Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2431
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: 130798
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Found at i:1878 original size:22 final size:23
Alignment explanation
Indices: 1850--1905 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1840 TGGACATGTT
1850 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
1872 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
1895 AAAAATGCATG
1 AAAAATGCATG
1906 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:2860 original size:20 final size:20
Alignment explanation
Indices: 2813--2887 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
2803 AAAAATACAT
*
2813 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2832 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2853 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
2873 AATGCATCGATACAT
1 AATGTATCGATACAT
2888 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2882 original size:40 final size:39
Alignment explanation
Indices: 2810--2887 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
2800 GGTAAAAATA
* * *
2810 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATACATCGATACATT
* *
2849 CATACATGTATCGATATATTGAAAAATGCATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATACATCGATACAT
2888 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATACATCGATACATT
Found at i:3457 original size:28 final size:28
Alignment explanation
Indices: 3375--4655 Score: 1788
Period size: 28 Copynumber: 44.9 Consensus size: 28
3365 TGAAAAGGGT
* * *
3375 TGCCATTGACTTGCATGGGCTTTAAAAGGG
1 TGCCACTGACTTG--TGGGCTTTGAAAGAG
* *
3405 TGCCACTGACGTGCGTGGGCTTTGAAAGAA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGAG
* * *
3435 TGCCACTAACTCGAGGGCTTTGAAAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
*
3462 ATGCCACTGACTTGTGGGCTTTAAAAGAG
1 -TGCCACTGACTTGTGGGCTTTGAAAGAG
3491 TGCCACTGACTTGTGGGCTTTGAAA-AGG
1 TGCCACTGACTTGTGGGCTTTGAAAGA-G
* * *
3519 TACCACTGACTTGCGTGAGCTTTAAAAGGAG
1 TGCCACTGACTT--GTGGGCTTTGAAA-GAG
* *
3550 TGCCACTGACTTGTGTGAGCTTTAAAAGGG
1 TGCCACTGACTTGTG-G-GCTTTGAAAGAG
3580 TGCCACTGACTTGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* * *
3608 TGCCACTGAATTGTGGGCTTCGCAATG-G
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
* * *
3636 TGCCACTGACTTGTGGCCTTCGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* *
3664 TGCCACTGACTTGTGGGCTCTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* *
3692 TGCCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
3720 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
*
3749 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* *
3777 TGCCATTGACTTGTGGTCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
* *
3806 TGCCACTAATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
3835 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
*
3864 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
*
3892 TGCCACTAACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
3921 TGCCACTGACTTGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
3949 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
*
3978 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
*
4006 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
*
4035 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
4064 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
*
4093 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* *
4121 TGCCACTGAGTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
4149 TGCCACT-ACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
4177 TGCCACTGA-TTGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
4204 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
*
4233 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* *
4261 TGCCACTGAGTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
*
4289 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
*
4318 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
4347 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
*
4376 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
*
4404 TGCCACTAACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
4433 TGCCACTGACTTGTGGGCTTTGAAA-AGG
1 TGCCACTGACTTGTGGGCTTTGAAAGA-G
4461 TGCCACTGACTTGT-GGCTTTG-AAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
4486 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
