Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold28
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: 2815568
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 166732 characters in sequence are not A, C, G, or T
File 1 of 16
Found at i:3190 original size:2 final size:2
Alignment explanation
Indices: 3183--3218 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3173 CCGATTCTTA
*
3183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3219 GTACGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4688 original size:26 final size:26
Alignment explanation
Indices: 4652--4714 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
4642 ATGTTATATA
* *
4652 ATATTTAATATT-TAAATAAATTATTT
1 ATATATAATATTGT-AATAAAATATTT
4678 ATATATAATATTGTAATAAAATATTT
1 ATATATAATATTGTAATAAAATATTT
4704 ATATA-AATATT
1 ATATATAATATT
4715 ATATATTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 6 0.18
26 27 0.79
27 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
ATATATAATATTGTAATAAAATATTT
Found at i:4720 original size:13 final size:12
Alignment explanation
Indices: 4658--4719 Score: 65
Period size: 13 Copynumber: 5.0 Consensus size: 12
4648 TATAATATTT
*
4658 AATATTTAAATA
1 AATATTTATATA
4670 AATTATTTATATA
1 AA-TATTTATATA
4683 TAATATTGTA-ATAA
1 -AATATT-TATAT-A
4697 AATATTTATATA
1 AATATTTATATA
4709 AATA-TTATATA
1 AATATTTATATA
4720 TTCTAATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
11 7 0.16
12 9 0.20
13 23 0.52
14 5 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
AATATTTATATA
Found at i:7914 original size:10 final size:10
Alignment explanation
Indices: 7899--7936 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
7889 TCTTTGCTTT
7899 CTTTTTTTTC
1 CTTTTTTTTC
7909 CTTTTTTTT-
1 CTTTTTTTTC
*
7918 -TCTTTTTTC
1 CTTTTTTTTC
7927 CTTTTTTTTC
1 CTTTTTTTTC
7937 TTGCTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.29
10 17 0.71
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTTTTTTC
Found at i:7947 original size:17 final size:17
Alignment explanation
Indices: 7905--7962 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
7895 CTTTCTTTTT
*
7905 TTTCCTTTTTTTTTCTTT
1 TTTCC-TTTTTTTTCTTC
7923 TTTCCTTTTTTTTCTTGC
1 TTTCCTTTTTTTTCTT-C
*
7941 TTT-CTTTTTATTCCTTC
1 TTTCCTTTTT-TTTCTTC
7958 TTTCC
1 TTTCC
7963 CAAAACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 21 0.60
18 14 0.40
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTCCTTTTTTTTCTTC
Found at i:12154 original size:19 final size:19
Alignment explanation
Indices: 12114--12165 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
12104 CAATTTCATA
**
12114 TATCGATACAATTGTCCATG
1 TATCGATACAA-TGAACATG
12134 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
12153 TATCGATACAATG
1 TATCGATACAATG
12166 TATCGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:12168 original size:13 final size:13
Alignment explanation
Indices: 12150--12176 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12140 TACAATGAAC
12150 ATGTATCGATACA
1 ATGTATCGATACA
12163 ATGTATCGATACA
1 ATGTATCGATACA
12176 A
1 A
12177 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:16527 original size:13 final size:13
Alignment explanation
Indices: 16509--16533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16499 CAAAGATCGG
16509 TGTATCGATACAA
1 TGTATCGATACAA
16522 TGTATCGATACA
1 TGTATCGATACA
16534 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:16616 original size:13 final size:13
Alignment explanation
Indices: 16598--16622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16588 AAAAAAAATA
16598 TGTATCGATACAT
1 TGTATCGATACAT
16611 TGTATCGATACA
1 TGTATCGATACA
16623 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:17551 original size:55 final size:52
Alignment explanation
Indices: 17455--17680 Score: 188
Period size: 52 Copynumber: 4.5 Consensus size: 52
17445 AGTGATAAAT
* * * * * **
17455 ATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G--AAAAG
* *
17510 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
* * * *
17562 GTGCCAATATGCTTATTCAAGGCCAGCTATATTGGACTT-AA-A--G----G
1 ATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
* * *
17606 -TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGAT-G--AAG
1 ATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
*
17654 ATGCCAATATGCTAATTCAAGGCCAGC
1 ATGCCAATATGCTGATTCAAGGCCAGC
17681 GATATCGGGC
Statistics
Matches: 144, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
43 34 0.24
44 3 0.02
45 1 0.01
46 1 0.01
48 2 0.01
49 24 0.17
50 1 0.01
51 2 0.01
52 38 0.26
54 1 0.01
55 37 0.26
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (52 bp):
ATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
Found at i:17623 original size:43 final size:43
Alignment explanation
Indices: 17558--17784 Score: 283
Period size: 43 Copynumber: 5.1 Consensus size: 43
17548 TAAAGATGGA
*
17558 AAAGGTGCCAATATGCTTATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
17601 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
17644 AAAGATGAAGATGCCAATATGCTAATTCAAGGCCAGCGATATCGGGCTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
17693 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
17736 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
17779 AGAAGG
1 A-AAGG
17785 GTTGCCACCG
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
43 111 0.72
44 6 0.04
45 1 0.01
46 2 0.01
47 1 0.01
48 3 0.02
49 31 0.20
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:17703 original size:92 final size:92
Alignment explanation
Indices: 17514--17784 Score: 383
Period size: 92 Copynumber: 3.0 Consensus size: 92
17504 AAAAAGATGT
* * *
17514 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTTATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTAATT
* *
17579 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCGATATCGGACTTAAAGGTGC
*
17609 CAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGATGAAGATGCCAATATGCTAATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTAATTCAA
*
17674 GGCCAGCGATATCGGGCTTAAAGGTGC
66 GGCCAGCGATATCGGACTTAAAGGTGC
*
17701 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTAATTCAA
*
17760 GGCCAGCGATATTGGACTTAGAAGG
66 GGCCAGCGATATCGGACTTA-AAGG
17785 GTTGCCACCG
Statistics
Matches: 164, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
86 40 0.24
87 4 0.02
88 1 0.01
92 79 0.48
94 1 0.01
95 39 0.24
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTAATTCAA
GGCCAGCGATATCGGACTTAAAGGTGC
Found at i:17821 original size:33 final size:33
Alignment explanation
Indices: 17779--17907 Score: 199
Period size: 33 Copynumber: 3.9 Consensus size: 33
17769 TATTGGACTT
17779 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
17812 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
17845 A-AAGGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
17877 AAGAA-GGTTGCCACCGATTTGTGTGGGCTTT
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
17908 GAAAAAGGTT
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 28 0.32
33 57 0.66
34 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:17856 original size:65 final size:65
Alignment explanation
Indices: 17777--17911 Score: 213
Period size: 65 Copynumber: 2.1 Consensus size: 65
17767 GATATTGGAC
*
17777 TTAG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAATGGTTGCCACCAACTTGTGTGGGC
1 TTAGAAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAA-GGTTGCCACCAACTTGTGTGGGC
17840 T
65 T
* *
17841 TTAGAAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAAGGTTGCCACCGATTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCT
17906 TT-GAAA
1 TTAGAAA
17912 AAGGTTAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
64 8 0.12
65 54 0.82
66 4 0.06
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (65 bp):
TTAGAAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCT
Found at i:17980 original size:34 final size:35
Alignment explanation
Indices: 17898--18054 Score: 169
Period size: 34 Copynumber: 4.5 Consensus size: 35
17888 CACCGATTTG
*
17898 TGTGGGCTTTGAAAAAGGTTAAAAGA-TGCCACGAAGT
1 TGTGGGCTTT--AAAAGG-AAAAAGAGTGCCACGAAGT
* * *
17935 TTTGGAC-TTAAAAGGAACAAG-GTGCCACGAAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGAAGT
*
17968 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGAGTGCCACGAAGT
* * * *
18004 TGTGGGC-TTAAAAGAAAAAAGAGCGCCGCGAAAT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGAAGT
18038 TGTGGGCTTTAAAAGGA
1 TGTGGGCTTTAAAAGGA
18055 TGCCACAGAG
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
33 20 0.20
34 35 0.35
35 21 0.21
36 20 0.20
37 5 0.05
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGAAGT
Found at i:18014 original size:69 final size:69
Alignment explanation
Indices: 17898--18053 Score: 188
Period size: 70 Copynumber: 2.2 Consensus size: 69
17888 CACCGATTTG
** * * * *
17898 TGTGGGCTTTGAAAAAGGTTAAAAGATGCCACGAAGTTTTGGACTTAAAAGGAACAAG-GTGCCA
1 TGTGGGCTTT--AAAAGGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGAAAAAAGAGCGCCA
*
17962 CGAAGT
64 CGAAAT
* * *
17968 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGAGCGCCGC
1 TGTGGGCTTTAAAAGGGAAAAAGA-TGCCACGAAGTTGTGGACTTAAAAGAAAAAAGAGCGCCAC
18033 GAAAT
65 GAAAT
18038 TGTGGGCTTTAAAAGG
1 TGTGGGCTTTAAAAGG
18054 ATGCCACAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
68 12 0.16
69 27 0.36
70 35 0.47
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (69 bp):
TGTGGGCTTTAAAAGGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGAAAAAAGAGCGCCACG
AAAT
Found at i:19541 original size:1 final size:1
Alignment explanation
Indices: 19535--19583 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
19525 TTGTTGTTTG
* * * * *
19535 TTTTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19584 GTTGTGGAGG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:19551 original size:8 final size:8
Alignment explanation
Indices: 19528--19588 Score: 79
Period size: 8 Copynumber: 7.5 Consensus size: 8
19518 GTTATTGTTG
*
19528 TTGTTTGT
