCAC
1 CAGAGAGCACTGACGTGCTAATA-TCAGAGAGCAC
11976912 TGGCGTGCTA
Statistics
Matches: 114, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
44 17 0.15
46 3 0.03
47 60 0.53
48 1 0.01
49 5 0.04
50 28 0.25
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (46 bp):
CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
Found at i:11980149 original size:18 final size:18
Alignment explanation
Indices: 11980126--11980170 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
11980116 AAGAATGGAA
11980126 GAAGAAGAAGATTACCTG
1 GAAGAAGAAGATTACCTG
*
11980144 GAAGAAGATGATTACCTG
1 GAAGAAGAAGATTACCTG
*
11980162 GATGAAGAA
1 GAAGAAGAA
11980171 AGAGATGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (18 bp):
GAAGAAGAAGATTACCTG
Found at i:11980223 original size:31 final size:32
Alignment explanation
Indices: 11980181--11980243 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
11980171 AGAGATGGGA
* * *
11980181 AAAGTTAAAGAATGGAAG-AAAAAGAAAGCTT
1 AAAGTTAAAGAACGAAAGAAAAAAAAAAGCTT
*
11980212 AAAGTTGAAGAACGAAAGAAAAAAAAAAGCTT
1 AAAGTTAAAGAACGAAAGAAAAAAAAAAGCTT
11980244 GCCTAGATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.60, C:0.05, G:0.21, T:0.14
Consensus pattern (32 bp):
AAAGTTAAAGAACGAAAGAAAAAAAAAAGCTT
Found at i:11980518 original size:13 final size:13
Alignment explanation
Indices: 11980500--11980528 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11980490 AGTAGCAGGA
11980500 AAACCATCTCAAG
1 AAACCATCTCAAG
11980513 AAACCATCTCAAG
1 AAACCATCTCAAG
11980526 AAA
1 AAA
11980529 TAAAGCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.28, G:0.07, T:0.14
Consensus pattern (13 bp):
AAACCATCTCAAG
Found at i:11987773 original size:28 final size:28
Alignment explanation
Indices: 11987735--11987791 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11987725 GAGTTTAAAG
11987735 AAAAACTAAATTGATTATTTTCGAATGA
1 AAAAACTAAATTGATTATTTTCGAATGA
*
11987763 AAAAACTAAATTGATTATTTTTGAATGA
1 AAAAACTAAATTGATTATTTTCGAATGA
11987791 A
1 A
11987792 CAATAATATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (28 bp):
AAAAACTAAATTGATTATTTTCGAATGA
Found at i:11989542 original size:48 final size:47
Alignment explanation
Indices: 11989378--11989595 Score: 200
Period size: 48 Copynumber: 4.6 Consensus size: 47
11989368 GTATAATACT
* *
11989378 GATGCCATGTCCCAGACATGGTCTTACACTTG-CTCATCCATCAAGT--C
1 GATGCCATGTCCCAGACATGGTCTTACAC-TGACACAT-CAT-ACGTGCC
* * *
11989425 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATC-ATA-CG-TGCC
* * * *
11989474 GACGTCATGTCCTAGACATGGTCTTACACTGACACCTCTATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATC-ATACGTGCC
* *
11989522 GATGCCATGTCCCAAACATGGCCTTACACTGACACATC-T-CGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCATACGT-GCC
*
11989568 GATG-CATGTCCCAGAAAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
11989596 AGCTCTAGTC
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
44 9 0.06
45 17 0.12
46 14 0.10
47 30 0.21
48 35 0.25
49 33 0.23
50 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACATCATACGTGCC
Found at i:11995903 original size:20 final size:21
Alignment explanation
Indices: 11995878--11995917 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11995868 CTTTTGAAAT
*
11995878 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
11995898 AGGGCAACACGCTCGTGTGG
1 AGGGCAACACGCCCGTGTGG
11995918 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:11997250 original size:49 final size:47
Alignment explanation
Indices: 11997192--11997310 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 47
11997182 CCGACCCTAT
* * * *
11997192 GTCCTAGACATGGTCTAACACTAGCTTTCACATATTCGT-GCTGATGCAA
1 GTCCCAGACAT-GTCTTACACTAGC-TACACATATT-GTAGCCGATGCAA
* *
11997241 GTCCCAGACATAGTCTTACACT-G--ACACATCTTGTAGCCGATGCAT
1 GTCCCAGACAT-GTCTTACACTAGCTACACATATTGTAGCCGATGCAA
11997286 GTCCCAGACATGTCTTACACTAGCT
1 GTCCCAGACATGTCTTACACTAGCT
11997311 CTTGTCTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
44 12 0.20
45 27 0.46
48 1 0.02
49 19 0.32