4515 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
*
4544 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
*
4572 TGCCACTAACTTGTGGGCTTTGAAAGAAG
1 TGCCACTGACTTGTGGGCTTTGAAAG-AG
*
4601 TGCCACTGACTTGTGGGCTTTAAAAAGAG
1 TGCCACTGACTTGTGGGCTTT-GAAAGAG
4630 TGCCACTGACTTGTGGGCTTTGAAAG
1 TGCCACTGACTTGTGGGCTTTGAAAG
4656 GGATGAACAT
Statistics
Matches: 1139, Mismatches: 76, Indels: 74
0.88 0.06 0.06
Matches are distributed among these distances:
25 15 0.01
26 9 0.01
27 40 0.04
28 509 0.45
29 480 0.42
30 62 0.05
31 22 0.02
32 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGAG
Found at i:3761 original size:29 final size:29
Alignment explanation
Indices: 3375--4656 Score: 1866
Period size: 29 Copynumber: 44.9 Consensus size: 29
3365 TGAAAAGGGT
* *
3375 TGCCATTGACTTGCATGGGCTTTAAAAGG-G
1 TGCCACTGACTTG--TGGGCTTTGAAAGGAG
* *
3405 TGCCACTGACGTGCGTGGGCTTTGAAA-GAA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGAG
* * *
3435 TGCCACTAACTCGAGGGCTTTGAAAGGA-
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
3463 TGCCACTGACTTGTGGGCTTT-AAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
3491 TGCCACTGACTTGTGGGCTTTGAAAAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
3519 TACCACTGACTTGCGTGAGCTTTAAAAGGAG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGAG
*
3550 TGCCACTGACTTGTGTGAGCTTTAAAAGG-G
1 TGCCACTGACTTGTG-G-GCTTTGAAAGGAG
3580 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * * *
3608 TGCCACTGAATTGTGGGCTTCGCAATG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
3636 TGCCACTGACTTGTGGCCTTCGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
3664 TGCCACTGACTTGTGGGCTCTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
3692 TGCCACTAACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
3720 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
3749 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
3777 TGCCATTGACTTGTGGTCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
3806 TGCCACTAATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
3835 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
3864 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
3892 TGCCACTAACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
3921 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
3949 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
3978 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
4006 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
4035 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4064 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4093 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
4121 TGCCACTGAGTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
4149 TGCCACT-ACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4177 TGCCACTGA-TTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4204 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4233 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
4261 TGCCACTGAGTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
4289 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
4318 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4347 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4376 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
4404 TGCCACTAACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
4433 TGCCACTGACTTGTGGGCTTTGAAAAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4461 TGCCACTGACTTGT-GGCTTTG-AA-G-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
4486 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4515 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4544 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
4572 TGCCACTAACTTGTGGGCTTTGAAAGAAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
4601 TGCCACTGACTTGTGGGCTTTAAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
4630 TGCCACTGACTTGTGGGCTTTGAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGG
4657 GATGAACATT
Statistics
Matches: 1151, Mismatches: 72, Indels: 59
0.90 0.06 0.05
Matches are distributed among these distances:
25 16 0.01
26 9 0.01
27 44 0.04
28 497 0.43
29 503 0.44
30 57 0.05
31 24 0.02
32 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGAG
Found at i:3779 original size:57 final size:57
Alignment explanation
Indices: 3363--4656 Score: 1862
Period size: 57 Copynumber: 22.6 Consensus size: 57
