Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 1 of 23
Found at i:3545 original size:13 final size:13
Alignment explanation
Indices: 3526--3564 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3516 ACTATTTATG
3526 ATGTATCGATACA
1 ATGTATCGATACA
*
3539 CTGTATCGATACA
1 ATGTATCGATACA
3552 ATGTATCGATACA
1 ATGTATCGATACA
3565 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3719 original size:53 final size:53
Alignment explanation
Indices: 3655--3791 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
3645 CTACTACCAA
*
3655 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCACTGACC
* * *
3708 TGTATCAATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCACTGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCACTGACC
3761 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
3792 TATGCAATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 64 0.83
54 13 0.17
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCACTGACC
Found at i:3827 original size:21 final size:20
Alignment explanation
Indices: 3779--3833 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
3769 TACATATTTG
**
3779 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
3799 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
3820 TGTGTATCGATACT
1 TGTGTATCGATACT
3834 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:3898 original size:21 final size:21
Alignment explanation
Indices: 3872--3912 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3862 GTCAACCTTG
3872 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
3893 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
3913 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:7072 original size:33 final size:32
Alignment explanation
Indices: 7030--7093 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
7020 TACAAGCCAA
*
7030 TGTATCGATACATTTTGGGATGTATCAATACAT
1 TGTATCGATACATCTTGGG-TGTATCAATACAT
* *
7063 TGTATCGATACATCTTGTGTGTATCCATACA
1 TGTATCGATACATCTTGGGTGTATCAATACA
7094 AACAATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCAATACAT
Found at i:7201 original size:20 final size:19
Alignment explanation
Indices: 7158--7217 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
7148 ATCGATACAA
* **
7158 TGTATCGATACTGTGCAATA
1 TGTATCGATACTTTG-AAGG
7178 TGTATCGATACATTTGAAGG
1 TGTATCGATAC-TTTGAAGG
*
7198 TGTATCGATACTTTTAAGG
1 TGTATCGATACTTTGAAGG
7217 T
1 T
7218 TTCTGACCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.23
20 24 0.69
21 3 0.09
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (19 bp):
TGTATCGATACTTTGAAGG
Found at i:9015 original size:20 final size:22
Alignment explanation
Indices: 8976--9016 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
8966 ACTGCTAGTG
*
8976 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
8998 TGGGGG-TG-CCGGTCGCGAC
1 TGGGGGCTGCCCGGTCGCGAC
9017 GTGGTGAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.05, C:0.29, G:0.49, T:0.17
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:9479 original size:13 final size:13
Alignment explanation
Indices: 9461--9498 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
9451 ATAAACCCTT
*
9461 TGTATCGATACAC
1 TGTATCGATACAA
9474 TGTATCGATACAA
1 TGTATCGATACAA
9487 TGTATCGATACA
1 TGTATCGATACA
9499 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9714 original size:8 final size:8
Alignment explanation
Indices: 9701--9726 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9691 AACATCAAGC
9701 ATCACAAA
1 ATCACAAA
9709 ATCACAAA
1 ATCACAAA
9717 ATCACAAA
1 ATCACAAA
9725 AT
1 AT
9727 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:15683 original size:13 final size:13
Alignment explanation
Indices: 15665--15690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15655 CATTTTGGGA
15665 TGTATCGATACAT
1 TGTATCGATACAT
15678 TGTATCGATACAT
1 TGTATCGATACAT
15691 CTTGTGTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15687 original size:33 final size:32
Alignment explanation
Indices: 15645--15708 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
15635 TACAAGCCAA
* *
15645 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TATATCGATACAT
*
15678 TGTATCGATACATCTTGTGTATATCGATACA
1 TGTATCGATACATCTTGGGTATATCGATACA
15709 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTATATCGATACAT
Found at i:19898 original size:17 final size:17
Alignment explanation
Indices: 19876--19908 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19866 TAAGCTCAAT
19876 AGCTTAAGTAACTTTAC
1 AGCTTAAGTAACTTTAC
19893 AGCTTAAGTAACTTTA
1 AGCTTAAGTAACTTTA
19909 TATTTAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (17 bp):
AGCTTAAGTAACTTTAC
Found at i:20340 original size:2 final size:2
Alignment explanation
Indices: 20333--20365 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
20323 AGGCAACGGC
*
20333 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20366 TATTAGTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21208 original size:25 final size:23
Alignment explanation
Indices: 21176--21225 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
21166 CATATATATA
21176 TATATATATAAGTTTCTCACATT
1 TATATATATAAGTTTCTCACATT
*
21199 TATATGTATAAGTTTCTCACATT
1 TATATATATAAGTTTCTCACATT
21222 TATA
1 TATA
21226 GGATGGCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (23 bp):
TATATATATAAGTTTCTCACATT
Found at i:25383 original size:14 final size:15
Alignment explanation
Indices: 25366--25402 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
25356 ACAATATAAT
*
25366 AGAAATAATAA-AAA
1 AGAAATAAAAAGAAA
25380 AGAAA-AAAAAGAAA
1 AGAAATAAAAAGAAA
25394 AGAAATAAA
1 AGAAATAAA
25403 TTCATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 13 0.65
15 3 0.15
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (15 bp):
AGAAATAAAAAGAAA
Found at i:27054 original size:38 final size:38
Alignment explanation
Indices: 27000--27099 Score: 112
Period size: 38 Copynumber: 2.6 Consensus size: 38
26990 CTAATAGTAT
* *
27000 AATTCGAAATAAAAATTATTATTTTAAAT-AGACAGCAC
1 AATTCAAAACAAAAATTATTATTTTAAATCAG-CAGCAC
* * * *
27038 GATTCAAAACAAAAATTATTATTCTAAATCAGTAGCAT
1 AATTCAAAACAAAAATTATTATTTTAAATCAGCAGCAC
* *
27076 AATTCAATACAAAAATCATTATTT
1 AATTCAAAACAAAAATTATTATTT
27100 AACCAACGGC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 49 0.96
39 2 0.04
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (38 bp):
AATTCAAAACAAAAATTATTATTTTAAATCAGCAGCAC
Found at i:30747 original size:20 final size:19
Alignment explanation
Indices: 30724--30791 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 19
30714 TCCTCTGCCA
30724 AAAAAAAAAAAAACAAAAAC
1 AAAAAAAAAAAAA-AAAAAC
*
30744 AAAAACAAAAAAAAAACAAC
1 AAAAA-AAAAAAAAAAAAAC
30764 AAAAAAAAAAGAAAAAAAAC
1 AAAAAAAAAA-AAAAAAAAC
30784 AACAAAAA
1 AA-AAAAA
30792 GGGTCCGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
19 5 0.12
20 25 0.58
21 13 0.30
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAAC
Found at i:30753 original size:23 final size:22
Alignment explanation
Indices: 30723--30791 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 22
30713 ATCCTCTGCC
30723 AAAAAAAAAAAAAACAA-AAACA
1 AAAAAAAAAAAAAACAACAAA-A
30745 AAAACAAAAAAAAAACAACAAAA
1 AAAA-AAAAAAAAAACAACAAAA
30768 AAAAAAGAAAAAAAACAACAAAA
1 AAAAAA-AAAAAAAACAACAAAA
30791 A
1 A
30792 GGGTCCGGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
22 6 0.14
23 35 0.80
24 3 0.07
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAAACAACAAAA
Found at i:30753 original size:26 final size:25
Alignment explanation
Indices: 30724--30782 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
30714 TCCTCTGCCA
30724 AAAAAAAAAAAAACAAAAACAAAAAC
1 AAAAAAAAAAAAACAAAAA-AAAAAC
* *
30750 AAAAAAAAAACAACAAAAAAAAAAG
1 AAAAAAAAAAAAACAAAAAAAAAAC
30775 AAAAAAAA
1 AAAAAAAA
30783 CAACAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAACAAAAAAAAAAC
Found at i:30791 original size:1 final size:1
Alignment explanation
Indices: 30723--30782 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
30713 ATCCTCTGCC
* * * * * *
30723 AAAAAAAAAAAAAACAAAAACAAAAACAAAAAAAAAACAACAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30783 CAACAAAAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:31894 original size:37 final size:37
Alignment explanation
Indices: 31810--31894 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
31800 TGCCACAATC
*
31810 ATGCATTTGTCACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
31847 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
31884 ATGCATTTGTG
1 ATGCATTTGTG
31895 CTTCATCTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:32327 original size:28 final size:28
Alignment explanation
Indices: 32260--32398 Score: 147
Period size: 28 Copynumber: 4.9 Consensus size: 28
32250 CTCACATTCC
* *
32260 AAAGCCCACAAGTCAGTGGCATCTTTTTCA
1 AAAGCCCACAAGTCAGTGGCAAC--CTTCA
*
32290 AAAGCCCACAAGTCAATGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
32318 AAAGCTCACAAGTCAGTGGCATCTTTTC-
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
*
32346 AAAGCCCACAAGTCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
32374 AAAGCCCAAAAATTAGTGGC-ACCTT
1 AAAGCCCACAAGTCAGTGGCAACCTT
32399 TCTCTTTTCA
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.08
28 62 0.67
29 3 0.03
30 21 0.23
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:32377 original size:56 final size:58
Alignment explanation
Indices: 32260--32399 Score: 203
Period size: 56 Copynumber: 2.4 Consensus size: 58
32250 CTCACATTCC
32260 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAAGCCCACAAGTCAATGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAAGCCCACAAGTCAATGGCAACCTTCA
* * *
32318 AAAGCTCACAAGTCAGTGGCATC-TTTTC-AAAGCCCACAAGTCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAAGCCCACAAGTCAATGGCAACCTTCA
* * * *
32374 AAAGCCCAAAAATTAGTGGCACCTTT
1 AAAGCCCACAAGTCAGTGGCATCTTT
32400 CTCTTTTCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
56 44 0.60
57 7 0.10
58 22 0.30
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAAGCCCACAAGTCAATGGCAACCTTCA
Found at i:32512 original size:27 final size:28
Alignment explanation
Indices: 32471--32524 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
32461 ACCTTTTTCT
32471 TTTTAAAGTCCACAACTCCATGGCACCC
1 TTTTAAAGTCCACAACTCCATGGCACCC
* *
32499 TTTT-AAGTCTACAACTCCGTGGCACC
1 TTTTAAAGTCCACAACTCCATGGCACC
32525 TTGTTCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (28 bp):
TTTTAAAGTCCACAACTCCATGGCACCC
Found at i:32597 original size:61 final size:60
Alignment explanation
Indices: 32530--32777 Score: 246
Period size: 61 Copynumber: 4.0 Consensus size: 60
32520 GCACCTTGTT
* * *
32530 CCTTTTAAGTCCACAACTCTGTGGTACCTTTTTCTTTTTAAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCAC
* * * * **
32591 CCTTTTAAGTCCACAAC-CTTGTGGCATCTCTTTCCTTTTAAGTCCACGACTTTGTGGCATCTC
1 CCTTTTAAGTCCACAACTC-TGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA---C
** * * *
32654 TTTCCTTTTAAGTCCATGACTCTATTGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 ---CCTTTTAAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
* * *
32718 CCTTTTAAGTCCACACCTCCGTGGCACCTTTTTCCCTTTTAAGCCCACACCTCCGTGGCA
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT-CCTTTTAAGCCCACAACTCCGTGGCA
32778 TCTTTTTTTC
Statistics
Matches: 151, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
60 22 0.15
61 78 0.52
63 1 0.01
64 1 0.01
66 20 0.13
67 29 0.19
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:32628 original size:127 final size:126
Alignment explanation
Indices: 32496--32816 Score: 353
Period size: 127 Copynumber: 2.5 Consensus size: 126
32486 CTCCATGGCA
* *
32496 CCCTTTTAAGTCTACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGTACCTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCTGTGGCACCTTT
* * * *
32561 TTCTTTTTAAAGCCCATAACTCCGTGGCACCCTTTTAAGTCCACAACCT-TGTGGCATCTCTTT
65 TTCCTTTT-AAGCCCACAACTCCGTGGCACCCTTTTAAGTCCAC-ACCTCCGTGGCACCTCTTT
* ** * ** * *
32624 -CCTTTTAAGTCCACGACTTTGTGGCATCTCTTTCCTTTTAAGTCCATGACTCTATTGCACTCTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCT-TTTCCTTTTAAGTCCACAACTCTGTGGCAC-CTT
* *
32688 TTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACACCTCCGTGGCACCTTTTT
64 TTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACACCTCCGTGGCACCTCTTT
* * * *
32751 CCCTTTTAAGCCCACACCTCCGTGGCATCTTTTTTTCC-TGTAAGTCCACAACT-TCGTGGCACC
1 CCCTTTTAAGTCCACAACTCCGTGGCA-C--CTTTTCCTTTTAAGTCCACAACTCT-GTGGCACC
32814 TTT
62 TTT
32817 AAGTCCAATA
Statistics
Matches: 157, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
126 4 0.03
127 92 0.59
128 38 0.24