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
GTCCCAGACATGTCTTACACTAGCTACACATATTGTAGCCGATGCAA
Found at i:11997378 original size:94 final size:91
Alignment explanation
Indices: 11997230--11997400 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 91
11997220 CACATATTCG
*
11997230 TGCTGATGCAAGTCCCAGACATAGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGAC
1 TGCTGATGCAAGTCCCAGACATAGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCAGAC
11997295 ATGTCTTACACTAGCTCTTGTCTCAA
66 ATGTCTTACACTAGCTCTTGTCTCAA
* * * * * *
11997321 TGCTGATGCCATGTCTCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCAATGCATGTCCC
1 TGCTGATG-CAAGTCCCAGACATAGTCTTACACTGACACATC-T--TGTAGCCAATGCATGTCCC
11997385 AGACATGTCTTACACT
62 AGACATGTCTTACACT
11997401 GGCACACAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 10 0.14
92 26 0.38
94 33 0.48
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (91 bp):
TGCTGATGCAAGTCCCAGACATAGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTTGTCTCAA
Found at i:12003985 original size:27 final size:27
Alignment explanation
Indices: 12003947--12004001 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
12003937 GTTTGTAAAA
12003947 AAGAAAGATGGATCATTGAGGCTGTGC
1 AAGAAAGATGGATCATTGAGGCTGTGC
*
12003974 AAGAAAGATGGATCGTTGAGGCTGTGC
1 AAGAAAGATGGATCATTGAGGCTGTGC
12004001 A
1 A
12004002 TTGATTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.22
Consensus pattern (27 bp):
AAGAAAGATGGATCATTGAGGCTGTGC
Found at i:12011058 original size:5 final size:5
Alignment explanation
Indices: 12011048--12011080 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
12011038 TTGTGTGTTC
*
12011048 TTTAT TTTAT TTTAT ATTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
12011081 TACAAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:12016993 original size:26 final size:26
Alignment explanation
Indices: 12016964--12017013 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
12016954 AATAAAGTGC
12016964 AGAAAATCAGAA-AGGATGAGAGAAAA
1 AGAAAAT-AGAAGAGGATGAGAGAAAA
*
12016990 AGAAAATAGAAGGGGATGAGAGAA
1 AGAAAATAGAAGAGGATGAGAGAA
12017014 TTGAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.32, T:0.08
Consensus pattern (26 bp):
AGAAAATAGAAGAGGATGAGAGAAAA
Found at i:12019120 original size:13 final size:13
Alignment explanation
Indices: 12019102--12019129 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12019092 TACCACATTT
12019102 ATATCATCAAAAC
1 ATATCATCAAAAC
12019115 ATATCATCAAAAC
1 ATATCATCAAAAC
12019128 AT
1 AT
12019130 TATTCGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (13 bp):
ATATCATCAAAAC
Found at i:12022154 original size:30 final size:31
Alignment explanation
Indices: 12022118--12022186 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
12022108 GGTTTCATTT
* *
12022118 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACATTATAAAAAAGTAACAAAA
* *
12022148 CAGTCACTAACATTATAAAAAAGTGACAAAG
1 CAGTCACTAACATTATAAAAAAGTAACAAAA
12022179 CAGTCACT
1 CAGTCACT
12022187 GATTAATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.48
31 14 0.42
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACATTATAAAAAAGTAACAAAA
Found at i:12023970 original size:28 final size:28
Alignment explanation
Indices: 12023939--12023999 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
12023929 TAATTTATCT
12023939 ATTTTAGGGTTTTTCATGCATATTCCTA
1 ATTTTAGGGTTTTTCATGCATATTCCTA
12023967 ATTTTAGGGTTTTTCATGCATATTCCTA
1 ATTTTAGGGTTTTTCATGCATATTCCTA
*
12023995 CTTTT
1 ATTTT
12024000 CACATACTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (28 bp):
ATTTTAGGGTTTTTCATGCATATTCCTA
Found at i:12025439 original size:26 final size:26
Alignment explanation
Indices: 12025409--12025460 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
12025399 TGAAATTCCC
12025409 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12025435 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12025461 GTCAATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12033440 original size:26 final size:26
Alignment explanation