3353 ACAGTGGTGA
* * *
3363 TTTGAAAAGGGTTGCCATTGACTTGCATGGGCTTTAAAAGG-GTGCCACTGACGTGCGTGGGC
1 TTTG-AAAGGG-TGCCACTGACTTG--TGGGCTTTGAAAGGAGTGCCACTGAC-T-TGTGGGC
** * * *
3425 TTTGAAAGAATGCCACTAACTCGAGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * * * *
3481 TTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTACCACTGACTTGCGTGAGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTT--GTGGGC
* *
3539 TTTAAAAGGAGTGCCACTGACTTGTGTGAGCTTTAAAAGG-GTGCCACTGACTTGTGGGC
1 TTTGAAAGG-GTGCCACTGACTTGTG-G-GCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * * * * *
3598 TTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATG-GTGCCACTGACTTGTGGCC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * *
3654 TTCGAAAGGGTGCCACTGACTTGTGGGCTCTGAAAGG-GTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
3710 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * * * *
3767 TTTGAAAGGGTGCCATTGACTTGTGGTCTTTGAAAAGAGTGCCACTAATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
3824 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
3882 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* *
3939 TTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * *
3996 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4053 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4111 TTTGAAAGGGTGCCACTGAGTTGTGGGCTTTGAAAGG-GTGCCACT-ACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4166 TTTGAAAAGAGTGCCACTGA-TTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4222 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCACTGAGTTGTGGGC
1 TTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * *
4279 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4336 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4394 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4451 TTTGAAAAGGTGCCACTGACTTGT-GGCTTTG-AA-G-GTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
4504 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* *
4562 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* *
4619 TTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1 TTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
4657 GATGAACATT
Statistics
Matches: 1119, Mismatches: 89, Indels: 52
0.89 0.07 0.04
Matches are distributed among these distances:
53 23 0.02
54 20 0.02
55 50 0.04
56 236 0.21
57 461 0.41
58 261 0.23
59 28 0.03
60 11 0.01
61 25 0.02
62 4 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (57 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
Found at i:5893 original size:10 final size:8
Alignment explanation
Indices: 5879--5953 Score: 52
Period size: 8 Copynumber: 9.5 Consensus size: 8
5869 CCCTTCTATT
5879 TTTTTTTGC
1 TTTTTTT-C
5888 TATTTTTTC
1 T-TTTTTTC
5897 TTTTTTT-
1 TTTTTTTC
5904 TTGTTTTT-
1 TT-TTTTTC
* *
5912 TTGTTTTG
1 TTTTTTTC
5920 TTTTTTT-
1 TTTTTTTC
5927 TTTTGTTT-
1 TTTT-TTTC
*
5935 TTTTTTTG
1 TTTTTTTC
5943 TTTTTTT-
1 TTTTTTTC
5950 TTTT
1 TTTT
5954 GGGTGTAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
7 17 0.29
8 33 0.56
9 3 0.05
10 6 0.10
ACGTcount: A:0.01, C:0.03, G:0.08, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:5894 original size:1 final size:1
Alignment explanation
Indices: 5890--5953 Score: 74
Period size: 1 Copynumber: 64.0 Consensus size: 1
5880 TTTTTTGCTA
* * * * * *
5890 TTTTTTCTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTTTTGTTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5954 GGGTGTAAAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:5895 original size:12 final size:12
Alignment explanation
Indices: 5890--5954 Score: 91
Period size: 12 Copynumber: 5.6 Consensus size: 12
5880 TTTTTTGCTA
*
5890 TTTTTTCTT-TT
1 TTTTTTGTTTTT
5901 T-TTTTGTTTTT
1 TTTTTTGTTTTT
5912 TTGTTTTGTTTTT
1 TT-TTTTGTTTTT
5925 TTTTTTG-TTTT
1 TTTTTTGTTTTT
5936 TTTTTTGTTTTT
1 TTTTTTGTTTTT
5948 TTTTTTG
1 TTTTTTG
5955 GGTGTAAAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
10 6 0.12
11 15 0.31
12 16 0.33
13 12 0.24
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:5903 original size:23 final size:21
Alignment explanation
Indices: 5877--5954 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 21
5867 GACCCTTCTA
* *
5877 TTTTTTTTTGCTATTTTTTCTT
1 TTTTTTTTTG-TTTTTTTTGTT
*
5899 TTTTTTTGTTTTTTTGTTTTGTT
1 TTTTTTT-TTGTTTT-TTTTGTT
5922 TTTTTTTTTGTTTTTTTTTTGTT
1 TTTTTTTTTG--TTTTTTTTGTT
5945 TTTTTTTTTG
1 TTTTTTTTTG