1 TTGTTTTT
19536 TT-TTTTT
1 TTGTTTTT
19543 TTGTTTTTT
1 TTG-TTTTT
19552 TTGTTTTT
1 TTGTTTTT
19560 TTGTTTTT
1 TTGTTTTT
19568 TTGTTTTTT
1 TTG-TTTTT
*
19577 TTGTTTTG
1 TTGTTTTT
19585 TTGT
1 TTGT
19589 GGAGGACGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
7 6 0.12
8 26 0.54
9 16 0.33
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTGTTTTT
Found at i:19551 original size:9 final size:9
Alignment explanation
Indices: 19537--19583 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
19527 GTTGTTTGTT
19537 TTTTTTTTG
1 TTTTTTTTG
19546 TTTTTTTTG
1 TTTTTTTTG
19555 -TTTTTTTG
1 TTTTTTTTG
19563 -TTTTTTTG
1 TTTTTTTTG
19571 TTTTTTTTG
1 TTTTTTTTG
19580 TTTT
1 TTTT
19584 GTTGTGGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.43
9 21 0.57
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:19560 original size:17 final size:17
Alignment explanation
Indices: 19537--19588 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
19527 GTTGTTTGTT
19537 TTTTTTTTGTTTTTTT-
1 TTTTTTTTGTTTTTTTG
19553 TGTTTTTTTGTTTTTTTG
1 T-TTTTTTTGTTTTTTTG
*
19571 TTTTTTTTGTTTTGTTG
1 TTTTTTTTGTTTTTTTG
19588 T
1 T
19589 GGAGGACGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTG
Found at i:19572 original size:25 final size:25
Alignment explanation
Indices: 19528--19588 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
19518 GTTATTGTTG
*
19528 TTGTTTGTTT-TTTTTTTGTTTTTT
1 TTGTTTTTTTGTTTTTTTGTTTTTT
19552 TTGTTTTTTTGTTTTTTTGTTTTTT
1 TTGTTTTTTTGTTTTTTTGTTTTTT
*
19577 TTGTTTTGTTGT
1 TTGTTTTTTTGT
19589 GGAGGACGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 9 0.26
25 25 0.74
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (25 bp):
TTGTTTTTTTGTTTTTTTGTTTTTT
Found at i:33439 original size:20 final size:20
Alignment explanation
Indices: 33414--33467 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
33404 ATTTGCCTGC
33414 ATGTATCGATACATTATAAA
1 ATGTATCGATACATTATAAA
33434 ATGTATCGATACATTATAAA
1 ATGTATCGATACATTATAAA
33454 ATGTATCGATACAT
1 ATGTATCGATACAT
33468 CTGGGCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTATAAA
Found at i:33481 original size:72 final size:72
Alignment explanation
Indices: 33364--33498 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
33354 TTATCTGCAG
*
33364 GTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATT
1 GTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATT
33429 ATAAAAT
66 ATAAAAT
*
33436 GTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAATTTGCCTGTATGTATCGATACA
1 GTATCGATACATT-TAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA
33499 AAGATCGGTG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
72 57 0.95
73 3 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (72 bp):
GTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATT
ATAAAAT
Found at i:33525 original size:13 final size:13
Alignment explanation
Indices: 33507--33531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33497 CAAAGATCGG
33507 TGTATCGATACAA
1 TGTATCGATACAA
33520 TGTATCGATACA
1 TGTATCGATACA
33532 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:33591 original size:13 final size:13
Alignment explanation
Indices: 33573--33599 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33563 AGTAGCTTAA
33573 ATTGTATCGATAC
1 ATTGTATCGATAC
33586 ATTGTATCGATAC
1 ATTGTATCGATAC
33599 A
1 A
33600 ACATTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:34512 original size:55 final size:52
Alignment explanation
Indices: 34413--34642 Score: 196
Period size: 55 Copynumber: 4.6 Consensus size: 52
34403 GAAAAGTGAT
* * * * * * **
34413 AAAGATACCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G--A
* *
34468 AAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
34520 AAAGGTGCCAATATGCTTATTCAAGGCCAGCTATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
34567 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
34613 -AAGATGCCAATATGCTAATTCAAGGCCAGC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGC
34643 GATATCGGGC
Statistics
Matches: 148, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
43 35 0.24
44 3 0.02
45 1 0.01
46 1 0.01
48 2 0.01
49 24 0.16
50 1 0.01
51 2 0.01
52 38 0.26
54 1 0.01
55 40 0.27
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (52 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:34547 original size:52 final size:50
Alignment explanation
Indices: 34413--34741 Score: 243
Period size: 43 Copynumber: 6.9 Consensus size: 50
34403 GAAAAGTGAT
* * * * * * *
34413 AAAGATACCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAG
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G
* * *
34465 AAAAAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 ---AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* * *
34519 AAAAGGTGCCAATATGCTTATTCAAGGCCAGCTATATTGGACTT-AA-A-G
1 -AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
34567 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * * *
34613 -AAGATGCCAATATGCTAATTCAAGGCCAGCGATATCGGGCTT-AA-A-G
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
34659 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
34698 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
34742 GAAGGGTTGC
Statistics
Matches: 226, Mismatches: 35, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.01
43 98 0.43
44 5 0.02
45 1 0.00
46 2 0.01
47 1 0.00
48 4 0.02
49 32 0.14
50 1 0.00
51 2 0.01
52 38 0.17
54 1 0.00
55 39 0.17
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:34585 original size:43 final size:43
Alignment explanation
Indices: 34520--34746 Score: 292
Period size: 43 Copynumber: 5.1 Consensus size: 43
34510 TAAAGATGGA
*
34520 AAAGGTGCCAATATGCTTATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
34563 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
34606 AAAGATGAAGATGCCAATATGCTAATTCAAGGCCAGCGATATCGGGCTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
34655 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
34698 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
34741 AGAAGG
1 A-AAGG
34747 GTTGCCACCG
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
43 112 0.71
44 6 0.04
45 1 0.01
46 2 0.01
47 1 0.01
48 3 0.02
49 32 0.20
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:34667 original size:92 final size:92
Alignment explanation
Indices: 34476--34746 Score: 392
Period size: 92 Copynumber: 3.0 Consensus size: 92
34466 AAAAAGATGT
* * *
34476 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTTATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTAATT
* *
34541 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCGATATCGGACTTAAAGGTGC
34571 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTAATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTAATTCAA
*
34636 GGCCAGCGATATCGGGCTTAAAGGTGC
66 GGCCAGCGATATCGGACTTAAAGGTGC
*
34663 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTAATTCAA
*
34722 GGCCAGCGATATTGGACTTAGAAGG
66 GGCCAGCGATATCGGACTTA-AAGG
34747 GTTGCCACCG
Statistics
Matches: 166, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
86 40 0.24
87 4 0.02
88 1 0.01
92 80 0.48
94 1 0.01
95 40 0.24
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTAATTCAA
GGCCAGCGATATCGGACTTAAAGGTGC
Found at i:34783 original size:33 final size:33
Alignment explanation
Indices: 34741--34869 Score: 190
Period size: 33 Copynumber: 3.9 Consensus size: 33
34731 TATTGGACTT
*
34741 AGAAGGGTTGCCACCGACTTGTGTAGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
34774 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
34807 A-AAGGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
34839 AAGAA-GGTTGCCACCGATTTGTGTGGGCTTT
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
34870 GAAAAAGGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 28 0.33
33 56 0.65
34 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:34818 original size:65 final size:65
Alignment explanation
Indices: 34739--34873 Score: 204
Period size: 65 Copynumber: 2.1 Consensus size: 65
34729 GATATTGGAC
*
34739 TTAG-AAGGGTTGCCACCGACTTGTGTAGGCTTTAG-AGAATGGTTGCCACCAACTTGTGTGGGC
1 TTAGAAAGGGTTGCCACCGACTTATGTAGGCTTTAGAAGAA-GGTTGCCACCAACTTGTGTGGGC
34802 T
65 T
* * *
34803 TTAGAAAGGGTTGCCACCGACTTATGTGGGCTTTAGAAGAAGGTTGCCACCGATTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTATGTAGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCT
34868 TT-GAAA
1 TTAGAAA
34874 AAGGTTAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
64 8 0.12
65 53 0.82
66 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (65 bp):
TTAGAAAGGGTTGCCACCGACTTATGTAGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCT
Found at i:34970 original size:69 final size:69
Alignment explanation
Indices: 34860--35016 Score: 199
Period size: 70 Copynumber: 2.2 Consensus size: 69
34850 CACCGATTTG
** * * *
34860 TGTGGGCTTTGAAAAAGGTTAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAACAAG-GTGCCA
1 TGTGGGCTTT--AAAAGGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGAAAAAAGAGCGCCA
*
34924 CGAAGT
64 CGAAAT
* * *
34930 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGAGCGCCGC
1 TGTGGGCTTTAAAAGGGAAAAAGA-TGCCACGAAGTTGTGGACTTAAAAGAAAAAAGAGCGCCAC
34995 GAAAT
65 GAAAT
35000 TGTGGGCTTTAAAAGGG
1 TGTGGGCTTTAAAAGGG
35017 TGCCACAGAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
68 12 0.16
69 28 0.37
70 36 0.47
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.20
Consensus pattern (69 bp):
TGTGGGCTTTAAAAGGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGAAAAAAGAGCGCCACG
AAAT
Found at i:35003 original size:34 final size:35
Alignment explanation
Indices: 34860--35015 Score: 176
Period size: 34 Copynumber: 4.5 Consensus size: 35
34850 CACCGATTTG
*
34860 TGTGGGCTTTGAAAAAGGTTAAAAGA-TGCCACGAAGT
1 TGTGGGCTTT--AAAAGG-AAAAAGAGTGCCACGAAGT
* *
34897 TGTGGAC-TTAAAAGGAACAAG-GTGCCACGAAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGAAGT
*
34930 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGAGTGCCACGAAGT
* * * *
34966 TGTGGGC-TTAAAAGAAAAAAGAGCGCCGCGAAAT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGAAGT
35000 TGTGGGCTTTAAAAGG
1 TGTGGGCTTTAAAAGG
35016 GTGCCACAGA
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
33 21 0.21
34 35 0.34
35 20 0.20
36 20 0.20
37 6 0.06
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGAAGT
Found at i:36503 original size:1 final size:1
Alignment explanation
Indices: 36497--36544 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
36487 TTGTTGTTTG
* * * * *
36497 TTTTTTTTTTGTTTTTTTTGTTTTTTGTTTTTTTGTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
36545 ATGTTTTGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:36508 original size:15 final size:16
Alignment explanation
Indices: 36475--36554 Score: 69
Period size: 15 Copynumber: 5.1 Consensus size: 16
36465 CTTTTTGTGG
36475 TTGTTGTTATTGTTGTTGT
1 TTGTT-TTATT-TT-TTGT
36494 TTGTTTT-TTTTTTGT
1 TTGTTTTATTTTTTGT
* *
36509 TTTTTTTGTTTTTTGT
1 TTGTTTTATTTTTTGT
*
36525 TT-TTTT-GTTTTT-T
1 TTGTTTTATTTTTTGT
*
36538 TTGTTTTATGTTTTGT
1 TTGTTTTATTTTTTGT
36554 T
1 T
36555 GTGGAGGACG
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
13 3 0.06
14 9 0.17
15 18 0.34
16 14 0.26
17 2 0.04
18 2 0.04
19 5 0.09
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (16 bp):
TTGTTTTATTTTTTGT
Found at i:36509 original size:27 final size:27
Alignment explanation
Indices: 36478--36530 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
36468 TTTGTGGTTG
36478 TTGTTATTGTTGTTGTTTGTTTTTTTT
1 TTGTTATTGTTGTTGTTTGTTTTTTTT
* * *
36505 TTGTTTTTTTTGTTTTTTGTTTTTTT
1 TTGTTATTGTTGTTGTTTGTTTTTTT
36531 GTTTTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (27 bp):
TTGTTATTGTTGTTGTTTGTTTTTTTT
Found at i:36511 original size:7 final size:7
Alignment explanation
Indices: 36487--36556 Score: 63
Period size: 7 Copynumber: 9.6 Consensus size: 7
36477 GTTGTTATTG
*
36487 TTGTTGT
1 TTGTTTT
36494 TTGTTTT
1 TTGTTTT
36501 TT-TTTT
1 TTGTTTT
36507 GTT-TTTT
1 -TTGTTTT
36514 TTGTTTT
1 TTGTTTT
36521 TTGTTTTT
1 TTG-TTTT
36529 TTGTTTTTT
1 TTG--TTTT
36538 TTGTTTT
1 TTGTTTT
*
36545 ATGTTTT
1 TTGTTTT
36552 GTTGT
1 -TTGT
36557 GGAGGACGCC
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
6 6 0.11
7 31 0.56
8 10 0.18
9 8 0.15
ACGTcount: A:0.01, C:0.00, G:0.16, T:0.83
Consensus pattern (7 bp):
TTGTTTT
Found at i:36513 original size:9 final size:9
Alignment explanation
Indices: 36499--36544 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
36489 GTTGTTTGTT
36499 TTTTTTTTG
1 TTTTTTTTG
36508 TTTTTTTTG
1 TTTTTTTTG
36517 --TTTTTTG
1 TTTTTTTTG
36524 -TTTTTTTG
1 TTTTTTTTG
36532 TTTTTTTTG
1 TTTTTTTTG
36541 TTTT
1 TTTT
36545 ATGTTTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.20
8 7 0.20
9 21 0.60
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:36522 original size:16 final size:16
Alignment explanation
Indices: 36490--36556 Score: 77
Period size: 15 Copynumber: 4.2 Consensus size: 16
36480 GTTATTGTTG
*
36490 TTGTTTGTTTT-TTTT
1 TTGTTTTTTTTGTTTT
36505 TTGTTTTTTTTGTTTT
1 TTGTTTTTTTTGTTTT
36521 TTG-TTTTTTTGTTTT
1 TTGTTTTTTTTGTTTT
*
36536 TT-TTGTTTTATGTTTT
1 TTGTT-TTTTTTGTTTT
36552 GTTGT
1 -TTGT
36557 GGAGGACGCC
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
15 25 0.56
16 17 0.38
17 2 0.04
18 1 0.02
ACGTcount: A:0.01, C:0.00, G:0.15, T:0.84
Consensus pattern (16 bp):
TTGTTTTTTTTGTTTT
Found at i:36527 original size:24 final size:24
Alignment explanation
Indices: 36490--36556 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
36480 GTTATTGTTG
36490 TTGTTTGTTT-TTTTTTTGTTTTTT
1 TTGTTT-TTTGTTTTTTTGTTTTTT
36514 TTGTTTTTTGTTTTTTTGTTTTTT
1 TTGTTTTTTGTTTTTTTGTTTTTT
* *
36538 TTGTTTTATGTTTTGTTGT
1 TTGTTTTTTGTTTTTTTGT
36557 GGAGGACGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 3 0.08
24 37 0.93
ACGTcount: A:0.01, C:0.00, G:0.15, T:0.84
Consensus pattern (24 bp):
TTGTTTTTTGTTTTTTTGTTTTTT
Found at i:36538 original size:27 final size:27
Alignment explanation
Indices: 36478--36551 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 27
36468 TTTGTGGTTG
* *
36478 TTGTTATTGTTGTTGTTTGTTTTTTTT
1 TTGTTTTTTTTGTTGTTTGTTTTTTTT
*
36505 TTGTTTTTTTTG-T-TTT-TTGTTTTT
1 TTGTTTTTTTTGTTGTTTGTTTTTTTT
36529 TTGTTTTTTTTGTT-TTATGTTTT
1 TTGTTTTTTTTGTTGTT-TGTTTT
36552 GTTGTGGAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 19 0.47
25 6 0.15
26 2 0.05
27 13 0.32
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (27 bp):
TTGTTTTTTTTGTTGTTTGTTTTTTTT
Found at i:48911 original size:52 final size:52
Alignment explanation
Indices: 48841--48961 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
48831 GAAAATTTAT
* *
48841 CTGCAGGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
* *
48893 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
48945 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
48962 AAATCGGTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
Found at i:48987 original size:13 final size:13
Alignment explanation
Indices: 48969--48993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48959 ACAAAATCGG
48969 TGTATCGATACAA
1 TGTATCGATACAA
48982 TGTATCGATACA
1 TGTATCGATACA
48994 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49077 original size:13 final size:13
Alignment explanation
Indices: 49059--49083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49049 AAAAAAAATA
49059 TGTATCGATACAT
1 TGTATCGATACAT
49072 TGTATCGATACA
1 TGTATCGATACA
49084 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:51279 original size:13 final size:13
Alignment explanation
Indices: 51261--51287 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51251 ATAGTAACCC
51261 ATGTATCGATACA
1 ATGTATCGATACA
51274 ATGTATCGATACA
1 ATGTATCGATACA
51287 A
1 A
51288 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:51346 original size:20 final size:21
Alignment explanation
Indices: 51316--51354 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
51306 ATTTGGGTTT
51316 TTCAGATGTATCGATACATGC
1 TTCAGATGTATCGATACATGC
51337 TTCA-ATGTATCGATACAT
1 TTCAGATGTATCGATACAT
51355 TCTGAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (21 bp):
TTCAGATGTATCGATACATGC
Found at i:53252 original size:13 final size:13
Alignment explanation
Indices: 53234--53259 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53224 TACACCAAGT
53234 ATGTATCGATACA
1 ATGTATCGATACA
53247 ATGTATCGATACA
1 ATGTATCGATACA
53260 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:53257 original size:32 final size:33
Alignment explanation
Indices: 53216--53279 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
53206 TAGCCAAACT
**
53216 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
53248 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
53280 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:55512 original size:21 final size:21
Alignment explanation
Indices: 55479--55528 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
55469 TTGCAAGTTG
*
55479 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
55501 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
55522 AAATAAA
1 AAATAAA
55529 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:59304 original size:13 final size:13
Alignment explanation
Indices: 59286--59311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59276 CAATTTTTTG
59286 TGTATCGATACAT
1 TGTATCGATACAT
59299 TGTATCGATACAT
1 TGTATCGATACAT
59312 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:59487 original size:20 final size:20
Alignment explanation
Indices: 59462--59511 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
59452 GTCAACCTTA
59462 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
59482 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
59502 ATGTATCGAT
1 ATGTATCGAT
59512 GCTTTGATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAAATACCT
Found at i:60080 original size:21 final size:21
Alignment explanation
Indices: 60039--60082 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60029 CTCCCCTTTA
* *
60039 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
60060 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
60081 TC
1 TC
60083 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:61903 original size:13 final size:13
Alignment explanation
Indices: 61885--61923 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
61875 ATAATCATCC
61885 TGTATCGATACAA
1 TGTATCGATACAA
61898 TGTATCGATACAA
1 TGTATCGATACAA
61911 TGTATCGATACAA
1 TGTATCGATACAA
61924 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:64022 original size:15 final size:15
Alignment explanation
Indices: 64002--64032 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63992 ATTTCGTTTG
*
64002 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
64017 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
64032 G
1 G
64033 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:65866 original size:21 final size:21
Alignment explanation
Indices: 65837--65881 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
65827 AAGTTTTCAT
*
65837 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
65857 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
65879 TTT
1 TTT
65882 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:68115 original size:13 final size:13
Alignment explanation
Indices: 68097--68122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68087 CAATTTTTTG
68097 TGTATCGATACAT
1 TGTATCGATACAT
68110 TGTATCGATACAT
1 TGTATCGATACAT
68123 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:69404 original size:13 final size:13
Alignment explanation
Indices: 69386--69422 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
69376 ACATTTTTCT
69386 TTGTATCGATACA
1 TTGTATCGATACA
69399 TTGTATCGATACA
1 TTGTATCGATACA
69412 TTGTATCGATA
1 TTGTATCGATA
69423 TAGGGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:69588 original size:20 final size:20
Alignment explanation
