Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2245901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:2705 original size:24 final size:24
Alignment explanation
Indices: 2678--2737 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
2668 GATACATTAC
* *
2678 CTGAATTCTGATCTGGATTTTGTT
1 CTGAATTCTGATCTGAATTCTGTT
2702 CTG-ATATCTGATCTGAATTCTGTT
1 CTGAAT-TCTGATCTGAATTCTGTT
* *
2726 TTGATTTCTGAT
1 CTGAATTCTGAT
2738 ATCTCCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 27 0.90
25 1 0.03
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGATCTGAATTCTGTT
Found at i:2723 original size:12 final size:12
Alignment explanation
Indices: 2678--2737 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
2668 GATACATTAC
2678 CTGAATTCTGAT
1 CTGAATTCTGAT
* * *
2690 CTGGATTTTGTT
1 CTGAATTCTGAT
2702 CTG-ATATCTGAT
1 CTGAAT-TCTGAT
*
2714 CTGAATTCTGTT
1 CTGAATTCTGAT
* *
2726 TTGATTTCTGAT
1 CTGAATTCTGAT
2738 ATCTCCATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGAT
Found at i:4806 original size:18 final size:18
Alignment explanation
Indices: 4783--4827 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4773 TCACAACTCA
**
4783 ACCCGACCTGTTGACCCG
1 ACCCGACCCATTGACCCG
*
4801 ACCCGACCCATTGACCTG
1 ACCCGACCCATTGACCCG
4819 ACCCGACCC
1 ACCCGACCC
4828 GACCCGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.49, G:0.18, T:0.13
Consensus pattern (18 bp):
ACCCGACCCATTGACCCG
Found at i:6670 original size:18 final size:18
Alignment explanation
Indices: 6647--6696 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
6637 GATCACAACT
**
6647 CGACCCGACCTGTTGACC
1 CGACCCGACCCATTGACC
6665 CGACCCGACCCATTGACC
1 CGACCCGACCCATTGACC
6683 CGACCCGACCCATT
1 CGACCCGACCCATT
6697 AATCCAACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.20, C:0.48, G:0.18, T:0.14
Consensus pattern (18 bp):
CGACCCGACCCATTGACC
Found at i:6706 original size:18 final size:18
Alignment explanation
Indices: 6662--6708 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
6652 CGACCTGTTG
* *
6662 ACCCGACCCGACCCATTG
1 ACCCAACCCGACCCATTA
*
6680 ACCCGACCCGACCCATTA
1 ACCCAACCCGACCCATTA
*
6698 ATCCAACCCGA
1 ACCCAACCCGA
6709 TCTGTTGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.49, G:0.13, T:0.11
Consensus pattern (18 bp):
ACCCAACCCGACCCATTA
Found at i:9265 original size:24 final size:24
Alignment explanation
Indices: 9213--9267 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
9203 ATTACCTGAA
* * *
9213 TTCTGATCTGGATTTTGTTCTGAT
1 TTCTGATCTGAATTCTGTTCTAAT
* *
9237 ATCTGATCTGAATTCTGTTTTAAT
1 TTCTGATCTGAATTCTGTTCTAAT
9261 TTCTGAT
1 TTCTGAT
9268 ATCTCCGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (24 bp):
TTCTGATCTGAATTCTGTTCTAAT
Found at i:14092 original size:23 final size:23
Alignment explanation
Indices: 14066--14117 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
14056 GATTAGATAA
14066 TGACGGGTTAGACAATGAAAAAC
1 TGACGGGTTAGACAATGAAAAAC
14089 TGACGGGTTAGACAATGAAAAAC
1 TGACGGGTTAGACAATGAAAAAC
14112 TGACGG
1 TGACGG
14118 TAGGATCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.17
Consensus pattern (23 bp):
TGACGGGTTAGACAATGAAAAAC
Found at i:16488 original size:46 final size:45
Alignment explanation
Indices: 16394--16507 Score: 110
Period size: 46 Copynumber: 2.5 Consensus size: 45
16384 ATCAAAAAGC
* * *
16394 ACCCGAAGGCTTTTTGAAAACATCTTGCACTGCATGTCTTATGAATG
1 ACCCGAAGG--TTTTGAAAACATCTTGCACTGAAGGTCTTAAGAATG
*
16441 ACCCCGAAGGTTTTGAAAGCAT-TATGCACTGAAGGTCTTACAG-ATG
1 A-CCCGAAGGTTTTGAAAACATCT-TGCACTGAAGGTCTTA-AGAATG
16487 ACCCGAA-GTCTTTG-AAACATC
1 ACCCGAAGGT-TTTGAAAACATC
16508 AAAAAGCTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
44 7 0.12
45 11 0.19
46 29 0.51
47 2 0.04
48 8 0.14
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
ACCCGAAGGTTTTGAAAACATCTTGCACTGAAGGTCTTAAGAATG
Found at i:17945 original size:117 final size:117
Alignment explanation
Indices: 17723--18024 Score: 430
Period size: 117 Copynumber: 2.6 Consensus size: 117
17713 TTTTATATAT
* * **
17723 TTCCCC-GAAACATACACCCACCTGGACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGA
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGA
** *
17786 GCCTGCAGTAATAACGTCTTCATCCAGTCGCTTCCATAACTACAATGTGTAGG
65 GCCTGCAGTAATAACGTCCCCATCCAGTCACTTCCATAACTACAATGTGTAGG
* ** *
17839 TTCCTCATTACCATACACCCACCTGCACACCAGTAAGGACTTACCCCAAGCACACAGCAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
* *
17904 CCTGCAGTAATAACTTCCCCATCCAGTCAC-TCCAATCACTACAATGTGTAGG
66 CCTGCAGTAATAACGTCCCCATCCAGTCACTTCC-ATAACTACAATGTGTAGG
* *
17956 TTCCCCAGAACCATACACCCACATGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
18021 CCTG
66 CCTG
18025 AAATACTTCC
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
116 9 0.05
117 155 0.95
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (117 bp):
TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
CCTGCAGTAATAACGTCCCCATCCAGTCACTTCCATAACTACAATGTGTAGG
Found at i:19026 original size:30 final size:28
Alignment explanation
Indices: 18945--19065 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 28
18935 CATTTTATAG
* *
18945 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCA-CCTTTTTAAATTAATTCCCA
* * *
18974 AAATAACACATTTTTGAATTAAATTCCCA
1 AAATAGCACCTTTTTAAATT-AATTCCCA
19003 AAATAGCACCTTTTTCAAATTAAATTCCCA
1 AAATAGCACCTTTTT-AAATT-AATTCCCA
* * **
19033 GAATAGCACCCATTTCGAATTAATTCCCA
1 AAATAGCA-CCTTTTTAAATTAATTCCCA
19062 AAAT
1 AAAT
19066 GTCACTCGGT
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.12
29 38 0.50
30 24 0.32
31 5 0.07
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.31
Consensus pattern (28 bp):
AAATAGCACCTTTTTAAATTAATTCCCA
Found at i:19102 original size:17 final size:18
Alignment explanation
Indices: 19080--19118 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19070 CTCGGTCAAC
*
19080 GGTCAAC-GGTCGGGTTG
1 GGTCAACGGGTCGGGTCG
19097 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
19115 GGTC
1 GGTC
19119 TGGTCAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.21, G:0.49, T:0.21
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:24298 original size:117 final size:117
Alignment explanation
Indices: 24118--24424 Score: 431
Period size: 117 Copynumber: 2.6 Consensus size: 117
24108 TTTTATATAT
**
24118 TTCCCC-GAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGA
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGA
* * * *
24181 GCCTGCAGTAATAACGTCTCCATCCAGTCGCTTCC-ATAACTACAATGTGTAGG
65 GCCTGCAATAATAACGTCCCCATCCAGTCAC-TCCAATAACTACAATATGTAGG
* * *
24234 TTCCCCAGTACCATACACCCACCTGTACACCAATAAGGACTTACCCTAAGCACACAGCAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
* * *
24299 CCTGCAATAATAACTTCCCCATCCAGTCACTCCAATCACTATAATATGTAGG
66 CCTGCAATAATAACGTCCCCATCCAGTCACTCCAATAACTACAATATGTAGG
* * *
24351 TTCCCCAGAACCATACACCCACCTGGACACCTGTAAGGACTTACCCTGAGCACACAGCAAAGGAG
1 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
*
24416 CCTGAAATA
66 CCTGCAATA
24425 CTTCCCTAAA
Statistics
Matches: 170, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
116 10 0.06
117 160 0.94
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (117 bp):
TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
CCTGCAATAATAACGTCCCCATCCAGTCACTCCAATAACTACAATATGTAGG
Found at i:25402 original size:29 final size:29
Alignment explanation
Indices: 25370--25496 Score: 170
Period size: 29 Copynumber: 4.4 Consensus size: 29
25360 TTTTTAAAAT
*
25370 AATTACCAAAATAGTACCTTTTCGAATTA
1 AATTCCCAAAATAGTACCTTTTCGAATTA
*
25399 AATTCCCAAAATAGCA-CTTTTCGAATTA
1 AATTCCCAAAATAGTACCTTTTCGAATTA
*
25427 AATTCCCAAAATAGTACATTTTCGAATTA
1 AATTCCCAAAATAGTACCTTTTCGAATTA
* *
25456 AATTCCCAGAATA-TCACCCATTTCGAATT-
1 AATTCCCAAAATAGT-A-CCTTTTCGAATTA
25485 AATTCCCAAAAT
1 AATTCCCAAAAT
25497 GTCACCCGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
28 28 0.32
29 49 0.56
30 10 0.11
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (29 bp):
AATTCCCAAAATAGTACCTTTTCGAATTA
Found at i:25440 original size:57 final size:57
Alignment explanation
Indices: 25369--25496 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
25359 CTTTTTAAAA
* * *
25369 TAATTACCAAAATAGTACCTTTTCGAATTAAATTCCCAAAATAGCA-CTTTTCGAAT
1 TAATTCCCAAAATAGTACATTTTCGAATTAAATTCCCAAAATAGCACCATTTCGAAT
* *
25425 TAAATTCCCAAAATAGTACATTTTCGAATTAAATTCCCAGAATATCACCCATTTCGAAT
1 T-AATTCCCAAAATAGTACATTTTCGAATTAAATTCCCAAAATAGCA-CCATTTCGAAT
25484 TAATTCCCAAAAT
1 TAATTCCCAAAAT
25497 GTCACCCGGT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
56 1 0.02
57 41 0.64
58 12 0.19
59 10 0.16
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (57 bp):
TAATTCCCAAAATAGTACATTTTCGAATTAAATTCCCAAAATAGCACCATTTCGAAT
Found at i:25533 original size:17 final size:18
Alignment explanation
Indices: 25511--25549 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
25501 CCCGGTCAAC
25511 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
25528 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
25546 GGTC
1 GGTC
25550 GGTTCAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:25548 original size:23 final size:23
Alignment explanation
Indices: 25518--25590 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
25508 AACGGTCAAC
*
25518 GGTCGGGTCGGGTCAACGGGTCG
1 GGTCGGGTCGGTTCAACGGGTCG
*
25541 GGTCGGGTCGGTTCAATGGGTCG
1 GGTCGGGTCGGTTCAACGGGTCG
25564 GGTCGGGTCGGTTCAACGGGTCG
1 GGTCGGGTCGGTTCAACGGGTCG
25587 GGTC
1 GGTC
25591 AAAACCGGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.08, C:0.21, G:0.49, T:0.22
Consensus pattern (23 bp):
GGTCGGGTCGGTTCAACGGGTCG
Found at i:25590 original size:5 final size:5
Alignment explanation
Indices: 25518--25574 Score: 51
Period size: 5 Copynumber: 10.2 Consensus size: 5
25508 AACGGTCAAC
*
25518 GGTCG GGTCG GGTCAACG GGTCG GGTCG GGTCG GTTCAATG GGTCG GGTCG
1 GGTCG GGTCG GGT---CG GGTCG GGTCG GGTCG GGTC---G GGTCG GGTCG
25569 GGTCG G
1 GGTCG G
25575 TTCAACGGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
5 35 0.80
8 9 0.20
ACGTcount: A:0.07, C:0.19, G:0.53, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:26233 original size:22 final size:22
Alignment explanation
Indices: 26205--26268 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
26195 GGGTTGTTAC
26205 AATCTATCATCTTTGAAGAGAA
1 AATCTATCATCTTTGAAGAGAA
*
26227 AATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAGAGAA
26249 AATCTATCATCTTTGAAGAG
1 AATCTATCATCTTTGAAGAG
26269 TGTAGATGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAA
Found at i:27843 original size:75 final size:75
Alignment explanation