129 17 0.11
130 5 0.03
131 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (126 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
TCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACACCTCCGTGGCACCTCTTT
Found at i:32647 original size:94 final size:93
Alignment explanation
Indices: 32409--32777 Score: 331
Period size: 94 Copynumber: 3.9 Consensus size: 93
32399 TCTCTTTTCA
* * * * *
32409 AAGTCCATAACTCCATGGCATCTTTTTCCTTTTGAGTCCACAACTCCGTGACACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCATC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
*
32474 TAAAGTCCACAACTCCATGGCACCCTTTT
65 TAAAGCCCACAACTCCATGGCACCCTTTT
* * *
32503 AAGTCTACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGTACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTT-TTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* *
32568 TAAAGCCCATAACTCCGTGGCACCCTTTT
65 TAAAGCCCACAACTCCATGGCACCCTTTT
* * * * * *
32597 AAGTCCACAAC-CTTGTGGCATCTCTTTCCTTTTAAGTCCACGACTTTGTGGCATCTCTTTCCTT
1 AAGTCCACAACTC-CGTGGCATCT-TTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTT
* ** * *
32661 TT-AAGTCCATGACTCTATTGCACTCTTTTTCCTTTT
64 TTAAAGCCCACAACTCCATGGCA--C-----CCTTTT
* * *
32697 AAGTCCACAACTCCGTGGCA-C----CCTTTTAAGTCCACACCTCCGTGGCACCTTTTTCCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT-CTTTT
* *
32757 T-AAGCCCACACCTCCGTGGCA
65 TAAAGCCCACAACTCCATGGCA
32778 TCTTTTTTTC
Statistics
Matches: 224, Mismatches: 39, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
93 18 0.08
94 160 0.71
95 21 0.09
99 1 0.00
100 23 0.10
101 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (93 bp):
AAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
AAAGCCCACAACTCCATGGCACCCTTTT
Found at i:32721 original size:27 final size:27
Alignment explanation
Indices: 32691--32750 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
32681 CACTCTTTTT
32691 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
32718 CCTTTTAAGTCCACACCTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
32745 CTTTTT
1 CCTTTT
32751 CCCTTTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:32723 original size:34 final size:33
Alignment explanation
Indices: 32409--32816 Score: 307
Period size: 33 Copynumber: 12.8 Consensus size: 33
32399 TCTCTTTTCA
* *
32409 AAGTCCATAACTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * * *
32442 GAGTCCACAACTCCGTGACACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
32475 AAAGTCCACAACTCCATGGCA-C-----CCTTTT
1 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
32503 AAGTCTACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * * *
32536 AAGTCCACAACTCTGTGGTACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
32569 AAAGCCCATAACTCCGTGGCA-C-----CCTTTT
1 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
32597 AAGTCCACAAC-CTTGTGGCATCTCTTTCCTTTT
1 AAGTCCACAACTC-CGTGGCATCTTTTTCCTTTT
* ** *
32630 AAGTCCACGACTTTGTGGCATCTCTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** ** *
32663 AAGTCCATGACTCTATTGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
32697 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
32724 AAGTCCACACCTCCGTGGCACCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT-CCTTTT
* * *
32758 AAGCCCACACCTCCGTGGCATCTTTTTTTCC-TGT
1 AAGTCCACAACTCCGTGGCATC--TTTTTCCTTTT
* *
32792 AAGTCCACAACTTCGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCATCTTT
32817 AAGTCCAATA
Statistics
Matches: 304, Mismatches: 45, Indels: 53
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.00
27 58 0.19
28 13 0.04
32 4 0.01
33 115 0.38
34 106 0.35
35 2 0.01
36 5 0.02
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.37
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:32884 original size:48 final size:48
Alignment explanation
Indices: 32813--33346 Score: 364
Period size: 52 Copynumber: 11.0 Consensus size: 48
32803 TTCGTGGCAC
* * *
32813 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTTGCACTTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAT
* * * *
32861 CTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAT
* * *
32909 CTTTAAGAACAATGTCGCTGGCCTTGAATCAGCACATTGG--C---A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAT
* * * *
32951 ---TAAGCCCACTATCACTGGCCTTGAATCAGCATATTGGCACCTTAACCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTT---TAT
* ** *
33000 CTTTAAGACCAATATTGCTGAACTTGAATCAGCACATTGGCACTTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTT-AT
* *
33049 CTTTAAGTCCAACATCGCTGGCCTTGAATCAGCATATTGGCAC-----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAT
* * * * * * *
33092 CTTTAAGCCCAATGTTGCTGGCGTTGAATCAGTACATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTAT
* *
33141 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTT--T-AT
* * *
33193 CTTTAA-ACCCAATTTCGCTGGCCTTGAATCAGCACATTGACATTCTTCTCAT
1 CTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA--CTT-T-AT
* * * * * * * *
33245 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATTCTTTACAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA--CTTT--AT
* * *
33297 CTTTAAG-CCTAATATCACTAGTCC-TGAATCAGTATATTGGCACCTTTAT
1 CTTTAAGACC-AATATCGCT-GGCCTTGAATCAGCATATTGGCA-CTTTAT
33346 C
1 C
33347 ACTCCTCATC
Statistics
Matches: 392, Mismatches: 65, Indels: 57
0.76 0.13 0.11
Matches are distributed among these distances:
39 31 0.08
42 1 0.00
43 35 0.09
44 1 0.00
46 1 0.00
48 82 0.21
49 81 0.21
51 9 0.02
52 145 0.37
53 6 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (48 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAT
Found at i:33040 original size:91 final size:87
Alignment explanation
Indices: 32875--33041 Score: 226
Period size: 91 Copynumber: 1.9 Consensus size: 87
32865 AAGACCAATG
** * **
32875 TCACTGGCCTTGAATCAGCACATTGGCACTTTGTCTTTAAGAACAATGTCGCTGGCCTTGAATCA
1 TCACTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGAACAATATCGCTGAACTTGAATCA
32940 GCACATTGGCATAAGCCCACTA
66 GCACATTGGCATAAGCCCACTA
* * *
32962 TCACTGGCCTTGAATCAGCATATTGGCACCTTAACCATCTTTAAGACCAATATTGCTGAACTTGA
1 TCACTGGCCTTGAATCAGCACATTGGCA-CTT---CATCTTTAAGAACAATATCGCTGAACTTGA
33027 ATCAGCACATTGGCA
62 ATCAGCACATTGGCA
33042 CTTTCATCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
87 27 0.40
88 3 0.04
91 38 0.56
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (87 bp):
TCACTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGAACAATATCGCTGAACTTGAATCA
GCACATTGGCATAAGCCCACTA
Found at i:33112 original size:43 final size:43
Alignment explanation
Indices: 33049--33186 Score: 141
Period size: 43 Copynumber: 3.1 Consensus size: 43
33039 GCACTTTCAT
* *
33049 CTTTAAGTCCAACATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * *
33092 CTTTAAGCCCAATGTTGCTGGCGTTGAATCAGTACATTGGCACCTTC
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C
* *
33139 ATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCAC
1 --CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
33184 CTT
1 CTT
33187 CATCATCTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
43 38 0.51
45 1 0.01
47 1 0.01
49 35 0.47
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:33119 original size:92 final size:92
Alignment explanation
Indices: 33000--33186 Score: 295
Period size: 92 Copynumber: 2.0 Consensus size: 92
32990 CCTTAACCAT
*
33000 CTTTAAGACCAATATTGCTGAACTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAACATC
1 CTTTAAGACCAATATTGCTGAACTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAACATC
*
33065 GCTGGCCTTGAATCAGCATATTGGCAC
66 GCTAGCCTTGAATCAGCATATTGGCAC
* * * * *
33092 CTTTAAGCCCAATGTTGCTG-GCGTTGAATCAGTACATTGGCACCTTCATCTTTAAGTCCAATAT
1 CTTTAAGACCAATATTGCTGAAC-TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAACAT
33156 CGCTAGCCTTGAATCAGCATATTGGCAC
65 CGCTAGCCTTGAATCAGCATATTGGCAC
33184 CTT
1 CTT
33187 CATCATCTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 1 0.01
92 86 0.99
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CTTTAAGACCAATATTGCTGAACTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAACATC
GCTAGCCTTGAATCAGCATATTGGCAC
Found at i:33996 original size:13 final size:13
Alignment explanation
Indices: 33978--34003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33968 ACATAAGTGT
33978 TGTATCGATACAA
1 TGTATCGATACAA
33991 TGTATCGATACAA
1 TGTATCGATACAA
34004 AAGCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:34054 original size:20 final size:20
Alignment explanation
Indices: 34029--34096 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
34019 CTGCCAAGGA
34029 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
34049 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
*
34064 --TGTATCGATACACTATTC
1 AATGTATCGATACATTATTC
34082 AATGTATCGATACAT
1 AATGTATCGATACAT
34097 GCAGGCAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 25 0.62
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:34069 original size:13 final size:13
Alignment explanation
Indices: 34051--34075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34041 CATTATTCAA
34051 TGTATCGATACAT
1 TGTATCGATACAT
34064 TGTATCGATACA
1 TGTATCGATACA
34076 CTATTCAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34073 original size:33 final size:33
Alignment explanation
Indices: 34031--34096 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
34021 GCCAAGGAAA
*
34031 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACACTATTCAATGTATCGATACAT
34064 TGTATCGATACACTATTCAATGTATCGATACAT
1 TGTATCGATACACTATTCAATGTATCGATACAT
34097 GCAGGCAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCGATACACTATTCAATGTATCGATACAT
Found at i:36705 original size:11 final size:11
Alignment explanation
Indices: 36689--36713 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36679 TCGTAAATTA
36689 AATAATTATTT
1 AATAATTATTT
36700 AATAATTATTT
1 AATAATTATTT
36711 AAT
1 AAT
36714 GGAATTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATAATTATTT
Found at i:44112 original size:203 final size:204
Alignment explanation
Indices: 43792--44202 Score: 734
Period size: 203 Copynumber: 2.0 Consensus size: 204
43782 AAAAATCAGA
*
43792 AAATAATTTTAAAGATTTTTTCAAGAAACAAAAAAAACACTAAATCAATACTTAAAATGTCTAAC
1 AAATAATTTTAAAGATTTTTTCAAGAAACAAAAAAAACACTAAATCAATACATAAAATGTCTAAC
*
43857 GTTTATCACCAAGAACTAGCATGCATTAATCACATGTAATCAATAATCCTAGGCTCTGATACCAC
66 GTTTATCACCAAGAACTAGCATGCATCAATCACATGTAATCAATAATCCTAGGCTCTGATACCAC
*
43922 TGAAGAGAATCTTGTATTCCAAACTCAAAAATTAAAAAAGAATTTATTCATAAAATTAATTAAAA
131 TAAAGAGAATCTTGTATTCCAAACTCAAAAATTAAAAAAGAATTTATTCATAAAATTAATTAAAA
*
43987 ATTTGTGAG
196 ATTTGTAAG
* *
43996 AAATAATTTTAAAGATTTTTTCAAGAAAC-CAAAAAACACTAAATCAATGCATAAAATGTCTAAC
1 AAATAATTTTAAAGATTTTTTCAAGAAACAAAAAAAACACTAAATCAATACATAAAATGTCTAAC
* *
44060 GTTTATCACTAAGAACTAGCATGCATCAATCACATGTAATCAATATTCCTAGGCTCTGATACCAC
66 GTTTATCACCAAGAACTAGCATGCATCAATCACATGTAATCAATAATCCTAGGCTCTGATACCAC
*
44125 TAAAGAGAATCTTGTATTCCAAACTCAACAATTAAAAAAGAATTTATTCATAAAATTAATTAAAA
131 TAAAGAGAATCTTGTATTCCAAACTCAAAAATTAAAAAAGAATTTATTCATAAAATTAATTAAAA
44190 ATTTGTAAG
196 ATTTGTAAG
44199 AAAT
1 AAAT
44203 TATAGGAGTA
Statistics
Matches: 198, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
203 169 0.85
204 29 0.15
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (204 bp):
AAATAATTTTAAAGATTTTTTCAAGAAACAAAAAAAACACTAAATCAATACATAAAATGTCTAAC
GTTTATCACCAAGAACTAGCATGCATCAATCACATGTAATCAATAATCCTAGGCTCTGATACCAC
TAAAGAGAATCTTGTATTCCAAACTCAAAAATTAAAAAAGAATTTATTCATAAAATTAATTAAAA
ATTTGTAAG
Found at i:45752 original size:91 final size:88
Alignment explanation
Indices: 45596--45892 Score: 315
Period size: 92 Copynumber: 3.2 Consensus size: 88
45586 AAAGTCCTCA
* * *
45596 TAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGAGGAAATGATATCCCGACCACTCATTC
1 TAGATGGTATTGATGCATCACAAA-CCTGATTTCCTTG-GGCAAGGACAT-CCGACCACTCATTC
*
45661 CCAATCATATCCTTTTCTTTTTAACAC
63 CCAATCATATCCCTTTC-TTTTAACAC
* * *
45688 TAGATGGTATTTATGCATCACAAACTTGATTTCCTTAGGGCAAGGACATCTCGACCACACATTCC
1 TAGATGGTATTGATGCATCACAAACCTGATTTCCTT-GGGCAAGGACATC-CGACCACTCATTCC
* * * * **
45753 CAAGCCTATCCCCTTCATCCAACCAC
64 CAATCATATCCCTTTCTTTTAA-CAC
* * *
45779 TAGATGGTATTAATGCATCACACAGCCTGATTTCCTTGGGGCAAGGACATCCAAGCCACTCATTC
1 TAGATGGTATTGATGCATCACA-AACCTGATTTCCTT-GGGCAAGGACATCCGA-CCACTCATTC
* * *
45844 CTAATCATAACCCTTTCTTTTAGCCAC
63 CCAATCATATCCCTTTCTTTTA-ACAC
*
45871 TAAATGGTATTGATGCATCACA
1 TAGATGGTATTGATGCATCACA
45893 TGACCACAAA
Statistics
Matches: 169, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
90 4 0.02
91 70 0.41
92 95 0.56
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (88 bp):
TAGATGGTATTGATGCATCACAAACCTGATTTCCTTGGGCAAGGACATCCGACCACTCATTCCCA