Indices: 69545--69590 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
69535 AAATCTTTTG
69545 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
69566 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
69586 CAAAA
1 CAAAA
69591 CCAACATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:71992 original size:13 final size:13
Alignment explanation
Indices: 71974--71999 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71964 TACACCAAGT
71974 ATGTATCGATACA
1 ATGTATCGATACA
71987 ATGTATCGATACA
1 ATGTATCGATACA
72000 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:71997 original size:32 final size:33
Alignment explanation
Indices: 71956--72019 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
71946 TAGCCAAACT
**
71956 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
71988 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
72020 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:77308 original size:33 final size:33
Alignment explanation
Indices: 77268--77336 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
77258 TCATTACAAG
*
77268 CAATGTATCAATACAATT-CATCATGTATCGATA
1 CAATGTATCAATAC-ATTGCACCATGTATCGATA
*
77301 CAATGTATCAATACATTGTACCATGTATCGATA
1 CAATGTATCAATACATTGCACCATGTATCGATA
77334 CAA
1 CAA
77337 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (33 bp):
CAATGTATCAATACATTGCACCATGTATCGATA
Found at i:77404 original size:13 final size:13
Alignment explanation
Indices: 77386--77412 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77376 ACAATTGTCC
77386 ATGTATCGATACA
1 ATGTATCGATACA
77399 ATGTATCGATACA
1 ATGTATCGATACA
77412 A
1 A
77413 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:80769 original size:19 final size:18
Alignment explanation
Indices: 80744--80811 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
80734 AATTCAACGA
80744 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
80762 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
80778 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
80794 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
80812 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
18 1 0.02
19 26 0.63
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:80787 original size:32 final size:32
Alignment explanation
Indices: 80746--80808 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
80736 TTCAACGATT
*
80746 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTATTGTATCAATACAA
*
80778 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCAATACA
80809 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCAATACAA
Found at i:80914 original size:52 final size:52
Alignment explanation
Indices: 80872--81000 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
80862 CACTGATCTT
*
80872 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
80924 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
80976 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
81001 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:83153 original size:24 final size:26
Alignment explanation
Indices: 83126--83179 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
83116 TCAAAATTTT
83126 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
83150 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
83177 ATT
1 ATT
83180 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:92307 original size:33 final size:33
Alignment explanation
Indices: 92265--92341 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
92255 CTTTGATGTT
92265 TCGATACATTGTATCGAAACAT-AGGACATTGTA
1 TCGATACATTGTATCGAAACATGAGGA-ATTGTA
* * *
92298 TCGATACATTGTATTGATACATGATGAATTGTA
1 TCGATACATTGTATCGAAACATGAGGAATTGTA
92331 TCGATACATTG
1 TCGATACATTG
92342 CTAATAACGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 37 0.93
34 3 0.08
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (33 bp):
TCGATACATTGTATCGAAACATGAGGAATTGTA
Found at i:92308 original size:13 final size:13
Alignment explanation
Indices: 92290--92341 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
92280 GAAACATAGG
92290 ACATTGTATCGAT
1 ACATTGTATCGAT
*
92303 ACATTGTATTGAT
1 ACATTGTATCGAT
92316 ACA-TG-AT-G--
1 ACATTGTATCGAT
92324 A-ATTGTATCGAT
1 ACATTGTATCGAT
92336 ACATTG
1 ACATTG
92342 CTAATAACGG
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 19 0.59
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:94575 original size:21 final size:20
Alignment explanation
Indices: 94541--94583 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
94531 TATTAAAAAG
*
94541 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
94562 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
94582 TT
1 TT
94584 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:94582 original size:20 final size:21
Alignment explanation
Indices: 94541--94583 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
94531 TATTAAAAAG
*
94541 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
94562 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
94582 TT
1 TT
94584 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:96649 original size:13 final size:13
Alignment explanation
Indices: 96630--96668 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
96620 ACTATTTATG
96630 ATGTATCGATACA
1 ATGTATCGATACA
*
96643 CTGTATCGATACA
1 ATGTATCGATACA
96656 ATGTATCGATACA
1 ATGTATCGATACA
96669 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:96825 original size:53 final size:53
Alignment explanation
Indices: 96759--96895 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
96749 CTACTACCAA
*
96759 TGTATTGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
*
96812 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
96865 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
96896 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
Found at i:96928 original size:20 final size:20
Alignment explanation
Indices: 96865--96935 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
96855 GCCAATGTCC
**
96865 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
96885 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
96905 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
96925 TGTATCGATAC
1 TGTATCGATAC
96936 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:97005 original size:20 final size:20
Alignment explanation
Indices: 96976--97014 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
96966 TCAACCTTGT
96976 GTATTAATACCAATA-GTATA
1 GTATTAATA-CAATACGTATA
*
96996 GTATTGATACAATACGTAT
1 GTATTAATACAATACGTAT
97015 TTTTACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (20 bp):
GTATTAATACAATACGTATA
Found at i:99886 original size:13 final size:13
Alignment explanation
Indices: 99868--99894 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99858 ACAACATTCC
99868 TTGTATCGATACA
1 TTGTATCGATACA
99881 TTGTATCGATACA
1 TTGTATCGATACA
99894 T
1 T
99895 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:102557 original size:32 final size:32
Alignment explanation
Indices: 102520--102582 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
102510 TAGGATATTG
102520 TATCGATACATTGTTTCAATACATGATGAATT
1 TATCGATACATTGTTTCAATACATGATGAATT
102552 TATCGATACATTGTTTCAATACATGATGAAT
1 TATCGATACATTGTTTCAATACATGATGAAT
102583 AACGGCTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (32 bp):
TATCGATACATTGTTTCAATACATGATGAATT
Found at i:105766 original size:20 final size:21
Alignment explanation
Indices: 105737--105776 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
105727 GAGGTGTTAG
105737 ACATACTAAAA-ATGCATGAA
1 ACATACTAAAATATGCATGAA
*
105757 ACATAGTAAAATATGCATGA
1 ACATACTAAAATATGCATGA
105777 TTCAGGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
ACATACTAAAATATGCATGAA
Found at i:106721 original size:20 final size:19
Alignment explanation
Indices: 106673--106731 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
106663 AAAAACCTAG
106673 AATGTATCGATACAATTGTAA
1 AATGTATCGATAC-ATT-TAA
*
106694 ACATGTATCGATACATTTAGT
1 A-ATGTATCGATACATTTA-A
*
106715 AATGTATTGATACATTT
1 AATGTATCGATACATTT
106732 CCTTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 17 0.50
21 5 0.15
22 12 0.35
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (19 bp):
AATGTATCGATACATTTAA
Found at i:114154 original size:51 final size:51
Alignment explanation
Indices: 114057--114176 Score: 125
Period size: 51 Copynumber: 2.4 Consensus size: 51
114047 TCGAAGATAG
* * * *
114057 CGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGC
* ** * *
114108 CGGGGTTGGAGTATCCTCGATTGTGGGAAATCAATA-TTTTGAAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAG-AAATAAAGC
* *
114159 CAGGGTTGGAGCATCCCC
1 CGGGGTTGGAGTATCCCC
114177 TCAGAAATAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 4 0.07
51 52 0.93
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGC
Found at i:114165 original size:130 final size:130
Alignment explanation
Indices: 113981--114498 Score: 553
Period size: 130 Copynumber: 4.0 Consensus size: 130
113971 GAAATAACAA
* * * * * *
113981 GGTTGGAGCATCCCTGATTATAGAAAATTAACATTTT-GAAAATAAAATCAG-GGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGATATTTTAG-AAATAAAATCAGAGGTTGGAGTATC
* * * * **
114044 CCCTCGAAGATAGCGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCC
65 CCCTCGAA-ATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACC
114109 GG
129 GG
* * ** * *
114111 GGTTGGAGTATCCTCGATTGTGGGAAATCAATATTTT-GAAAATAAAGTCAG-GGTTGGAGCATC
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGATATTTTAG-AAATAAAATCAGAGGTTGGAGTATC
* * *
114174 CCCTCAGAAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC
65 CCCTC-GAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACC
114239 GG
129 GG
* * * * *
114241 AGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAACTAAAACCAGAGAGTTAGAGTATC
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGATATTTTAGAAATAAAATCAGAG-GTTGGAGTATC
* * * * *
114306 CTCTTGGAAATAAC-GAGGTTAGAGTATCCCCGATGGTGAAAAATTGGTGTTTTGGAAATAAAAC