Indices: 27667--27913 Score: 275
Period size: 75 Copynumber: 3.3 Consensus size: 75
27657 GATATGGGTC
* * * * * * * *
27667 TTCAACATGCCCTAACATTTGCTGATACAGACGTTCAAAATGCACCAACATTCCTGATTCTGATT
1 TTCAGCATGCCCCAGCATTTGCTGATACAAACGTTCAAAATGCATCAATATTTCTAATTCTGATT
*
27732 -AAAAGGGCT
66 GAAATGGGCT
* * * * * * *
27741 TTCAGCATGTCCCAACATTTGCTGATACACATGTTCAAAATG-AGTCAATATTTTTTATTTTGAT
1 TTCAGCATGCCCCAGCATTTGCTGATACAAACGTTCAAAATGCA-TCAATATTTCTAATTCTGAT
27805 TGAAATGGGCT
65 TGAAATGGGCT
* * * *
27816 TTCAGTATGCCCCAGTATTTGCTGATACAAACGTTCAAAATGCATTAATA-TTCCAACTTCTGAT
1 TTCAGCATGCCCCAGCATTTGCTGATACAAACGTTCAAAATGCATCAATATTTCTAA-TTCTGAT
27880 TGAAATGGGCT
65 TGAAATGGGCT
27891 TTCAGCATGCCCCAGCATTTGCT
1 TTCAGCATGCCCCAGCATTTGCT
27914 TCTTGTTGAT
Statistics
Matches: 144, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
73 1 0.01
74 55 0.38
75 87 0.60
76 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (75 bp):
TTCAGCATGCCCCAGCATTTGCTGATACAAACGTTCAAAATGCATCAATATTTCTAATTCTGATT
GAAATGGGCT
Found at i:33395 original size:14 final size:14
Alignment explanation
Indices: 33378--33407 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33368 AAATGTAATT
*
33378 ATGCAAATATGAAA
1 ATGCAAAAATGAAA
33392 ATGCAAAAATGAAA
1 ATGCAAAAATGAAA
33406 AT
1 AT
33408 ATAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (14 bp):
ATGCAAAAATGAAA
Found at i:33682 original size:43 final size:43
Alignment explanation
Indices: 33621--33706 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
33611 CCTTGCATCA
33621 AACAAAACTTTACATATAGGGGACAACTTTCAATCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCAATCCTAACTTC
* **
33664 AACAAAACTTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCAATCCTAACTTC
33707 TTTATAGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.29
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCAATCCTAACTTC
Found at i:35073 original size:17 final size:17
Alignment explanation
Indices: 35051--35083 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35041 AATACTTTAA
35051 AATAAAATAAA-AATATT
1 AATAAAA-AAATAATATT
35068 AATAAAAAAATAATAT
1 AATAAAAAAATAATAT
35084 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAAAAATAATATT
Found at i:35125 original size:2 final size:2
Alignment explanation
Indices: 35080--35105 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35070 TAAAAAAATA
35080 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35106 GAAAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35837 original size:148 final size:150
Alignment explanation
Indices: 35661--35931 Score: 433
Period size: 148 Copynumber: 1.8 Consensus size: 150
35651 TTACTTTTAT
* *
35661 AAATAAGATATTTATTTACTTAGAAATATCAGAAAATTACTTCTAGTTGCTTTAAAACAACCCAT
1 AAATAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGGTGCTTTAAAACAACCCAT
35726 TTCTTAATATTAAAAAATAAATAAATATTAATAA-A-A-TATTTCTCTAAAAATAATTAAAATAA
66 TTCTTAATATTAAAAAATAAATAAATATTAA-AATAGATTATTTCTCTAAAAATAATTAAAATAA
35788 ATTATTATATATAATTTATAA
130 ATTATTATATATAATTTATAA
* * *
35809 AAATAGGATATTTATTTATTTA-AGAATATCAGAAAATGACTTCTAGGTGCTTTAAGACAACCCA
1 AAATAAGATATTTATTTACTTAGA-AATATCAGAAAATGACTTCTAGGTGCTTTAAAACAACCCA
*
35873 TTTCTTAATATTAAAAAATAAATAAATATTAAAATATGATTATTTCTCTTAAAATAATT
65 TTTCTTAATATTAAAAAATAAATAAATATTAAAATA-GATTATTTCTCTAAAAATAATT
35932 TATATAAAAT
Statistics
Matches: 112, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
147 3 0.03
148 90 0.80
150 1 0.01
151 18 0.16
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (150 bp):
AAATAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGGTGCTTTAAAACAACCCAT
TTCTTAATATTAAAAAATAAATAAATATTAAAATAGATTATTTCTCTAAAAATAATTAAAATAAA
TTATTATATATAATTTATAA
Found at i:37553 original size:24 final size:24
Alignment explanation
Indices: 37521--37567 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37511 CCAACCCCAC
*
37521 ATAATCAATTTTAGAAA-CATAAAT
1 ATAACCAATTTTA-AAAGCATAAAT
37545 ATAACCAATTTTAAAAGCATAAA
1 ATAACCAATTTTAAAAGCATAAA
37568 CAGAACCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (24 bp):
ATAACCAATTTTAAAAGCATAAAT
Found at i:37574 original size:24 final size:24
Alignment explanation
Indices: 37526--37575 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
37516 CCCACATAAT
* *
37526 CAATTTTAGAAACATAAATATAAC
1 CAATTTTAGAAACATAAACAGAAC
37550 CAATTTTA-AAAGCATAAACAGAAC
1 CAATTTTAGAAA-CATAAACAGAAC
37574 CA
1 CA
37576 CATGCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.24
Consensus pattern (24 bp):
CAATTTTAGAAACATAAACAGAAC
Found at i:38081 original size:44 final size:44
Alignment explanation
Indices: 38009--38099 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
37999 ATTAAATGAT
* * *
38009 GGGTTTTCAATCTCAGAAGTAACCCTAAATCCCAAATCATTTTA
1 GGGTTTTCAATCTCAAAAATAACCCTAAACCCCAAATCATTTTA
* * * *
38053 GGGTTTTTAATTTCAAAAATAACTCTAAACCCCAAATTATTTTA
1 GGGTTTTCAATCTCAAAAATAACCCTAAACCCCAAATCATTTTA
38097 GGG
1 GGG
38100 CTTGTTGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (44 bp):
GGGTTTTCAATCTCAAAAATAACCCTAAACCCCAAATCATTTTA
Found at i:40647 original size:19 final size:19
Alignment explanation
Indices: 40591--40652 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
40581 TCTTTTTTTT
40591 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
40610 CAAC-AACTGTAGACTATCG
1 CAACGAA-TTTGGAAAATCG
40629 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
40648 CAACG
1 CAACG
40653 CGATTTTCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 2 0.06
19 29 0.88
20 2 0.06
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:40684 original size:21 final size:21
Alignment explanation
Indices: 40644--40684 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
40634 AATTTGGAAA
** *
40644 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
40665 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
40685 GTGATTTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:40691 original size:33 final size:34
Alignment explanation
Indices: 40642--40762 Score: 129
Period size: 33 Copynumber: 3.4 Consensus size: 34
40632 CGAATTTGGA
40642 AAATCGCAACGCGATTTTCAACTATCGCAACGCG
1 AAATCGCAACGCGATTTTCAACTATCGCAACGCG
* * *
40676 AAAT-GCAACGTGATTTTCAACTATCGTAAAGCGAAATAG
1 AAATCGCAACGCGATTTTCAACTATCG-CAA-CG----CG
*
40715 AAAATCGCAGCGCGATTTTCAACTATCGCAACGCG
1 -AAATCGCAACGCGATTTTCAACTATCGCAACGCG
40750 AAAT-GCAACGCGA
1 AAATCGCAACGCGA
40763 ATTTGTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
33 29 0.41
34 10 0.14
35 3 0.04
39 3 0.04
40 6 0.08
41 20 0.28
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (34 bp):
AAATCGCAACGCGATTTTCAACTATCGCAACGCG
Found at i:42336 original size:3 final size:3
Alignment explanation
Indices: 42328--42409 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
42318 TTGGTCTGAT
42328 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42376 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
42410 GGTAATGAAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:53437 original size:26 final size:27
Alignment explanation
Indices: 53367--53438 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
53357 AATTATGTAG
* *
53367 TTAAATATTTAATTTTTTAATGATACAA
1 TTAAGTATTTAACTTTTT-ATGATACAA
* **
53395 TTAAGTA-TTAACCTTTTATGATATGA
1 TTAAGTATTTAACTTTTTATGATACAA
*
53421 TTAGGTATTTAA-TTTTTA
1 TTAAGTATTTAACTTTTTA
53439 CTTTCTGTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 18 0.50
27 12 0.33
28 6 0.17
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.51
Consensus pattern (27 bp):
TTAAGTATTTAACTTTTTATGATACAA
Found at i:60940 original size:28 final size:28
Alignment explanation
Indices: 60900--60954 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
60890 TTTAAAATTA
60900 TAAATAAATTTAATATTTTT-ATATTTC
1 TAAATAAATTTAATATTTTTCATATTTC
60927 TAAATTAAATTTAATATTTTTCATATTT
1 TAAA-TAAATTTAATATTTTTCATATTT
60955 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 16 0.62
29 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (28 bp):
TAAATAAATTTAATATTTTTCATATTTC
Found at i:61159 original size:29 final size:28
Alignment explanation
Indices: 61103--61174 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
61093 TATAAAATAT
* *
61103 AAATATAAAAAATATTGAATTTAATTTA
1 AAATATAAAAAATATTAAAGTTAATTTA
*
61131 GAAATAT-AAAAATATTAAAGTTATTTTTA
1 -AAATATAAAAAATATTAAAGTTA-ATTTA
* *
61160 AAATTTCAAAAATAT
1 AAATATAAAAAATAT
61175 ATAATATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (28 bp):
AAATATAAAAAATATTAAAGTTAATTTA
Found at i:66422 original size:17 final size:17
Alignment explanation
Indices: 66400--66438 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
66390 AATATCTTCC
*
66400 TTTTTCTCCTTTTTGTT
1 TTTTTCTCCTTTTTCTT
*
66417 TTTTTCTCGTTTTTCTT
1 TTTTTCTCCTTTTTCTT
66434 TTTTT
1 TTTTT
66439 TCCAAAACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTCTCCTTTTTCTT
Found at i:66978 original size:23 final size:23
Alignment explanation
Indices: 66941--66984 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
66931 AAATAATAAT
*
66941 AAATAAAATAGAAAT-ATAGTGA
1 AAATAAAATACAAATAATAGTGA
66963 AAATAAAAATACAAATAATAGT
1 AAAT-AAAATACAAATAATAGT
66985 AGGAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (23 bp):
AAATAAAATACAAATAATAGTGA
Found at i:67653 original size:258 final size:261
Alignment explanation
Indices: 67147--68278 Score: 1264
Period size: 274 Copynumber: 4.3 Consensus size: 261
67137 GTCTCAAGTG
* * * * *
67147 AGACCGACAGATAACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGCCCCGAAGGA
1 AGACTGACAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
* ** * * *
67212 CTTACTAATTTTAGAAATAATTTACTGGGTTAGAAACTTTGGAAAAT-GCTTTATTACTTTTCAA
66 CTTACCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGG-AAATCACTTTCTTACTTTTCAA
*
67276 AAATTTCATTTTCTG-AAAACATT-AAAT-G-A-GAAACTTTGGAAATCGCTTTCTCATTTTTCA
130 AAATTTCATTTTCTGAAAAACATTGAAATCGTAGGAAACTTTGGAAATCGCTTTCCCATTTTTCA
* * * * *
67336 AATTCATGTGAAAACATCCTACCTGAAGGTCTTATAGATGGCTCGAAGGATTTATCATCTTGTTA
195 AATTCATGTGAAAACATCCTACC-GAAGGTCTTACAGATGGCCCGAAGGACTTATCATCTTGCTC
*
67401 AAA
259 GAA
* * * * *
67404 AAACTGACAGATGACCCGAAAGATTTAATCATCATGCTCAAAAGAATT-CTTGATGACCAGAAGG
1 AGACTGACAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTAC-TGATGGCCCGAAGG
* * * * * *
67468 ACATACTAATTTTGGAAATAATTTACTTGGTAAGAAACTTAGGAAATCGCTTTCTTACTTTTCAA
65 ACTTACCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAA
* *
67533 AAATTTTATTTTCTGAAAAACATT-AAAT-G-A-GAAACTTTGGAAATCGCTTTCTCATTTTTCA
130 AAATTTCATTTTCTGAAAAACATTGAAATCGTAGGAAACTTTGGAAATCGCTTTCCCATTTTTCA