ATCATATCCCTTTCTTTTAACAC
Found at i:46703 original size:84 final size:84
Alignment explanation
Indices: 46573--47444 Score: 645
Period size: 84 Copynumber: 10.4 Consensus size: 84
46563 ATCAGGTATC
* * * * *
46573 ACTTTTTATCCTTTGTTTACATAT-TGCTTAGTCCTAGGTAAATCCTTTTATCCTTTGTTGACTT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
46637 GTCGATTCAATCCT-AGTTA
66 GTCGATTCAATCCTGA-TTA
* * *
46656 ACTTTTTATCTTTTGTTTACCCGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTATTGACTT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
* * * *
46721 AT-TAGCTCAATCCTGATCA
66 GTCGA-TTCAATCCTGATTA
* * * *
46740 AGTTTTTATCCTTTGTTTACCTGTCGGTTTTGTCTTGGGTAAGTCCTTTTATCCTTTGTTGACTT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
*
46805 GTCGATTCAATCATGATTA
66 GTCGATTCAATCCTGATTA
* * * *
46824 ACTTTTTATCCTTTGTTTACCTATCGGCTTAGTCCTGGGTTAATTCTTTTATCCTTTGTTGACTT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
*
46889 ATCGATTCAAT-CTCGATTA
66 GTCGATTCAATCCT-GATTA
* **** **
46908 ACTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAAGTAAATTTTTTTTATCCTTTGTTGACT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAA-TCCTTTTATCCTTTGTTGACT
* *
46973 TGTC-AGTTTAATCCTG-TCA
65 TGTCGA-TTCAATCCTGATTA
* * **
46992 ACATTTTATCCTTTGTTTACTTGTCAACTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
47057 GTC-AGTTCAAT--TAGATTA
66 GTCGA-TTCAATCCT-GATTA
* * * * * *
47075 ACTTTTTATCCTTTGTTGACCTGTTAGG-TTAGTCTTGGGTATATCCTTTTTTCCTTTGTTAAGT
1 ACTTTTTATCCTTTGTTTACCTG-TCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACT
* * * *
47139 TGTTGGTTCAATCTCCG-TCA
65 TGTCGATTCAATC-CTGATTA
* * ** * * * *
47159 ACTTTTTATCCTTTGTTGA-CTAGTCGG-TTCAATC-CCGTTCAA-CTTTTTATCCTTTGTTTAC
1 ACTTTTTATCCTTTGTTTACCT-GTCGGCTT-AGTCTTGGGTAAATCCTTTTATCCTTTGTTGAC
* * * * *
47220 CTATCGGCTT-AGTCCCT-AGTAA
64 TTGTC-GATTCAAT-CCTGA-TTA
* * * * * * * *
47242 ATCTTTTTATCTTTTGTTAACTTGTCGGTTTAGTCTCGGGTAAATCTTTTTCTCCTTTATTGACT
1 A-CTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACT
* * * * * * *
47307 TATTGGTTTACT-CTCAGTCA
65 TGTCGATTCAATCCTGA-TTA
* * * * ** *
47327 ACTTTTTATCC-TTGTTAACTTGTTGACTTAGTCCCGGGTAAAT-TTTTTATCCTTTGTTGACTT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
* * * *
47390 GT-TAGCTCCAT-CTCGATCA
66 GTCGA-TTCAATCCT-GATTA
* * *
47409 ACTTTTTATCTTTTGTTTACTTGTCAGCTTAGTCTT
1 ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTT
47445 AAGTAAATTT
Statistics
Matches: 634, Mismatches: 124, Indels: 62
0.77 0.15 0.08
Matches are distributed among these distances:
81 1 0.00
82 57 0.09
83 179 0.28
84 326 0.51
85 48 0.08
86 23 0.04
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (84 bp):
ACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTT
GTCGATTCAATCCTGATTA
Found at i:47014 original size:40 final size:41
Alignment explanation
Indices: 46618--47435 Score: 238
Period size: 41 Copynumber: 19.6 Consensus size: 41
46608 AGGTAAATCC
* *
46618 TTTTATCCTTTGTTGACTTGTC-GATTCAATCCTAGTTAACT
1 TTTTATCCTTTGTTGACTTGTCAG-TTCAATCCTGGTCAACT
* * ** * * * * *
46659 TTTTATCTTTTGTTTACCCGTCGGCTT-AGTCTTGGGTAAATCC
1 TTTTATCCTTTGTTGACTTGTCAG-TTCAATCCT-GGTCAA-CT
* * * * * *
46702 TTTTATCCTTTATTGACTTATTAGCTCAATCCTGATCAAGT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGGTCAACT
* * * *** * *
46743 TTTTATCCTTTGTTTACCTGTCGGTTTTGTCTTGGGT-AAGTCC
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCT-GGTCAA--CT
* * *
46786 TTTTATCCTTTGTTGACTTGTC-GATTCAATCATGATTAACT
1 TTTTATCCTTTGTTGACTTGTCAG-TTCAATCCTGGTCAACT
* * * * * * *
46827 TTTTATCCTTTGTTTACCTATCGGCTT-AGTCCTGGGTTAATT
1 TTTTATCCTTTGTTGACTTGTCAG-TTCAATCCT-GGTCAACT
* * *
46869 CTTTTATCCTTTGTTGACTTATC-GATTCAAT-CTCGATTAACT
1 -TTTTATCCTTTGTTGACTTGTCAG-TTCAATCCT-GGTCAACT
* * * ** * *
46911 TTTTATCCTTTGTTTACCTGTCAGCTT-AGTCCCAAGTAAATTTT
1 TTTTATCCTTTGTTGACTTGTCAG-TTCAAT-CCTGGTCAA--CT
* *
46955 TTTTATCCTTTGTTGACTTGTCAGTTTAATCCT-GTCAACA
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGGTCAACT
* * * * * *
46995 TTTTATCCTTTGTTTACTTGTCAACTT-AGTCTTGGGTAAATCC
1 TTTTATCCTTTGTTGACTTGTC-AGTTCAATCCT-GGTCAA-CT
* *
47038 TTTTATCCTTTGTTGACTTGTCAGTTCAAT--TAGATTAACT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCT-GGTCAACT
* * * *
47078 TTTTATCCTTTGTTGACCTGTTAGGTT-AGTCTTGGGT-ATATCCT
1 TTTTATCCTTTGTTGACTTGTCA-GTTCAATCCT-GGTCA-A--CT
* * ** *
47122 TTTT-TCCTTTGTTAAGTTGTTGGTTCAAT-CTCCGTCAACT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCT-GGTCAACT
* * * *
47162 TTTTATCCTTTGTTGACTAGTCGGTTCAATCCCGTTCAACT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGGTCAACT
* * * * * * *
47203 TTTTATCCTTTGTTTACCTATCGGCTT-AGTCCCTAGTAAATCT
1 TTTTATCCTTTGTTGACTTGTCAG-TTCAAT-CCTGGTCAA-CT
* * * * * * *
47246 TTTTATCTTTTGTTAACTTGTCGGTTTAGTCTCGGGTAAATCT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATC-CTGGTCAA-CT
* * * ** * * *
47289 TTTTCTCCTTTATTGACTTATTGGTTTACT-CTCAGTCAACT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCT-GGTCAACT
* * * * * * *
47330 TTTTATCC-TTGTTAACTTGTTGACTT-AGTCCCGGGTAAATT
1 TTTTATCCTTTGTTGACTTG-TCAGTTCAAT-CCTGGTCAACT
* * * *
47371 TTTTATCCTTTGTTGACTTGTTAGCTCCAT-CTCGATCAACT
1 TTTTATCCTTTGTTGACTTGTCAGTTCAATCCT-GGTCAACT
* *
47412 TTTTATCTTTTGTTTACTTGTCAG
1 TTTTATCCTTTGTTGACTTGTCAG
47436 CTTAGTCTTA
Statistics
Matches: 569, Mismatches: 162, Indels: 92
0.69 0.20 0.11
Matches are distributed among these distances:
40 66 0.12
41 207 0.36
42 92 0.16
43 173 0.30
44 31 0.05
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (41 bp):
TTTTATCCTTTGTTGACTTGTCAGTTCAATCCTGGTCAACT
Found at i:47260 original size:125 final size:125
Alignment explanation
Indices: 47038--47425 Score: 328
Period size: 125 Copynumber: 3.1 Consensus size: 125
47028 GGGTAAATCC
* * * * *
47038 TTTTATCCTTTGTTGACTTGTCAGTTCAAT-TAGATT-AACTTTTTATCCTTTGTTGACCTGTTA
1 TTTTATCCTTTGTTGACTAGTCGGTTCAATCCAG-TTCAACTTTTTATCCTTTGTTAACCT-ATA
* * *
47101 GG-TTAGT-CTTGGGTATATCCTTTTT-TCCTTTGTTAAGTTGTTGGTTCAATCTCCGTCAACT
64 GGCTTAGTCCCT-GGTAAAT-CTTTTTATCCTTTGTTAACTTGTTGGTTCAATCTCCGTCAACT
* * *
47162 TTTTATCCTTTGTTGACTAGTCGGTTCAATCCCGTTCAACTTTTTATCCTTTGTTTACCTATCGG
1 TTTTATCCTTTGTTGACTAGTCGGTTCAATCCAGTTCAACTTTTTATCCTTTGTTAACCTATAGG
* * * * * * *
47227 CTTAGTCCCTAGTAAATCTTTTTATCTTTTGTTAACTTGTCGGTTTAGTCTCGGGTAAATCT
66 CTTAGTCCCTGGTAAATCTTTTTATCCTTTGTTAACTTGTTGGTTCAATCTC-CGTCAA-CT
* * * * * * * *
47289 TTTTCTCCTTTATTGACTTA-TTGGTTTACTCTCAG-TCAACTTTTTATCC-TTGTTAACTTGTT
1 TTTTATCCTTTGTTGAC-TAGTCGGTTCAATC-CAGTTCAACTTTTTATCCTTTGTTAACCTATA
* * * * * *
47351 GACTTAGTCCCGGGTAAAT-TTTTTATCCTTTGTTGACTTGTTAGCTCCATCT-CGATCAACT
64 GGCTTAGTCCCTGGTAAATCTTTTTATCCTTTGTTAACTTGTTGGTTCAATCTCCG-TCAACT
*
47412 TTTTATCTTTTGTT
1 TTTTATCCTTTGTT
47426 TACTTGTCAG
Statistics
Matches: 211, Mismatches: 43, Indels: 21
0.77 0.16 0.08
Matches are distributed among these distances:
123 14 0.07
124 42 0.20
125 81 0.38
126 31 0.15
127 39 0.18
128 4 0.02
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (125 bp):
TTTTATCCTTTGTTGACTAGTCGGTTCAATCCAGTTCAACTTTTTATCCTTTGTTAACCTATAGG
CTTAGTCCCTGGTAAATCTTTTTATCCTTTGTTAACTTGTTGGTTCAATCTCCGTCAACT
Found at i:47275 original size:43 final size:43
Alignment explanation
Indices: 46574--48378 Score: 229
Period size: 41 Copynumber: 42.6 Consensus size: 43
46564 TCAGGTATCA
* * * * *
46574 CTTTTTATCCTTTGTTTACATAT-TGCTTAGT-CCTAGGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGA-GTAAAT
* * * * * *
46616 CCTTTTATCCTTTGTTGACTTGTC-GATTCAAT-CCTAGTTAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * ** ** *
46657 CTTTTTATCTTTTGTTTACCCGTCGGCTTAGTCTTGGGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * ** * * * *
46700 CCTTTTATCCTTTATTGACTTATTAGCTCAATCCTGA-TCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * * ** * *
46741 GTTTTTATCCTTTGTTTACCTGTCGGTTTTGTCTTGGGTAAGT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * ** *
46784 CCTTTTATCCTTTGTTGACTTGTC-GATTCAATCATGA-TTAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * * * *
46825 CTTTTTATCCTTTGTTTACCTATCGGCTTAGTCCTGGGTTAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * * *
46868 -TCTTTTATCCTTTGTTGACTTATC-GATTCAATCTCGA-TTAA-
1 CT-TTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * *
46909 CTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAAGTAAATT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAA-T
* * * * * * *
46953 TTTTTTATCCTTTGTTGACTTGTCAGTTTAAT-CC-TGTCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * ** ** *
46993 CATTTTATCCTTTGTTTACTTGTCAACTTAGTCTTGGGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * ** *
47036 CCTTTTATCCTTTGTTGACTTGTCAG-TTCAAT-TAGA-TTAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * ** * *
47076 CTTTTTATCCTTTGTTGACCTGTTAGG-TTAGTCTTGGGTATAT
1 CTTTTTATCCTTTGTTAACTTG-TCGGCTTAGTCCCGAGTAAAT
* * * *
47119 CCTTTTT-TCCTTTGTTAAGTTGTTGG-TTCAATCTCC--GTCAA-
1 -CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTC-CCGAGTAAAT
* * * * *
47160 CTTTTTATCCTTTGTTGACTAGTCGG-TTCAATCCCG-TTCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * *
47201 CTTTTTATCCTTTGTTTACCTATCGGCTTAGTCCCTAGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * *
47244 CTTTTTATCTTTTGTTAACTTGTCGGTTTAGTCTCGGGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * * * * * *
47287 CTTTTTCTCCTTTATTGACTTATTGGTTTACTCTC-AGTCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * *
47328 CTTTTTATCC-TTGTTAACTTGTTGACTTAGTCCCGGGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* ** * * *
47370 -TTTTTATCCTTTGTTGACTTGTTAGCTCCA-TCTCGA-TCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCT-TAGTCCCGAGTAAAT
* * * ***
47410 CTTTTTATCTTTTGTTTACTTGTCAGCTTAGTCTTAAGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * *** * * *
47453 TTTTTTACCCTATCCTGATTAATTTTTTATCCATT-GTTTACC-TGTCAA-
1 CTTTTTATCCT-T--TG-TTAA-CTTGTCGGC-TTAG--TCCCGAGTAAAT
* * * * *
47501 CTTAGTCACTGGTAAT--TTCTTTTATCCTTTGTTGACTTATCTGTTCAATCCCGA-TTAA-
1 CTT--T---T--T-ATCCTT-TGTTA-AC-TTGTCGGCTTA---G-----TCCCGAGTAAAT
* * * * * *
47559 CTTTTTATCCTTTATTTACCTGTCGCCTTAGTCTCGGGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * *
47602 CTTTTTATCCTTTATTGACTTGTCGG-TTCAATCTCGA-TCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * ** *
47643 CTTTTTATCCTTTGTTTACTTGTCAGCTTAGTCTTTTG-GTAATT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTC--CCGAGTAAAT
* * * * * * * *
47687 CCTTTTATCTTTTGTTGACCTATCGG-TTCAATCCTG-GTTAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * *
47728 CTTTTTATCCTTTGTTTACTTGTCGGCTTAGTTCAGA-TAATT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * *
47770 CTTTTTATCCTTTGTTGACTTGTCGGTTTAATTCTG-GTAAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * * **
47811 C-TTTTATCTTTTGTTTACCTG-CTAGTTTAGTCTTGAGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTC-GGCTTAGTCCCGAGTAAAT
** * * *
47853 CTTTTTATCCTTTGTCGACTTGTCGG-TTCAATCTCGA-TTAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * * * * *
47894 CTTTTTATCCTTTATTTACCTATCGACTTAGTCCTGTGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * * * *
47937 C-TTTTATTCTTTGTTTACCTGTTGG-TTCAATCTCG-GTCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * *
47977 CTTTTTATCCTTTGGTT-ACTTATCAGCTTAGTCCTGGGTAAAT
1 CTTTTTATCCTTT-GTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * ** * * *
48020 CCTTTTATCCTTTGTTGACTTGGC-TTTTAATCTCGA-TCAA-
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * ** *
48060 CTTTTTATCCTTTGTTTACCTATCAACTTAGTCTCGAGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * * ** * ** *
48103 CCTTTTATCCTTTATTGACTTGTTGATTTAAT-CTTAGTCAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * *** *
48145 -TTTTTATCCTTTGTTTACCTATTAACTTAGTCCTGAGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * *
48187 AC-TTTTATCCTTTGCTT-ACTTGTCAGTTCTA-TCTCG-GTCAA-
1 -CTTTTTATCCTTTG-TTAACTTGTCGGCT-TAGTCCCGAGTAAAT
* ** * **
48228 CTTTTTATCTTTTGTTTCCTTATTAGCTTAGTCCCGAGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * * ** * *
48271 CTTTTTATCCTTTATTGACTTTTTAG-TTCAATCCCG-GTCAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTT-AGTCCCGAGTAAAT
* * * * *
48313 -TTTTT-TCCTTTATTTACCTGTCGGCTTAGTCTCAAGTAAAT
1 CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
* * *
48354 CCTTTTATCTTTTGTTTACTTGTCG
1 CTTTTTATCCTTTGTTAACTTGTCG
48379 ATTCAATCCT
Statistics
Matches: 1271, Mismatches: 375, Indels: 233
0.68 0.20 0.12
Matches are distributed among these distances:
39 1 0.00
40 142 0.11
41 389 0.31
42 257 0.20
43 354 0.28
44 62 0.05
46 3 0.00
47 3 0.00
48 7 0.01
49 14 0.01
50 5 0.00
51 9 0.01
52 8 0.01
53 3 0.00
54 1 0.00
55 2 0.00
56 2 0.00
58 9 0.01
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.49