65 C-CCTCGAAATAACAG-GGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAC
114370 CGG
128 CGG
* * * *
114373 GGTTGAAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAA-CCGAGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGATATTTTAGAAATAAAATCAGAGGTTGGAGTATCC
* * * * * *
114437 CCTCAAAAACAACAGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
66 CCTC-GAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA
114499 ACATGAATGA
Statistics
Matches: 327, Mismatches: 53, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
129 2 0.01
130 208 0.64
131 11 0.03
132 104 0.32
133 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (130 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTGATATTTTAGAAATAAAATCAGAGGTTGGAGTATCC
CCTCGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGG
Found at i:114246 original size:79 final size:79
Alignment explanation
Indices: 114110--114255 Score: 188
Period size: 79 Copynumber: 1.8 Consensus size: 79
114100 AATAAGGCCG
* ** *
114110 GGGTTGGAGTATCCTCGATTGTGGGAAATCAATATTTTGAAAATAAAGTCAGGGTTGGAGCATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTGAAAATAAAATCAGGGTTGGAGCATCC
114175 CCTCAGAAATAATA
66 CCTCAGAAATAATA
** * *
114189 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT-AGAAATAAAATC-GGAGTTGGAGTAT
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTGA-AAATAAAATCAGG-GTTGGAGCAT
114252 CCCC
64 CCCC
114256 GATTGTGGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
78 3 0.05
79 54 0.95
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTGAAAATAAAATCAGGGTTGGAGCATCC
CCTCAGAAATAATA
Found at i:114252 original size:51 final size:53
Alignment explanation
Indices: 114191--114306 Score: 182
Period size: 51 Copynumber: 2.2 Consensus size: 53
114181 AAATAATAGG
*
114191 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATC-G-GA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGAGA
* *
114242 GTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAACTAAAACCAGAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGAGA
*
114295 GTTAGAGTATCC
1 GTTGGAGTATCC
114307 TCTTGGAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 45 0.76
52 1 0.02
53 13 0.22
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGAGA
Found at i:114388 original size:51 final size:51
Alignment explanation
Indices: 114319--114438 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
114309 TTGGAAATAA
* * * *
114319 CGAGGTT-AGAGTATCCCCGATGGTGAAAAATTGGTGTTTTGGAAATAAAAC
1 CGAGGTTGA-AGTATCCCCGATGATGAAAAATTGATATTTTAGAAATAAAAC
* *
114370 CGGGGTTGAAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
1 CGAGGTTGAAGTATCCCCGATGATGAAAAATTGATATTTTAGAAATAAAAC
*
114421 CGAGGTTGGAGTATCCCC
1 CGAGGTTGAAGTATCCCC
114439 TCAAAAACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
CGAGGTTGAAGTATCCCCGATGATGAAAAATTGATATTTTAGAAATAAAAC
Found at i:116867 original size:20 final size:20
Alignment explanation
Indices: 116858--116912 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
116848 TACATTGCAA
* *
116858 AATGTATCGATACAATGAAT
1 AATGTATCAATACAATGAAC
116878 AATGTATCAATACAATGAAC
1 AATGTATCAATACAATGAAC
116898 AATGTATCAATACAA
1 AATGTATCAATACAA
116913 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (20 bp):
AATGTATCAATACAATGAAC
Found at i:117345 original size:23 final size:23
Alignment explanation
Indices: 117319--117369 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
117309 GTCATCGATT
*
117319 ATCTTAAAATAATTGAGTCGACA
1 ATCTTAAAATAATCGAGTCGACA
* *
117342 ATCTTGAAATAATCGAGTCGATA
1 ATCTTAAAATAATCGAGTCGACA
117365 ATCTT
1 ATCTT
117370 CGAGACCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (23 bp):
ATCTTAAAATAATCGAGTCGACA
Found at i:117645 original size:103 final size:103
Alignment explanation
Indices: 117498--117699 Score: 277
Period size: 103 Copynumber: 2.0 Consensus size: 103
117488 AAAAGATGGG
* *
117498 GTTGGAGTATCCCCGTGAATGACAAATAGTTTTGACAAAGGAAAAGTT-CAAGTCTTGACAAATT
1 GTTGGAGTATCCCCATGAATGACAAATAGTTTTGACAAAAGAAAAGTTCCAA-TCTTGACAAATT
*
117562 TT-GAAGAGTAGGCTTGGAGTATCTACTCGAAAGGTCAGA
65 TTAG-AGAGCAGGCTTGGAGTATCTACTCGAAAGGTCAGA
*
117601 GTTGGAGTATCCTCATAGAA-GACAAAT-GATTTTGACAAAAGAAAAGTTCCAATCTTGACAAAT
1 GTTGGAGTATCCCCAT-GAATGACAAATAG-TTTTGACAAAAGAAAAGTTCCAATCTTGACAAAT
* * *
117664 TTTAGAGAGCGGGGTTGGAGTATCTCCTCGAAAGGT
64 TTTAGAGAGCAGGCTTGGAGTATCTACTCGAAAGGT
117700 TGGGGTTAGA
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
102 1 0.01
103 80 0.91
104 7 0.08
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (103 bp):
GTTGGAGTATCCCCATGAATGACAAATAGTTTTGACAAAAGAAAAGTTCCAATCTTGACAAATTT
TAGAGAGCAGGCTTGGAGTATCTACTCGAAAGGTCAGA
Found at i:120147 original size:20 final size:20
Alignment explanation
Indices: 120081--120153 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
120071 AAAATCCAAA
* * *
120081 ATGTATCGATACAATAAATG
1 ATGTATCGATACATTCAATC
* *
120101 ATGTATCGATACAGTGCAAGC
1 ATGTATCGATACA-TTCAATC
* *
120122 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCAATC
*
120142 ATGTATTGATAC
1 ATGTATCGATAC
120154 CAGTTGTTCA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTCAATC
Found at i:121363 original size:18 final size:19
Alignment explanation
Indices: 121322--121370 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
121312 TTTGTTTCCC
121322 TTTTTTT-CTTCATTCCTT
1 TTTTTTTCCTTCATTCCTT
*
121340 TTTTTTTCCTTC-TTCTTT
1 TTTTTTTCCTTCATTCCTT
121358 TCTTTTGTTCCTT
1 T-TTTT-TTCCTT
121371 TTCTTCTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 13 0.48
19 8 0.30
20 6 0.22
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTTCCTTCATTCCTT
Found at i:121978 original size:12 final size:13
Alignment explanation
Indices: 121961--121990 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
121951 ATGTTGATGG
121961 TTTTTA-TTTGTA
1 TTTTTATTTTGTA
121973 TTTTTATTTTGTA
1 TTTTTATTTTGTA
121986 TTTTT
1 TTTTT
121991 TAATTATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTGTA
Found at i:129282 original size:244 final size:244
Alignment explanation
Indices: 128846--129336 Score: 937
Period size: 244 Copynumber: 2.0 Consensus size: 244
128836 CATTGTGACA
*
128846 ACTTGGTGACTTCACTAGGGATTTTGAAAAAAAAAATGTGAGAGAGTTAAGCCTTCAATTAGAAA
1 ACTTGGCGACTTCACTAGGGATTTTGAAAAAAAAAATGTGAGAGAGTTAAGCCTTCAATTAGAAA
*
128911 TGTTTTGACTGGTCATTGGTTTCTTCAGTTTTGGTCATTATTTAACTATAACCCCTTTTTTCGTT
66 TGTTTTGACTGGTCATTGGTTTCTTCAGTTTTGGTCATTATTTAAATATAACCCCTTTTTTCGTT
*
128976 TTGTCAAATAATATTTTGTTTGTTATGATTGTTAGGATCATTTATTTTTGAATAATCATCAATTT
131 TTGTCAAATAATATTTTGTTTGTTATGATTGTTAAGATCATTTATTTTTGAATAATCATCAATTT
129041 AATAAAAATGGTAATACGAGAGTAAGCAAAAACTGTTTCCCCAACACAT
196 AATAAAAATGGTAATACGAGAGTAAGCAAAAACTGTTTCCCCAACACAT
129090 ACTTGGCGACTTCACTAGGGATTTTGAAAAAAAAAATGTGAGAGAGTTAAGCCTTCAATTAGAAA
1 ACTTGGCGACTTCACTAGGGATTTTGAAAAAAAAAATGTGAGAGAGTTAAGCCTTCAATTAGAAA
129155 TGTTTTGACTGGTCATTGGTTTCTTCAGTTTTGGTCATTATTTAAATATAACCCCTTTTTTCGTT
66 TGTTTTGACTGGTCATTGGTTTCTTCAGTTTTGGTCATTATTTAAATATAACCCCTTTTTTCGTT
*
129220 TTGTCAACTAATATTTTGTTTGTTATGATTGTTAAGATCATTTATTTTTGAATAATCATCAATTT
131 TTGTCAAATAATATTTTGTTTGTTATGATTGTTAAGATCATTTATTTTTGAATAATCATCAATTT
*
129285 AATAAAAATGGTAATACGAGAGTAAGCAAAAACTGTTTCCCTAACACAT
196 AATAAAAATGGTAATACGAGAGTAAGCAAAAACTGTTTCCCCAACACAT
129334 ACT
1 ACT
129337 GTGCACTTAC
Statistics
Matches: 242, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
244 242 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (244 bp):
ACTTGGCGACTTCACTAGGGATTTTGAAAAAAAAAATGTGAGAGAGTTAAGCCTTCAATTAGAAA
TGTTTTGACTGGTCATTGGTTTCTTCAGTTTTGGTCATTATTTAAATATAACCCCTTTTTTCGTT
TTGTCAAATAATATTTTGTTTGTTATGATTGTTAAGATCATTTATTTTTGAATAATCATCAATTT
AATAAAAATGGTAATACGAGAGTAAGCAAAAACTGTTTCCCCAACACAT
Found at i:134853 original size:34 final size:34
Alignment explanation
Indices: 134814--134886 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
134804 CCCTCTTTTC
* ** *
134814 TTAAAGTCCATACAAGTTGGTGGCATAACCCTTT
1 TTAAAGTCAATACAAGTCAGTGGCACAACCCTTT
* *
134848 TTAAAGTCAATGCAAGTCAGTGGCACAATCCTTT
1 TTAAAGTCAATACAAGTCAGTGGCACAACCCTTT
134882 TTAAA
1 TTAAA
134887 AAGCCCACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (34 bp):
TTAAAGTCAATACAAGTCAGTGGCACAACCCTTT
Found at i:134947 original size:31 final size:31
Alignment explanation
Indices: 134898--135004 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
134888 AGCCCACATG
* * *
134898 AGTTGGTGGTAACCTTTTCAAAATCCACACA
1 AGTTAGTGGCAACATTTTCAAAATCCACACA
* * **
134929 AGTTAGTGGCATCATTTTCAAAGTCCACGTA
1 AGTTAGTGGCAACATTTTCAAAATCCACACA
* * * * *
134960 AATTGGTGGTAACCTTTTCAAAAGTCCACACG
1 AGTTAGTGGCAACATTTTCAAAA-TCCACACA
*
134992 AGTTTGTGGCAAC
1 AGTTAGTGGCAAC
135005 CTCTTTTTAA
Statistics
Matches: 56, Mismatches: 19, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
31 41 0.73
32 15 0.27
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (31 bp):
AGTTAGTGGCAACATTTTCAAAATCCACACA
Found at i:134987 original size:32 final size:32
Alignment explanation
Indices: 134900--134990 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 32
134890 CCCACATGAG
*
134900 TTGGTGGTAACCTTTTCAAAA-TCCACACAAG
1 TTGGTGGTAACCTTTTCAAAAGTCCACACAAA
* * * * **
134931 TTAGTGGCATCATTTTC-AAAGTCCACGTAAA
1 TTGGTGGTAACCTTTTCAAAAGTCCACACAAA
134962 TTGGTGGTAACCTTTTCAAAAGTCCACAC
1 TTGGTGGTAACCTTTTCAAAAGTCCACAC
134991 GAGTTTGTGG
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
30 3 0.07
31 33 0.73
32 9 0.20
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (32 bp):
TTGGTGGTAACCTTTTCAAAAGTCCACACAAA
Found at i:135006 original size:32 final size:32
Alignment explanation
Indices: 134880--135130 Score: 161
Period size: 32 Copynumber: 7.9 Consensus size: 32
134870 GCACAATCCT
* * * *
134880 TTTTAAAAAGCCCACATGAGTTGGTGGTAACC
1 TTTTCAAAAGTCCACACGAGTTGGTGGCAACC
* * * *
134912 TTTTCAAAA-TCCACACAAGTTAGTGGCATCA
1 TTTTCAAAAGTCCACACGAGTTGGTGGCAACC
*** * *
134943 TTTTC-AAAGTCCACGTAAATTGGTGGTAACC
1 TTTTCAAAAGTCCACACGAGTTGGTGGCAACC
*
134974 TTTTCAAAAGTCCACACGAGTTTGTGGCAACC
1 TTTTCAAAAGTCCACACGAGTTGGTGGCAACC