5955 GGTGTAAAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 12 0.25
23 32 0.67
24 4 0.08
ACGTcount: A:0.01, C:0.03, G:0.09, T:0.87
Consensus pattern (21 bp):
TTTTTTTTTGTTTTTTTTGTT
Found at i:5904 original size:11 final size:11
Alignment explanation
Indices: 5897--5952 Score: 85
Period size: 11 Copynumber: 4.8 Consensus size: 11
5887 CTATTTTTTC
5897 TTTTTTTTTGTT
1 TTTTTTTTTG-T
5909 TTTTTGTTTTGTT
1 TTTTT-TTTTG-T
5922 TTTTTTTTTGT
1 TTTTTTTTTGT
5933 TTTTTTTTTGT
1 TTTTTTTTTGT
5944 TTTTTTTTT
1 TTTTTTTTT
5953 TGGGTGTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
11 21 0.49
12 10 0.23
13 12 0.28
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:19040 original size:22 final size:22
Alignment explanation
Indices: 19012--19066 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
19002 TGGACATGTT
19012 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
19034 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
19056 AAAAATGCATG
1 AAAAATGCATG
19067 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:20024 original size:20 final size:20
Alignment explanation
Indices: 19977--20051 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
19967 AAAAAGACAT
*
19977 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
19996 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
20017 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
20037 AATGCATCGATACAT
1 AATGTATCGATACAT
20052 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:20046 original size:40 final size:39
Alignment explanation
Indices: 19974--20051 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
19964 GGTAAAAAGA
* * *
19974 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATACATCGATACATT
* *
20013 CATACATGTATCGATATATTGAAAAATGCATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATACATCGATACAT
20052 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATACATCGATACATT
Found at i:31593 original size:2 final size:2
Alignment explanation
Indices: 31586--31622 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
31576 TTTCCTTCTT
31586 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31623 TTGTTTTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32891 original size:2 final size:2
Alignment explanation
Indices: 32884--32925 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32874 TCTTCCTTTG
32884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32926 TTTTACCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35232 original size:30 final size:30
Alignment explanation
Indices: 35196--35276 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
35186 ATTTATCTCC
*
35196 AAATAAATCATTAACTTTTT-ATTTGTATTT
1 AAATAAATCATTAA-TTTTTAATATGTATTT
**
35226 AAATAAATTTTTAATTTTTAATATGTATTT
1 AAATAAATCATTAATTTTTAATATGTATTT
* **
35256 AAATAAGTTTTTAATTTTTAA
1 AAATAAATCATTAATTTTTAA
35277 CGAGATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 5 0.11
30 41 0.89
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (30 bp):
AAATAAATCATTAATTTTTAATATGTATTT
Found at i:35266 original size:29 final size:31
Alignment explanation
Indices: 35206--35276 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
35196 AAATAAATCA
*
35206 TTAACTTTTT-ATTTGTATTTAAATAAA-TTT
1 TTAA-TTTTTAATATGTATTTAAATAAAGTTT
35236 TTAATTTTTAATATGTATTTAAAT-AAGTTT
1 TTAATTTTTAATATGTATTTAAATAAAGTTT
35266 TTAATTTTTAA
1 TTAATTTTTAA
35277 CGAGATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (31 bp):
TTAATTTTTAATATGTATTTAAATAAAGTTT
Found at i:36556 original size:15 final size:15
Alignment explanation
Indices: 36533--36578 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
36523 TTATATGTTT
36533 TTATATTTTTGTTATA
1 TTATATTTTT-TTATA
*
36549 TT-TATTTTTTTGTA
1 TTATATTTTTTTATA
*
36563 TTATATTTTTTAATA
1 TTATATTTTTTTATA
36578 T
1 T
36579 CGTATTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 6 0.23
15 18 0.69
16 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (15 bp):
TTATATTTTTTTATA
Found at i:36723 original size:26 final size:27
Alignment explanation
Indices: 36694--36757 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
36684 TGTATTTATG
* * *
36694 TTATTTTTTGTTGTGTTTTAATT-TTT
1 TTATTTTTTGTTGTATCTTAATTCATT
36720 TTATTTATTT-TTGTATCTTAATTCATT
1 TTATTT-TTTGTTGTATCTTAATTCATT
*
36747 TTATATTTTGT
1 TTATTTTTTGT
36758 ATAGTTGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (27 bp):
TTATTTTTTGTTGTATCTTAATTCATT