Indices: 12033410--12033491 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
12033400 TGAAATTCCC
12033410 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12033436 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
12033462 ATCATGGAACATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
12033488 ATCA
1 ATCA
12033492 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12035187 original size:3 final size:3
Alignment explanation
Indices: 12035179--12035209 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12035169 GAAGAGAGCC
12035179 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
12035210 GAAAAGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12042371 original size:22 final size:22
Alignment explanation
Indices: 12042346--12042388 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12042336 TACATAAGTG
12042346 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
12042368 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
12042389 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:12046108 original size:22 final size:22
Alignment explanation
Indices: 12046080--12046122 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12046070 AGGGGGAGTG
12046080 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
12046102 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
12046123 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:12046764 original size:49 final size:49
Alignment explanation
Indices: 12046710--12046817 Score: 216
Period size: 49 Copynumber: 2.2 Consensus size: 49
12046700 GATTGGTGTT
12046710 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
12046759 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
12046808 CCTTTCCAGT
1 CCTTTCCAGT
12046818 TTCCATTTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (49 bp):
CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
Found at i:12067842 original size:25 final size:26
Alignment explanation
Indices: 12067814--12067867 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
12067804 TAATTAGTAT
*
12067814 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
12067839 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
12067865 AAA
1 AAA
12067868 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:12068528 original size:14 final size:15
Alignment explanation
Indices: 12068500--12068531 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
12068490 ATTTGCTATT
12068500 AATTTATTAAAATAA
1 AATTTATTAAAATAA
12068515 AATTTATT-AAATAA
1 AATTTATTAAAATAA
12068529 AAT
1 AAT
12068532 ATGATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTATTAAAATAA
Found at i:12068600 original size:16 final size:15
Alignment explanation
Indices: 12068575--12068608 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
12068565 AAAGTTGATA
*
12068575 ATAATTAATATATATT
1 ATAATAAATATA-ATT
12068591 ATAATAAATATAATT
1 ATAATAAATATAATT
12068606 ATA
1 ATA
12068609 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:12073221 original size:32 final size:33
Alignment explanation
Indices: 12073185--12073302 Score: 116
Period size: 33 Copynumber: 3.6 Consensus size: 33
12073175 TACACTTGAG
*
12073185 GTGTACAT-TCCTTTTCAAGTGGTACACACAAA
1 GTGTACATAACCTTTTCAAGTGGTACACACAAA
* ** * *
12073217 GTGTACCTTTCCTTTTCATA-TGGTATACAGAAA
1 GTGTACATAACCTTTTCA-AGTGGTACACACAAA
* * * *
12073250 GTATACCTAACCTTTCCATGT-GTACACACAAA
1 GTGTACATAACCTTTTCAAGTGGTACACACAAA
12073282 GTGTACATAACCTTTTCAAGT
1 GTGTACATAACCTTTTCAAGT
12073303 TGCACAATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
32 33 0.48
33 35 0.51
34 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (33 bp):
GTGTACATAACCTTTTCAAGTGGTACACACAAA
Found at i:12073234 original size:33 final size:33
Alignment explanation
Indices: 12073156--12073302 Score: 111
Period size: 32 Copynumber: 4.5 Consensus size: 33
12073146 TTTTCGATGG
* * *** *
12073156 ACCTTTCCTTTTCCAGTTGTACACTTGAGGTGT
1 ACCTTTCCTTTTCAAGTGGTACACACAAAGTGT
*
12073189 A-CATTCCTTTTCAAGTGGTACACACAAAGTGT