** * ** *
135006 TCTTT-TTAAGCCCACAATAGTTGGTGGTAACC
1 T-TTTCAAAAGTCCACACGAGTTGGTGGCAACC
** * * * *
135038 TCTTT-TTAAGCCCACATGAGTTAGTGGCAACG
1 T-TTTCAAAAGTCCACACGAGTTGGTGGCAACC
*
135070 TTTTCAAAAATCCACACGAGTTGGTGGCAACC
1 TTTTCAAAAGTCCACACGAGTTGGTGGCAACC
* ** *
135102 TCTTCTTAAG-CCTACACAAGTTGGTGGCA
1 TTTTCAAAAGTCC-ACACGAGTTGGTGGCA
135131 CTTTTTTTAC
Statistics
Matches: 169, Mismatches: 45, Indels: 10
0.75 0.20 0.04
Matches are distributed among these distances:
30 3 0.02
31 45 0.27
32 118 0.70
33 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (32 bp):
TTTTCAAAAGTCCACACGAGTTGGTGGCAACC
Found at i:135469 original size:28 final size:28
Alignment explanation
Indices: 135434--135490 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
135424 ATCATTTCTC
** * *
135434 AAAGCCCACATGAGCTGGTGGCACTCAA
1 AAAGCCCACACAAGCAGGTAGCACTCAA
135462 AAAGCCCACACAAGCAGGTAGCACTCAA
1 AAAGCCCACACAAGCAGGTAGCACTCAA
135490 A
1 A
135491 CTTTTCTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.30, G:0.21, T:0.11
Consensus pattern (28 bp):
AAAGCCCACACAAGCAGGTAGCACTCAA
Found at i:135767 original size:52 final size:52
Alignment explanation
Indices: 135643--136756 Score: 602
Period size: 52 Copynumber: 21.5 Consensus size: 52
135633 TCTCAAGATT
* * * * *
135643 AATGTCGCTGG-CTATGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCC
1 AATGTCGCTGGCCTTTG-ATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
** * * * * *
135695 AAAATCACTAGCCTTGGATCAGCACATTAGCACCTTTGTTATTTTTAAGACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * *
135747 AATGTGGCTGGCTTTTGATCAGCATATTGGCACCTTTATCATTTATAAAACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * * *
135799 AATGTCGCTGGTC-TTGAATCAGTACATTGGCACCCTTATCATCTTGAAGACT
1 AATGTCGCTGGCCTTTG-ATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* ** * * * * * * *
135851 AATGTCGTTGG-CAATGAATCAACACATTGGCACTTTTATTATATTTAAGTCT
1 AATGTCGCTGGCCTTTG-ATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * *
135903 AATATCGCTGGCCTTGGAACAGCATATTGGCACCTTTGTCATTTATAAAACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * *
135955 AATGTCGCTGGCTTTTGATCAGCACATTGCCATCTTTGGT-ATCTCTAAGACT
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTT-GTCATTTTTAAGACC
* * * * * * * * * *
136007 AATGTCGCTAGCCTTTGATCAGTATATTAGCATGC-TTATAATCTTTAAAACT
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCA-CCTTTGTCATTTTTAAGACC
* * * * * * **
136059 AATGTCGTTGGCC-ATGAATTAGCACATTGGCACCTTTATCATATTAAAGTTC
1 AATGTCGCTGGCCTTTG-ATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * * ** *
136111 AATATTGCTAGCCTTGGATTC-GTATATTGGCATTTTTGTCATTTCTAAGACC
1 AATGTCGCTGGCCTTTGA-TCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * *
136163 AATGTCGCTGGCCTTGGATCAGCACATTGACA-CTTTGTCATTTTTTAGACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * * * *
136214 AATATCACTGG-CTTTCAATCAGCACATTAGCACATTTGTCATCTCTAAAACC
1 AATGTCGCTGGCCTTT-GATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * *
136266 AATGTCGCTGG-TTTTGAATCAGCGCATTGGCACCCTTATCTTTTTTAAAACC
1 AATGTCGCTGGCCTTTG-ATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
** * ** * *
136318 AATGTCATTGGCC-ATGAATCAGCACATTGGCACCTTCATCATATTTAAGTCC
1 AATGTCGCTGGCCTTTG-ATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * * *
136370 AATAT-GCTAGCCTTGGATCAGTATATTGGCACTTTTGTCATTTCTAAGACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* * * * * * *
136421 AATGTCACTAGCTTTTGATCAGCTCATTGGCATCATTGTCATTTCTAAGACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
** * * * * * *
136473 AATGTCATTGGCCTTCGATCAGCACATT-GCTACCTTTGCCATCTCTAAAACT
1 AATGTCGCTGGCCTTTGATCAGCACATTGGC-ACCTTTGTCATTTTTAAGACC
* * ** * * * * * *
136525 AATGTCGTTAGCCTTCAATCAACACATTGGCACCCTTATCATCTTGAAGACT
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* ** * ** * *
136577 AATGTTGCTGG-CAATGAATCAGAACATTGAAACCTTTATCATATTTAA-ATCC
1 AATGTCGCTGGCCTTTG-ATCAGCACATTGGCACCTTTGTCATTTTTAAGA-CC
* * * * * *
136629 AATATCGCTGGCCTTGGATCATCACATTAGCACCTTTGTCATTTCTAAAACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* ** * * * ** *
136681 AATGCCATTGGCCCTCGATTAGCACATTTCCACCTTTGTCATTTCTAAGACC
1 AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
* **
136733 AATGTCGCTAGCCTTCAATCAGCA
1 AATGTCGCTGGCCTTTGATCAGCA
136757 TTGTAGATAC
Statistics
Matches: 789, Mismatches: 249, Indels: 48
0.73 0.23 0.04
Matches are distributed among these distances:
50 3 0.00
51 87 0.11
52 684 0.87
53 15 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (52 bp):
AATGTCGCTGGCCTTTGATCAGCACATTGGCACCTTTGTCATTTTTAAGACC
Found at i:136315 original size:259 final size:258
Alignment explanation
Indices: 135643--136756 Score: 936
Period size: 260 Copynumber: 4.3 Consensus size: 258
135633 TCTCAAGATT
* * * * * ** *
135643 AATGTCGCTGG-CTATGAATCAGCATATTGGCACCTTTATCATCTT-TAAGTCCAAAATCACTAG
1 AATGTCACTGGCCT-TGGATCAGCACATTGGCACCTTTGTCAT-TTCTAAGACCAATGTCACTGG
** * * * * * * *
135706 CCTTGGATCAGCACATTAGCACCTTTGTTATTTTTAAGACCAATGTGGCTGGCTTTTG-ATCAGC
64 CCTTCAATCAGCACATT-GCACATTTGTCATCTCTAAAACTAATGTCGCTGGC-TTTGAATCAGC
* * * * * * * *
135770 ATATTGGCACCTTTATCAT-TTATAAAACCAATGTCGCTGGTCTTGAATCAGTACATTGGCACCC
127 ACATTGGCACCCTTATCATCTT-TAAAACTAATGTCGTTGGCCATGAATCAGCACATTGGCACCT
* * * * * * * * ** * ** * * *
135834 TTATCATCTTGAAGACTAATGTCGTTGGCAATGAATCAACACATTGGCACTTTTATTATATT-TA
191 TTATCATATTAAAGTCCAATATTGCTAGCCTTGGATC-GTATATTGGCACTTTTGTCAT-TTCTA
* *
135898 AGTCT
254 AGACC
* * * * * * * *
135903 AATATCGCTGGCCTTGGAACAGCATATTGGCACCTTTGTCATTTATAAAACCAATGTCGCTGGCT
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATTTCTAAGACCAATGTCACTGGCC
** * * *
135968 TTTGATCAGCACATTGC-CATCTTTGGT-ATCTCTAAGACTAATGTCGCTAGCCTTTG-ATCAGT
66 TTCAATCAGCACATTGCACA--TTT-GTCATCTCTAAAACTAATGTCGCT-GGCTTTGAATCAGC
* * ** * *
136030 ATATTAGCATGCTTATAATCTTTAAAACTAATGTCGTTGGCCATGAATTAGCACATTGGCACCTT
127 ACATTGGCACCCTTATCATCTTTAAAACTAATGTCGTTGGCCATGAATCAGCACATTGGCACCTT
* *
136095 TATCATATTAAAGTTCAATATTGCTAGCCTTGGATTCGTATATTGGCATTTTTGTCATTTCTAAG
192 TATCATATTAAAGTCCAATATTGCTAGCCTTGGA-TCGTATATTGGCACTTTTGTCATTTCTAAG
136160 ACC
256 ACC
* * * * * *
136163 AATGTCGCTGGCCTTGGATCAGCACATTGACA-CTTTGTCATTTTTTAGACCAATATCACTGGCT
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATTTCTAAGACCAATGTCACTGGCC
* * *
136227 TTCAATCAGCACATTAGCACATTTGTCATCTCTAAAACCAATGTCGCTGGTTTTGAATCAGCGCA
66 TTCAATCAGCACATT-GCACATTTGTCATCTCTAAAACTAATGTCGCTGGCTTTGAATCAGCACA
* * * * *
136292 TTGGCACCCTTATCTTTTTTAAAACCAATGTCATTGGCCATGAATCAGCACATTGGCACCTTCAT
130 TTGGCACCCTTATCATCTTTAAAACTAATGTCGTTGGCCATGAATCAGCACATTGGCACCTTTAT
*
136357 CATATTTAAGTCCAATA-TGCTAGCCTTGGATCAGTATATTGGCACTTTTGTCATTTCTAAGACC
195 CATATTAAAGTCCAATATTGCTAGCCTTGGATC-GTATATTGGCACTTTTGTCATTTCTAAGACC
* * * * * * *
136421 AATGTCACTAGCTTTTGATCAGCTCATTGGCATCATTGTCATTTCTAAGACCAATGTCATTGGCC
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATTTCTAAGACCAATGTCACTGGCC
* * * * * * * *
136486 TTCGATCAGCACATTGCTACCTTTGCCATCTCTAAAACTAATGTCGTTAGCCTTCAATCAACACA
66 TTCAATCAGCACATTGC-ACATTTGTCATCTCTAAAACTAATGTCGCTGGCTTTGAATCAGCACA
* * * * * * **
136551 TTGGCACCCTTATCATCTTGAAGACTAATGTTGCTGGCAATGAATCAGAACATTGAAACCTTTAT
130 TTGGCACCCTTATCATCTTTAAAACTAATGTCGTTGGCCATGAATCAGCACATTGGCACCTTTAT
* * * * * * *
136616 CATATTTAAA-TCCAATATCGCTGGCCTTGGATCATCACATTAGCACCTTTGTCATTTCTAAAAC
195 CATA-TTAAAGTCCAATATTGCTAGCCTTGGATCGT-ATATTGGCACTTTTGTCATTTCTAAGAC
136680 C
258 C
* * * * * ** * *
136681 AATGCCATTGGCCCTCGATTAGCACATTTCCACCTTTGTCATTTCTAAGACCAATGTCGCTAGCC
1 AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATTTCTAAGACCAATGTCACTGGCC
136746 TTCAATCAGCA
66 TTCAATCAGCA
136757 TTGTAGATAC
Statistics
Matches: 693, Mismatches: 142, Indels: 38
0.79 0.16 0.04
Matches are distributed among these distances:
257 2 0.00
258 79 0.11
259 285 0.41
260 315 0.45
261 12 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (258 bp):
AATGTCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCATTTCTAAGACCAATGTCACTGGCC
TTCAATCAGCACATTGCACATTTGTCATCTCTAAAACTAATGTCGCTGGCTTTGAATCAGCACAT
TGGCACCCTTATCATCTTTAAAACTAATGTCGTTGGCCATGAATCAGCACATTGGCACCTTTATC
ATATTAAAGTCCAATATTGCTAGCCTTGGATCGTATATTGGCACTTTTGTCATTTCTAAGACC
Found at i:137152 original size:51 final size:51
Alignment explanation
Indices: 137076--137210 Score: 209
Period size: 51 Copynumber: 2.6 Consensus size: 51
137066 TTACTGTTTA
137076 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCCAGATG
1 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCCAGATG
* * *
137127 TATCGATATATTTTTCATTGTATCGATACATTTTGGGTTTTAACCTAGATG
1 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCCAGATG
* *
137178 TATTGATACATTTCTT-AATGTATCGATACATTC
1 TATCGATACATTT-TTCATTGTATCGATACATTC
137211 AGGCATTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
51 74 0.97
52 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (51 bp):
TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCCAGATG
Found at i:139673 original size:79 final size:76
Alignment explanation
Indices: 139524--139957 Score: 390
Period size: 79 Copynumber: 5.5 Consensus size: 76
139514 AATTTTTGAG
* * * * *
139524 ACACCAATTTTCTACAAACGGGGATACTCCAATCCCGTTATTTCTGAGGAGATACTCCAACCCTA
1 ACACTAATTTTCTACAATCGGGGATACTCCAA-CCCATTATTT-TGAGGGGATACTCCAACCCGA
139589 GTTTTATTTCTAAA
64 -TTTTATTTCTAAA
* * * *
139603 ACACTAATTTTCTATAATCGAGGATACTCCAACCTCATTATTTTGGAGGGGATACTCTAACACCT
1 ACACTAATTTTCTACAATCGGGGATACTCCAACC-CATTATTTT-GAGGGGATACTCCAAC-CCG
139668 ATTTTATTTCTAAA
63 ATTTTATTTCTAAA
* * * * * *
139682 ACATCGATTTTTC-ATC-ATCGAGGATACTCCAATCCCGTTATTTTCGAGGGAAAACTCCAACCC
1 ACA-CTAATTTTCTA-CAATCGGGGATACTCCAA-CCCATTATTTT-GAGGGGATACTCCAACCC
*
139745 CAGTTTTATTTCTAAA
62 GA-TTTTATTTCTAAA
** * * *
139761 ACACCGATTTT-TCACAATCGGAGATACTCCAACCCCATTATTTTTTAAGGGATACTCCAACCTC
1 ACACTAATTTTCT-ACAATCGGGGATACTCCAA-CCCATTA-TTTTGAGGGGATACTCCAACC-C
139825 GATTTTATTTCTAAA
62 GATTTTATTTCTAAA
* * * * * *
139840 ACATTGATTTTCCACAATTGGGGATACTCTAACCCCATTATTTCTGAAGGGATACTCCAACCTCG