Found at i:37370 original size:23 final size:22
Alignment explanation
Indices: 37340--37405 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
37330 TTTTTGTCGC
37340 ATTATATTTTAATTATTTTTCAT
1 ATTATATTTT-ATTATTTTTCAT
37363 ATTATATTTTTATTATATTTT-A-
1 ATTATA-TTTTATTAT-TTTTCAT
37385 ATT-TATTTTA-TATTTTTCAT
1 ATTATATTTTATTATTTTTCAT
37405 A
1 A
37406 ATCTATCATA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.10
19 4 0.10
20 6 0.15
21 2 0.05
22 3 0.08
23 12 0.31
24 8 0.21
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTATATTTTATTATTTTTCAT
Found at i:37378 original size:11 final size:11
Alignment explanation
Indices: 37340--37398 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
37330 TTTTTGTCGC
*
37340 ATTATATTTTA
1 ATTATATTTTT
37351 ATTAT-TTTTCAT
1 ATTATATTTT--T
37363 ATTATATTTTT
1 ATTATATTTTT
*
37374 ATTATATTTTA
1 ATTATATTTTT
37385 ATT-TATTTTAT
1 ATTATATTTT-T
37396 ATT
1 ATT
37399 TTTCATAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 10 0.24
11 22 0.54
12 5 0.12
13 4 0.10
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATATTTTT
Found at i:37478 original size:19 final size:20
Alignment explanation
Indices: 37454--37501 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
37444 TACATAAAAT
37454 TTTAAAATATAA-AA-AATTA
1 TTTAAAATA-AATAATAATTA
37473 TTT-AAATAAATAATAATTA
1 TTTAAAATAAATAATAATTA
*
37492 TTTAATATAA
1 TTTAAAATAA
37502 TTTAACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 7 0.28
19 11 0.44
20 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAATAAATAATAATTA
Found at i:37481 original size:16 final size:19
Alignment explanation
Indices: 37459--37502 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
37449 AAAATTTTAA
37459 AATATAA-AA-AATTATTT
1 AATATAATAATAATTATTT
37476 AA-ATAAATAATAATTATTT
1 AATAT-AATAATAATTATTT
37495 AATATAAT
1 AATATAAT
37503 TTAACTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.09
17 4 0.17
18 2 0.09
19 13 0.57
20 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATAATAATAATTATTT
Found at i:38832 original size:68 final size:68
Alignment explanation
Indices: 38741--38870 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 68
38731 CAACTAAAAC
* *
38741 TAAATATGGGAACACACAATTTT-AAATAATTAAAA-ATTTCTCAATGTTATTTTTTTTATATAT
1 TAAATATGGGAACACACAATTTTAAAATAATTAAAACATTTCTCAA-ATTATTATTTTTATATAT
38804 CCTT
65 CCTT
* * *
38808 TAAATGTGGGAAATACACAATTTTAAAATGATTAAAACATTTCTCAAATTATTATTTTTATAT
1 TAAATATGGG-AACACACAATTTTAAAATAATTAAAACATTTCTCAAATTATTATTTTTATAT
38871 TCTTAGAATC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 9 0.16
68 12 0.22
69 25 0.45
70 9 0.16
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (68 bp):
TAAATATGGGAACACACAATTTTAAAATAATTAAAACATTTCTCAAATTATTATTTTTATATATC
CTT
Found at i:38948 original size:4 final size:4
Alignment explanation
Indices: 38941--38972 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
38931 CTTTATATAT
38941 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
38973 GCCTCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:39160 original size:21 final size:23
Alignment explanation
Indices: 39115--39164 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 23
39105 AGGTAATACG
39115 AATATAGTAAAAAATTAAAAGAT
1 AATATAGTAAAAAATTAAAAGAT
*
39138 AATATA-TAAAAAATT-AAATAT
1 AATATAGTAAAAAATTAAAAGAT
39159 AATATA
1 AATATA
39165 AATTTATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 11 0.42
22 9 0.35
23 6 0.23
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
AATATAGTAAAAAATTAAAAGAT
Found at i:39201 original size:17 final size:18
Alignment explanation
Indices: 39152--39247 Score: 71
Period size: 17 Copynumber: 5.5 Consensus size: 18
39142 TATAAAAAAT
39152 TAAATATAATATAA-ATTTA
1 TAAATAT-ATA-AATATTTA
*
39171 TAAATATATCAATATTTA
1 TAAATATATAAATATTTA
39189 TAAA-ATATAAATATTTA
1 TAAATATATAAATATTTA
** *
39206 -ATGTGT-TAAA-ATTTA
1 TAAATATATAAATATTTA
39221 TATAA-ATATATAATATTT-
1 TA-AATATATA-AATATTTA
39239 TAAATATAT
1 TAAATATAT
39248 TTAATAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
15 5 0.08
16 7 0.11
17 19 0.31
18 19 0.31
19 11 0.18
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAATATATAAATATTTA
Found at i:39222 original size:25 final size:26
Alignment explanation
Indices: 39161--39243 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 26
39151 TTAAATATAA
39161 TATAAATTTATAAATATATCAATATT
1 TATAAATTTATAAATATATCAATATT