Consensus pattern (43 bp):
CTTTTTATCCTTTGTTAACTTGTCGGCTTAGTCCCGAGTAAAT
Found at i:47607 original size:149 final size:147
Alignment explanation
Indices: 47329--47608 Score: 339
Period size: 149 Copynumber: 1.9 Consensus size: 147
47319 CTCAGTCAAC
* ** * *
47329 TTTTTATCCTTGTTAACTTGTTGACTTAGTCCCGGGTAAATTTTTTATCCTTTGTTGACTTGTTA
1 TTTTTATCCTTGTTAACCTGTCAACTTAGTCACGGGTAAATTTTTTATCCTTTGTTGACTTATTA
* * * * * * *
47394 GCTCCATCTCGATCAACTTTTTATCTTTTGTTTACTTGTCAGCTTAGTCTTAAGTAAATTTTTTT
66 GCTCAATCCCGATCAACTTTTTATCCTTTATTTACCTGTCAGCTTAGTCTCAAGTAAATCTTTTT
47459 ACCCTATCCTGATTAAT
131 ACCCTATCCTGATTAAT
* * *
47476 TTTTTATCCATTGTTTACCTGTCAACTTAGTCACTGGTAATTTCTTTTATCCTTTGTTGACTTAT
1 TTTTTATCC-TTGTTAACCTGTCAACTTAGTCACGGGTAAATT-TTTTATCCTTTGTTGACTTAT
* * **
47541 CT-GTTCAATCCCGATTAACTTTTTATCCTTTATTTACCTGTC-GCCTTAGTCTCGGGTAAATCT
64 -TAGCTCAATCCCGATCAACTTTTTATCCTTTATTTACCTGTCAG-CTTAGTCTCAAGTAAATCT
47604 TTTTA
127 TTTTA
47609 TCCTTTATTG
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
147 9 0.08
148 27 0.25
149 73 0.66
150 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (147 bp):
TTTTTATCCTTGTTAACCTGTCAACTTAGTCACGGGTAAATTTTTTATCCTTTGTTGACTTATTA
GCTCAATCCCGATCAACTTTTTATCCTTTATTTACCTGTCAGCTTAGTCTCAAGTAAATCTTTTT
ACCCTATCCTGATTAAT
Found at i:47610 original size:84 final size:83
Alignment explanation
Indices: 47476--48414 Score: 739
Period size: 83 Copynumber: 11.2 Consensus size: 83
47466 CCTGATTAAT
* * * *
47476 TTTTTATCCATTGTTTACCTGTCAACTTAGTCACTG-GT-AATTTCTTTTATCCTTTGTTGACTT
1 TTTTTATCCTTTGTTTACCTGTC-GCTTAGTCTC-GAGTAAATCT-TTTTATCCTTTGTTGACTT
* *
47539 ATCTGTTCAATCCCGATTAAC
63 GTCTGTTCAATCCCGATCAAC
* * *
47560 TTTTTATCCTTTATTTACCTGTCGCCTTAGTCTCGGGTAAATCTTTTTATCCTTTATTGACTTGT
1 TTTTTATCCTTTGTTTACCTGTCG-CTTAGTCTCGAGTAAATCTTTTTATCCTTTGTTGACTTGT
* *
47625 CGGTTCAATCTCGATCAAC
65 CTGTTCAATCCCGATCAAC
* * * * * *
47644 TTTTTATCCTTTGTTTACTTGTCAGCTTAGTCTTTTG-GTAATTCCTTTTATCTTTTGTTGACCT
1 TTTTTATCCTTTGTTTACCTGTC-GCTTAGTC--TCGAGTAAATCTTTTTATCCTTTGTTGACTT
* * * * *
47708 ATCGGTTCAATCCTGGTTAAC
63 GTCTGTTCAATCCCGATCAAC
* *
47729 TTTTTATCCTTTGTTTACTTGTCGGCTTAGT-TC-AGATAATTCTTTTTATCCTTTGTTGACTTG
1 TTTTTATCCTTTGTTTACCTGTC-GCTTAGTCTCGAG-TAAATCTTTTTATCCTTTGTTGACTTG
* * * * * *
47792 TCGGTTTAATTCTGGTAAAC
64 TCTGTTCAATCCCGATCAAC
* * * * *
47812 -TTTTATCTTTTGTTTACCTGCTAGTTTAGTCTTGAGTAAATCTTTTTATCCTTTGTCGACTTGT
1 TTTTTATCCTTTGTTTACCTG-TCGCTTAGTCTCGAGTAAATCTTTTTATCCTTTGTTGACTTGT
* * *
47876 CGGTTCAATCTCGATTAAC
65 CTGTTCAATCCCGATCAAC
* * * * * *
47895 TTTTTATCCTTTATTTACCTATCGACTTAGTC-CTGTGTAAATC-TTTTATTCTTTGTTTACCTG
1 TTTTTATCCTTTGTTTACCTGTCG-CTTAGTCTC-GAGTAAATCTTTTTATCCTTTGTTGACTTG
* *
47958 T-TGGTTCAATCTCGGTCAAC
64 TCT-GTTCAATCCCGATCAAC
* * * * *
47978 TTTTTATCCTTTGGTTACTTATCAGCTTAGTC-CTGGGTAAATCCTTTTATCCTTTGTTGACTTG
1 TTTTTATCCTTTGTTTACCTGTC-GCTTAGTCTC-GAGTAAATCTTTTTATCCTTTGTTGACTTG
* * *
48042 GCT-TTTAATCTCGATCAAC
64 TCTGTTCAATCCCGATCAAC
* * * *
48061 TTTTTATCCTTTGTTTACCTATCAACTTAGTCTCGAGTAAATCCTTTTATCCTTTATTGACTTGT
1 TTTTTATCCTTTGTTTACCTGTC-GCTTAGTCTCGAGTAAATCTTTTTATCCTTTGTTGACTTGT
* ** *
48126 -TGATTTAAT-CTTAGTCAAT
65 CTG-TTCAATCCCGA-TCAAC
* **
48145 TTTTTATCCTTTGTTTACCTATTAACTTAGTC-CTGAGTAAATAC-TTTTATCCTTTGCTT-ACT
1 TTTTTATCCTTTGTTTACCT-GTCGCTTAGTCTC-GAGTAAAT-CTTTTTATCCTTTG-TTGACT
* * * *
48207 TGTCAGTTCTATCTCGGTCAAC
62 TGTCTGTTCAATCCCGATCAAC
* * * * *
48229 TTTTTATCTTTTGTTT-CCTTATTAGCTTAGTCCCGAGTAAATCTTTTTATCCTTTATTGACTT-
1 TTTTTATCCTTTGTTTACC-T-GTCGCTTAGTCTCGAGTAAATCTTTTTATCCTTTGTTGACTTG
* *
48292 TTTAGTTCAATCCCGGTCAA-
64 TCT-GTTCAATCCCGATCAAC
* * * * * *
48312 TTTTTTTCCTTTATTTACCTGTCGGCTTAGTCTCAAGTAAATCCTTTTATCTTTTGTTTACTTGT
1 TTTTTATCCTTTGTTTACCTGTC-GCTTAGTCTCGAGTAAATCTTTTTATCCTTTGTTGACTTGT
*
48377 C-GATTCAATCCTGATCAAC
65 CTG-TTCAATCCCGATCAAC
48396 TTTTCTATCCTTTGTTTAC
1 TTTT-TATCCTTTGTTTAC
48415 TTTTTAGTTT
Statistics
Matches: 703, Mismatches: 113, Indels: 77
0.79 0.13 0.09
Matches are distributed among these distances:
82 29 0.04
83 292 0.42
84 288 0.41
85 92 0.13
86 2 0.00
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (83 bp):
TTTTTATCCTTTGTTTACCTGTCGCTTAGTCTCGAGTAAATCTTTTTATCCTTTGTTGACTTGTC
TGTTCAATCCCGATCAAC
Found at i:47807 original size:83 final size:82
Alignment explanation
Indices: 47476--48414 Score: 700
Period size: 84 Copynumber: 11.2 Consensus size: 82
47466 CCTGATTAAT
* * * * * *
47476 TTTTTATCCATTGTTTACCTGTCAACTTAGTCACTGGT-AATTTCTTTTATCCTTTGTTGACTTA
1 TTTTTATCCTTTGTTTACCTGTCAGCTTAGT-TCTGATAAATCT-TTTTATCCTTTGTTGACTTG
* * * *
47540 TCTGTTCAATCCCGATTAAC
64 TCGGTTCAAT-CTGGTCAAC
* * * *
47560 TTTTTATCCTTTATTTACCTGTC-GCCTTAGTCTCGGGTAAATCTTTTTATCCTTTATTGACTTG
1 TTTTTATCCTTTGTTTACCTGTCAG-CTTAGT-TCTGATAAATCTTTTTATCCTTTGTTGACTTG
*
47624 TCGGTTCAATCTCGATCAAC
64 TCGGTTCAATCT-GGTCAAC
* * * * * * * *
47644 TTTTTATCCTTTGTTTACTTGTCAGCTTAGTCTTTTGGTAATTCCTTTTATCTTTTGTTGACCTA
1 TTTTTATCCTTTGTTTACCTGTCAGCTTAG--TTCTGATAAATCTTTTTATCCTTTGTTGACTTG
*
47709 TCGGTTCAATCCTGGTTAAC
64 TCGGTTCAAT-CTGGTCAAC
* * * *
47729 TTTTTATCCTTTGTTTACTTGTCGGCTTAGTTCAGATAATTCTTTTTATCCTTTGTTGACTTGTC
1 TTTTTATCCTTTGTTTACCTGTCAGCTTAGTTCTGATAAATCTTTTTATCCTTTGTTGACTTGTC
* *
47794 GGTTTAATTCTGGTAAAC
66 GGTTCAA-TCTGGTCAAC
* * *
47812 -TTTTATCTTTTGTTTACCTG-CTAGTTTAG-TCTTGAGTAAATCTTTTTATCCTTTGTCGACTT
1 TTTTTATCCTTTGTTTACCTGTC-AGCTTAGTTC-TGA-TAAATCTTTTTATCCTTTGTTGACTT
* *
47874 GTCGGTTCAATCTCGATTAAC
63 GTCGGTTCAATCT-GGTCAAC
* * * * * * *
47895 TTTTTATCCTTTATTTACCTATC-GACTTAGTCCTGTGTAAATC-TTTTATTCTTTGTTTACCTG
1 TTTTTATCCTTTGTTTACCTGTCAG-CTTAGTTCTG-ATAAATCTTTTTATCCTTTGTTGACTTG
*
47958 TTGGTTCAATCTCGGTCAAC
64 TCGGTTCAATCT-GGTCAAC
* * * * * * *
47978 TTTTTATCCTTTGGTTACTTATCAGCTTAGTCCTGGGTAAATCCTTTTATCCTTTGTTGACTTGG
1 TTTTTATCCTTTGTTTACCTGTCAGCTTAGTTCT-GATAAATCTTTTTATCCTTTGTTGACTTGT
* * *
48043 C-TTTTAATCTCGATCAAC
65 CGGTTCAATCT-GGTCAAC
* * * *
48061 TTTTTATCCTTTGTTTACCTATCAACTTAG-TCTCGAGTAAATCCTTTTATCCTTTATTGACTTG
1 TTTTTATCCTTTGTTTACCTGTCAGCTTAGTTCT-GA-TAAATCTTTTTATCCTTTGTTGACTTG
* * * * *
48125 TTGATTTAATCTTAGTCAAT
64 TCGGTTCAATC-TGGTCAAC
* * * *
48145 TTTTTATCCTTTGTTTACCTATTAACTTAGTCCTGAGTAAATAC-TTTTATCCTTTGCTT-ACTT
1 TTTTTATCCTTTGTTTACCTGTCAGCTTAGTTCTGA-TAAAT-CTTTTTATCCTTTG-TTGACTT
* *
48208 GTCAGTTCTATCTCGGTCAAC
63 GTCGGTTCAATCT-GGTCAAC
* * * * * * *
48229 TTTTTATCTTTTGTTT-CCTTATTAGCTTAGTCCCGAGTAAATCTTTTTATCCTTTATTGACTTT
1 TTTTTATCCTTTGTTTACC-TGTCAGCTTAGTTCTGA-TAAATCTTTTTATCCTTTGTTGACTTG
** *
48293 TTAGTTCAATCCCGGTCAA-
64 TCGGTTCAAT-CTGGTCAAC
* * * * * * *
48312 TTTTTTTCCTTTATTTACCTGTCGGCTTAG-TCTCAAGTAAATCCTTTTATCTTTTGTTTACTTG
1 TTTTTATCCTTTGTTTACCTGTCAGCTTAGTTCT-GA-TAAATCTTTTTATCCTTTGTTGACTTG
* *
48376 TCGATTCAATCCTGATCAAC
64 TCGGTTCAAT-CTGGTCAAC
48396 TTTTCTATCCTTTGTTTAC
1 TTTT-TATCCTTTGTTTAC
48415 TTTTTAGTTT
Statistics
Matches: 701, Mismatches: 119, Indels: 69
0.79 0.13 0.08
Matches are distributed among these distances:
81 3 0.00
82 32 0.05
83 283 0.40
84 286 0.41
85 94 0.13
86 3 0.00
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (82 bp):
TTTTTATCCTTTGTTTACCTGTCAGCTTAGTTCTGATAAATCTTTTTATCCTTTGTTGACTTGTC
GGTTCAATCTGGTCAAC
Found at i:48151 original size:734 final size:732
Alignment explanation
Indices: 46730--48162 Score: 1648
Period size: 734 Copynumber: 2.0 Consensus size: 732
46720 TATTAGCTCA
* *** * *
46730 ATCCTGATCAAGTTTTTATCCTTTGTTTACCTGTCGGTTTTGTCTTGGGTAAGTCCTTTTATCCT
1 ATCCTGATCAAGTTTTTATCCATTGTTTACCTGTCAACTTAGTCCTGGGTAAGTCCTTTTATCCT
* * * *
46795 TTGTTGACTTGTCGATTCAATCATGATTAACTTTTTATCCTTTGTTTACCTATCGGCTTAGTCCT
66 TTGTTGACTTATCGATTCAATCACGATTAACTTTTTATCCTTTATTTACCTATCGCCTTAGTCCT
* * *
46860 GGGTTAATTCTTTTATCCTTTGTTGACTTATCGATTCAATCTCGATTAACTTTTTATCCTTTGTT
131 GGGTAAATTCTTTTATCCTTTATTGACTTATCGATTCAATCTCGATCAACTTTTTATCCTTTGTT
** * * *
46925 TACCTGTCAGCTTAGTCCCAAGTAAATTTTTTTTATCCTTTGTTGACTTGTCAGTTTAATCCTGT
196 TACCTGTCAGCTTAGTCCCAAGTAAATTCCTTTTATCCTTTGTTGACCTATCAGTTCAATCCTGT
** *
46990 CAACATTTTATCCTTTGTTTACTTGTCAACTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGAC
261 CAACATTTTATCCTTTGTTTACTTGTCAACTTAGTCTCAGATAAATCCTTTTATCCTTTGTTGAC
* * * *
47055 TTGTCAGTTCAATTAGATTAACTTTTTATCCTTTGTTGACCTGTTAGGTTAGTCTTGGGTATATC
326 TTGTCAGTTCAATTAGATAAACTTTTTATCCTTTGTTGACCTGCTAGGTTAGTCTTGAGTAAATC
* * * *
47120 CTTTTTTCCTTTGTTAAGTTGTTGGTTCAATCTCCGTCAACTTTTTATCCTTTGTTGACTAGTCG
391 CTTTTTTCCTTTGTCAACTTGTCGGTTCAATCTCCGTCAACTTTTTATCCTTTATTGACTAGTCG
* * *
47185 GTTCAATCCCGTTCAACTTTTTATCCTTTGTTTACCTATCGGCTTAGTCCCTAGTAAATCTTTTT
456 CTTCAATCCCGTTAAACTTTTTATCCTTTGTTTACCTATCGGCTTAATCCCTAGTAAATCTTTTT
* * * * * *
47250 ATCTTTTGTTAACTTGTCGGTTTAGTCTCGGGTAAATCTTTTTCTCCTTTATTGACTTATTGGTT
521 ATCTTTGGTTAACTTATCAGCTTAGTCTCGGGTAAATCCTTTTATCCTTTATTGAC-T-TTGGTT
* * * ** * *
47315 TACTCTCAGTCAACTTTTTATCCTTGTTAACTTGTTGACTTAGTCCCGGGTAAATTTTTTATCCT
584 TAATCTCAGTCAACTTTTTATCCTTGTTAACCTATCAACTTAGTCCCGAGTAAATCTTTTATCCT
* * * *
47380 TTGTTGACTTGTTAGCTCCATCTCGATCAACTTTTTATCTTTTGTTTACTTGTCAGCTTAGTCTT
649 TTATTGACTTGTTAGCTCAATCTAGATCAACTTTTTATCCTTTGTTTACTTGTCAGCTTAGTCTT
47445 AAGTAAATTTTTTTACCCT
714 AAGTAAATTTTTTTACCCT
* * * *
47464 ATCCTGATTAATTTTTTATCCATTGTTTACCTGTCAACTTAGTCACT-GGTAATTTCTTTTATCC
1 ATCCTGATCAAGTTTTTATCCATTGTTTACCTGTCAACTTAGTC-CTGGGTAAGTCCTTTTATCC
* *
47528 TTTGTTGACTTATCTG-TTCAATCCCGATTAACTTTTTATCCTTTATTTACCTGTCGCCTTAGT-
65 TTTGTTGACTTATC-GATTCAATCACGATTAACTTTTTATCCTTTATTTACCTATCGCCTTAGTC
* *
47591 CTCGGGTAAA-TCTTTTTATCCTTTATTGACTTGTCGGTTCAATCTCGATCAACTTTTTATCCTT
129 CT-GGGTAAATTC-TTTTATCCTTTATTGACTTATCGATTCAATCTCGATCAACTTTTTATCCTT
* **** * *
47655 TGTTTACTTGTCAGCTTAGTCTTTTGGT-AATTCCTTTTATCTTTTGTTGACCTATCGGTTCAAT
192 TGTTTACCTGTCAGCTTAGTC-CCAAGTAAATTCCTTTTATCCTTTGTTGACCTATCAGTTCAAT
* * ** * *
47719 CCTGGTTAACTTTTTATCCTTTGTTTACTTGTCGGCTTAGT-TCAGATAATTCTTTTTATCCTTT
256 CCT-GTCAACATTTTATCCTTTGTTTACTTGTCAACTTAGTCTCAGATAAATCCTTTTATCCTTT
* * * * * * *
47783 GTTGACTTGTCGGTTTAATTCTGGTAAAC-TTTTATCTTTTGTTTACCTGCTAGTTTAGTCTTGA
320 GTTGACTTGTCAGTTCAATT-AGATAAACTTTTTATCCTTTGTTGACCTGCTAGGTTAGTCTTGA
* *
47847 GTAAAT-CTTTTTATCCTTTGTCGACTTGTCGGTTCAATCT-CGATTAACTTTTTATCCTTTATT
384 GTAAATCCTTTTT-TCCTTTGTCAACTTGTCGGTTCAATCTCCG-TCAACTTTTTATCCTTTATT
* * * * * * *
47910 TACCTA-TCGACTT-AGTCCTGTGTAAA-TCTTTTATTCTTTGTTTACCTGTTGG-TTCAATCTC
447 GA-CTAGTCG-CTTCAATCCCGT-TAAACT-TTTTATCCTTTGTTTACCTATCGGCTT-AATCCC
* *
47971 -GGTCAA-CTTTTTATCCTTTGGTT-ACTTATCAGCTTAGTC-CTGGGTAAATCCTTTTATCCTT
507 TAGTAAATCTTTTTAT-CTTTGGTTAACTTATCAGCTTAGTCTC-GGGTAAATCCTTTTATCCTT
* * *
48032 TGTTGAC-TTGGCTTTTAATCTC-GATCAACTTTTTATCCTTTGTTTACCTATCAACTTAGTCTC
570 TATTGACTTTGG--TTTAATCTCAG-TCAACTTTTTATCC-TTGTTAACCTATCAACTTAGTCCC
* * *
48095 GAGTAAATCCTTTTATCCTTTATTGACTTGTT-GATTTAATCTTAG-TCAATTTTTTATCCTTTG
631 GAGTAAAT-CTTTTATCCTTTATTGACTTGTTAG-CTCAATC-TAGATCAACTTTTTATCCTTTG
48158 TTTAC
693 TTTAC
48163 CTATTAACTT
Statistics
Matches: 582, Mismatches: 94, Indels: 46
0.81 0.13 0.06
Matches are distributed among these distances:
730 4 0.01
731 1 0.00
732 23 0.04
733 83 0.14
734 394 0.68
735 77 0.13
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.49
Consensus pattern (732 bp):
ATCCTGATCAAGTTTTTATCCATTGTTTACCTGTCAACTTAGTCCTGGGTAAGTCCTTTTATCCT
TTGTTGACTTATCGATTCAATCACGATTAACTTTTTATCCTTTATTTACCTATCGCCTTAGTCCT
GGGTAAATTCTTTTATCCTTTATTGACTTATCGATTCAATCTCGATCAACTTTTTATCCTTTGTT
TACCTGTCAGCTTAGTCCCAAGTAAATTCCTTTTATCCTTTGTTGACCTATCAGTTCAATCCTGT
CAACATTTTATCCTTTGTTTACTTGTCAACTTAGTCTCAGATAAATCCTTTTATCCTTTGTTGAC
TTGTCAGTTCAATTAGATAAACTTTTTATCCTTTGTTGACCTGCTAGGTTAGTCTTGAGTAAATC
CTTTTTTCCTTTGTCAACTTGTCGGTTCAATCTCCGTCAACTTTTTATCCTTTATTGACTAGTCG
CTTCAATCCCGTTAAACTTTTTATCCTTTGTTTACCTATCGGCTTAATCCCTAGTAAATCTTTTT
ATCTTTGGTTAACTTATCAGCTTAGTCTCGGGTAAATCCTTTTATCCTTTATTGACTTTGGTTTA
ATCTCAGTCAACTTTTTATCCTTGTTAACCTATCAACTTAGTCCCGAGTAAATCTTTTATCCTTT
ATTGACTTGTTAGCTCAATCTAGATCAACTTTTTATCCTTTGTTTACTTGTCAGCTTAGTCTTAA
GTAAATTTTTTTACCCT
Found at i:48362 original size:251 final size:249
Alignment explanation
Indices: 46573--47442 Score: 320
Period size: 251 Copynumber: 3.5 Consensus size: 249
46563 ATCAGGTATC
* * * * * *
46573 ACTTTTTATCCTTTGTTTACATAT-TGCTTAGTC-CTAGGTAAATCCTTTTATCCTTTGTTGACT
1 ACTTTTTATCCTTTATTTACCTGTCAGCTTAGTCTCGA-GTAAATCCTTTTATCCTTTATTGACT
* * * ** ** *
46636 TGTCGATTCAATC-CTAGTTAACTTTTTATCTTTTGTTTACCCGTCGGCTTAGTCTTGGGTAAAT
65 TGTCGATTCAATCTCGA-TCAACTTTTTATCCTTTGTTTACCTATCAACTTAGTCCT-GGTAAAT
* * * ** * * * * *
46700 CCTTTTATCCTTTATTGACTTATTAGCTCAATC-CTGATCAAGTTTTTATCCTTTGTTTACCTGT
128 -CTTTTATCCTTTGTT-ACCTGTCGGTTCAATCTC-GGTCAACTTTTTATCCTTTGTTTACTTAT
* * * ** * * * * ** *
46764 CGGTTTTGTCTTGGGTAAGTCCTTTTATCCTTTGTTGACTTG-TCGATTCAATCATGATTA
190 CAGCTTAGTCCAGAGTAAATCTTTTTATCCTTTGTTGACTTGTTTG-TTCAATCCCGATCA