* ** *
67594 AATTCATGTGAAAACATCATACTCGAATATCTTATAGATGGCCCGAAGGACTTATCATCTTGCTC
195 AATTCATGTGAAAACATCCTAC-CGAAGGTCTTACAGATGGCCCGAAGGACTTATCATCTTGCTC
67659 GAA
259 GAA
*
67662 AGACTGACAGATAACCC-AAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AGACTGACAGATGACCCGAAA-GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
67726 ACTTACCAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTGCAA
65 ACTTACCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAA
* * *
67791 AAATTTCATTTTCTGAGAAACTTTGGAAATCGCTTTCTCATTATGGGAAACTTTGAAAATCGCTT
130 AAATTTCATTTTCTGAAAAACATT-GAAATCG---------TA--GGAAACTTTGGAAATCGCTT
* * * *
67856 TCCCATTTTTCAAAATCATGTGAAAACATCCTACCCGAAGGTCTTACGGATGACCCGAATGACTT
183 TCCCATTTTTCAAATTCATGTGAAAACATCCTA-CCGAAGGTCTTACAGATGGCCCGAAGGACTT
67921 ATCATCTTGCTCGAA
247 ATCATCTTGCTCGAA
* * * * * * *** *
67936 AGACTTAAAGATGACCCGTAGGATTTAATCATCATGCTTGAAAGACTTACAGATGGTTTGAAGGG
1 AGACTGACAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
** *
68001 CTTACCAATTTGGGAAATGGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTTAAA
66 CTTACCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAA
* * * *
68066 AATTTTATTTTCTGAGAAACTTTGGAAATCGCTTTCTCATTATGGGAAACTTTGGAAATCACTTT
131 AATTTCATTTTCTGAAAAACATT-GAAATCG---------TA--GGAAACTTTGGAAATCGCTTT
* * * *
68131 CCCGTTTTTCAAATTCATGTGAAAACAGCCTACCGAAGGTCTTACGGATGGCCCGAAGGACTTGT
184 CCCATTTTTCAAATTCATGTGAAAACATCCTACCGAAGGTCTTACAGATGGCCCGAAGGACTTAT
68196 CATCTTGCTCGAA
249 CATCTTGCTCGAA
* * * *
68209 AGACTTACAGATGACCC-AAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGACCCGAAAG
1 AGACTGACAGATGACCCGAAA-GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
68273 ACTTAC
65 ACTTAC
68279 TAAGTAAGAA
Statistics
Matches: 764, Mismatches: 86, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
256 5 0.01
257 124 0.16
258 233 0.30
259 2 0.00
260 4 0.01
261 1 0.00
271 1 0.00
272 1 0.00
273 99 0.13
274 292 0.38
275 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (261 bp):
AGACTGACAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
CTTACCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAA
AATTTCATTTTCTGAAAAACATTGAAATCGTAGGAAACTTTGGAAATCGCTTTCCCATTTTTCAA
ATTCATGTGAAAACATCCTACCGAAGGTCTTACAGATGGCCCGAAGGACTTATCATCTTGCTCGA
A
Found at i:67726 original size:42 final size:41
Alignment explanation
Indices: 67629--67730 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
67619 AATATCTTAT
*
67629 AGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGAC
1 AGATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTGAC
** * * *
67670 AGATAACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTGAC
*
67712 TGATGGCCCGAAGGACTTA
1 AGATGGCCCGAAGGACTTA
67731 CCAATTTGGG
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 15 0.31
42 34 0.69
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (41 bp):
AGATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTGAC
Found at i:67979 original size:42 final size:41
Alignment explanation
Indices: 67904--67990 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 41
67894 AGGTCTTACG
* *
67904 GATGACCCGAATGACTTATCATCTTGCTCGAAAGACTTAAA
1 GATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTAAA
* * * *
67945 GATGACCCGTAGGATTTAATCATCATGCTTGAAAGACTTACA
1 GATGACCCGAAGGACTT-ATCATCATGCTCGAAAGACTTAAA
67987 GATG
1 GATG
67991 GTTTGAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 14 0.36
42 25 0.64
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTAAA
Found at i:68231 original size:41 final size:42
Alignment explanation
Indices: 68171--68277 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
68161 TACCGAAGGT
* * * * *
68171 CTTACGGATGGCCCGAAGGACTT-GTCATCTTGCTCGAAAGA
1 CTTACAGATGACCCAAAGGACTTAATCATCATGCTCGAAAGA
*
68212 CTTACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAGATGACCCAAAGGACTTAATCATCATGCTCGAAAGA
68254 CTTACTA-ATGACCCGAAA-GACTTA
1 CTTAC-AGATGACCC-AAAGGACTTA
68278 CTAAGTAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
41 19 0.34
42 33 0.59
43 4 0.07
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
CTTACAGATGACCCAAAGGACTTAATCATCATGCTCGAAAGA
Found at i:68949 original size:19 final size:20
Alignment explanation
Indices: 68913--68960 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
68903 TCTAAATCAT
* *
68913 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
68933 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
68952 ATTTCAAAA
1 TTTTCAAAA
68961 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:70235 original size:20 final size:21
Alignment explanation
Indices: 70205--70244 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
70195 AGCCGTTGGG
70205 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
70226 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
70245 CTAAATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:71323 original size:17 final size:20
Alignment explanation
Indices: 71286--71324 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
71276 ATCCTTACTA
71286 AAGTGTAAAATTATGTTTTG
1 AAGTGTAAAATTATGTTTTG
71306 AAGT-TAAAA-TAT-TTTTG
1 AAGTGTAAAATTATGTTTTG
71323 AA
1 AA
71325 ACAATTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 3 0.16
19 5 0.26
20 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
AAGTGTAAAATTATGTTTTG
Found at i:77018 original size:43 final size:43
Alignment explanation
Indices: 76951--77032 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
76941 TTTGTGCAAC
*
76951 ATGCATCGATACACTAGAAGGTGCATCGATGCATCCCTTGAAT
1 ATGCATCGATACACTAGAAGGTGCACCGATGCATCCCTTGAAT
*
76994 ATGCATCGATACACTATGAA-GTGCACCGATGCATTCCTT
1 ATGCATCGATACACTA-GAAGGTGCACCGATGCATCCCTT
77033 CATTCTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 33 0.92
44 3 0.08
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCATCGATACACTAGAAGGTGCACCGATGCATCCCTTGAAT
Found at i:77566 original size:12 final size:13
Alignment explanation
Indices: 77535--77572 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
77525 CTAAATATTG
77535 ATTTTCAAACATT
1 ATTTTCAAACATT
*
77548 GTTTTCAAA-ATT
1 ATTTTCAAACATT
77560 ATTTTCAAACATT
1 ATTTTCAAACATT
77573 TCTATTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTTTCAAACATT
Found at i:79825 original size:65 final size:64
Alignment explanation
Indices: 79704--79855 Score: 191
Period size: 65 Copynumber: 2.4 Consensus size: 64
79694 CCCTATTTCG
* *
79704 AATGCATTTTGTG-ACCGATGCACAGCCATGCATCGATGCACTCTTTAATTTATTGAAACATCA
1 AATGCATTTTGTGTACCGATGCACAGCCATGCATCGATGCACTCCTGAATTTATTGAAACATCA
* **
79767 AATGCATTTTGTGTACAGATGCACAGACCATGCATCGATGCACTCCTGGCTGTT-TTGAAACATC
1 AATGCATTTTGTGTACCGATGCACAG-CCATGCATCGATGCACTCCTGAAT-TTATTGAAACATC
*
79831 G
64 A
* * *
79832 AATGTAATTAGTGTACCGATGCAC
1 AATGCATTTTGTGTACCGATGCAC
79856 CCTGAGTGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
63 13 0.17
64 11 0.14
65 50 0.66
66 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (64 bp):
AATGCATTTTGTGTACCGATGCACAGCCATGCATCGATGCACTCCTGAATTTATTGAAACATCA
Found at i:86568 original size:17 final size:16
Alignment explanation
Indices: 86527--86568 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
86517 AAATACCCTT
86527 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
86543 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
86560 TAAAA-AATT
1 TAAAATAATT
86569 ATATGCGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:87728 original size:26 final size:26
Alignment explanation
Indices: 87695--87747 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
87685 AAAAATCTCC
87695 TCTTTTTTCTCCTT-TTAATTT-TTTT
1 TCTTTTTTCTCCTTCTT-ATTTGTTTT
*
87720 TCTTGTTTTTTCCTTCTTATTTGTTTT
1 TCTT-TTTTCTCCTTCTTATTTGTTTT
87747 T
1 T
87748 ACAAAATCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 13 0.54
27 7 0.29
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (26 bp):
TCTTTTTTCTCCTTCTTATTTGTTTT
Found at i:88284 original size:23 final size:23
Alignment explanation
Indices: 88247--88290 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
88237 AAATAATAAT
*
88247 AAATAAAATAGAAAT-ATAGTGA
1 AAATAAAATACAAATAATAGTGA
88269 AAATAAAAATACAAATAATAGT
1 AAAT-AAAATACAAATAATAGT
88291 AGGAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (23 bp):
AAATAAAATACAAATAATAGTGA
Found at i:88370 original size:2 final size:2
Alignment explanation
Indices: 88363--88392 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88353 GGTGTCGACA
88363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88393 GAAAACTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88765 original size:2 final size:2
Alignment explanation
Indices: 88753--88883 Score: 71
Period size: 2 Copynumber: 66.5 Consensus size: 2
88743 ATGTATAATG
* * * *
88753 TA TA T- TA TA TA TA TA TA TA TA TG TA TG TA TA TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
88794 TA AA TA TA -A GTA TA -A GTA TA -A GTT TA TA -A GTA CT- TA CA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA -TA -TA TA TA TA
* *
88834 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TT TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88875 CT- TA TA TA T
1 -TA TA TA TA T
88884 GTACATACTT
Statistics
Matches: 98, Mismatches: 18, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
1 8 0.08
2 85 0.87
3 5 0.05
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (2 bp):
TA
Found at i:88783 original size:12 final size:12
Alignment explanation
Indices: 88742--88795 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
88732 TGATTAATCT
88742 TATGTATA-ATG
1 TATGTATATATG
* *
88753 TATAT-TATATA
1 TATGTATATATG
*
88764 TATATATATATG
1 TATGTATATATG
88776 TATGTATATATG
1 TATGTATATATG
88788 TATGTATA
1 TATGTATA
88796 AATATAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 2 0.05
11 11 0.30
12 24 0.65
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (12 bp):
TATGTATATATG
Found at i:90756 original size:21 final size:21
Alignment explanation
Indices: 90726--90871 Score: 138
Period size: 21 Copynumber: 7.0 Consensus size: 21
90716 GATTTACATA
*
90726 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
90747 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
90768 TTTGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
90791 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
90810 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
90833 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
90852 TTCGTGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
90872 AATCGCAACG
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