1 ACCTTTCCTTTTCAAGTGGTACACACAAAGTGT
* * *
12073221 ACCTTTCCTTTTCATA-TGGTATACAGAAAGTAT
1 ACCTTTCCTTTTCA-AGTGGTACACACAAAGTGT
** * *
12073254 ACCTAACCTTTCCATGT-GTACACACAAAGTGT
1 ACCTTTCCTTTTCAAGTGGTACACACAAAGTGT
* **
12073286 ACATAACCTTTTCAAGT
1 ACCTTTCCTTTTCAAGT
12073303 TGCACAATTT
Statistics
Matches: 90, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
32 51 0.57
33 38 0.42
34 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (33 bp):
ACCTTTCCTTTTCAAGTGGTACACACAAAGTGT
Found at i:12080585 original size:33 final size:33
Alignment explanation
Indices: 12080547--12080655 Score: 123
Period size: 33 Copynumber: 3.3 Consensus size: 33
12080537 GGTGTACATT
**
12080547 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
* * *
12080580 CCTTTT-AATATGGTATACAAAAAGTATACCTAA
1 CCTTTTCAA-GTGGTACACACAAAGTATACCTAA
* * *
12080613 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
12080645 CCTTTTCAAGT
1 CCTTTTCAAGT
12080656 TGCACAATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
32 29 0.47
33 31 0.50
34 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTAA
Found at i:12086671 original size:57 final size:58
Alignment explanation
Indices: 12086559--12086696 Score: 169
Period size: 57 Copynumber: 2.4 Consensus size: 58
12086549 AAGTATTTTT
*
12086559 CCTGGACTGGTAATCCTGATATAAGCTCTCTTGAGCATATGATATAGATAGGATTTAG
1 CCTGGACAGGTAATCCTGATATAAGCTCTCTTGAGCATATGATATAGATAGGATTTAG
*
12086617 CCTGGACAGGTAATCCTGAT-TAAGCTCT-TATGAGCATATGTTGA-ACGCA-A-GATTTAG
1 CCTGGACAGGTAATCCTGATATAAGCTCTCT-TGAGCATATGAT-ATA-G-ATAGGATTTAG
* *
12086674 CTTGGACAGGTAATCCTGTTATA
1 CCTGGACAGGTAATCCTGATATA
12086697 TGATATGTGG
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
56 1 0.01
57 45 0.63
58 24 0.34
59 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (58 bp):
CCTGGACAGGTAATCCTGATATAAGCTCTCTTGAGCATATGATATAGATAGGATTTAG
Found at i:12087250 original size:29 final size:29
Alignment explanation
Indices: 12087218--12087279 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
12087208 GCATGTATAG
* *
12087218 GTTAACTTAACCATGGATGGCTTGAATAT
1 GTTAACTTAACCATGGATGACTTAAATAT
12087247 GTTAACTTAACCATGGATGACTTAAATAT
1 GTTAACTTAACCATGGATGACTTAAATAT
12087276 GTTA
1 GTTA
12087280 TTTGTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (29 bp):
GTTAACTTAACCATGGATGACTTAAATAT
Found at i:12088417 original size:46 final size:46
Alignment explanation
Indices: 12088358--12088452 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
12088348 ATGAAATTAA
*
12088358 AATAATCTCTTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
1 AATAATCTATTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
*
12088404 AATAATCTATTGTACATATCTCTATGCCAATTCAAAGAATTAATTC
1 AATAATCTATTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
12088450 AAT
1 AAT
12088453 CACATAAGCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (46 bp):
AATAATCTATTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
Found at i:12088498 original size:21 final size:21
Alignment explanation
Indices: 12088472--12088515 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
12088462 ACATAAAAGA
12088472 TTACGTGAGGTAACAATATAT
1 TTACGTGAGGTAACAATATAT
*
12088493 TTACGTGAGGTAACAATGTAT
1 TTACGTGAGGTAACAATATAT
12088514 TT
1 TT
12088516 CTACATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (21 bp):
TTACGTGAGGTAACAATATAT
Found at i:12089722 original size:45 final size:44
Alignment explanation
Indices: 12089658--12089748 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
12089648 TGCCGAGCTG
*
12089658 TTTTTCGCCTTTTGTACAAATCTGTTAAAAAATAATCATAATTTA
1 TTTTTCGCCCTTTGTACAAATCTGTT-AAAAATAATCATAATTTA
* *
12089703 TTTTTTGCCCTTTGTACAAATCTGTTGAAAATAATCATAATTTA
1 TTTTTCGCCCTTTGTACAAATCTGTTAAAAATAATCATAATTTA
12089747 TT
1 TT
12089749 ATGAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 19 0.44
45 24 0.56
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (44 bp):
TTTTTCGCCCTTTGTACAAATCTGTTAAAAATAATCATAATTTA
Found at i:12090319 original size:15 final size:16
Alignment explanation