1 ACACTAATTTTCTACAATCGGGGATACTCCAA-CCCATTATTT-TGAGGGGATACTCCAACC-CG
*
139905 ATTTTATTTCCAAA
63 ATTTTATTTCTAAA
* *
139919 ACA-TCAATTTTCCACCATCGGGGATACTCCAATCCCATT
1 ACACT-AATTTTCTACAATCGGGGATACTCCAA-CCCATT
139958 TTTATCTCCA
Statistics
Matches: 299, Mismatches: 41, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
78 16 0.05
79 264 0.88
80 19 0.06
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (76 bp):
ACACTAATTTTCTACAATCGGGGATACTCCAACCCATTATTTTGAGGGGATACTCCAACCCGATT
TTATTTCTAAA
Found at i:139830 original size:158 final size:157
Alignment explanation
Indices: 139530--139957 Score: 467
Period size: 158 Copynumber: 2.7 Consensus size: 157
139520 TGAGACACCA
* * * *
139530 ATTTTCTACAAACGGGGATACTCCAATCCCGTTATTTCTGA-GGAGATACTCCAACCCTAGTTTT
1 ATTTTCCACAATCGAGGATACTCCAATCCCGTTATTTCTGAGGGA-ATACTCCAACCCCAGTTTT
* * *
139594 ATTTCTAAAACACTAA-TTTTCTATAATC-GAGGATACTCCAACCTCATTATTTTGGAGGGGATA
65 ATTTCTAAAACAC-AATTTTTC-ACAATCGGA-GATACTCCAACCCCATTATTTTGGAAGGGATA
* *
139657 CTCTAACACCTATTTTATTTCTAAAACATCG
127 CTCCAACACCGATTTTATTTCTAAAACATCG
* *
139688 ATTTTTCATC-ATCGAGGATACTCCAATCCCGTTATTT-TCGAGGGAAAACTCCAACCCCAGTTT
1 ATTTTCCA-CAATCGAGGATACTCCAATCCCGTTATTTCT-GAGGGAATACTCCAACCCCAGTTT
* **
139751 TATTTCTAAAACACCGATTTTTCACAATCGGAGATACTCCAACCCCATTATTTTTTAAGGGATAC
64 TATTTCTAAAACA-CAATTTTTCACAATCGGAGATACTCCAACCCCATTATTTTGGAAGGGATAC
*
139816 TCCAAC-CTCGATTTTATTTCTAAAACATTG
128 TCCAACAC-CGATTTTATTTCTAAAACATCG
* * * * * *
139846 ATTTTCCACAATTGGGGATACTCTAACCCCATTATTTCTGAAGGG-ATACTCCAACCTC-GATTT
1 ATTTTCCACAATCGAGGATACTCCAATCCCGTTATTTCTG-AGGGAATACTCCAACCCCAG-TTT
* * * * *
139909 TATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAATCCCATT
64 TATTTCTAAAACA-CAATTTTTCACAATCGGAGATACTCCAACCCCATT
139958 TTTATCTCCA
Statistics
Matches: 229, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
157 4 0.02
158 208 0.91
159 17 0.07
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (157 bp):
ATTTTCCACAATCGAGGATACTCCAATCCCGTTATTTCTGAGGGAATACTCCAACCCCAGTTTTA
TTTCTAAAACACAATTTTTCACAATCGGAGATACTCCAACCCCATTATTTTGGAAGGGATACTCC
AACACCGATTTTATTTCTAAAACATCG
Found at i:141998 original size:4 final size:4
Alignment explanation
Indices: 141989--142050 Score: 97
Period size: 4 Copynumber: 15.5 Consensus size: 4
141979 ATTGAGGTGC
* * *
141989 TTAT TTAT TTAT ATAT TTAT TTAT TTAT TTAT TTAT TTAT TCAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
142037 TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TT
142051 TGTTTTGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:153526 original size:61 final size:60
Alignment explanation
Indices: 153393--153621 Score: 186
Period size: 61 Copynumber: 3.8 Consensus size: 60
153383 ACCTTTTATC
* * *
153393 CTTTC-AGTCCTCAAAAAGTA-GGATGCCTTTTTCTTTTAAAACCCACACAACTTGGTATCA
1 CTTTCGAGTCCTCAAAAAGTAGGGA--CCTTTTCCTTTTAAAGCCCACACAACTTGGTAGCA
** * *
153453 CTTTTTAGTCCTCAAAAAGTAGGGCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCGAGTCCTCAAAAAGTAGGG-ACCTTTTCCTTTTAAAGCCCACACAACTTGGTAGCA
* *
153514 CATTTCGA-TCCTCAAAGAA-T-GGGACAC-TTTCCTTTTAAAGCCCACACAAATTGATAGCA
1 C-TTTCGAGTCCTCAAA-AAGTAGGGAC-CTTTTCCTTTTAAAGCCCACACAACTTGGTAGCA
* * * * * *
153573 CCTTT-TAGCCCTTAAAGAGCA-GGACGTCTTTCCCTTTTAAAGCCCACAC
1 -CTTTCGAGTCCTCAAAAAGTAGGGAC--CTTTTCCTTTTAAAGCCCACAC
153622 CAGTTGTTCT
Statistics
Matches: 139, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
58 2 0.01
59 44 0.32
60 10 0.07
61 74 0.53
62 8 0.06
63 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (60 bp):
CTTTCGAGTCCTCAAAAAGTAGGGACCTTTTCCTTTTAAAGCCCACACAACTTGGTAGCA
Found at i:153722 original size:112 final size:112
Alignment explanation
Indices: 153536--153739 Score: 266
Period size: 112 Copynumber: 1.8 Consensus size: 112
153526 CAAAGAATGG
* ** * *
153536 GACACTTTCCTTTTAAAGCCCACACAAATTGATAGCACCTTTTAGCCCTTAAAGAGCAGGACGTC
1 GACACTTTCCTTTCAAAGCCCACACAAATTGATAGCACCTTCCAACCCTCAAAGAGCAGGACGTC
*
153601 TTTCCCTTTTAAAGCCCACACCAGTTGTTCTACTCTTCAAAAAGCAA
66 TTTCCCTTTTAAAGCCCACACAAGTTGTTCTACTCTTCAAAAAGCAA
* * * * * *
153648 GACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCATGA-TTC
1 GACACTTTCCTTTCAAAGCCCACACAAATTGATAGCACCTTCCAACCCTCAAAGAGCAGGACGTC
* *
153712 TTTCTTCTTTTAAAGTCCACACAAGTTG
66 TTTC-CCTTTTAAAGCCCACACAAGTTG
153740 GTGGCACCTT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
111 6 0.08
112 71 0.92
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (112 bp):
GACACTTTCCTTTCAAAGCCCACACAAATTGATAGCACCTTCCAACCCTCAAAGAGCAGGACGTC
TTTCCCTTTTAAAGCCCACACAAGTTGTTCTACTCTTCAAAAAGCAA
Found at i:153737 original size:61 final size:59
Alignment explanation
Indices: 153628--153826 Score: 204
Period size: 59 Copynumber: 3.3 Consensus size: 59
153618 ACACCAGTTG
* * * * * *
153628 TTCTACTCTTCAAAAAGCAAGACACTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTCTAGTCCTCAAAGAGCAGGACACTTCTTCTTTTAAAG-CCACACAAGTTGGTGGCACC
* * * **
153687 TTCCAATCCTCAAAGAGCATGATTCTTTCTTCTTTTAAAGTCCACACAAGTTGGTGGCACC
1 TTCTAGTCCTCAAAGAGCAGGACAC-TTCTTCTTTTAAAG-CCACACAAGTTGGTGGCACC
* * * * *
153748 TTTTAGTCCTCGAAGAGCAGGACACTTCTT-TTTTTAAGCCTACACAAGCTGCTGGCACC
1 TTCTAGTCCTCAAAGAGCAGGACACTTCTTCTTTTAAAGCC-ACACAAGTTGGTGGCACC
153807 TTCTAGTCCTCAAAGAGCAG
1 TTCTAGTCCTCAAAGAGCAG
153827 ACGCCTCTCT
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
58 2 0.02
59 59 0.51
60 7 0.06
61 47 0.41
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (59 bp):
TTCTAGTCCTCAAAGAGCAGGACACTTCTTCTTTTAAAGCCACACAAGTTGGTGGCACC
Found at i:153840 original size:59 final size:60
Alignment explanation
Indices: 153662--153841 Score: 188
Period size: 61 Copynumber: 3.0 Consensus size: 60
153652 CTTTCCTTTC
* * * ** *
153662 AAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCATGA-TTCTTTCTTCTTTT
1 AAAG-CCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTCTCTT-TTTT
* *
153723 AAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTCGAAGAGCAGGACA-CT-TCTTTTTT
1 AAAG-CCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTCTCTTTTTT
* * * *
153782 TAAGCCTACACAAGCTGCTGGCACCTTCTAGTCCTCAAAGAGCA-GACGCCTCTCTTTTTT
1 AAAGCC-ACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTCTCTTTTTT
153842 TTCATCTTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
58 5 0.05
59 42 0.41
60 12 0.12
61 43 0.42
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (60 bp):
AAAGCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTCTCTTTTTT
Found at i:153895 original size:127 final size:129
Alignment explanation
Indices: 153721--153957 Score: 275
Period size: 127 Copynumber: 1.8 Consensus size: 129
153711 CTTTCTTCTT
* * *
153721 TTAAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTCGAAGAGCAGGA-CACTTCTTT-TTTT-
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCACAAAGAGCAGGAGCA-TT-TTTCTTTTA
* **
153783 AAGCCTACACAAGCTGCTGGCA-CCTTCTAGTCCTCAAAGAGCAGACGCCTCTCTTTTTTTTCAT
64 AAGCCCACACAAGCTGAGGGCACCCTTCTAGTCCTCAAAGAGCAGACGCCTCTCTTTTTTTTCAT
153847 C
129 C
** * ** *
153848 TTAAAGCCCACATGAGTTGGTGGTATTTTTTAGTCCACAAATAGCAGGATGCATTTTTCTTTTCA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCACAAAGAGCAGGA-GCATTTTTCTTTT-A
* * *
153913 AAGCCCATACGAGTTGAGGGCACCCTTCTAGTCCTCAAAGAGCAG
64 AAGCCCACACAAGCTGAGGGCACCCTTCTAGTCCTCAAAGAGCAG
153958 GACACCCTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
127 43 0.48
128 6 0.07
129 2 0.02
130 16 0.18
131 22 0.25
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (129 bp):
TTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCACAAAGAGCAGGAGCATTTTTCTTTTAAA
GCCCACACAAGCTGAGGGCACCCTTCTAGTCCTCAAAGAGCAGACGCCTCTCTTTTTTTTCATC
Found at i:156531 original size:79 final size:79
Alignment explanation
Indices: 155982--156533 Score: 573
Period size: 79 Copynumber: 7.0 Consensus size: 79
155972 TCATTGATGT
* * * * **
155982 TTTTATTTCTAAAACATTGATTTTCCTCAATCGGGGATACTCCAACCCCGTTATTTTTGAAAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATC-GGGATACTCCAACCCCATTATTTTTGAGGGGA
* *
156047 TACTCTAA-CCTTGA
65 TACTCCAACCCTAGA
* * * *
156061 TTTTATTTCTAAAA-AACTAATTTTTTACAATCAGGGATACTCCAACCTCATTATTTTTGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACAATC-GGGATACTCCAACCCCATTATTTTTGAGGGG
* *
156125 AAACTCCAACACT-GA
64 ATACTCCAACCCTAGA
* * * * ** *
156140 TTTTATTTCTAAAACA-CTGATTTTTCATCATTAGGGATACTCTAACCCTATTATTTTCAAGAGG
1 TTTTATTTCTAAAACATC-GATTTTTCA-CAATCGGGATACTCCAACCCCATTATTTTTGAGGGG
* *
156204 ACACTCCAA-CCTCGA
64 ATACTCCAACCCTAGA
* * * *
156219 TTTTATTTCTAAAACATCGATTTTTCACAATCGTGGATACTCTAACCTCGTTATTTTTGAAGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCG-GGATACTCCAACCCCATTATTTTTGAGGGGA
*
156284 TACTCCAATCGC-A-A
65 TACTCCAA-CCCTAGA
* * * *
156298 TTTTATTTCTAAAACATCGATTTTTCATAATCGACGATACTCCAACCCCATTATTTTCGAAGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCG-GGATACTCCAACCCCATTATTTTTGAGGGGA
*
156363 TACTCCAA-CCGAGA
65 TACTCCAACCCTAGA
* * *
156377 TTTTATTTCCAAAACATCGATTTTCCACCATCGAGGATACTCCAACCCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCG-GGATACTCCAACCCCATTATTTTTGAGGGGA
156442 TACTCCAACCCTAG-
65 TACTCCAACCCTAGA
* * * * *
156456 TTTTATTTCCAAAACATCGATTTTCCACCATCAGGGATGCTCCAACCCCATTATTTTTTAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATC-GGGATACTCCAACCCCATTATTTTTGAGGGGA
*
156521 TACTCTAACCCTA
65 TACTCCAACCCTA
156534 TTTTTATCTC
Statistics
Matches: 403, Mismatches: 57, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.00
78 8 0.02
79 381 0.95
80 12 0.03
81 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCACAATCGGGATACTCCAACCCCATTATTTTTGAGGGGAT
ACTCCAACCCTAGA
Found at i:162036 original size:20 final size:20
Alignment explanation
Indices: 162011--162062 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
162001 ATACTTCAAA
162011 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
162031 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
162051 GTATCGATACAT
1 GTATCGATACAT
162063 TACGGTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
GTATCGATACATAGGTATTT
Found at i:164929 original size:20 final size:21
Alignment explanation