* * *
39187 TATAAA-ATATAAATAT-TTAATGTGT
1 TATAAATTTATAAATATATCAATAT-T
39212 TA-AAATTTATATAAATATAT-AATATT
1 TATAAA-TT-TATAAATATATCAATATT
39238 T-TAAAT
1 TATAAAT
39244 ATATTTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
24 8 0.17
25 13 0.28
26 11 0.24
27 13 0.28
28 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (26 bp):
TATAAATTTATAAATATATCAATATT
Found at i:39595 original size:14 final size:15
Alignment explanation
Indices: 39573--39610 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
39563 ACATAAGGAA
*
39573 AAAGAAAAAGAA-AT
1 AAAGGAAAAGAATAT
39587 AAAGGAAAAGAATAT
1 AAAGGAAAAGAATAT
*
39602 AAAAGAAAA
1 AAAGGAAAA
39611 CAAGGCTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (15 bp):
AAAGGAAAAGAATAT
Found at i:47544 original size:37 final size:38
Alignment explanation
Indices: 47501--47576 Score: 145
Period size: 37 Copynumber: 2.0 Consensus size: 38
47491 ATTAAACTTT
47501 TTGGTGATAAATGACAATCAAA-TTTTTTATTTTCAAG
1 TTGGTGATAAATGACAATCAAATTTTTTTATTTTCAAG
47538 TTGGTGATAAATGACAATCAAATTTTTTTATTTTCAAG
1 TTGGTGATAAATGACAATCAAATTTTTTTATTTTCAAG
47576 T
1 T
47577 CATACTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 22 0.58
38 16 0.42
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (38 bp):
TTGGTGATAAATGACAATCAAATTTTTTTATTTTCAAG
Found at i:50640 original size:2 final size:2
Alignment explanation
Indices: 50633--50661 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50623 TTCATTTCCT
50633 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
50662 ATTTGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:51004 original size:25 final size:25
Alignment explanation
Indices: 50970--51028 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
50960 GGAAACCAAA
*
50970 TCAAATCTCCTAAAATATTCTTATG
1 TCAAATCTCCTAAAATATTCTTAAG
50995 TCAAATCTCCTAAAATATTCTTAAG
1 TCAAATCTCCTAAAATATTCTTAAG
51020 TCAAATCTC
1 TCAAATCTC
51029 GTCTCAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (25 bp):
TCAAATCTCCTAAAATATTCTTAAG
Found at i:54822 original size:29 final size:29
Alignment explanation
Indices: 54777--54856 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
54767 GAAGAAGAAT
* *
54777 GGCATTTAAGG-TCAAAAAGATAAAAAAAA
1 GGCAATTAAGGATAAAAAAGA-AAAAAAAA
* ** *
54806 GGCAATTAA-GATAAAAAAGGAATAGGAAT
1 GGCAATTAAGGATAAAAAA-GAAAAAAAAA
54835 GGCAATTAAGGATAAAAAAGAA
1 GGCAATTAAGGATAAAAAAGAA
54857 TTATGAATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.02
29 30 0.71
30 11 0.26
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.16
Consensus pattern (29 bp):
GGCAATTAAGGATAAAAAAGAAAAAAAAA
Found at i:55077 original size:11 final size:12
Alignment explanation
Indices: 55046--55087 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
55036 CAGTTCATTA
55046 TATTT-TTTTCTT
1 TATTTCTTTT-TT
55058 TAATTTCTTTTTT
1 T-ATTTCTTTTTT
55071 T-TTTCTTTTTT
1 TATTTCTTTTTT
55082 TATTTC
1 TATTTC
55088 AATTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.41
12 5 0.19
13 7 0.26
14 4 0.15
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (12 bp):
TATTTCTTTTTT
Found at i:55516 original size:26 final size:26
Alignment explanation
Indices: 55487--55537 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
55477 CCAGATTTGC
*
55487 TCCATCGGTTTTGCATAGATCTACTT
1 TCCATCGATTTTGCATAGATCTACTT
55513 TCCATCGATTTTGCATAGATCTACT
1 TCCATCGATTTTGCATAGATCTACT
55538 CTAAATGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (26 bp):
TCCATCGATTTTGCATAGATCTACTT
Found at i:55776 original size:26 final size:26
Alignment explanation
Indices: 55707--55784 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 26
55697 CACTAAAATC
* *
55707 ATATATATACACT-AATGTTAT-ATAT
1 ATATATATATACTAAAT-TTATGTTAT
**
55732 ATATATATATACTTTATTTATGTGTAT
1 ATATATATATACTAAATTTATGT-TAT
*
55759 AT-TATATGTACTAAATTTATGTTAT
1 ATATATATATACTAAATTTATGTTAT
55784 A
1 A
55785 GATAAATTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 20 0.45
26 19 0.43
27 5 0.11
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.50
Consensus pattern (26 bp):
ATATATATATACTAAATTTATGTTAT
Found at i:57339 original size:30 final size:31
Alignment explanation
Indices: 57303--57360 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
57293 TTCCACCTTT
*
57303 AGATATTAA-ATTTGTGAAATTTTTTTATTA
1 AGATATTAATATTTATGAAATTTTTTTATTA
* *
57333 AGATATTAATATTTATTATATTTTTTTA
1 AGATATTAATATTTATGAAATTTTTTTA