Indices: 12090287--12090319 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12090277 TTTTGATTAA
*
12090287 AATAATATAAGGTAAT
1 AATAATATAAGCTAAT
12090303 AATAATA-AAGCTAAT
1 AATAATATAAGCTAAT
12090318 AA
1 AA
12090320 AAGTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (16 bp):
AATAATATAAGCTAAT
Found at i:12094431 original size:43 final size:43
Alignment explanation
Indices: 12094378--12094460 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
12094368 GAGATATGTG
*
12094378 GCATCCGAGCTCGTTGAGAGGTCCGAGTTGATTATGGATGCAA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA
*
12094421 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
12094461 TGTTACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA
Found at i:12110378 original size:43 final size:43
Alignment explanation
Indices: 12110280--12110404 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
12110270 AACTAAGATG
* * * * *
12110280 TCCGAGCTCGTTGAGTGGTCTGGGTTC-TTGAGATATGTG-GCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATT-ATAGATGCGAGCA
12110322 TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATAGATGCGAGCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATAGATGCGAGCA
* * *
12110365 TCCGAGCTCGTTGAAAGGTCTGAGTTCATAATGGATGCGA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATAGATGCGA
12110405 TTTATGTAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 31 0.42
43 42 0.58
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATAGATGCGAGCA
Found at i:12117195 original size:22 final size:21
Alignment explanation
Indices: 12117167--12117208 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12117157 ATGTCATTAG
12117167 GGTTCAAACGGAAAAAGGAAAT
1 GGTTC-AACGGAAAAAGGAAAT
**
12117189 GGTTCAATTGAAAAAGGAAA
1 GGTTCAACGGAAAAAGGAAA
12117209 AAAAGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.07, G:0.26, T:0.17
Consensus pattern (21 bp):
GGTTCAACGGAAAAAGGAAAT
Found at i:12124520 original size:35 final size:35
Alignment explanation
Indices: 12124469--12124590 Score: 183
Period size: 35 Copynumber: 3.5 Consensus size: 35
12124459 ATAAAGAAAA
*
12124469 CCATACTGA-TATGTGAAACGTAGGTATGGCATTTT
1 CCATACTGAGT-TGTGAAACGTAGGTATGGTATTTT
* *
12124504 CCATACCGAGTGGTGAAACGTAGGTATGGTATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
* *
12124539 TCATACTGAGTTGTGAAACGTAGGTATGATATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
12124574 CCATACTGAGTTGTGAA
1 CCATACTGAGTTGTGAA
12124591 TTGTGGCACT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
35 77 0.99
36 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (35 bp):
CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
Found at i:12126079 original size:22 final size:21
Alignment explanation
Indices: 12126042--12126107 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
12126032 TGTTCTTCTT
12126042 TTTCTTTGTTTTATTATTTTA
1 TTTCTTTGTTTTATTATTTTA
*
12126063 TTTCTTTTTATTTATTATTTTA
1 TTTCTTTGT-TTTATTATTTTA
* *
12126085 TGTT-TTATGTTATATAATTTTA
1 T-TTCTT-TGTTTTATTATTTTA
12126107 T
1 T
12126108 AATAATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 8 0.21
22 26 0.68
23 4 0.11
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTCTTTGTTTTATTATTTTA
Found at i:12127899 original size:45 final size:45
Alignment explanation
Indices: 12127850--12128004 Score: 141
Period size: 45 Copynumber: 3.4 Consensus size: 45
12127840 CAGAAACAAG
* *
12127850 TAAGACCATAATTGAAAGACGTTATGGCATCATGATTTTAAT-GAA
1 TAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCT-ATCGAA
*** * *
12127895 TAAGACCATAGCAAAAAGATGTTATGGCATCATGATTCTATCGAG
1 TAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCTATCGAA
* * * * * * * *
12127940 TAAGACCATAGTTGAACGATGCTATAGCATCACGAATCAAACGAA
1 TAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCTATCGAA
* *
12127985 TAAAACTATAGTTGAAAGAC
1 TAAGACCATAGTTGAAAGAC
12128005 ACTATGACAG
Statistics
Matches: 87, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 2 0.02
45 85 0.98
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCTATCGAA
Done.