19 16 0.16
21 68 0.68
23 16 0.16
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:90780 original size:42 final size:41
Alignment explanation
Indices: 90726--90872 Score: 190
Period size: 42 Copynumber: 3.5 Consensus size: 41
90716 GATTTACATA
* *
90726 TTCGCATTGCGA-TAGTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTAGTCCAAATT--CGTTGCGATAGTCGAAG
* *
90768 TTTGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTAGTCCAAATTCGTTGCGATAGTCGAAG
*
90810 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTAGTCCAAATTCGTTGCGATAGTCGAAG
*
90852 TTCGTGTTGCGA-TAGTCCAAA
1 TTCGCGTTGCGATTAGTCCAAA
90873 ATCGCAACGA
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
40 8 0.08
42 79 0.82
44 9 0.09
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (41 bp):
TTCGCGTTGCGATTAGTCCAAATTCGTTGCGATAGTCGAAG
Found at i:90972 original size:6 final size:6
Alignment explanation
Indices: 90961--90985 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
90951 GACACGTATT
90961 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
90986 GACGAGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:91612 original size:21 final size:21
Alignment explanation
Indices: 91586--91798 Score: 141
Period size: 21 Copynumber: 10.4 Consensus size: 21
91576 GTTTTGGACT
91586 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
91607 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
91628 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
91649 ATCGCAACGCGAACTTT-GACT--
1 ATCGCAA--CGAA-TTTGGAATAA
91670 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
91689 ATCGCAACGAATTT-GAA-AA
1 ATCGCAACGAATTTGGAATAA
* * *
91708 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
91729 ATCGCAACAAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
* * *
91748 ATCGCAACGCAAACTTCGACT--
1 ATCGCAACG--AATTTGGAATAA
*
91769 ATCGCAACGAATTTGTAATAA
1 ATCGCAACGAATTTGGAATAA
91790 ATCGCAACG
1 ATCGCAACG
91799 CGAACTTCGA
Statistics
Matches: 149, Mismatches: 20, Indels: 46
0.69 0.09 0.21
Matches are distributed among these distances:
18 4 0.03
19 59 0.40
21 64 0.43
22 2 0.01
23 17 0.11
24 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:91638 original size:42 final size:42
Alignment explanation
Indices: 91579--91697 Score: 215
Period size: 42 Copynumber: 2.9 Consensus size: 42
91569 TGTTGCGGTT
91579 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
91621 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
91663 TTTGACTATCGCAACGAATTTGG-A-AAATCGCAACG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
91698 AATTTGAAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 11 0.14
41 1 0.01
42 64 0.84
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:91729 original size:59 final size:61
Alignment explanation
Indices: 91628--91756 Score: 226
Period size: 59 Copynumber: 2.1 Consensus size: 61
91618 AACTTGGACT
* *
91628 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAA
91689 ATCGCAACGAATTT-GAA-AAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAA
91748 ATCGCAACG
1 ATCGCAACG
91757 CAAACTTCGA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 49 0.74
60 3 0.05
61 14 0.21
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (61 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAA
Found at i:91733 original size:40 final size:40
Alignment explanation
Indices: 91689--91817 Score: 213
Period size: 40 Copynumber: 3.2 Consensus size: 40
91679 AATTTGGAAA
91689 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
* * *
91729 ATCGCAACAAATTTGGAAAATCGCAACGCAAACTTCGACT
1 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
91769 ATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTG-AA-AAATCGCAACGCGAACTTCGACT
91811 ATCGCAA
1 ATCGCAA
91818 TGCGAATATG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 51 0.63
41 1 0.01
42 29 0.36
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (40 bp):
ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
Found at i:91814 original size:21 final size:20
Alignment explanation
Indices: 91579--91823 Score: 133
Period size: 21 Copynumber: 11.9 Consensus size: 20
91569 TGTTGCGGTT
* *
91579 TTGGACTATCGCAA-CGAAT
1 TTGGAATATCGCAAGCGAAC
91598 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
* *
91621 TTGGACTATCGCAA-CGAAT
1 TTGGAATATCGCAAGCGAAC
91640 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
* * *
91663 TTTGACTATCGCAA-CGAAT
1 TTGGAATATCGCAAGCGAAC
* *
91682 TTGGAAAATCGCAA-CGAAT
1 TTGGAATATCGCAAGCGAAC
* *
91701 TTGAAAAATCGCAACGCGAAC
1 TTGGAATATCGCAA-GCGAAC
* * * *
91722 TTCGACTATCGCAA-CAAAT
1 TTGGAATATCGCAAGCGAAC
* *
91741 TTGGAAAATCGCAACGCAAAC
1 TTGGAATATCGCAA-GCGAAC
* * *
91762 TTCGACTATCGCAA-CGAAT
1 TTGGAATATCGCAAGCGAAC
*
91781 TTGTAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
* *
91804 TTCGACTATCGCAATGCGAA
1 TTGGAATATCGCAA-GCGAA
91824 TATGTAAATC
Statistics
Matches: 173, Mismatches: 37, Indels: 30
0.72 0.15 0.12
Matches are distributed among these distances:
19 70 0.40
21 76 0.44
23 27 0.16
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
TTGGAATATCGCAAGCGAAC
Found at i:95676 original size:30 final size:30
Alignment explanation
Indices: 95638--95711 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
95628 ACGATCTTGT
95638 GAAGGTGGATAATACTGC-AGCTCGGGTTGA
1 GAAGGTGGATAATACTGCGA-CTCGGGTTGA
* * * *
95668 GGAGGTGGATAGTACTGCGATTCGGGTTGT
1 GAAGGTGGATAATACTGCGACTCGGGTTGA
95698 GAAGGTGGATAATA
1 GAAGGTGGATAATA
95712 TTGTGGGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.39, T:0.26
Consensus pattern (30 bp):
GAAGGTGGATAATACTGCGACTCGGGTTGA
Found at i:99838 original size:26 final size:26
Alignment explanation
Indices: 99801--99906 Score: 140
Period size: 26 Copynumber: 4.1 Consensus size: 26
99791 ACCGAAGTGC
*
99801 TAATACACATAAGGTCGTGTCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
* ** * *
99827 TAATACATATAATATCGTTCCCACCG
1 TAATACACATAAGGTCGTGCCCACCA
*
99853 TAATACACATAATGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
*
99879 TAATACATATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
99905 TA
1 TA
99907 TGCACTTAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:99902 original size:52 final size:52
Alignment explanation
Indices: 99801--99903 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
99791 ACCGAAGTGC
* * *
99801 TAATACACATAAGGTCGTGTCCACCATAATACATATAATATCGTTCCCACCG
1 TAATACACATAAGGTCGTGCCCACCATAATACATATAAGATCGTGCCCACCG
* *
99853 TAATACACATAATGTCGTGCCCACCATAATACATATAAGGTCGTGCCCACC
1 TAATACACATAAGGTCGTGCCCACCATAATACATATAAGATCGTGCCCACC
99904 ATATGCACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (52 bp):
TAATACACATAAGGTCGTGCCCACCATAATACATATAAGATCGTGCCCACCG
Found at i:100132 original size:16 final size:16
Alignment explanation
Indices: 100111--100142 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100101 TTCATACCCA
*
100111 AAATATCATTCATGTT
1 AAATATCATACATGTT
100127 AAATATCATACATGTT
1 AAATATCATACATGTT
100143 CATGAGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATATCATACATGTT
Found at i:101602 original size:4 final size:4
Alignment explanation
Indices: 101593--103391 Score: 3159
Period size: 4 Copynumber: 452.8 Consensus size: 4
101583 GACTTTTAAA
* * * *
101593 ACAT ACAT ACAT ATAT ACAT ACAT ACAT ATAT TCAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101641 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101689 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101737 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101785 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101833 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101879 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101927 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101975 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102023 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102071 ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102117 AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102164 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102212 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102260 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102308 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102356 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102404 ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102450 ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102496 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102544 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102592 --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102638 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102686 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102734 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102782 ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102828 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102875 ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102921 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
102967 GCAT GCAT GCAT GCAT GCACAT ACAT GCAT ACAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT --ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
103017 GCAT ACAT GCAT ACAT ACAT ACAT ACAT GCAT GCAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103065 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
103113 ACAT GCACAT ACAT ACAT GCAT ACAT GCAT ACAT ACAT GCAT ACAT ACAT
1 ACAT --ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
103163 GCACAT GCAT ACAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 --ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103213 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
103261 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
103309 ACAT GCAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
103357 ACAT GCAT ACAT ACA- AGCAT ACAT ACAT GCAT ACA
1 ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACA
103392 CACACACACG
Statistics
Matches: 1726, Mismatches: 43, Indels: 52
0.95 0.02 0.03
Matches are distributed among these distances:
2 16 0.01
3 7 0.00
4 1691 0.98
5 1 0.00
6 11 0.01
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:103407 original size:10 final size:10
Alignment explanation
Indices: 103389--104091 Score: 974
Period size: 10 Copynumber: 70.3 Consensus size: 10
103379 ATACATGCAT
103389 ACACACACAC
1 ACACACACAC
*
103399 ACGCACACAC
1 ACACACACAC
*
103409 ACACACACGC
1 ACACACACAC
*