* * * * * * *
46824 ACTTTTTATCCTTTGTTTACCTATCGGCTTAGTC-CTGGGTTAATTCTTTTATCCTTTGTTGACT
1 ACTTTTTATCCTTTATTTACCTGTCAGCTTAGTCTC-GAGTAAATCCTTTTATCCTTTATTGACT
* * * * **
46888 TATCGATTCAATCTCGATTAACTTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCCAAGTAAATT
65 TGTCGATTCAATCTCGATCAACTTTTTATCCTTTGTTTACCTATCAACTTAGT-CCTGGTAAA--
* * * * * * *
46953 TTTTTTATCCTTTGTTGACTTGTCAGTTTAATC-CTGTCAACATTTTATCCTTTGTTTACTTGTC
127 TCTTTTATCCTTTGTT-ACCTGTCGGTTCAATCTCGGTCAACTTTTTATCCTTTGTTTACTTATC
* ** * * ** ** *
47017 AACTTAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAAT-TAGATTA
191 AGCTTAGTCCAGAGTAAATCTTTTTATCCTTTGTTGACTTGTTTGTTCAATCCCGATCA
* * * * * * * * * * *
47075 ACTTTTTATCCTTTGTTGACCTGTTAGGTTAGTCTTGGGTATATCCTTTTTTCCTTTGTTAAGTT
1 ACTTTTTATCCTTTATTTACCTGTCAGCTTAGTCTCGAGTAAATCCTTTTATCCTTTATTGACTT
* * * ** * * * *
47140 GTTGGTTCAATCTCCG-TCAACTTTTTATCCTTTGTTGA-CTAGTC-GGTTCAATCCCGTTCAA-
66 GTCGATTCAATCT-CGATCAACTTTTTATCCTTTGTTTACCTA-TCAACTT-AGTCCTGGTAAAT
* * * * * * *
47201 CTTTTTATCCTTTGTTTACCTATCGGCTT-AGTCCCTAGTAAATCTTTTTATCTTTTGTTAACTT
128 C-TTTTATCCTTTG-TTACCTGTCGG-TTCAATCTC-GGTCAA-CTTTTTATCCTTTGTTTACTT
* * * * * * * * * * *
47265 GTCGGTTTAGTCTC-GGGTAAATCTTTTTCTCCTTTATTGACTTATTGGTTTACTCTC-AGTCA
188 ATCAGCTTAGTC-CAGAGTAAATCTTTTTATCCTTTGTTGACTTGTTTGTTCAATCCCGA-TCA
* * * * * * * *
47327 ACTTTTTATCC-TTGTTAACTTGT-TGACTTAGTCCCGGGTAAAT-TTTTTATCCTTTGTTGACT
1 ACTTTTTATCCTTTATTTACCTGTCAG-CTTAGTCTCGAGTAAATCCTTTTATCCTTTATTGACT
* * * * * * *
47389 TGT-TAGCTCCATCTCGATCAACTTTTTATCTTTTGTTTACTTGTCAGCTTAGTC
65 TGTCGA-TTCAATCTCGATCAACTTTTTATCCTTTGTTTACCTATCAACTTAGTC
47443 TTAAGTAAAT
Statistics
Matches: 491, Mismatches: 103, Indels: 51
0.76 0.16 0.08
Matches are distributed among these distances:
248 21 0.04
249 7 0.01
250 64 0.13
251 201 0.41
252 166 0.34
253 31 0.06
254 1 0.00
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (249 bp):
ACTTTTTATCCTTTATTTACCTGTCAGCTTAGTCTCGAGTAAATCCTTTTATCCTTTATTGACTT
GTCGATTCAATCTCGATCAACTTTTTATCCTTTGTTTACCTATCAACTTAGTCCTGGTAAATCTT
TTATCCTTTGTTACCTGTCGGTTCAATCTCGGTCAACTTTTTATCCTTTGTTTACTTATCAGCTT
AGTCCAGAGTAAATCTTTTTATCCTTTGTTGACTTGTTTGTTCAATCCCGATCA
Found at i:49743 original size:164 final size:161
Alignment explanation
Indices: 49369--49906 Score: 557
Period size: 164 Copynumber: 3.3 Consensus size: 161
49359 TTTTAACTTC
* * * * *
49369 AAAATTCTTTAAATATGATCATCTAA-TCATCATTAAATCAGTTTTAAAAAATTCATTCATTTTC
1 AAAATTCATCAAATATTATCATTTAATTCA-CATTAAATCAGTTTTGAAAAATTCATTCATTTTC
* * * * * * * * *
49433 ATGAGTTTTTCATTTTTCCTTAG-AATTCCTCTTATTTTTGAAATATGGAGCTTTCTTTTTCAT-
65 ATGAG-TTTTGATTTTTTCTTTGAAATT-CTCTTGTTTTTGAAAAAT-GAGTTTTCTTCTCCGTA
*
49496 AATTTTTTCGGAAGGATTTTCATTGATTTAAAATTTTT
127 AATATTTTCGG-AGGATTTT-ATTGATTTAAAA-TTTT
*
49534 AAAATTCATCAAATATTATCATTTAATTCAAATTAAATCAGTTTTGAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCA
* *
49599 TGAGTTTTGATTTTTTTTTTGGAAATTCTCTTGTGTTTGAAAAATGAAGTTTTCTTCTCCGTAAA
66 TGAGTTTTGATTTTTTCTTT-GAAATTCTCTTGTTTTTGAAAAATG-AGTTTTCTTCTCCGTAAA
* *
49664 TATTTTCGGAGTGATTTTTTTGGTTTTAAAATTTT
129 TATTTTCGGAG-GATTTTATT-GATTTAAAATTTT
* * * * *
49699 -ATATTCATCAAATATTATCATTTAATTCACATTGAATTAGTTTTGAAAAAAT-ATTCATTTACA
1 AAAATTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCA
* *
49762 TGAGTTTTGAATTTTTTCTTTCAAATTCCCTTGTTTTTGAAAAACTGAGTTTTCTATC-CCGTAA
66 TGAGTTTTG-ATTTTTTCTTTGAAATTCTCTTGTTTTTGAAAAA-TGAGTTTTCT-TCTCCGTAA
* * * *
49826 ATATTTTTGAGGGGATTTTCTTCACTTTAAAATTTT
128 ATATTTTCG-GAGGATTTTATTGA-TTTAAAATTTT
* * * * * *
49862 AAAATTCATCAAATGTTGTTATTAAATTCATATTAAATTAGTTTT
1 AAAATTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTT
49907 TCAAAATTTA
Statistics
Matches: 318, Mismatches: 42, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
163 80 0.25
164 113 0.36
165 94 0.30
166 31 0.10
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (161 bp):
AAAATTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCA
TGAGTTTTGATTTTTTCTTTGAAATTCTCTTGTTTTTGAAAAATGAGTTTTCTTCTCCGTAAATA
TTTTCGGAGGATTTTATTGATTTAAAATTTT
Found at i:51157 original size:15 final size:17
Alignment explanation
Indices: 51121--51160 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
51111 GAAATTTTCG
51121 AAAATAAAAAAATATAT
1 AAAATAAAAAAATATAT
*
51138 AAAATAAAAAAGTA-AT
1 AAAATAAAAAAATATAT
51154 -AAATAAA
1 AAAATAAA
51161 TATTATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 2 0.09
17 13 0.59
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAATAAAAAAATATAT
Found at i:51356 original size:144 final size:141
Alignment explanation
Indices: 51175--51437 Score: 357
Period size: 145 Copynumber: 1.8 Consensus size: 141
51165 ATTTTATCCC
* **
51175 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTT-TTTAGGGGTA
1 TAAAGAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCCGTAGGGGTA
* * *
51239 TAAAAATCTTCAAATCTTTTCATATCTTTTTGATTCTCCATTAAGGTATGAAATATATTTTTTAA
66 TAAAAATCTTCAAAACTTTTCATATCTTTTTGATTCTCAATTAAGGTACGAAATATATTTTTTAA
51304 AAATTAAAAAT
131 AAATTAAAAAT
* * * *
51315 TAAAGAAAAATTATTATCTTAAATTTTTTTTCGAGATTTCTAATATTCTTATTGTTTTCCGTGGG
1 TAAAGAAAAATTATTATCTT-AA---TTTTTCAAGATTTCTAATATTCCTATGGTTTTCCGTAGG
* * * *
51380 GGTATAGAAATCTTTAAAACTTTTCTTATCTTTTTGGTTCTCAATTAAGGTACGAAAT
62 GGTATAAAAATCTTCAAAACTTTTCATATCTTTTTGATTCTCAATTAAGGTACGAAAT
51438 GAGATTTTCA
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
140 19 0.18
141 2 0.02
144 29 0.28
145 54 0.52
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (141 bp):
TAAAGAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCCGTAGGGGTA
TAAAAATCTTCAAAACTTTTCATATCTTTTTGATTCTCAATTAAGGTACGAAATATATTTTTTAA
AAATTAAAAAT
Found at i:55212 original size:19 final size:19
Alignment explanation
Indices: 55164--55220 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
55154 CTGCCAGTTT
**
55164 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
*
55185 CATGCATCGATACAATGAA
1 CATGTATCGATACAATGAA
55204 CATGTATCGATACAATG
1 CATGTATCGATACAATG
55221 TATCAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 18 0.56
21 14 0.44
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:56352 original size:33 final size:32
Alignment explanation
Indices: 56291--56355 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
56281 CAATTTGTCC
* *
56291 ATGTATCGAAACAATGAACATGTGTCGATACA
1 ATGTATCGAAACAAAGAACATGTATCGATACA
* *
56323 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGAAACAAAG-AACATGTATCGATACA
56356 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (32 bp):
ATGTATCGAAACAAAGAACATGTATCGATACA
Found at i:58643 original size:32 final size:33
Alignment explanation
Indices: 58585--58646 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
58575 TTTTTGGAAT
*
58585 ATAAATTTGATGAAATTAAAACAGTTTTTGTTG
1 ATAAATTTGATGAAACTAAAACAGTTTTTGTTG
*
58618 ATAATTTTGATGAAAGCT-AAA-AGTTTTTG
1 ATAAATTTGATGAAA-CTAAAACAGTTTTTG
58647 AAGTGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 8 0.31
33 17 0.65
34 1 0.04
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (33 bp):
ATAAATTTGATGAAACTAAAACAGTTTTTGTTG
Found at i:58805 original size:13 final size:13
Alignment explanation
Indices: 58787--58814 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58777 AATAGTACCT
58787 AATGTATCGATAC
1 AATGTATCGATAC
58800 AATGTATCGATAC
1 AATGTATCGATAC
58813 AA
1 AA
58815 GGAATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:60557 original size:212 final size:212
Alignment explanation
Indices: 60298--60722 Score: 841
Period size: 212 Copynumber: 2.0 Consensus size: 212
60288 AGGTTTCATC
60298 ATAGTTAATTCCTTCCTCTTGACTATAACCTTTTGCAACGAGCCTAGCTTTATTTCTAACTATTA
1 ATAGTTAATTCCTTCCTCTTGACTATAACCTTTTGCAACGAGCCTAGCTTTATTTCTAACTATTA
60363 TTCCATCTTCATTGAACTTATTTCTAAACACCCATTTAGTCCCTATAGTTGGATGATTGCTCGGT
66 TTCCATCTTCATTGAACTTATTTCTAAACACCCATTTAGTCCCTATAGTTGGATGATTGCTCGGT
60428 CTTTTTACTAAAGACCAAACTTTGCTTCTCTTAAATTGATTTAACTCTTCTTGCATAGCCATAAT
131 CTTTTTACTAAAGACCAAACTTTGCTTCTCTTAAATTGATTTAACTCTTCTTGCATAGCCATAAT
60493 CCAATTTTCATCTAGTA
196 CCAATTTTCATCTAGTA
60510 ATAGTTAATTCCTTCCTCTTGACTATAACCTTTTGCAACGAGCCTAGCTTTATTTCTAACTATTA
1 ATAGTTAATTCCTTCCTCTTGACTATAACCTTTTGCAACGAGCCTAGCTTTATTTCTAACTATTA
60575 TTCCATCTTCATTGAACTTATTTCTAAACACCCATTTAGTCCCTATAGTTGGATGATTGCTCGGT
66 TTCCATCTTCATTGAACTTATTTCTAAACACCCATTTAGTCCCTATAGTTGGATGATTGCTCGGT
*
60640 CTTTTTACTAAAGACCAAACTTTGCTTCTCTTAAATTGATTTGACTCTTCTTGCATAGCCATAAT
131 CTTTTTACTAAAGACCAAACTTTGCTTCTCTTAAATTGATTTAACTCTTCTTGCATAGCCATAAT
60705 CCAATTTTCATCTAGTA
196 CCAATTTTCATCTAGTA
60722 A
1 A
60723 AGCCTCGTCT
Statistics
Matches: 212, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 212 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (212 bp):
ATAGTTAATTCCTTCCTCTTGACTATAACCTTTTGCAACGAGCCTAGCTTTATTTCTAACTATTA
TTCCATCTTCATTGAACTTATTTCTAAACACCCATTTAGTCCCTATAGTTGGATGATTGCTCGGT
CTTTTTACTAAAGACCAAACTTTGCTTCTCTTAAATTGATTTAACTCTTCTTGCATAGCCATAAT
CCAATTTTCATCTAGTA
Found at i:65034 original size:21 final size:20
Alignment explanation
Indices: 65005--65060 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
64995 CTGCCAGTTT
* **
65005 CATGAATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
65026 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
65045 CATGTATCGATACAAT
1 CATGTATCGATACAAT
65061 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.55
21 14 0.45
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:65064 original size:13 final size:13
Alignment explanation
Indices: 65046--65072 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65036 TACAATGAAC
65046 ATGTATCGATACA
1 ATGTATCGATACA
65059 ATGTATCGATACA
1 ATGTATCGATACA
65072 A
1 A
65073 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:65087 original size:33 final size:32
Alignment explanation
Indices: 65027--65091 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
65017 CAATTTGTCC
*
65027 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
65059 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
65092 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:71014 original size:13 final size:13
Alignment explanation
Indices: 70996--71021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70986 CATTTTGGGA
70996 TGTATCGATACAT
1 TGTATCGATACAT
71009 TGTATCGATACAT
1 TGTATCGATACAT
71022 ATTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:71018 original size:33 final size:32
Alignment explanation
Indices: 70976--71039 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
70966 TACAAGCCAA
*
70976 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATATTGGG-TGTATCGATACAT
*
71009 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
71040 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAT
Found at i:71108 original size:21 final size:21
Alignment explanation
Indices: 71082--71136 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
71072 CCAACCACTT
71082 GTATCGATACATTCTTAACAA-
1 GTATCGATACATTCTTAA-AAG
71103 GTATCGATACA-T-TTAAAAG
1 GTATCGATACATTCTTAAAAG
71122 TGTATCGATACATTC
1 -GTATCGATACATTC
71137 AAGGGTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.07
19 4 0.13
20 12 0.40
21 12 0.40
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (21 bp):
GTATCGATACATTCTTAAAAG
Found at i:73071 original size:21 final size:22
Alignment explanation
Indices: 73042--73091 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
73032 TGCTAGTGTG
*
73042 GGGGCTGCCCGGTTGCGACCT-A
1 GGGG-TGCCCGGTCGCGACCTGA
73064 GGGGTG-CCGGTCGCGACCTGA
1 GGGGTGCCCGGTCGCGACCTGA
*
73085 TGGGTGC
1 GGGGTGC
73092 TGCCTAGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.50
21 8 0.33
22 4 0.17
ACGTcount: A:0.08, C:0.28, G:0.46, T:0.18
Consensus pattern (22 bp):
GGGGTGCCCGGTCGCGACCTGA
Found at i:75644 original size:15 final size:16
Alignment explanation
Indices: 75624--75664 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
75614 GTTCATCAAT
75624 TTCATTTGGAGCTT-C
1 TTCATTTGGAGCTTCC
*
75639 TTCATTTTGAGCTTCC
1 TTCATTTGGAGCTTCC
*
75655 TTAATTTGGA
1 TTCATTTGGA
75665 CGTTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (16 bp):
TTCATTTGGAGCTTCC
Found at i:78123 original size:9 final size:9
Alignment explanation
Indices: 78106--78136 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
78096 TCTGAGTCAC
*
78106 CATCATCAT
1 CATCTTCAT
78115 CATCTTCAT
1 CATCTTCAT
78124 CATCTTCAT
1 CATCTTCAT
78133 CATC
1 CATC
78137 CTTGATGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCTTCAT
Found at i:79762 original size:13 final size:13
Alignment explanation
Indices: 79744--79769 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79734 CATTTTGGGA