Indices: 164904--164961 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
164894 AAATGCCTGT
*
164904 ATGTATCGATACATTGTA-AA
1 ATGTATCGATACAATGTAGAA
*
164924 ATGTATCGATACAATG-AGCA
1 ATGTATCGATACAATGTAGAA
164944 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
164962 TCGATATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACAATGTAGAA
Found at i:164958 original size:13 final size:13
Alignment explanation
Indices: 164942--164972 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
164932 ATACAATGAG
164942 CAATGTATCGATA
1 CAATGTATCGATA
164955 CAATGTATCGATA
1 CAATGTATCGATA
*
164968 TAATG
1 CAATG
164973 AGTAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:164965 original size:33 final size:33
Alignment explanation
Indices: 164923--164992 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
164913 TACATTGTAA
164923 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
* *
164956 AATGTATCGATATAATGAGTAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
164989 AATG
1 AATG
164993 CAAAATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:164966 original size:53 final size:53
Alignment explanation
Indices: 164904--165009 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
164894 AAATGCCTGT
* * *
164904 ATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGCAATGTATCGATACA
1 ATGTATCGATACAATG-AGAAATGTATCGATACAATGCA-AAATATATCGATACA
* *
164957 ATGTATCGATATAATGAGTAATGTATCGATACAATGCAAAATATATCGATACA
1 ATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATATATCGATACA
165010 TCTAGGTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.96
54 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (53 bp):
ATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATATATCGATACA
Found at i:165660 original size:40 final size:41
Alignment explanation
Indices: 165616--165715 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
165606 GTCCCACTTT
* *
165616 TTGAGGATAAAGGAAAAAAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGATAAAGGAAAAAAGAAAAGAAA-AGTGTCCTGCTCC
* * *
165656 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGATAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
165697 TTGAGGATAAAGTGAAAAA
1 TTGAGGATAAAG-GAAAAA
165716 GAGTACGTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
40 21 0.41
41 24 0.47
42 6 0.12
ACGTcount: A:0.45, C:0.09, G:0.26, T:0.20
Consensus pattern (41 bp):
TTGAGGATAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:165819 original size:42 final size:42
Alignment explanation
Indices: 165762--165916 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
165752 GAAAACGAAA
165762 TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGGAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGGAAATAAAG
* * * *
165804 TGCGTCTTGCCCTTTGAGGATAAAAGAGAAAAGAAGGG-AATGAAG
1 TGCGTCCTGCTCTTTGAGGA-CAAA-AG-AAAG-AGGGAAATAAAG
* * *
165849 TGTGTCCTGCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGGAAATAAAG
* **
165891 TGTGTCCCACTCTTTGAGGACTAAAA
1 TGCGTCCTGCTCTTTGAGGAC-AAAA
165917 AGTGCCACCA
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 47 0.51
43 7 0.08
44 5 0.05
45 27 0.29
46 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (42 bp):
TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGGAAATAAAG
Found at i:166047 original size:122 final size:122
Alignment explanation
Indices: 165899--166136 Score: 372
Period size: 122 Copynumber: 2.0 Consensus size: 122
165889 AGTGTGTCCC
*
165899 ACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTATCCTGCTC
1 ACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTGCTC
* ** *
165964 TTTGAGGACT-GGACGGTGCCACCAACTTGTGTGGGTTTTACAAAGAGAAAACATCCT
66 TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGAGAAAACATCCT
* *
166021 ACTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCT
1 ACTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTGCT
*
166085 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAA
65 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAA
166137 GAAGGAAATG
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
122 75 0.71
123 31 0.29
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (122 bp):
ACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTGCTC
TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAACATCCT
Found at i:166120 original size:62 final size:61
Alignment explanation
Indices: 165900--166137 Score: 318
Period size: 61 Copynumber: 3.9 Consensus size: 61
165890 GTGTGTCCCA
* * * *
165900 CTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTG
* ** * * *
165961 CTCTTTGAGGACTGGACGGTGCCACCAACTTGTGTGGGTTTTACAAAGAGAAAA--CATCCTA
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-GAAAG-GAAAAGGCATCCTG
*
166022 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTG
*
166083 CTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAG
1 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GGAAAAG
166138 AAGGAAATGA
Statistics
Matches: 152, Mismatches: 19, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
59 5 0.03
60 4 0.03
61 97 0.64
62 34 0.22
63 12 0.08
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTG
Found at i:166302 original size:60 final size:59
Alignment explanation
Indices: 166194--166400 Score: 263
Period size: 60 Copynumber: 3.5 Consensus size: 59
166184 AAAATAAAGT
* * * * *
166194 GCGTCCTGCTCTTTGAGGACT-AGGAGGTGCCACCAACTTGTGTAGGCTTTGAAGGAGAA
1 GCGTCATGCTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTATGGGCTTTAAAGGAGAA
* * **
166253 GACGTCTTACTCTTTGAGGACTAAAGGGTGCCACCAACTCATATGGGCTTTAAAGGAGAA
1 G-CGTCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTATGGGCTTTAAAGGAGAA
* * *
166313 GGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACTAACTTGTATGGGCTTTAAAAGGAAAA
1 -GCGTCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTATGGGCTTT-AAAGGAGAA
166374 GCGTCATGCTCTTTGAGGACTAAAGGG
1 GCGTCATGCTCTTTGAGGACTAAAGGG
166401 CGAAAGAAGA
Statistics
Matches: 129, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
59 1 0.01
60 117 0.91
61 11 0.09
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (59 bp):
GCGTCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTATGGGCTTTAAAGGAGAA
Found at i:166531 original size:100 final size:97
Alignment explanation
Indices: 166340--166591 Score: 350
Period size: 100 Copynumber: 2.6 Consensus size: 97
166330 GGACTAAAGG
* * * * *
166340 GTGCCACTAACTTGTATGGGCTTTAAAAGGAAAAGCGTCATGCTCTTTGAGGACTAAAGGGCGAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGG-CAAG-GTCCTGCTCTTTGAGGACTAAAGGGCAAA
*
166405 AGAAGATAGCGTCCCGCTCTTTGAGGACTGGGAA
64 AGAAGATAGCATCCCGCTCTTTGAGGACTGGGAA
166439 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGTGTCCTGCTCTTTGAGGACTAAAGGGCAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGC-AA-G-GTCCTGCTCTTTGAGGACTAAAGGGCAA
*
166504 AA-AGAGATAGCATCTCGCTCTTTGAGGACTGGGAA
63 AAGA-AGATAGCATCCCGCTCTTTGAGGACTGGGAA
*
166539 GTGCCACCAATTTGTGTGGGCTTTAAAAGGC---GTCCTGCTCTTTGAGGACTAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCAAGGTCCTGCTCTTTGAGGACTAAA
166592 AAATGCCACC
Statistics
Matches: 141, Mismatches: 9, Indels: 11
0.88 0.06 0.07
Matches are distributed among these distances:
94 22 0.16
99 31 0.22
100 88 0.62
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (97 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGGCAAGGTCCTGCTCTTTGAGGACTAAAGGGCAAAAG
AAGATAGCATCCCGCTCTTTGAGGACTGGGAA
Found at i:166599 original size:155 final size:155
Alignment explanation
Indices: 166413--166811 Score: 530
Period size: 155 Copynumber: 2.6 Consensus size: 155
166403 AAAGAAGATA
* *** * ** *
166413 GCGTCCCGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* * * * *
166478 CCTGCTCTTTGAGGACTAAAGGGCAAAAAGAGATAGCATC-TCGCTCTTTGAGGACTGGGAAGTG
66 CCTGCTCTTTGAGGACTAAAGGGCAAAAAGAGAGAGCATCGT-ACTCTTTAAGGACTAGGAAATG
*
166542 CCACCAATTTGTGTGGGCTTTAAAAG
130 CCACCAACTTGTGTGGGCTTTAAAAG
* *
166568 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* ** * *
166633 CCTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCGTACTCTTTAAGGACTAGGAAATGC
66 CCTGCTCTTTGAGGACTAAAGGGCAAAAAGAGAGAGCATCGTACTCTTTAAGGACTAGGAAATGC
166698 CACCAACTTGTGTGGGCTTTAAAAG
131 CACCAACTTGTGTGGGCTTTAAAAG
* * * * *
166723 GCATCCTGCTCTTTGAGGCCTAAAAAAAATACCACCAACTTGTGTGGGCCTTAAAAGGAAAAGAC
1 GCGTCCTGCTCTTTGAGGACT--AAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
166788 GTCCTGCTCTTTGAGGACTAAAGG
64 GTCCTGCTCTTTGAGGACTAAAGG
166812 TGCCACCAAC
Statistics
Matches: 212, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
155 151 0.71
156 1 0.00
157 60 0.28
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (155 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTAAAGGGCAAAAAGAGAGAGCATCGTACTCTTTAAGGACTAGGAAATGC
CACCAACTTGTGTGGGCTTTAAAAG
Found at i:166839 original size:60 final size:61
Alignment explanation
Indices: 166676--166991 Score: 362
Period size: 62 Copynumber: 5.2 Consensus size: 61
166666 GAGCGTCGTA
* *
166676 CTCTTTAAGGACTAGGAAA-TGCCACCAACTTGTGTGGGCTTT------AAAAGGCATCCTG
1 CTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* * * * * *
166731 CTCTTTGAGGCCTAAAAAAAATACCACCAACTTGTGTGGGCCTTAAAAGGAAAAGACGTCCTG
1 CTCTTTGAGGACT--AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* *
166794 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTA
1 CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
*
166854 CTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAAAAAGGCATCCTG
1 CTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG--AAAAGGCATCCTG
* * * * *
166918 CTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTA
1 CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTG
166979 CTCTTTGAGGACT
1 CTCTTTGAGGACT
166992 GGAAGGGCTA
Statistics
Matches: 223, Mismatches: 24, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
55 11 0.05
56 3 0.01
57 22 0.10
60 52 0.23
61 24 0.11
62 59 0.26
63 28 0.13
64 24 0.11
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (61 bp):
CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
Done.