103419 ACACACACGC
1 ACACACACAC
103429 ACACACACAC
1 ACACACACAC
* * *
103439 ACGCAGACGC
1 ACACACACAC
* *
103449 ACACGCACGC
1 ACACACACAC
*
103459 ACGCACACAC
1 ACACACACAC
*
103469 ACGCACACAC
1 ACACACACAC
103479 ACACACACAC
1 ACACACACAC
103489 ACACACACAC
1 ACACACACAC
*
103499 GCACACACAC
1 ACACACACAC
103509 ACACACACAC
1 ACACACACAC
*
103519 ACACACGCAC
1 ACACACACAC
*
103529 ACACACGCAC
1 ACACACACAC
*
103539 GCACACACAC
1 ACACACACAC
*
103549 GCACACACAC
1 ACACACACAC
*
103559 ACACGCACAC
1 ACACACACAC
103569 ACACACACAC
1 ACACACACAC
103579 ACACACACAC
1 ACACACACAC
103589 ACACACACAC
1 ACACACACAC
*
103599 ACGCACACAC
1 ACACACACAC
* *
103609 GCACACACGC
1 ACACACACAC
* *
103619 GCACACACGC
1 ACACACACAC
*
103629 ACACACGCAC
1 ACACACACAC
* *
103639 ACGCGCACAC
1 ACACACACAC
*
103649 ACACGCACAC
1 ACACACACAC
103659 ACACACACAC
1 ACACACACAC
103669 ACACACACAC
1 ACACACACAC
103679 ACACACACAC
1 ACACACACAC
103689 ACACACACAC
1 ACACACACAC
*
103699 ACACACGCAC
1 ACACACACAC
103709 ACACACACAC
1 ACACACACAC
103719 ACACACACAC
1 ACACACACAC
*
103729 ACGCACACAC
1 ACACACACAC
*
103739 ACGCACACAC
1 ACACACACAC
*
103749 ACACACACGC
1 ACACACACAC
* *
103759 ACGCACACGC
1 ACACACACAC
*
103769 ACGCACACAC
1 ACACACACAC
*
103779 ACGCACACAC
1 ACACACACAC
103789 ACACACACAC
1 ACACACACAC
103799 ACACACACAC
1 ACACACACAC
*
103809 ACACGCACAC
1 ACACACACAC
103819 ACACACACAC
1 ACACACACAC
103829 ACACACACAC
1 ACACACACAC
*
103839 ACACACACGC
1 ACACACACAC
103849 ACACACACAC
1 ACACACACAC
103859 ACACACACAC
1 ACACACACAC
103869 ACACACACAC
1 ACACACACAC
103879 ACACACACAC
1 ACACACACAC
103889 ACACACACAC
1 ACACACACAC
103899 ACACACACAC
1 ACACACACAC
103909 ACACACACAC
1 ACACACACAC
103919 ACACACACAC
1 ACACACACAC
103929 ACACACACAC
1 ACACACACAC
103939 ACACACACAC
1 ACACACACAC
103949 ACACACACAC
1 ACACACACAC
* *
103959 ACATACACGC
1 ACACACACAC
* *
103969 ACACACGCGC
1 ACACACACAC
*
103979 ACACACGCAC
1 ACACACACAC
* *
103989 ACGCGCACAC
1 ACACACACAC
* *
103999 ACGCACACGC
1 ACACACACAC
*
104009 GCACACACAC
1 ACACACACAC
*
104019 GCACACACAC
1 ACACACACAC
*
104029 ACACACGCAC
1 ACACACACAC
104039 ACACACACAC
1 ACACACACAC
104049 ACACACACAC
1 ACACACACAC
*
104059 ACGCACACAC
1 ACACACACAC
104069 ACACACACAC
1 ACACACACAC
104079 ACACACACAC
1 ACACACACAC
104089 ACA
1 ACA
104092 TACATAGAAT
Statistics
Matches: 629, Mismatches: 64, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 629 1.00
ACGTcount: A:0.44, C:0.50, G:0.07, T:0.00
Consensus pattern (10 bp):
ACACACACAC
Found at i:103410 original size:16 final size:16
Alignment explanation
Indices: 103389--104091 Score: 974
Period size: 16 Copynumber: 43.9 Consensus size: 16
103379 ATACATGCAT
*
103389 ACACACACACACGCAC
1 ACACACACACACACAC
*
103405 ACACACACACACGCAC
1 ACACACACACACACAC
*
103421 ACACACGCACACACAC
1 ACACACACACACACAC
* * *
103437 ACACGCAGACGCACAC
1 ACACACACACACACAC
* * *
103453 GCACGCACGCACACAC
1 ACACACACACACACAC
*
103469 ACGCACACACACACAC
1 ACACACACACACACAC
*
103485 ACACACACACACACGC
1 ACACACACACACACAC
103501 ACACACACACACACAC
1 ACACACACACACACAC
*
103517 ACACACACGCACACAC
1 ACACACACACACACAC
* *
103533 ACGCACGCACACACAC
1 ACACACACACACACAC
* *
103549 GCACACACACACACGC
1 ACACACACACACACAC
103565 ACACACACACACACAC
1 ACACACACACACACAC
103581 ACACACACACACACAC
1 ACACACACACACACAC
* *
103597 ACACGCACACACGCAC
1 ACACACACACACACAC
* * *
103613 ACACGCGCACACACGC
1 ACACACACACACACAC
* * *
103629 ACACACGCACACGCGC
1 ACACACACACACACAC
*
103645 ACACACACGCACACAC
1 ACACACACACACACAC
103661 ACACACACACACACAC
1 ACACACACACACACAC
103677 ACACACACACACACAC
1 ACACACACACACACAC
*
103693 ACACACACACACGCAC
1 ACACACACACACACAC
103709 ACACACACACACACAC
1 ACACACACACACACAC
*
103725 ACACACGCACACACAC
1 ACACACACACACACAC
*
103741 GCACACACACACACAC
1 ACACACACACACACAC
* * * *
103757 GCACGCACACGCACGC
1 ACACACACACACACAC
*
103773 ACACACACGCACACAC
1 ACACACACACACACAC
103789 ACACACACACACACAC
1 ACACACACACACACAC
*
103805 ACACACACGCACACAC
1 ACACACACACACACAC
103821 ACACACACACACACAC
1 ACACACACACACACAC
*
103837 ACACACACACGCACAC
1 ACACACACACACACAC
103853 ACACACACACACACAC
1 ACACACACACACACAC
103869 ACACACACACACACAC
1 ACACACACACACACAC
103885 ACACACACACACACAC
1 ACACACACACACACAC
103901 ACACACACACACACAC
1 ACACACACACACACAC
103917 ACACACACACACACAC
1 ACACACACACACACAC
103933 ACACACACACACACAC
1 ACACACACACACACAC
*
103949 ACACACACACACATAC
1 ACACACACACACACAC
* * *
103965 ACGCACACACGCGCAC
1 ACACACACACACACAC
* * *
103981 ACACGCACACGCGCAC
1 ACACACACACACACAC
* * *
103997 ACACGCACACGCGCAC
1 ACACACACACACACAC
*
104013 ACACACGCACACACAC
1 ACACACACACACACAC
*
104029 ACACACGCACACACAC
1 ACACACACACACACAC
104045 ACACACACACACACAC
1 ACACACACACACACAC
*
104061 GCACACACACACACAC
1 ACACACACACACACAC
104077 ACACACACACACACA
1 ACACACACACACACA
104092 TACATAGAAT
Statistics
Matches: 616, Mismatches: 71, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 616 1.00
ACGTcount: A:0.44, C:0.50, G:0.07, T:0.00
Consensus pattern (16 bp):
ACACACACACACACAC
Found at i:103428 original size:26 final size:26
Alignment explanation
Indices: 103392--104091 Score: 949
Period size: 26 Copynumber: 26.8 Consensus size: 26
103382 CATGCATACA
*
103392 CACACACACGCACACACACACACACG
1 CACACACACACACACACACACACACG
*
103418 CACACACACGCACACACACACACGCAGACG
1 CACACACA--CACACACACACA--CACACG
* * * * *
103448 CACACGCACGCACGCACACACACGCA
1 CACACACACACACACACACACACACG
103474 CACACACACACACACACACACACACG
1 CACACACACACACACACACACACACG
103500 CACACACACACACACACACACACACG
1 CACACACACACACACACACACACACG
* *
103526 --CACACACACGCACGCACACACACG
1 CACACACACACACACACACACACACG
* *
103550 CACACACACACACGCACACACACACA
1 CACACACACACACACACACACACACG
103576 CACACACACACACACACACACACACG
1 CACACACACACACACACACACACACG
* * *
103602 CACACACGCACACACGCGCACACACG
1 CACACACACACACACACACACACACG
* * *
103628 CACACACGCACACGCGCACACACACG
1 CACACACACACACACACACACACACG
*
103654 CACACACACACACACACACACACACA
1 CACACACACACACACACACACACACG
103680 CACACACACACACACACACACACACG
1 CACACACACACACACACACACACACG
103706 CACACACACACACACACACACACACG
1 CACACACACACACACACACACACACG
103732 CACACACACGCACACACACACACACGCACG
1 CACACACA--CACACACACACACA--CACG
* * * *
103762 CACACGCACGCACACACACGCACACA
1 CACACACACACACACACACACACACG
103788 CACACACACACACACACACACACACG
1 CACACACACACACACACACACACACG
103814 CACACACACACACACACACACACA--
1 CACACACACACACACACACACACACG
* *
103838 CACACACACGCACACACACACACACA
1 CACACACACACACACACACACACACG
*
103864 CACACACACACACACACACACACACA
1 CACACACACACACACACACACACACG
*
103890 CACACACACACACACACACACACACA
1 CACACACACACACACACACACACACG
*
103916 CACACACACACACACACACACACACA
1 CACACACACACACACACACACACACG
*
103942 CACACACACACACACACACATACACG
1 CACACACACACACACACACACACACG
* * * *
103968 CACACACGCGCACACACGCACACGCG
1 CACACACACACACACACACACACACG
* * *
103994 CACACACGCACACGCGCACACACACG
1 CACACACACACACACACACACACACG
* *
104020 CACACACACACACACGCACACACACA
1 CACACACACACACACACACACACACG
* *
104046 CACACACACACACACGCACACACACA
1 CACACACACACACACACACACACACG
104072 CACACACACACACACACACA
1 CACACACACACACACACACA
104092 TACATAGAAT
Statistics
Matches: 605, Mismatches: 57, Indels: 24
0.88 0.08 0.03
Matches are distributed among these distances:
24 45 0.07
26 490 0.81
28 47 0.08
30 23 0.04
ACGTcount: A:0.43, C:0.50, G:0.07, T:0.00
Consensus pattern (26 bp):
CACACACACACACACACACACACACG
Found at i:104747 original size:76 final size:76
Alignment explanation
Indices: 104655--104812 Score: 289
Period size: 76 Copynumber: 2.1 Consensus size: 76
104645 TACTAATATA
104655 ACGAAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACAC
1 ACGAAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACAC
104720 AAAGTACTAAT
66 AAAGTACTAAT
* *
104731 ACGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATATTGCCGAAAGTACAC
1 ACGAAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACAC
*
104796 AAAGTACTGAT
66 AAAGTACTAAT
104807 ACGAAA
1 ACGAAA
104813 ATGCAACATA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 79 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (76 bp):
ACGAAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCGAAAGTACAC
AAAGTACTAAT
Found at i:105505 original size:31 final size:31
Alignment explanation
Indices: 105452--105511 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
105442 CAATGTGATA
* *
105452 TTTACCATTTAATCCACTAACTTTCTCAATG
1 TTTAACATTTAATCCACAAACTTTCTCAATG
*
105483 TTTAACATTTAATACC-CAAACTTTGTCAA
1 TTTAACATTTAAT-CCACAAACTTTCTCAA
105512 CTTTCCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.40
Consensus pattern (31 bp):
TTTAACATTTAATCCACAAACTTTCTCAATG
Found at i:107285 original size:18 final size:18
Alignment explanation
Indices: 107262--107301 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
107252 TCGAAACGCA
107262 ATACTATCTTCCAAGGCG
1 ATACTATCTTCCAAGGCG
107280 ATACTATCTTCCAAGGCG
1 ATACTATCTTCCAAGGCG
107298 ATAC
1 ATAC
107302 CTTGAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (18 bp):
ATACTATCTTCCAAGGCG
Found at i:111867 original size:76 final size:76
Alignment explanation
Indices: 111775--111920 Score: 247
Period size: 76 Copynumber: 1.9 Consensus size: 76
111765 TAATATAACG
* *
111775 AAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTTCCGAAAGTACACAAA
1 AAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCAAAAGTACACAAA
111840 GTACTAAAACA
66 GTACTAAAACA
* *
111851 AAATGGTAATTCACAAACTCATTTTGAATACCATGGATGCACACATAGTGCCAAAAGTACACAAA
1 AAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCAAAAGTACACAAA
*
111916 TTACT
66 GTACT
111921 GATATGAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (76 bp):
AAATGGTAATTCACAAACTCATTATGAATACCATAGATGCACACATAGTGCCAAAAGTACACAAA
GTACTAAAACA
Found at i:114080 original size:20 final size:21
Alignment explanation
Indices: 114027--114080 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
114017 ATACTTAAAG
* * *
114027 GAGTATCGGTACCATAGTATA
1 GAGTACCGATACCATAGTAGA
*
114048 GTAGTATCGATACCATAGTAGA
1 G-AGTACCGATACCATAGTAGA
114070 G-GTACCGATAC
1 GAGTACCGATAC
114081 TATTGAGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.31
21 1 0.03
22 19 0.66
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (21 bp):
GAGTACCGATACCATAGTAGA
Found at i:114651 original size:54 final size:54
Alignment explanation
Indices: 114403--114709 Score: 323
Period size: 54 Copynumber: 5.7 Consensus size: 54
114393 CTATGTGTAC
* * *
114403 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATGAACG
1 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCG
** * *
114457 TATCGGTACTAAGTGTGCAAGCCACAT--AATTCATAATAAGTTTATGAACGAGCG
1 TATCGACACTAAGTGTGCAA-CC-CATGGAATTCATAATAAGTTTATGAATGACCG
** *
114511 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCG
* * * *
114565 TATCAACACTAAGTGTGTAACCC-TCGAAATTCATAATAAGTTTATGAATGACCA
1 TATCGACACTAAGTGTGCAACCCAT-GGAATTCATAATAAGTTTATGAATGACCG
** * * ** * *
114619 TATAAACACTAAATGTGCAACCCATGGTATTCATAATGTGTTTAGGAATGACCA
1 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCG
* * * * *
114673 TTTTGGCACTATGTGTGCAATCCATGGAATTCATAAT
1 TATCGACACTAAGTGTGCAACCCATGGAATTCATAAT
114710 GTGTTTGTGA
Statistics
Matches: 215, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.01
53 2 0.01
54 206 0.96
55 3 0.01
56 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCG
Found at i:114691 original size:162 final size:162
Alignment explanation
Indices: 114403--114709 Score: 366
Period size: 162 Copynumber: 1.9 Consensus size: 162
114393 CTATGTGTAC
* * ****
114403 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATGAACGTATCGGTACTA
1 TATCAACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATGAACATATAAACACTA
* * * *
114468 AGTGTGCAAGCCACATAATTCATAATAAGTTTATGAACGAGCGTATCGACACTAAGTGTGCAACC
66 AATGTGCAAGCCACATAATTCATAATAAGTTTAGGAACGACCATATCGACACTAAGTGTGCAACC
114533 CACAGAATTCATAATAAGTTTATGAACGACCG
131 CACAGAATTCATAATAAGTTTATGAACGACCG
* * *
114565 TATCAACACTAAGTGTGTAACCCTCGAAATTCATAATAAGTTTATGAATGACCATATAAACACTA
1 TATCAACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATGAACATATAAACACTA
* ** * * * * *
114630 AATGTGCAA-CC-CATGGTATTCATAATGTGTTTAGGAATGACCATTTTGGCACTATGTGTGCAA
66 AATGTGCAAGCCACAT--AATTCATAATAAGTTTAGGAACGACCATATCGACACTAAGTGTGCAA
* **
114693 TCCATGGAATTCATAAT
129 CCCACAGAATTCATAAT
114710 GTGTTTGTGA
Statistics
Matches: 119, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
160 3 0.03
161 2 0.02
162 114 0.96
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (162 bp):
TATCAACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATGAACATATAAACACTA
AATGTGCAAGCCACATAATTCATAATAAGTTTAGGAACGACCATATCGACACTAAGTGTGCAACC
CACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:120572 original size:54 final size:54
Alignment explanation
Indices: 120324--120559 Score: 321
Period size: 54 Copynumber: 4.4 Consensus size: 54
120314 GTGTACTATT
* * *
120324 GGCACTAAGTGTGCAACCCATGAAATTTATAATAAGTTTATGAACAACCGTATC
1 GGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATC
* * * * **
120378 AGCGCTAAGTGTGAAACCCAC-AGAATTCATAATAAGTTTATGAATGACCAAATC
1 GGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATC
*
120432 GGCACTAAGTGTGCAACCCACGAAATTCATAATAATTTTATGAACGACCGTATC
1 GGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATC
* * *
120486 GACACTTAGTGTTCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATC
1 GGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATC
* *
120540 GGCATTAAATGTGCAACCCA
1 GGCACTAAGTGTGCAACCCA
120560 TGGTATTCAT
Statistics
Matches: 155, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 153 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (54 bp):
GGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATC
Found at i:120608 original size:162 final size:162
Alignment explanation
Indices: 120326--120626 Score: 377
Period size: 162 Copynumber: 1.9 Consensus size: 162
120316 GTACTATTGG
* * * *
120326 CACTAAGTGTGCAACCCATGAAATTTATAATAAGTTTATGAACAACCGTATCAGCGCTAAGTGTG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAACCGTATCAGCACTAAATGTG
* *
120391 AAACCCACAGAATTCATAATAAGTTTATGAATGACCAAATCGGCACTAAGTGTGCAACCCACGAA
66 AAACCCACAGAATTCATAATAAGTTCAGGAATGACCAAATCGGCACTAAGTGTGCAACCCACGAA
120456 ATTCATAATAATTTTATGAACGACCGTATCGA
131 ATTCATAATAATTTTATGAACGACCGTATCGA
* * * * *
120488 CACTTAGTGTTCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGGCATTAAATGTG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAACCGTATCAGCACTAAATGTG
* ** * ** ** * * * * * *
120553 CAACCCATGGTATTCATAATGTGTTCAGGAATGACCATTTTGGTACTATGTGTGCAATCCATGGA
66 AAACCCACAGAATTCATAATAAGTTCAGGAATGACCAAATCGGCACTAAGTGTGCAACCCACGAA
120618 ATTCATAAT
131 ATTCATAAT
120627 GTGTTTGTGA
Statistics
Matches: 114, Mismatches: 25, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
162 114 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (162 bp):
CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAACCGTATCAGCACTAAATGTG
AAACCCACAGAATTCATAATAAGTTCAGGAATGACCAAATCGGCACTAAGTGTGCAACCCACGAA
ATTCATAATAATTTTATGAACGACCGTATCGA
Found at i:122046 original size:47 final size:46
Alignment explanation
Indices: 121972--122097 Score: 150
Period size: 47 Copynumber: 2.8 Consensus size: 46
121962 TATAAAATCT
* *
121972 CTTACCATTTATCT-CATAAGCTTGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
122017 CTTACCATTTAATTTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT-ATTTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
122064 CTTGCCA-TT-TTTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTTCCATAAGCTCGTAAGCTTATTT
122098 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 5 0.07
47 33 0.46
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (46 bp):
CTTACCATTTATTTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:122246 original size:40 final size:40
Alignment explanation
Indices: 122202--122363 Score: 306
Period size: 40 Copynumber: 4.0 Consensus size: 40
122192 ACCGTAGTGC
*
122202 TACACATAAGGTCGTGGCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
122242 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
122282 TACACATAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
122322 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
122362 TA
1 TA
122364 TAAACCTGCA
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:126437 original size:23 final size:23
Alignment explanation
Indices: 126409--126461 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
126399 AAAATCATCA
* *
126409 AAGAAATTGAAGCACTCCAAAAG
1 AAGAAATTCAAGCACTCAAAAAG
*
126432 AAGAAAATTCCAGCACTCAAAAAG
1 AAG-AAATTCAAGCACTCAAAAAG
126456 AAGAAA
1 AAGAAA
126462 AGAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.57, C:0.17, G:0.15, T:0.11
Consensus pattern (23 bp):
AAGAAATTCAAGCACTCAAAAAG
Found at i:126474 original size:18 final size:18
Alignment explanation
Indices: 126451--126485 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
126441 CCAGCACTCA
126451 AAAAG-AAGAAAAGAAAAT
1 AAAAGAAAG-AAAGAAAAT
126469 AAAAGAAAGAAAGAAAA
1 AAAAGAAAGAAAGAAAA
126486 GTTGAAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAGAAAGAAAGAAAAT
Found at i:130302 original size:20 final size:20
Alignment explanation
Indices: 130265--130303 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
130255 AGATTGAGTG
* * *
130265 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
130285 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
130304 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:130510 original size:23 final size:21
Alignment explanation
Indices: 130480--130538 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
130470 TTCCCCTGTG
130480 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGGTTCCCC--TAAA
130503 GGGGGAATCGGTT-CCCTAAA
1 GGGGGAATCGGTTCCCCTAAA
* *
130523 GAGGGAATCGATTCCC
1 GGGGGAATCGGTTCCC
130539 TCTGCACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.45
21 2 0.06
22 3 0.09
23 13 0.39
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTAAA
Found at i:136933 original size:22 final size:22
Alignment explanation
Indices: 136907--136948 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
136897 CAGAGCCAAA
136907 CCATTCAGGGGGGAATCGGTAC
1 CCATTCAGGGGGGAATCGGTAC
**
136929 CCATTTGGGGGGGAATCGGT
1 CCATTCAGGGGGGAATCGGT
136949 TCCCTCTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.21
Consensus pattern (22 bp):
CCATTCAGGGGGGAATCGGTAC
Found at i:140018 original size:26 final size:26
Alignment explanation
Indices: 139982--140043 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
139972 GGCTCCCTAT
*
139982 AACACCCATGTGCATTCCATATGACC
1 AACACCCATGTGCATGCCATATGACC
140008 AACACCCATGTGCATGCCATATGACC
1 AACACCCATGTGCATGCCATATGACC
*
140034 AACCCCCATG
1 AACACCCATG
140044 CGCCTTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.31, C:0.37, G:0.13, T:0.19
Consensus pattern (26 bp):
AACACCCATGTGCATGCCATATGACC
Found at i:145668 original size:186 final size:179
Alignment explanation
Indices: 145341--145670 Score: 480
Period size: 186 Copynumber: 1.8 Consensus size: 179
145331 GCAGCCAGAA
* *
145341 AGGATCGCATATCAACCTCATTTAAACGTTTTAACGAACTTTTATTCACTACCTTCTGAAGATAC
1 AGGATCGCATATCAACCTCATTTAAACATTTTAACAAACTTTTATTCACTACCTTCTGAAGATAC
*
145406 GTTAACGAACATTTGATAACCGATCAGTTTGCCAATCCTTAAGAGTTGACCCAATAGAATCAATC
66 GTTAACGAACATTTGATAACCGATCAGATTGCCAATCCTTAAGAGTTGACCCAATAGAATCAATC
145471 TTAAAAAGAACACTACCATCGGTGTAACATCATGCTGTGTTAACATGTG
131 TTAAAAAGAACACTACCATCGGTGTAACATCATGCTGTGTTAACATGTG
* * *
145520 AGGATCGCATATCAACCTTATTTAAACATTTTGACAAACTTTTATTCACTACCTTTTGAAGATAC
1 AGGATCGCATATCAACCTCATTTAAACATTTTAACAAACTTTTATTCACTACCTTCTGAAGATA-
** * * *
145585 GCGATACGTGGCTGGACATTTTATAACCGATCAGATTGCTAATCCTTAAGAGTTGACCCAATAGA
65 -CG-T---TAAC-GAACATTTGATAACCGATCAGATTGCCAATCCTTAAGAGTTGACCCAATAGA
**
145650 ATCAATCTTATCAAGAACACT
124 ATCAATCTTAAAAAGAACACT
145671 TGCAACGCCA
Statistics
Matches: 131, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
179 59 0.45
181 2 0.02
182 1 0.01
185 2 0.02
186 67 0.51
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (179 bp):
AGGATCGCATATCAACCTCATTTAAACATTTTAACAAACTTTTATTCACTACCTTCTGAAGATAC
GTTAACGAACATTTGATAACCGATCAGATTGCCAATCCTTAAGAGTTGACCCAATAGAATCAATC
TTAAAAAGAACACTACCATCGGTGTAACATCATGCTGTGTTAACATGTG
Found at i:151034 original size:19 final size:19
Alignment explanation
Indices: 151012--151049 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
151002 GGTTATGTTC
151012 TATTTATGATTTTAATTTA
1 TATTTATGATTTTAATTTA
* *
151031 TATTTTTTATTTTAATTTA
1 TATTTATGATTTTAATTTA
151050 AGTATTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTTATGATTTTAATTTA
Found at i:152474 original size:16 final size:15
Alignment explanation
Indices: 152432--152474 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
152422 CATGATATTT
152432 AACTGATTTGGACCTA
1 AACTGATTT-GACCTA
* *
152448 AACCGTTTTGACCTA
1 AACTGATTTGACCTA
152463 AACTGATATTGA
1 AACTGAT-TTGA
152475 TCCAAACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (15 bp):
AACTGATTTGACCTA
Found at i:152923 original size:21 final size:21
Alignment explanation
Indices: 152897--152955 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
152887 ATAGAAGTAG
*
152897 ATGTGGTTGACTTTTTAGTCA
1 ATGTGGCTGACTTTTTAGTCA
*
152918 ATGTGGCTGACTTTTTAGTCG
1 ATGTGGCTGACTTTTTAGTCA