79744 TGTATCGATACAT
1 TGTATCGATACAT
79757 TGTATCGATACAT
1 TGTATCGATACAT
79770 ATTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:79766 original size:33 final size:32
Alignment explanation
Indices: 79724--79787 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
79714 TACAAGCCAA
*
79724 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATATTGGG-TGTATCGATACAT
*
79757 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
79788 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAT
Found at i:80672 original size:20 final size:21
Alignment explanation
Indices: 80630--80703 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
80620 TTTTACAATT
*
80630 TGTATCGATACAATAAG-GTAA
1 TGTATCGATAC-ATAAGTGAAA
80651 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
**
80671 TGTATCGATACATACTTGAAA
1 TGTATCGATACATAAGTGAAA
80692 TGTATCGATACA
1 TGTATCGATACA
80704 GGACCATGCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.47
21 26 0.53
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:80797 original size:51 final size:52
Alignment explanation
Indices: 80739--80849 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 52
80729 TCTGGAAAGA
* *
80739 AAATGTATCAATACATTTTTCATTGTATAGATACATTCTAGG-TTTTAACCC
1 AAATGTATCAACACATTTTTCATTATATAGATACATTCTAGGTTTTTAACCC
* * * * * *
80790 AAATGTATCGACACATTTTTCATTATATCGATACATTTTGGGTTTTTGACCT
1 AAATGTATCAACACATTTTTCATTATATAGATACATTCTAGGTTTTTAACCC
80842 AAATGTAT
1 AAATGTAT
80850 TGATATATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 36 0.71
52 15 0.29
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (52 bp):
AAATGTATCAACACATTTTTCATTATATAGATACATTCTAGGTTTTTAACCC
Found at i:81789 original size:21 final size:20
Alignment explanation
Indices: 81752--81790 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
81742 TCTTAGCAGC
*
81752 CCATATTTATGCATTTTGTG
1 CCATATTCATGCATTTTGTG
*
81772 CCATATTCCATGCTTTTTG
1 CCATATT-CATGCATTTTG
81791 ACATGTCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CCATATTCATGCATTTTGTG
Found at i:82820 original size:51 final size:51
Alignment explanation
Indices: 82744--82880 Score: 159
Period size: 51 Copynumber: 2.7 Consensus size: 51
82734 ATTTACTGTT
* * * * * *
82744 TGTATTGATACACTCTTCATTGTATCGATACATTTTGATTTTTAACCCAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGAGTTATAACCCAGA
*
82795 TGTATCGATACATTTTTCATTGTATCGATACATTCTGAGTTATGACCCAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGAGTTATAACCCAGA
* * * *
82846 TGTATCGCTGCATTTCTT-AATGTATCGGTACATTC
1 TGTATCGATACATTT-TTCATTGTATCGATACATTC
82881 AAGCATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 72 0.97
52 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.42
Consensus pattern (51 bp):
TGTATCGATACATTTTTCATTGTATCGATACATTCTGAGTTATAACCCAGA
Found at i:85049 original size:79 final size:79
Alignment explanation
Indices: 84917--85224 Score: 286
Period size: 79 Copynumber: 3.9 Consensus size: 79
84907 TCATTGATGT
* ** * *
84917 TTTTATTTCTAAAACACCAATTTTTCACCACCCG-GGATAGTCCAA-CCTCGTTATTTTCAAAGG
1 TTTTATTTCTAAAACATCAATTTTTCA-CAATCGAGGATACTCCAACCCT-GTTATTTTCAAGGG
**
84980 GATACTTTAACCTCGG
64 GATACTCCAACCTCGG
* **
84996 TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAACCCTGTTATTTTCAAGGGGA
* * *
85061 CACTCCAACCCCGA
66 TACTCCAACCTCGG
* * * * *
85075 TTTTATATCTAAAACA-CTGA-TTTTCA-ATCATCGAGGATACTCCAATCCTGTTTTTTTCGAGG
1 TTTTATTTCTAAAACATC-AATTTTTCACA--ATCGAGGATACTCCAACCCTGTTATTTTCAAGG
**
85137 GGATACTCCAACCTTAG
63 GGATACTCCAACCTCGG
* * ** * *
85154 TTTTATTTCTAAAACATC-ATTTTTCCATAATCGAGAATACTTTAACCCCGTTATTTCCAAGGGG
1 TTTTATTTCTAAAACATCAATTTTT-CACAATCGAGGATACTCCAACCCTGTTATTTTCAAGGGG
85218 ATACTCC
65 ATACTCC
85225 GAGGGATATT
Statistics
Matches: 188, Mismatches: 32, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 12 0.06
79 168 0.89
80 6 0.03
81 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAACCCTGTTATTTTCAAGGGGA
TACTCCAACCTCGG
Found at i:87227 original size:4 final size:4
Alignment explanation
Indices: 87218--87287 Score: 104
Period size: 4 Copynumber: 17.5 Consensus size: 4
87208 ATTGAGGTGC
* *
87218 TTAT TTAT TTAT TTGT TTAT TTAT TTAT TCAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* *
87266 TTAT TTAT TTGT TTGT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TT
87288 TGTTTTGTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:89592 original size:20 final size:20
Alignment explanation
Indices: 89567--89637 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
89557 GCTAGTTTCA
89567 TGTATCGATACTTTTTAAGG
1 TGTATCGATACTTTTTAAGG
* * **
89587 TGTATCGATAC-TATGAACA
1 TGTATCGATACTTTTTAAGG
89606 TGTATCGATACTTTTTAAGG
1 TGTATCGATACTTTTTAAGG
89626 TGTATCGATACT
1 TGTATCGATACT
89638 ATGAACATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACTTTTTAAGG
Found at i:89611 original size:19 final size:19
Alignment explanation
Indices: 89587--89655 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
89577 CTTTTTAAGG
89587 TGTATCGATACTATGAACA
1 TGTATCGATACTATGAACA
* * **
89606 TGTATCGATACTTTTTAAGG
1 TGTATCGATAC-TATGAACA
89626 TGTATCGATACTATGAACA
1 TGTATCGATACTATGAACA
89645 TGTATCGATAC
1 TGTATCGATAC
89656 AATATACCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 26 0.63
20 15 0.37
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (19 bp):
TGTATCGATACTATGAACA
Found at i:89611 original size:39 final size:39
Alignment explanation
Indices: 89565--89655 Score: 182
Period size: 39 Copynumber: 2.3 Consensus size: 39
89555 CTGCTAGTTT
89565 CATGTATCGATACTTTTTAAGGTGTATCGATACTATGAA
1 CATGTATCGATACTTTTTAAGGTGTATCGATACTATGAA
89604 CATGTATCGATACTTTTTAAGGTGTATCGATACTATGAA
1 CATGTATCGATACTTTTTAAGGTGTATCGATACTATGAA
89643 CATGTATCGATAC
1 CATGTATCGATAC
89656 AATATACCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (39 bp):
CATGTATCGATACTTTTTAAGGTGTATCGATACTATGAA
Found at i:90308 original size:20 final size:21
Alignment explanation
Indices: 90283--90337 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
90273 GTATCGATAC
**
90283 AATGTATCGATACATG-ACCA
1 AATGTATCGATACATGAAAAA
*
90303 AATGTATCGATACTTGAAAAA
1 AATGTATCGATACATGAAAAA
90324 AATGTATCGATACA
1 AATGTATCGATACA
90338 GGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:90406 original size:13 final size:13
Alignment explanation
Indices: 90388--90413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90378 TACACACATT
90388 ATGTATCGATACA
1 ATGTATCGATACA
90401 ATGTATCGATACA
1 ATGTATCGATACA
90414 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:90430 original size:33 final size:32
Alignment explanation
Indices: 90370--90433 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
90360 TAGCCAAATT
**
90370 TGTATCGATACACACATTATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
90402 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
90434 TGGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:94521 original size:13 final size:13
Alignment explanation
Indices: 94503--94528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94493 CAATTTTTTG
94503 TGTATCGATACAT
1 TGTATCGATACAT
94516 TGTATCGATACAT
1 TGTATCGATACAT
94529 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:96930 original size:21 final size:21
Alignment explanation
Indices: 96906--96952 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
96896 TTTGATGCTG
96906 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
96926 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
96947 ATTTTG
1 ATTTTG
96953 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:97091 original size:13 final size:13
Alignment explanation
Indices: 97073--97111 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
97063 ATAATCACCC
*
97073 TGTATCGATACAG
1 TGTATCGATACAA
97086 TGTATCGATACAA
1 TGTATCGATACAA
*
97099 TGTATCAATACAA
1 TGTATCGATACAA
97112 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:97122 original size:20 final size:20
Alignment explanation
Indices: 97097--97135 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
97087 GTATCGATAC
97097 AATGTATCAATACAAAGAAA
1 AATGTATCAATACAAAGAAA
* *
97117 AATGTATCGATACATAGAA
1 AATGTATCAATACAAAGAA
97136 TTTCCAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (20 bp):
AATGTATCAATACAAAGAAA
Found at i:99210 original size:15 final size:15
Alignment explanation
Indices: 99190--99220 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99180 ATTTCGTTTG
*
99190 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
99205 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
99220 G
1 G
99221 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:101053 original size:21 final size:21
Alignment explanation
Indices: 101024--101068 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
101014 AAGTTTTCAT
*
101024 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
101044 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
101066 TTT
1 TTT
101069 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:103305 original size:13 final size:13
Alignment explanation
Indices: 103287--103312 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103277 CAATTTTTTG
103287 TGTATCGATACAT
1 TGTATCGATACAT
103300 TGTATCGATACAT
1 TGTATCGATACAT
103313 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:104421 original size:34 final size:35
Alignment explanation
Indices: 104383--104449 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
104373 CCTTACAACA
104383 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
104417 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
104450 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:104940 original size:19 final size:20
Alignment explanation
Indices: 104900--104940 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
104890 TGAACAGTGA
**
104900 TGTATCGATACTATTTATAG
1 TGTATCGATACTATGAATAG
104920 TGTATCGATAC-ATGAATAG
1 TGTATCGATACTATGAATAG
104939 TG
1 TG
104941 ATGAACAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACTATGAATAG
Found at i:110112 original size:20 final size:20
Alignment explanation
Indices: 110087--110138 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
110077 TACAAGCCAA
**
110087 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
110107 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
110126 TGTATCGATACAA
1 TGTATCGATACAA
110139 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:111409 original size:20 final size:21
Alignment explanation
Indices: 111384--111438 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
111374 GTATCGATAC
**
111384 AATGTATCGATACATGACCA-
1 AATGTATCGATACATGAAAAG
*
111404 AATGTATCGATACTTGAAAAG
1 AATGTATCGATACATGAAAAG
111425 AATGTATCGATACA
1 AATGTATCGATACA
111439 GGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAG
Found at i:111507 original size:13 final size:13
Alignment explanation
Indices: 111489--111515 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111479 TACACACATT
111489 ATGTATCGATACA
1 ATGTATCGATACA
111502 ATGTATCGATACA
1 ATGTATCGATACA
111515 A
1 A
111516 CTCAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:111531 original size:33 final size:32
Alignment explanation
Indices: 111471--111534 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
111461 TAGCCAAATT
**
111471 TGTATCGATACACACATTATGTATCGATACAA
1 TGTATCGATACACACAGAATGTATCGATACAA
*
111503 TGTATCGATACAACTCAGAATGTATCGATACA
1 TGTATCGATAC-ACACAGAATGTATCGATACA
111535 TGGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACACAGAATGTATCGATACAA
Found at i:114740 original size:20 final size:21
Alignment explanation
Indices: 114703--114741 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
114693 ATGGACATGT
114703 TAAAATGCATGAAACATGGCA
1 TAAAATGCATGAAACATGGCA
*
114724 TAAAATGCTTG-AACATGG
1 TAAAATGCATGAAACATGG
114742 GTTTTTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (21 bp):
TAAAATGCATGAAACATGGCA
Found at i:119666 original size:51 final size:52
Alignment explanation
Indices: 119551--119689 Score: 174
Period size: 51 Copynumber: 2.7 Consensus size: 52
119541 AGTTGCCTGC
* *
119551 ATGTATCGATAC-ATTAAAGAATGTATCGATGCATTTAGGTCAAAAACCAAAA
1 ATGTATCGATACAATGAAA-AATGTATCGATACATTTAGGTCAAAAACCAAAA
* * * * * *
119603 ATGTATTGATACAATGAAAAATGCATCCATACATTTGGGTC-AAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCAAAA
*
119654 ATGTATCGATACAAAGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
119690 TCATTCCATA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
51 40 0.54
52 29 0.39
53 5 0.07
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCAAAA
Found at i:120518 original size:52 final size:52
Alignment explanation
Indices: 120462--120574 Score: 122
Period size: 52 Copynumber: 2.2 Consensus size: 52
120452 GCCAATATGA
* * * *
120462 TGATTCATA-ACCAGCAATATTGGACTTAAATATGACAAGAA-TGTCAATGTGC
1 TGATTCA-AGACCAGCAACATTGGACTTAAAGATGACAA-AAGTGCCAATGTAC
* * **
120514 TGATTCAAGGCTAGTGACATTGGACTTAAAGATGACAAAAGTGCCAATGTAC
1 TGATTCAAGACCAGCAACATTGGACTTAAAGATGACAAAAGTGCCAATGTAC
120566 TGATTCAAG
1 TGATTCAAG
120575 GCTAGTGACA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 3 0.06
52 48 0.94
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (52 bp):
TGATTCAAGACCAGCAACATTGGACTTAAAGATGACAAAAGTGCCAATGTAC
Found at i:120575 original size:52 final size:52
Alignment explanation
Indices: 120480--120595 Score: 173
Period size: 52 Copynumber: 2.2 Consensus size: 52
120470 AACCAGCAAT
* * *
120480 ATTGGACTTAAATATGACAAGAATGTCAATGTGCTGATTCAAGGCTAGTGAC
1 ATTGGACTTAAAGATGACAAGAATGCCAATGTACTGATTCAAGGCTAGTGAC
120532 ATTGGACTTAAAGATGACAA-AAGTGCCAATGTACTGATTCAAGGCTAGTGAC
1 ATTGGACTTAAAGATGACAAGAA-TGCCAATGTACTGATTCAAGGCTAGTGAC
120584 ATTAGG-CTTAAA
1 ATT-GGACTTAAA
120596 AAGAGATGCC
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
51 2 0.03
52 55 0.93
53 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (52 bp):
ATTGGACTTAAAGATGACAAGAATGCCAATGTACTGATTCAAGGCTAGTGAC
Found at i:120735 original size:28 final size:28
Alignment explanation
Indices: 120657--121033 Score: 211
Period size: 28 Copynumber: 13.1 Consensus size: 28
120647 TGTAGGCATA
* *
120657 TGGGCTTTAAAAAAGGTGCCACTAACTTA
1 TGGGCTTT-AAAAGGGTGCCACTAACTTG
* * * * * *
120686 TGGACTTTGAGAGGATACCACTAACATG
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
* * *
120714 TGGGCTTTAAAAGGGTGTCACTGACTTA
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
* * * ** *
120742 TGGGCTTTGAGAGGGTGACAAAAACTTT
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
* * * *
120770 TAGGCTTTTAAAGGGGATGTCACCAACTTG
1 TGGGC-TTTAAAAGGG-TGCCACTAACTTG
* * * * * *
120800 TGGGATTTAAGAGAGTGCCATTAACATA
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
* *
120828 TGGGCTTTTAAAGGGGATGCCA-TCGACTTG
1 TGGGC-TTTAAAAGGG-TGCCACT-AACTTG
* * *
120858 TGGGCTTTGAAAGGGTGCCACTGACTTA
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
*
120886 TGGGCTTTGAGAAGGGATGCCA-TCAACTTG
1 TGGGCTTT-AAAAGGG-TGCCACT-AACTTG
* * *
120916 TAGGCTTTAGAGAA-GGTGCCACTGACTTA
1 TGGGCTTTA-A-AAGGGTGCCACTAACTTG
* * *
120945 TAGGCTTTAAAAGGGTGACACTGACTTG
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
* * *
120973 TGGGCTTTGAGAGGGTGCCACTAATTTG
1 TGGGCTTTAAAAGGGTGCCACTAACTTG
* * *
121001 TGAGCTTTTAAAGTGGATGCCACCAACTTG
1 TGGGCTTTAAAAG-GG-TGCCACTAACTTG
121031 TGG
1 TGG
121034 ACTTGCTATT
Statistics
Matches: 259, Mismatches: 74, Indels: 29
0.72 0.20 0.08
Matches are distributed among these distances:
27 2 0.01
28 133 0.51
29 65 0.25
30 57 0.22
31 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
TGGGCTTTAAAAGGGTGCCACTAACTTG
Found at i:120834 original size:58 final size:58
Alignment explanation
Indices: 120772--121033 Score: 246
Period size: 58 Copynumber: 4.5 Consensus size: 58
120762 AAAACTTTTA
* * * *
120772 GGCTTTTAAAGGGGATGTCACCAACTTGTGGGATTTAAGAGAGTGCCATTAACATATG
1 GGCTTTTAAAGGGGATGCCACCAACTTGTGGGCTTTAAGAGAGTGCCACTAACTTATG
* * * *
120830 GGCTTTTAAAGGGGATGCCATCGACTTGTGGGCTTTGAA-AGGGTGCCACTGACTTATG
1 GGCTTTTAAAGGGGATGCCACCAACTTGTGGGCTTT-AAGAGAGTGCCACTAACTTATG
* * * * *
120888 GGCTTTGAGAA-GGGATGCCATCAACTTGTAGGCTTT-AGAGAAGGTGCCACTGACTTATA
1 GGCTTTTA-AAGGGGATGCCACCAACTTGTGGGCTTTAAGAG-A-GTGCCACTAACTTATG
* * ** * * * *
120947 GGC-TTTAAAAGGG-TGACACTGACTTGTGGGCTTTGAGAGGGTGCCACTAATTTGTG
1 GGCTTTTAAAGGGGATGCCACCAACTTGTGGGCTTTAAGAGAGTGCCACTAACTTATG
* *
121003 AGCTTTTAAAGTGGATGCCACCAACTTGTGG
1 GGCTTTTAAAGGGGATGCCACCAACTTGTGG
121034 ACTTGCTATT
Statistics
Matches: 165, Mismatches: 30, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
56 15 0.09
57 28 0.17
58 100 0.61
59 22 0.13
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (58 bp):
GGCTTTTAAAGGGGATGCCACCAACTTGTGGGCTTTAAGAGAGTGCCACTAACTTATG
Found at i:121080 original size:30 final size:30
Alignment explanation
Indices: 121044--121154 Score: 136
Period size: 30 Copynumber: 3.7 Consensus size: 30
121034 ACTTGCTATT
*
121044 GACTTATGGGCTTTGAGAAGTGATGCCACC
1 GACTTATGGGCTTTGAGAAGTGATGCCATC
* *
121074 GACTTATAGGCTTTGAGGAG-G-TGCCATC
1 GACTTATGGGCTTTGAGAAGTGATGCCATC
* * *
121102 GACTTGTGGGCTTTGAGAAGGGATGCTATC
1 GACTTATGGGCTTTGAGAAGTGATGCCATC
*
121132 GACTTGTGGGCTTTGAGAGAGTG
1 GACTTATGGGCTTTGAGA-AGTG
121155 CTATTGACTT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.33
29 2 0.03
30 42 0.60
31 3 0.04
ACGTcount: A:0.21, C:0.15, G:0.35, T:0.29
Consensus pattern (30 bp):
GACTTATGGGCTTTGAGAAGTGATGCCATC
Found at i:121113 original size:28 final size:30
Alignment explanation
Indices: 121044--121177 Score: 132
Period size: 28 Copynumber: 4.6 Consensus size: 30
121034 ACTTGCTATT
* * *
121044 GACTTATGGGCTTTGAGAAGTGATGCCACC
1 GACTTGTGGGCTTTGAGAAGAGATGCCATC
* * *
121074 GACTTATAGGCTTTGAG--GAGGTGCCATC
1 GACTTGTGGGCTTTGAGAAGAGATGCCATC
* *
121102 GACTTGTGGGCTTTGAGAAGGGATGCTATC
1 GACTTGTGGGCTTTGAGAAGAGATGCCATC
* *
121132 GACTTGTGGGCTTTGAG-AGAG-TGCTATT
1 GACTTGTGGGCTTTGAGAAGAGATGCCATC
* *
121160 GACTTGTAGGTTTTGAGA
1 GACTTGTGGGCTTTGAGA
121178 GAAAGATTAA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
28 44 0.50
29 3 0.03
30 41 0.47
ACGTcount: A:0.21, C:0.14, G:0.34, T:0.31
Consensus pattern (30 bp):
GACTTGTGGGCTTTGAGAAGAGATGCCATC
Found at i:121135 original size:58 final size:58
Alignment explanation
Indices: 121044--121177 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
121034 ACTTGCTATT
* *
121044 GACTTATGGGCTTTGAGAAGTGATGCCACCGACTTATAGGCTTTGAG-GAGGTGCCATC
1 GACTTGTGGGCTTTGAGAAGGGATGCCACCGACTTATAGGCTTTGAGAGA-GTGCCATC
* * * * * *
121102 GACTTGTGGGCTTTGAGAAGGGATGCTATCGACTTGTGGGCTTTGAGAGAGTGCTATT
1 GACTTGTGGGCTTTGAGAAGGGATGCCACCGACTTATAGGCTTTGAGAGAGTGCCATC
* *
121160 GACTTGTAGGTTTTGAGA
1 GACTTGTGGGCTTTGAGA
121178 GAAAGATTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 63 0.97
59 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.34, T:0.31
Consensus pattern (58 bp):
GACTTGTGGGCTTTGAGAAGGGATGCCACCGACTTATAGGCTTTGAGAGAGTGCCATC
Found at i:124810 original size:22 final size:23
Alignment explanation
Indices: 124783--124834 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
124773 ATTCGGTGAA
124783 CTTTTTACTCAAATAATAGATCG
1 CTTTTTACTCAAATAATAGATCG
*
124806 CTTTTTACTCAAATAATAGATTG
1 CTTTTTACTCAAATAATAGATCG
124829 CTTTTT
1 CTTTTT
124835 CCTTCTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (23 bp):
CTTTTTACTCAAATAATAGATCG
Found at i:131017 original size:50 final size:51
Alignment explanation
Indices: 130913--131027 Score: 169
Period size: 50 Copynumber: 2.3 Consensus size: 51
130903 CGAAGACAAC
*
130913 AGGGTTGGAGTATCCCCAATGGTGAGAAATCGATATTTTGGAAATAAAAAT
1 AGGGTTGGAGTATCCCCAATGGTGAGAAATCGATATTTTGGAAACAAAAAT
* ** * *
130964 AGGGTTGGAGTATTCCTGATGGTGA-AAGTCGATATTTTGGAAACAAAATT
1 AGGGTTGGAGTATCCCCAATGGTGAGAAATCGATATTTTGGAAACAAAAAT
131014 AGGGTTGGAGTATC
1 AGGGTTGGAGTATC
131028 TTTTCGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 35 0.61
51 22 0.39
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (51 bp):
AGGGTTGGAGTATCCCCAATGGTGAGAAATCGATATTTTGGAAACAAAAAT
Found at i:131086 original size:129 final size:128
Alignment explanation
Indices: 130867--131105 Score: 300
Period size: 129 Copynumber: 1.9 Consensus size: 128
130857 GAAAAATTTA
* * * * *
130867 ATATTTTGGAGATAAAATGGGGTTGGAGTATCCCTTCGAAGACAACAGGGTTGGAGTATCCCCAA
1 ATATTTTGGAAACAAAATAGGGTTGGAGTATCCCTTCGAAAACAACAGGGTTAGAGTATCCCCAA
* * * *
130932 TGGTGAGAAATCGATATTTTGGAAATAAAAATAGGGTTGGAGTATTCCTGATGGTGAAAGTCG
66 TGGTGAAAAATAGATATCTTAGAAATAAAAATAGGGTTGGAGTATTCCTGATGGTGAAAGTCG
** * * **
130995 ATATTTTGGAAACAAAATTAGGGTTGGAGTATCTTTTCGAAAATAACGGGGTTAGAGTATCCCTG
1 ATATTTTGGAAACAAAA-TAGGGTTGGAGTATCCCTTCGAAAACAACAGGGTTAGAGTATCCCCA
* *
131060 ATGGTGAAAAATTAG-TGTCTTAGAAATAAAATTAGGGTTGGAGTAT
65 ATGGTGAAAAA-TAGATATCTTAGAAATAAAAATAGGGTTGGAGTAT
131106 CCTCTTGAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
128 15 0.16
129 75 0.82
130 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (128 bp):
ATATTTTGGAAACAAAATAGGGTTGGAGTATCCCTTCGAAAACAACAGGGTTAGAGTATCCCCAA
TGGTGAAAAATAGATATCTTAGAAATAAAAATAGGGTTGGAGTATTCCTGATGGTGAAAGTCG
Found at i:131132 original size:79 final size:79
Alignment explanation
Indices: 131003--131371 Score: 309
Period size: 79 Copynumber: 4.7 Consensus size: 79
130993 CGATATTTTG
* * * *
131003 GAAACAAAATTAGGGTTGGAGTATCTTTTCGAAAATAACGGGGTTAGAGTATCCCTGATGGTGAA
1 GAAATAAAATTAGGGTTGGAGTATCCTTTCGAAAATAACGAGGTTGGAGTATCCCTGATGGTGAA
131068 AAATTAGTGTCTTA
66 AAATTAGTGTCTTA
* * *
131082 GAAATAAAATTAGGGTTGGAGTATCCTCTT-GAAAGTAACAAGGTTGGAGTATCCTTGATGGTGA
1 GAAATAAAATTAGGGTTGGAGTATCCT-TTCGAAAATAACGAGGTTGGAGTATCCCTGATGGTGA
*
131146 AAAATTAGTGTTTTA
65 AAAATTAGTGTCTTA
** * *
131161 GAAATAAAACCAAGGTTGTAGTATCCTTTCGAAAATAACGAGGTTGGAGTATCTCCTCGAT-G-G
1 GAAATAAAATTAGGGTTGGAGTATCCTTTCGAAAATAACGAGGTTGGAGTATC-CCT-GATGGTG
* * *
131224 -AAAATCAGTCTTTTA
64 AAAAATTAGTGTCTTA
** * ** * ** * * * **
131239 G-AATAAAATCGGGGATAAAATATCCCCTCAAAAATAATGAGGTTAGAGTATCCCCAATGGTGAA
1 GAAATAAAATTAGGGTTGGAGTATCCTTTCGAAAATAACGAGGTTGGAGTATCCCTGATGGTGAA
** *
131303 AAATCGGTGTTTTA
66 AAATTAGTGTCTTA
** ** * ** *
131317 GAAATAAAACCATAGCTGGAGTATCCCCTCGAAAATAAC-AGAGTTAGAGTATCCC
1 GAAATAAAATTAGGGTTGGAGTATCCTTTCGAAAATAACGAG-GTTGGAGTATCCC
131372 CTCGAAAATA
Statistics
Matches: 238, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
75 2 0.01
76 3 0.01
77 40 0.17
78 32 0.13
79 153 0.64
80 5 0.02
81 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (79 bp):
GAAATAAAATTAGGGTTGGAGTATCCTTTCGAAAATAACGAGGTTGGAGTATCCCTGATGGTGAA
AAATTAGTGTCTTA
Found at i:131368 original size:28 final size:28
Alignment explanation
Indices: 131335--131424 Score: 162
Period size: 28 Copynumber: 3.2 Consensus size: 28
131325 ACCATAGCTG
131335 GAGTATCCCCTCGAAAATAACAGAGTTA
1 GAGTATCCCCTCGAAAATAACAGAGTTA
131363 GAGTATCCCCTCGAAAATAACAGAGTTA
1 GAGTATCCCCTCGAAAATAACAGAGTTA
* *
131391 GAGTATCCCCTCGAAAATAACAGGGTTG
1 GAGTATCCCCTCGAAAATAACAGAGTTA
131419 GAGTAT
1 GAGTAT
131425 TCCCGATGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (28 bp):
GAGTATCCCCTCGAAAATAACAGAGTTA
Found at i:131443 original size:135 final size:135
Alignment explanation
Indices: 131259--131596 Score: 459
Period size: 135 Copynumber: 2.5 Consensus size: 135
131249 GGGGATAAAA
* * *
131259 TATCCCCTCAAAAATAATGAGGTTAGAGTATCCCCAATGGTGAAAAATCGGTGTTTTAGAAATAA
1 TATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAA
*
131324 AACC-ATAGCTGGAGTATCCCCTCGAAAATAACA-GAGTT-AGAGTATCCCCTCGAAAATAACAG
66 AACCGA-AGCTGGAATATCCCCTCGAAAATAACAGGA-TTGA-AGTATCCCCTCGAAAATAACAG
131386 AGTTAGAG
128 AGTTAGAG
* * *
131394 TATCCCCTCGAAAATAAC-AGGGTTGGAGTATTCCCGATGGTGAAAAATCGATGTTTTAGAAATA
1 TATCCCCTCAAAAATAACGA-GGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATA
* * * *
131458 AAACCGAGGTTGGAATATCCCTTCGAAAATAACAGGATTGAAGTATCCCCTCGAAAATAATAGAG
65 AAACCGAAGCTGGAATATCCCCTCGAAAATAACAGGATTGAAGTATCCCCTCGAAAATAACAGAG
131523 TTAGAG
130 TTAGAG
* * * * * *
131529 TATCCTCTCAAAAATAACGAGGCTAGAGTACCCCCGATAGTGGAAAATTGATGTTTTAGAAATAA
1 TATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAA
131594 AAC
66 AAC
131597 ATCAATGAAT
Statistics
Matches: 178, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
134 1 0.01
135 172 0.97
136 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (135 bp):
TATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAA
AACCGAAGCTGGAATATCCCCTCGAAAATAACAGGATTGAAGTATCCCCTCGAAAATAACAGAGT
TAGAG
Found at i:141187 original size:51 final size:51
Alignment explanation
Indices: 141118--141232 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
141108 AATAACGGGA
* * *
141118 TTGGAGTATCCCTGATGGTGAGAAA-TCGATATTGTGGACATAAAAAT-GGGG
1 TTGGAGTATCCCTAATGGTGA-AAAGTCGATATTGTGGA-AAAAAAATCAGGG
* *
141169 TTGGAGTATCCCTAATGGTGAAAAGTTGATATTTTGGAAAAAAAATCAGGG
1 TTGGAGTATCCCTAATGGTGAAAAGTCGATATTGTGGAAAAAAAATCAGGG
*
141220 TTGGACTATCCCT
1 TTGGAGTATCCCT
141233 CGAAAATAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 10 0.18
51 46 0.82
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCTAATGGTGAAAAGTCGATATTGTGGAAAAAAAATCAGGG
Found at i:141256 original size:78 final size:77
Alignment explanation
Indices: 141162--141545 Score: 305
Period size: 78 Copynumber: 4.9 Consensus size: 77
141152 TGGACATAAA
* * * * * *
141162 AATGGGGTTGGAGTATCCCTAATGGTGAAAAGTTGATATTTTGGAAAAAAAATCAGGGTTGGACT