***
152939 ATGCAACTGACTTTTTA
1 ATGTGGCTGACTTTTTA
152956 ATTGGGGATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (21 bp):
ATGTGGCTGACTTTTTAGTCA
Found at i:154226 original size:45 final size:45
Alignment explanation
Indices: 154143--154485 Score: 195
Period size: 45 Copynumber: 7.8 Consensus size: 45
154133 TTGCCTAATA
* * * * *
154143 ACTCCATCATTT-TCTTCTAACCCATCTATACCAATAGGCACAACC
1 ACTCCATCATTTGCCCT-TAACCCATCTACATCAGTAGGCACAACC
** * * *
154188 ACTCCATCATTTGCCCTTAACTTATCTACATTAGTAGGCCCAATC
1 ACTCCATCATTTGCCCTTAACCCATCTACATCAGTAGGCACAACC
* * * * * * * **
154233 TCT-C--CATTTACCC-TAACCTATCTACACCAGCAAGCCCAATA
1 ACTCCATCATTTGCCCTTAACCCATCTACATCAGTAGGCACAACC
* * * *
154274 ACTCCATCATTT-TCTTCTAACCCATCT-TATCAGTAGGCATAACC
1 ACTCCATCATTTGCCCT-TAACCCATCTACATCAGTAGGCACAACC
* * * * *
154318 ACTCCATCATTTGCCCCTAACCTATCTACATTAGTAAGC-CCACAC
1 ACTCCATCATTTGCCCTTAACCCATCTACATCAGTAGGCACAAC-C
* * * *
154363 ACTCCATTATTTG-CCTCTAACCCATTTACACCAGTAGG-ACCACCC
1 ACTCCATCATTTGCCCT-TAACCCATCTACATCAGTAGGCA-CAACC
* * * ** * **
154408 ACTCCATCATTTTCCCCTAA-CCATCTACATTAACAGGCCCAAAA
1 ACTCCATCATTTGCCCTTAACCCATCTACATCAGTAGGCACAACC
*
154452 ACTCCATCATTTGCCTTTAACCCATCTACATCAG
1 ACTCCATCATTTGCCCTTAACCCATCTACATCAG
154486 CAGACCCGAA
Statistics
Matches: 218, Mismatches: 65, Indels: 30
0.70 0.21 0.10
Matches are distributed among these distances:
41 24 0.11
42 9 0.04
43 1 0.00
44 71 0.33
45 107 0.49
46 6 0.03
ACGTcount: A:0.29, C:0.36, G:0.06, T:0.29
Consensus pattern (45 bp):
ACTCCATCATTTGCCCTTAACCCATCTACATCAGTAGGCACAACC
Found at i:154344 original size:89 final size:89
Alignment explanation
Indices: 154243--154478 Score: 259
Period size: 89 Copynumber: 2.6 Consensus size: 89
154233 TCTCCATTTA
** * *
154243 CCCTAACCTATCTACACCAGCAAGCCCAATAACTCCATCATTTTCTTCTAACCCATCTT-ATCAG
1 CCCTAACCTATCTACATTAGCAAGCCCAA-AACTCCATCATTTCCTTCTAACCCATCTTAACCAG
*
154307 TAGG-CATAACCACTCCATCATTTGC
65 TAGGAC-CAACCACTCCATCATTTGC
* * *
154332 CCCTAACCTATCTACATTAGTAAGCCCACACACTCCATTATTTGCC-TCTAACCCAT-TTACACC
1 CCCTAACCTATCTACATTAGCAAGCCCA-AAACTCCATCATTT-CCTTCTAACCCATCTTA-ACC
* *
154395 AGTAGGACCACCCACTCCATCATTTTC
63 AGTAGGACCAACCACTCCATCATTTGC
* *
154422 CCCTAACC-ATCTACATTAACAGGCCCAAAAACTCCATCATTTGCCTT-TAACCCATCT
1 CCCTAACCTATCTACATTAGCAAGCCC-AAAACTCCATCATTT-CCTTCTAACCCATCT
154479 ACATCAGCAG
Statistics
Matches: 124, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
88 2 0.02
89 84 0.68
90 37 0.30
91 1 0.01
ACGTcount: A:0.29, C:0.37, G:0.06, T:0.28
Consensus pattern (89 bp):
CCCTAACCTATCTACATTAGCAAGCCCAAAACTCCATCATTTCCTTCTAACCCATCTTAACCAGT
AGGACCAACCACTCCATCATTTGC
Found at i:154501 original size:45 final size:44
Alignment explanation
Indices: 154318--154505 Score: 121
Period size: 45 Copynumber: 4.2 Consensus size: 44
154308 AGGCATAACC
* * *
154318 ACTCCATCATTTGCCCCTAACCTATCTACATTAGTA-AG-CCCACAC
1 ACTCCATCATTTGCCCCTAACC-ATCTACATCA--ACAGACCCAAAA
* * * * ** ***
154363 ACTCCATTATTTGCCTCTAACCCATTTACACCAGTAGGA-CCACCC
1 ACTCCATCATTTGCCCCTAA-CCATCTACATCAACA-GACCCAAAA
* * *
154408 ACTCCATCATTTTCCCCTAACCATCTACATTAACAGGCCCAAAA
1 ACTCCATCATTTGCCCCTAACCATCTACATCAACAGACCCAAAA
** * * *
154452 ACTCCATCATTTGCCTTTAACCCATCTACATCAGCAGACCCGAAG
1 ACTCCATCATTTGCCCCTAA-CCATCTACATCAACAGACCCAAAA
154497 ACTCCATCA
1 ACTCCATCA
154506 ACAACATGTA
Statistics
Matches: 110, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
43 1 0.01
44 31 0.28
45 76 0.69
46 2 0.02
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.26
Consensus pattern (44 bp):
ACTCCATCATTTGCCCCTAACCATCTACATCAACAGACCCAAAA
Found at i:155337 original size:64 final size:61
Alignment explanation
Indices: 155261--155378 Score: 164
Period size: 64 Copynumber: 1.9 Consensus size: 61
155251 GATATAAAGT
* *
155261 AAAAGATAAATCCACATGAACCGCATGCCAAAAACATATATGTTAACAGACAAAACTATATCCC
1 AAAAGATAAATCCACATGAACCACATGCCAAAAA-A-A-ATGCTAACAGACAAAACTATATCCC
* * *
155325 AAAAGATAAATCCACATGTACCACATGCTAAAAAAAATGCTAGCAGACAAAACT
1 AAAAGATAAATCCACATGAACCACATGCCAAAAAAAATGCTAACAGACAAAACT
155379 TTAAAGCAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
61 16 0.33
62 1 0.02
63 1 0.02
64 31 0.63
ACGTcount: A:0.50, C:0.22, G:0.10, T:0.18
Consensus pattern (61 bp):
AAAAGATAAATCCACATGAACCACATGCCAAAAAAAATGCTAACAGACAAAACTATATCCC
Found at i:155559 original size:21 final size:21
Alignment explanation
Indices: 155535--155577 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
155525 ACACGTTATT
155535 ATAAA-AATAATTAAGGCAAAC
1 ATAAACAAT-ATTAAGGCAAAC
*
155556 ATAAACAATATTAGGGCAAAC
1 ATAAACAATATTAAGGCAAAC
155577 A
1 A
155578 GAACTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (21 bp):
ATAAACAATATTAAGGCAAAC
Found at i:156957 original size:18 final size:19
Alignment explanation
Indices: 156934--156969 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
156924 AACAAGTTAA
156934 TGATACA-TTTACAAATTT
1 TGATACAGTTTACAAATTT
*
156952 TGATACAGTTTATAAATT
1 TGATACAGTTTACAAATT
156970 AAATTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
TGATACAGTTTACAAATTT
Found at i:160915 original size:56 final size:56
Alignment explanation
Indices: 160829--161127 Score: 479
Period size: 56 Copynumber: 5.5 Consensus size: 56
160819 AATGTCTTTG
*
160829 GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAAGTCATTATGAATTTCTTA
1 GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
* *
160885 TTTTTTGTACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
1 GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
160941 GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
1 GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
*
160997 GTTTTTGCACACAAAGTG--CATACAGAAATTCATAAACTCATTATGAATTTCTTA
1 GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
* * *
161051 GTTTTTGTACACAAAGTG----T-C-GAAATTCATAAACTCATTATGACTTTATTA
1 GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
161101 GTTTTTGCACACAAAGTGCCCATACGG
1 GTTTTTGCACACAAAGTGCCCATACGG
161128 TAATCACCAT
Statistics
Matches: 227, Mismatches: 10, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
50 45 0.20
51 1 0.00
52 1 0.00
54 53 0.23
55 1 0.00
56 126 0.56
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (56 bp):
GTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA
Found at i:164116 original size:303 final size:303
Alignment explanation
Indices: 163569--164173 Score: 1174
Period size: 303 Copynumber: 2.0 Consensus size: 303
163559 TCCGTTATAG
163569 CTCTTTTCATACCATGCCACTAATAATGACTCTTCAAGTCCTGATACATCTTATTCCCTCCTGGA
1 CTCTTTTCATACCATGCCACTAATAATGACTCTTCAAGTCCTGATACATCTTATTCCCTCCTGGA
163634 TGCATCATCAAAGGGCTATAATGTGCCTCATAAAGAATATATTTCTTCAATTCATCATTATCAGG
66 TGCATCATCAAAGGGCTATAATGTGCCTCATAAAGAATATATTTCTTCAATTCATCATTATCAGG
*
163699 AATGCAAAGTCTTTCACGATATTATAAACATCCATTATCCCTCATTTCAAAATCTTTGGCCTCTT
131 AATACAAAGTCTTTCACGATATTATAAACATCCATTATCCCTCATTTCAAAATCTTTGGCCTCTT
163764 ATTTTTCGACTTGCACCAATCTCATCAAGCATTTCTTATCTCGACCTTGCAACTCTTTTACCCGA
196 ATTTTTCGACTTGCACCAATCTCATCAAGCATTTCTTATCTCGACCTTGCAACTCTTTTACCCGA
*
163829 TCCAAAAGAATTAGCTTTAACTTTAATTCAGCAATCAATGCAA
261 TCCAAAAGAATTAGCTTTAACTTTAATTCAACAATCAATGCAA
*
163872 CTCTTTTTATACCATGCCACTAATAATGACTCTTCAAGTCCTGATACATCTTATTCCCTCCTGGA
1 CTCTTTTCATACCATGCCACTAATAATGACTCTTCAAGTCCTGATACATCTTATTCCCTCCTGGA
163937 TGCATCATCAAAGGGCTATAATGTGCCTCATAAAGAATATATTTCTTCAATTCATCATTATCAGG
66 TGCATCATCAAAGGGCTATAATGTGCCTCATAAAGAATATATTTCTTCAATTCATCATTATCAGG
*
164002 AATACAAAGTCTTTCACGATATTATAAACATCCATTATCCCTCATTTCGAAATCTTTGGCCTCTT
131 AATACAAAGTCTTTCACGATATTATAAACATCCATTATCCCTCATTTCAAAATCTTTGGCCTCTT
164067 ATTTTTCGACTTGCACCAATCTCATCAAGCATTTCTTATCTCGACCTTGCAACTCTTTTACCCGA
196 ATTTTTCGACTTGCACCAATCTCATCAAGCATTTCTTATCTCGACCTTGCAACTCTTTTACCCGA
164132 TCCAAAAGAATTAGCTTTAACTTTAATTCAACAATCAATGCA
261 TCCAAAAGAATTAGCTTTAACTTTAATTCAACAATCAATGCA
164174 CCATCTTCCT
Statistics
Matches: 298, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
303 298 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (303 bp):
CTCTTTTCATACCATGCCACTAATAATGACTCTTCAAGTCCTGATACATCTTATTCCCTCCTGGA
TGCATCATCAAAGGGCTATAATGTGCCTCATAAAGAATATATTTCTTCAATTCATCATTATCAGG
AATACAAAGTCTTTCACGATATTATAAACATCCATTATCCCTCATTTCAAAATCTTTGGCCTCTT
ATTTTTCGACTTGCACCAATCTCATCAAGCATTTCTTATCTCGACCTTGCAACTCTTTTACCCGA
TCCAAAAGAATTAGCTTTAACTTTAATTCAACAATCAATGCAA
Found at i:164673 original size:25 final size:25
Alignment explanation
Indices: 164645--164692 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
164635 ACTTTCTTGT
164645 CATTTTACCGTCCAAACAAAAGGTG
1 CATTTTACCGTCCAAACAAAAGGTG
* *
164670 CATTTTCCCGTCTAAACAAAAGG
1 CATTTTACCGTCCAAACAAAAGG
164693 CACATTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
CATTTTACCGTCCAAACAAAAGGTG
Found at i:164698 original size:25 final size:25
Alignment explanation
Indices: 164645--164699 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
164635 ACTTTCTTGT
**
164645 CATTTTACCGTCCAAACAAAAGGTG
1 CATTTTACCGTCCAAACAAAAGGCA
* *
164670 CATTTTCCCGTCTAAACAAAAGGCA
1 CATTTTACCGTCCAAACAAAAGGCA
164695 CATTT
1 CATTT
164700 CTTCATAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (25 bp):
CATTTTACCGTCCAAACAAAAGGCA
Found at i:168119 original size:56 final size:56
Alignment explanation
Indices: 168033--168234 Score: 314
Period size: 56 Copynumber: 3.6 Consensus size: 56
168023 AAATTCATAT
* * *
168033 AATTTCTTAGTTTTTGCACATAAAGTGCCCATACAGAAATTCATAAACTTATTATC
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAAACTCATTATG
* *
168089 AATTTCATAGTTTTTGCACACAAAGTGCCCATACAAAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAAACTCATTATG
* * **
168145 AATTTCTTAGTTTTTGCACGCAAAGTGTCCATATGGAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAAACTCATTATG
*
168201 AATTTCTTAGTTTTTGCACACAAAATGCCCATAC
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATAC
168235 GATAATCACC
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 131 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (56 bp):
AATTTCTTAGTTTTTGCACACAAAGTGCCCATACAGAAATTCATAAACTCATTATG
Found at i:176596 original size:53 final size:54
Alignment explanation
Indices: 176463--176620 Score: 246
Period size: 53 Copynumber: 2.9 Consensus size: 54
176453 ATTGTACTAA
**
176463 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTAACACTATGTGTGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACC
* * *
176517 TAAGGAATTCATAATAAGTTTATGAATTTCCGTCTTGGCACTATGTG-GCAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACC
* *
176570 TAAGAAATTCATAATTAGTTTTTGAATTTCTGTATTGGCACTATGTGTGCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCACTATGTGTGCA
176621 CCCCGTAATC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
53 48 0.52
54 45 0.48
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (54 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACC
Found at i:176670 original size:107 final size:107
Alignment explanation
Indices: 176463--176665 Score: 266
Period size: 107 Copynumber: 1.9 Consensus size: 107
176453 ATTGTACTAA
*
176463 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTAACACTATGTGTGCAACCTAAGGAATTCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTAACACTATGTGTGCAACCTAAGGAATCCA
* * * *
176528 TAATAAGTTTATGAATTTCCGTCTTGGCACTATGTGGCAACC
66 TAATAAGTTTATGAATTACCGTATCGACACTATGTGGCAACC
* * ** ** *
176570 TAAGAAATTCATAATTAGTTTTTGAATTTCTGTATTGGCACTATGTGTGC-ACC-CCGTAATCCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTAACACTATGTGTGCAACCTAAGGAATCCA
* *
176633 TAATGAGTTTTTGAATTACCGTATCGACACTAT
66 TAATAAGTTTATGAATTACCGTATCGACACTAT
176666 ATGTGTGAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
105 33 0.40
106 3 0.04
107 46 0.56
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (107 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTAACACTATGTGTGCAACCTAAGGAATCCA
TAATAAGTTTATGAATTACCGTATCGACACTATGTGGCAACC
Found at i:183319 original size:54 final size:54
Alignment explanation
Indices: 182997--183279 Score: 485
Period size: 54 Copynumber: 5.2 Consensus size: 54
182987 ACCGAATGAC
* *
182997 CACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * *
183051 CACTCTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTCCCTTATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
183105 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* **
183159 CACTATGTGTGCAACCTAAGAAATTTATAATAAGTTTATTTATTTCCGTATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
*
183213 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
183267 CACTATGTGTGCA
1 CACTATGTGTGCA
183280 CCCCACGCAA
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 215 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (54 bp):
CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
Found at i:183319 original size:108 final size:108
Alignment explanation
Indices: 182997--183328 Score: 475
Period size: 108 Copynumber: 3.1 Consensus size: 108
182987 ACCGAATGAC
* * *
182997 CACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTCTGTGTG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
* *
183062 CAACCTAAGAAATTCATAATAAGTTTATGAATTCCCTTATTGG
66 CAACCTAAGAAATTCATAATAAGTTTATGAATTACCATATTGG
183105 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
* ** * *
183170 CAACCTAAGAAATTTATAATAAGTTTATTTATTTCCGTATTGG
66 CAACCTAAGAAATTCATAATAAGTTTATGAATTACCATATTGG
*
183213 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTATGTGTG
1 CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
* * * * * ** * *
183278 CACCCCACGCAATCCATAACGAGTTTGTGAATTACCATATTGA
66 CAACCTAAGAAATTCATAATAAGTTTATGAATTACCATATTGG
*
183321 CAATATGT
1 CACTATGT
183329 ATGCGAAAAC
Statistics
Matches: 200, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 200 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (108 bp):
CACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
CAACCTAAGAAATTCATAATAAGTTTATGAATTACCATATTGG
Found at i:184301 original size:31 final size:32
Alignment explanation
Indices: 184263--184334 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 32
184253 GATAGCATTG
*
184263 AAAATCATTACTACTAAAACACTAGTTAATA-
1 AAAATCATTACTACTAAAACACTAGATAATAC
*
184294 AAAATCATTACTACTAAAATACTAGATAATAC
1 AAAATCATTACTACTAAAACACTAGATAATAC
*
184326 ACAATCATT
1 AAAATCATT
184335 CAGAAATAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 29 0.78
32 8 0.22
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (32 bp):
AAAATCATTACTACTAAAACACTAGATAATAC
Found at i:184312 original size:15 final size:15
Alignment explanation
Indices: 184263--184313 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
184253 GATAGCATTG
184263 AAAATCATTACTACT
1 AAAATCATTACTACT
* * *
184278 AAAA-CACTAGTTAAT
1 AAAATCATTA-CTACT
184293 AAAAATCATTACTACT
1 -AAAATCATTACTACT
184309 AAAAT
1 AAAAT
184314 ACTAGATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 4 0.15
15 12 0.44
16 7 0.26
17 4 0.15
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAATCATTACTACT
Found at i:184622 original size:14 final size:15
Alignment explanation
Indices: 184602--184645 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
184592 ATAAGAATAA
184602 AATAAATAAAACAAT
1 AATAAATAAAACAAT
*
184617 -ATAAATAAAATAAT
1 AATAAATAAAACAAT
184631 AATAGTAATAAAACA
1 AATA--AATAAAACA
184646 TATTTATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.54
15 3 0.12
17 8 0.33
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (15 bp):
AATAAATAAAACAAT
Found at i:192873 original size:21 final size:21
Alignment explanation
Indices: 192847--192903 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
192837 ATATAAGAAG
*
192847 ACTGGTATCCGTACCGGATGA
1 ACTGGTATCCATACCGGATGA
* *
192868 ACTGGTATCTATACCTGATGA
1 ACTGGTATCCATACCGGATGA
*
192889 ACTGCTATCCATACC
1 ACTGGTATCCATACC
192904 AAAAGGTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (21 bp):
ACTGGTATCCATACCGGATGA
Found at i:193043 original size:20 final size:21
Alignment explanation
Indices: 192994--193044 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
192984 ATGATAAACT
*
192994 AGTATACATACAGAAAGTTTT
1 AGTATACATACAGAAAGTTTC
*
193015 A-TATACATACTGAAAGTTTC
1 AGTATACATACAGAAAGTTTC
193035 AGTAT-CATAC
1 AGTATACATAC
193045 CAAAGGCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (21 bp):
AGTATACATACAGAAAGTTTC
Found at i:195613 original size:3 final size:3
Alignment explanation
Indices: 195605--195660 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
195595 GAGACATGAT
195605 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
195653 TAA TAA TA
1 TAA TAA TA
195661 TAAATAAAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:200610 original size:12 final size:12
Alignment explanation
Indices: 200593--200617 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
200583 TTGCTTTAAT
200593 TTCTTTTTTTTG
1 TTCTTTTTTTTG
200605 TTCTTTTTTTTG
1 TTCTTTTTTTTG
200617 T
1 T
200618 ACTCATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTCTTTTTTTTG
Found at i:206599 original size:16 final size:16
Alignment explanation
Indices: 206578--206609 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
206568 TCTTCCACCA
206578 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
206594 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
206610 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:208718 original size:5 final size:5
Alignment explanation
Indices: 208708--208762 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
208698 GAACTTCTCT
208708 TTTTC TTTTC TTTTC TTTTC TTCTT- TTCTTC TTTTC TTCTT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC TT-TTC TTTTC
*
208754 TCTTC TTTT
1 TTTTC TTTT
208763 TGCACTCCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 2 0.05
5 36 0.82
6 6 0.14
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:208730 original size:26 final size:26
Alignment explanation
Indices: 208701--208763 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 26
208691 TCTTTTTGAA
208701 CTTCTCTTTTTCTTTTCTT-TTCTTTT
1 CTTCTCTTTTTCTTTTCTTCTT-TTTT
208727 CTTCT-TTTCTTCTTTTCTTCTTTTTT
1 CTTCTCTTT-TTCTTTTCTTCTTTTTT
208753 C-TCTTCTTTTT
1 CTTC-TCTTTTT
208764 GCACTCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
25 5 0.15
26 23 0.70
27 5 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (26 bp):
CTTCTCTTTTTCTTTTCTTCTTTTTT
Found at i:208731 original size:8 final size:8
Alignment explanation
Indices: 208701--208760 Score: 70
Period size: 8 Copynumber: 7.4 Consensus size: 8
208691 TCTTTTTGAA
208701 CTTCTCTTT
1 CTTCT-TTT
208710 -TTCTTTT
1 CTTCTTTT
208717 CTTTTCTTTT
1 C--TTCTTTT
208727 CTTCTTTT
1 CTTCTTTT
208735 CTTCTTTT
1 CTTCTTTT
208743 CTTCTTTT
1 CTTCTTTT
*
208751 -TTCTCTT
1 CTTCTTTT
208758 CTT
1 CTT
208761 TTTGCACTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
7 9 0.20
8 29 0.63
10 8 0.17
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
CTTCTTTT
Found at i:210204 original size:16 final size:16
Alignment explanation
Indices: 210183--210214 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
210173 TCTTCCACCA
210183 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
210199 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
210215 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:215821 original size:19 final size:19
Alignment explanation
Indices: 215797--215835 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
215787 AGGTAGTGGC
215797 AAAGTCTAAGGGCAATGGT
1 AAAGTCTAAGGGCAATGGT
215816 AAAGTCTAAGGGCAATGGT
1 AAAGTCTAAGGGCAATGGT
215835 A
1 A
215836 TGACAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (19 bp):
AAAGTCTAAGGGCAATGGT
Found at i:217060 original size:15 final size:16
Alignment explanation
Indices: 217031--217060 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
217021 CACTTTCAAA
217031 CTAAATCGTGTTCCAT
1 CTAAATCGTGTTCCAT
217047 CTAAATCG-GTTCCA
1 CTAAATCGTGTTCCA
217061 AAGACACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (16 bp):
CTAAATCGTGTTCCAT
Found at i:217278 original size:17 final size:17
Alignment explanation
Indices: 217264--217297 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
217254 TGCTCGAACA
*
217264 AGAATTTTTCTCGAAAG
1 AGAATTTCTCTCGAAAG
217281 AGAATTTCTCTC-AAAG
1 AGAATTTCTCTCGAAAG
217297 A
1 A
217298 AATAGAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (17 bp):
AGAATTTCTCTCGAAAG
Found at i:231921 original size:89 final size:90
Alignment explanation
Indices: 231812--231977 Score: 255
Period size: 89 Copynumber: 1.9 Consensus size: 90
231802 TTAATTTTAG
*
231812 TTAATTAAATATAGATTTAATTAATTTGAAACAATAAAATCCCTAATATGATAAGGGTAA-TTCG
1 TTAATTAAATATAGATTTAATTAATTTGAAACAATAAAATCCCTAATATGATAAGGCTAACTT-G
*
231876 GATTTAAAAGGATTATTAAGTTCCAA
65 GATATAAAAGGATTATTAAGTTCCAA
* * * *
231902 TTAATT-AATATAGATTTAATTAATTTGAAATAGTAAAATCCCTAATGTGATTAGGCTAACTTGG
1 TTAATTAAATATAGATTTAATTAATTTGAAACAATAAAATCCCTAATATGATAAGGCTAACTTGG
231966 ATATAAAAGGAT
66 ATATAAAAGGAT
231978 GTGTTAGGTC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
89 61 0.88
90 8 0.12
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (90 bp):
TTAATTAAATATAGATTTAATTAATTTGAAACAATAAAATCCCTAATATGATAAGGCTAACTTGG
ATATAAAAGGATTATTAAGTTCCAA
Done.