1 AATGGGGTTAGAGTATCCCTGATGGTGAAAA-TCGATGTTTTAGAAAAAAAATCAGGGTTGGAGT
141227 ATCCCTCGAAAAT
65 ATCCCTCGAAAAT
* * * *
141240 AATGGGGTTAGAGTATCCCCGATGGTGAAAAGT-TAGTGTTGTA-AAAATAAAATCGGGGTTGGA
1 AATGGGGTTAGAGTATCCCTGATGGTGAAAA-TCGA-TGTTTTAGAAAA-AAAATCAGGGTTGGA
** *
141303 GTATCCCTTTAGATAT
63 GTATCCCTCGA-AAAT
** * * * * *
141319 AACAGGGTTGGAGAATCCTTTATGGTGGAAAATCGATGTTTTA-AAAATAAAATC-GAGGCTGGA
1 AATGGGGTTAGAGTATCCCTGATGGT-GAAAATCGATGTTTTAGAAAA-AAAATCAG-GGTTGGA
**
141382 GTATCCCCTAAAAAAT
63 GTAT-CCCTCGAAAAT
*** * * *
141398 AATAAAGTTAGAGTATCCCCTCGAT-G-GAAAATCAATGTTTTAGAAATAAAATCGGGGTTGGAG
1 AATGGGGTTAGAGTAT-CCCT-GATGGTGAAAATCGATGTTTTAGAAAAAAAATCAGGGTTGGAG
141461 TATCCCCTCGAAAAT
64 TAT-CCCTCGAAAAT
* * * *
141476 AACGGGATTAGAGTAT-CCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCAGGGTTGGAG
1 AATGGGGTTAGAGTATCCCT-GATGGTG-AAAATCGATGTTTTAGAAAAAAAATCAGGGTTGGAG
141540 TATCCC
64 TATCCC
141546 CTTAGAAATA
Statistics
Matches: 247, Mismatches: 45, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
76 7 0.03
77 6 0.02
78 113 0.46
79 104 0.42
80 15 0.06
81 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (77 bp):
AATGGGGTTAGAGTATCCCTGATGGTGAAAATCGATGTTTTAGAAAAAAAATCAGGGTTGGAGTA
TCCCTCGAAAAT
Found at i:141290 original size:129 final size:130
Alignment explanation
Indices: 141067--141310 Score: 309
Period size: 129 Copynumber: 1.9 Consensus size: 130
141057 GAAAAATTTA
* * * * *
141067 ATATTTTGGAGATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCTG
1 ATATTTTGGAGAAAAAAACAGGGTTGGACTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCG
* ** *
141132 ATGGTGAGAAATCGATATTGTGGACATAAAAAT-GGGGTTGGAGTATCCCTAATGGTGAAAAGTT
66 ATGGTGAGAAATAGATATTGTAAAAAT-AAAATCGGGGTTGGAGTATCCCTAATGGTGAAAAGTT
141196 G
130 G
* *
141197 ATATTTTGGA-AAAAAAATCAGGGTTGGACTAT-CCCTCGAAAATAATGGGGTTAGAGTATCCCC
1 ATATTTTGGAGAAAAAAA-CAGGGTTGGACTATCCCCTCGAAAATAACGGGATTAGAGTATCCCC
*
141260 GATGGTGA-AAAGTTAG-TGTTGTAAAAATAAAATCGGGGTTGGAGTATCCCT
65 GATGGTGAGAAA--TAGATATTGTAAAAATAAAATCGGGGTTGGAGTATCCCT
141311 TTAGATATAA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
128 8 0.08
129 66 0.67
130 24 0.24
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (130 bp):
ATATTTTGGAGAAAAAAACAGGGTTGGACTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCG
ATGGTGAGAAATAGATATTGTAAAAATAAAATCGGGGTTGGAGTATCCCTAATGGTGAAAAGTTG
Found at i:141369 original size:79 final size:78
Alignment explanation
Indices: 141166--141572 Score: 319
Period size: 79 Copynumber: 5.2 Consensus size: 78
141156 CATAAAAATG
* * * * * *
141166 GGGTTGGAGTATCC-CTAATGGT-GAAAAGTTGATATTTTGGAAAA-AAAATCAGGGTTGGACTA
1 GGGTTAGAGTATCCTCT-ATGGTGGAAAA-TCGATGTTTT-AAAAATAAAATCGGGGTTGGAGTA
* *
141228 T-CCC-TCGAAAATAATG
63 TCCCCTTAG-AAATAA-C
* * * *
141244 GGGTTAGAGTATCCCCGATGGT-GAAAAGT-TAGTGTTGTAAAAATAAAATCGGGGTTGGAGTAT
1 GGGTTAGAGTATCCTCTATGGTGGAAAA-TCGA-TGTTTTAAAAATAAAATCGGGGTTGGAGTAT
* *
141307 CCCTTTAGATATAAC
64 CCCCTTAGAAATAAC
* * * * *
141322 AGGGTTGGAGAATCCTTTATGGTGGAAAATCGATGTTTTAAAAATAAAATCGAGGCTGGAGTATC
1 -GGGTTAGAGTATCCTCTATGGTGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATC
* * *
141387 CCCTAAAAAATAATA
65 CCCTTAGAAATAA-C
** * * * * *
141402 AAGTTAGAGTATCCCCT-CGATGGAAAATCAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCTCTATGGTGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCC
*
141466 CC-TCGAAAATAAC
66 CCTTAG-AAATAAC
* * * * *
141479 GGGATTAGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCAGGGTTGGAGTATC
1 GGG-TTAGAGTATCCTCTATGGTGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATC
141544 CCCTTAGAAATAAC
65 CCCTTAGAAATAAC
*
141558 GAGGTTGGAGTATCC
1 G-GGTTAGAGTATCC
141573 CCTCAAAAAT
Statistics
Matches: 261, Mismatches: 54, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
77 6 0.02
78 107 0.41
79 136 0.52
80 12 0.05
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
GGGTTAGAGTATCCTCTATGGTGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCC
CCTTAGAAATAAC
Found at i:141546 original size:157 final size:160
Alignment explanation
Indices: 141183--141576 Score: 428
Period size: 157 Copynumber: 2.5 Consensus size: 160
141173 AGTATCCCTA
* * * * * * ** *
141183 ATGGTGAAAAGTTGATATTTTGGAAAAAAAATCAGGGTTGGACTAT-CCCTCGAAAATAATGGGG
1 ATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAATGAGG
* *
141247 TTAGAGTAT-CCC-CGATGGTGAAAAGTTAGTGTTGTAAAAATAAAATCGGGGTTGGAGTATCCC
66 TTAGAGTATCCCCTCGATGGTGAAAAGTCAATGTTGTAAAAATAAAATCGGGGTTGGAGTATCCC
** * * **
141310 TTTAGATATAACAGGGTTGGAGAATCCTTT
131 TCGAGAAATAACAGGGTTAGAGAATCCTCG
* * * * *
141340 ATGGTGGAAAATCGATGTTTTAAAAATAAAATC-GAGGCTGGAGTATCCCCTAAAAAATAATAAA
1 ATGGTGAAAAATCGATGTTTTAGAAATAAAATCAG-GGTTGGAGTATCCCCTAAAAAATAATGAG
* *
141404 GTTAGAGTATCCCCTCGAT-G-GAAAA-TCAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCC
65 GTTAGAGTATCCCCTCGATGGTGAAAAGTCAATGTTGTAAAAATAAAATCGGGGTTGGAGTAT-C
*
141466 CCTCGA-AAATAAC-GGGATTAGAGTATCCTCG
129 CCTCGAGAAATAACAGGG-TTAGAGAATCCTCG
* * * *
141497 ATGGTGAAAAATCGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTTAGAAATAACGAGG
1 ATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAATGAGG
*
141562 TTGGAGTATCCCCTC
66 TTAGAGTATCCCCTC
141577 AAAAATAATG
Statistics
Matches: 195, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
156 4 0.02
157 150 0.77
158 33 0.17
159 4 0.02
160 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (160 bp):
ATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAATGAGG
TTAGAGTATCCCCTCGATGGTGAAAAGTCAATGTTGTAAAAATAAAATCGGGGTTGGAGTATCCC
TCGAGAAATAACAGGGTTAGAGAATCCTCG
Found at i:141551 original size:31 final size:30
Alignment explanation
Indices: 141516--141584 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 30
141506 AATCGATGTT
141516 TTAGAAATAAAACCAGGGTTGGAGTATCCCC
1 TTAGAAATAAAACCA-GGTTGGAGTATCCCC
*
141547 TTAGAAAT--AACGAGGTTGGAGTATCCCC
1 TTAGAAATAAAACCAGGTTGGAGTATCCCC
* *
141575 TCAAAAATAA
1 TTAGAAATAA
141585 TGGGGTTGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 21 0.64
29 4 0.12
31 8 0.24
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (30 bp):
TTAGAAATAAAACCAGGTTGGAGTATCCCC
Found at i:141569 original size:28 final size:28
Alignment explanation
Indices: 141532--141602 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
141522 ATAAAACCAG
* *
141532 GGTTGGAGTATCCCCTTAGAAATAACGA
1 GGTTGGAGTATCCCCTCAAAAATAACGA
* *
141560 GGTTGGAGTATCCCCTCAAAAATAATGG
1 GGTTGGAGTATCCCCTCAAAAATAACGA
141588 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
141603 GATGGTGGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCAAAAATAACGA
Found at i:141570 original size:107 final size:107
Alignment explanation
Indices: 141453--141681 Score: 343
Period size: 107 Copynumber: 2.1 Consensus size: 107
141443 ATAAAATCGG
* *
141453 GGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCTCGATGGTGAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGTATCCCCGATGGTGAAAAATCGATGTTTT
*
141518 AGAAATAAAACC-AGGGTTGGAGTATCCCCTTAGAAATAACGA
66 AGAAATAAAACCGA-GGTTGAAGTATCCCCTTAGAAATAACGA
* * * * *
141560 GGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGTATCCCCGATGGTGAAAAATCGATGTTTT
* * *
141625 AGAAATAAAATCGAGGTTGAAGTATCCCCTTGGAAATAACGG
66 AGAAATAAAACCGAGGTTGAAGTATCCCCTTAGAAATAACGA
141667 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
141682 GATGGAGAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 109 0.99
108 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (107 bp):
GGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGTATCCCCGATGGTGAAAAATCGATGTTTT
AGAAATAAAACCGAGGTTGAAGTATCCCCTTAGAAATAACGA
Found at i:141640 original size:79 final size:79
Alignment explanation
Indices: 141557--141714 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
141547 TTAGAAATAA
* * * * ***
141557 CGAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGT
1 CGAGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGAGAAAAATAAATGT
*
141622 TTTAGAAATAAAAT
66 TTTAAAAATAAAAT
***
141636 CGAGGTTGAAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATGGAGAAAAATAAATGT
1 CGAGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGAGAAAAATAAATGT
141701 TTTAAAAATAAAAT
66 TTTAAAAATAAAAT
141715 TAGGGGAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (79 bp):
CGAGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGAGAAAAATAAATGT
TTTAAAAATAAAAT
Found at i:141664 original size:186 final size:187
Alignment explanation
Indices: 141363--141822 Score: 518
Period size: 186 Copynumber: 2.5 Consensus size: 187
141353 GATGTTTTAA
* * * * * *
141363 AAATAAAATCGAGGCTGGAGTATCCCCTAAAAAATAATAAAGTTAGAGTATCCCC--TCGATGGA
1 AAAT-AAATCGAGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGAT-GGTGGA
** * *
141426 AAATCAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTA
64 AAATCGGTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAACGGGATTAGAGTA
* * ** * *
141491 TCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCAGGGTTG-GAGTA-TCCCCTTAG
129 TCCCCGATGGAGAAAAATAAATGTTTTAAAAATAAAACCAGGG--GAAAGTAGT-CCCTTAG
*
141551 AAAT-AA-CGAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAA
1 AAATAAATCGAGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGGAAA
* * * *
141614 ATCGGTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTTGGAAATAACGGGGTTGGAGTATC
66 ATCGGTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAACGGGATTAGAGTATC
** * ***
141679 CCCGATGGAGAAAAATAAATGTTTTAAAAATAAAATTAGGGGAAATTAGTGTTTTAG
131 CCCGATGGAGAAAAATAAATGTTTTAAAAATAAAACCAGGGGAAAGTAGTCCCTTAG
* * * * * *
141736 AAATGAAATTGGGGTTGGAGTATTCCCTCAAAAATAACGAGGTTGGAGTATCCTCGATGGTGAAA
1 AAAT-AAATCGAGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGGAA
*
141801 AATCGGTGTTTTAAAAATAAAA
65 AATCGGTGTTTTAGAAATAAAA
141823 CATCAATGAA
Statistics
Matches: 230, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
184 1 0.00
185 51 0.22
186 101 0.44
187 3 0.01
188 74 0.32
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (187 bp):
AAATAAATCGAGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGGAAA
ATCGGTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAACGGGATTAGAGTATC
CCCGATGGAGAAAAATAAATGTTTTAAAAATAAAACCAGGGGAAAGTAGTCCCTTAG
Found at i:141771 original size:109 final size:109
Alignment explanation
Indices: 141618--141822 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 109
141608 TGGAAAATCG
*** *
141618 GTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCG
1 GTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCG
141683 ATGGAGAAAAATAAATGTTTTAAAAATAAAATTAGGGGAAATTA
66 ATGGAGAAAAATAAATGTTTTAAAAATAAAATTAGGGGAAATTA
* * * * * *
141727 GTGTTTTAGAAATGAAATTGGGGTTGGAGTATTCCCTCAAAAATAACGAGGTTGGAGTATCCTCG
1 GTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCG
* ***
141792 ATGGTGAAAAATCGGTGTTTTAAAAATAAAA
66 ATGGAGAAAAATAAATGTTTTAAAAATAAAA
141823 CATCAATGAA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
109 82 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (109 bp):
GTGTTTTAGAAATAAAATCGAGGTTGAAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCG
ATGGAGAAAAATAAATGTTTTAAAAATAAAATTAGGGGAAATTA
Found at i:145914 original size:165 final size:164
Alignment explanation
Indices: 145662--146032 Score: 528
Period size: 165 Copynumber: 2.3 Consensus size: 164
145652 ATTTTTTTTG
* * * * *
145662 TTTAATTTTTAAATTTTATCAAATATCATTATTTAATTTATAGTAAATCAGTTCTAAAAAATTCA
1 TTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATAGAAAATCAGTTCTAAAAAATTCA
* * * ***
145727 TTCATTGTCATAATTTTTTTATTTTTTCCTTGAAACTCTTTTTTTTCCAAAATATGGAGTTTTCT
66 TTCATTGTCATAAATGTTTTATTTTTTCCTTAAAACTCTTTTTTTTCCAAAATACAAAGTTTTCT
* * *
145792 ACTCTGTAATTTTTTTCGGAGAGATTTTTCTTGGTT
131 ACTCGGTAA-TTTTTTAGG-GAGATTTTTCTTAGTT
145828 TTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATA-AAAATCAGTTCTAAAAAATTCA
1 TTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATAGAAAATCAGTTCTAAAAAATTCA
* * * *
145892 TTCATTTTCTTAAATGTTTTATTTTTTCCTTAAAACTCTTTTTTTTTCGAAATACAAAGTTTTCT
66 TTCATTGTCATAAATGTTTTATTTTTTCCTTAAAACTCTTTTTTTTCCAAAATACAAAGTTTTCT
* *
145957 ACTCGGTAATTTTTTAGGGGGATTTTTTTTAGTT
131 ACTCGGTAATTTTTTAGGGAGATTTTTCTTAGTT
*
145991 TTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATA
1 TTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATA
146033 TTAAAGTATT
Statistics
Matches: 184, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
163 54 0.29
164 8 0.04
165 84 0.46
166 38 0.21
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (164 bp):
TTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATAGAAAATCAGTTCTAAAAAATTCA
TTCATTGTCATAAATGTTTTATTTTTTCCTTAAAACTCTTTTTTTTCCAAAATACAAAGTTTTCT
ACTCGGTAATTTTTTAGGGAGATTTTTCTTAGTT
Done.