57361 CGAGATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (31 bp):
AGATATTAATATTTATGAAATTTTTTTATTA
Found at i:57525 original size:23 final size:24
Alignment explanation
Indices: 57480--57525 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
57470 TTCATATTTT
*
57480 TCTCAATATTGTTTTTCTGTTATA
1 TCTCAATATTATTTTTCTGTTATA
57504 TCTC-ATATTATTATTTCT-TTAT
1 TCTCAATATTATT-TTTCTGTTAT
57526 TATAATTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.61
Consensus pattern (24 bp):
TCTCAATATTATTTTTCTGTTATA
Found at i:59807 original size:20 final size:20
Alignment explanation
Indices: 59782--59846 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
59772 TTCAATGATC
59782 TGTATCGATACATAAAATGT
1 TGTATCGATACATAAAATGT
59802 TGTATCGATAC----AA---
1 TGTATCGATACATAAAATGT
59815 TGTATCGATACATAAAATGT
1 TGTATCGATACATAAAATGT
59835 TGTATCGATACA
1 TGTATCGATACA
59847 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
16 2 0.05
17 2 0.05
20 23 0.61
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATAAAATGT
Found at i:59819 original size:33 final size:33
Alignment explanation
Indices: 59782--59881 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
59772 TTCAATGATC
59782 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
59815 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
59848 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
59881 T
1 T
59882 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:59820 original size:13 final size:13
Alignment explanation
Indices: 59802--59859 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
59792 CATAAAATGT
59802 TGTATCGATACAA
1 TGTATCGATACAA
59815 TGTATCGATACATAAAA
1 TGTATCGATAC----AA
59832 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
59848 TGTATCGATACA
1 TGTATCGATACA
59860 TATTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:59943 original size:13 final size:13
Alignment explanation
Indices: 59925--59949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59915 ATTACTCACA
59925 TGTATCGATACAT
1 TGTATCGATACAT
59938 TGTATCGATACA
1 TGTATCGATACA
59950 CTGATCTTTG
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:60086 original size:52 final size:52
Alignment explanation
Indices: 59958--60077 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
59948 CACTGATCTT
*
59958 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
60010 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
60062 TGTATCGATACATGCA
1 TGTATCGATACATGCA
60078 AATAAATTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:70925 original size:2 final size:2
Alignment explanation
Indices: 70920--70949 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70910 TAATACTCAA
70920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70950 TGGTTTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71535 original size:26 final size:27
Alignment explanation
Indices: 71505--71572 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
71495 AAAATATTCC
*
71505 TTTTGAATTTTAAAATCTTTATCTGA-
1 TTTTGAATTTTAAAATCTTCATCTGAT
* *
71531 TTTTGATTTTTAAAATCTTCATTTGATT
1 TTTTGAATTTTAAAATCTTCATCTGA-T
71559 TTTTGAATTTTAAA
1 TTTTGAATTTTAAA
71573 TTTAATTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 23 0.64
28 13 0.36
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (27 bp):
TTTTGAATTTTAAAATCTTCATCTGAT
Found at i:71580 original size:26 final size:26
Alignment explanation
Indices: 71505--71580 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
71495 AAAATATTCC
* *
71505 TTTTGAATTTTAAAATCTTTATCTGA
1 TTTTGAATTTTAAAATCTTAATTTGA
* *
71531 TTTTGATTTTTAAAATCTTCATTTGA
1 TTTTGAATTTTAAAATCTTAATTTGA
71557 TTTTTTGAATTTT-AAAT-TTAATTT
1 --TTTTGAATTTTAAAATCTTAATTT
71581 CAATTTTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 29 0.67
27 4 0.09
28 10 0.23
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTTGAATTTTAAAATCTTAATTTGA
Found at i:85279 original size:20 final size:23
Alignment explanation
Indices: 85238--85283 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
85228 CGATGAATGG
85238 TTAATATTTTAATATATATAAAT
1 TTAATATTTTAATATATATAAAT
*
85261 TTAAT-TTTTAATTTATA-AAAT
1 TTAATATTTTAATATATATAAAT
85282 TT
1 TT
85284 TTTATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTAATATTTTAATATATATAAAT
Found at i:85651 original size:18 final size:18
Alignment explanation
Indices: 85625--85666 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
85615 GTACCTAAAT
*
85625 TAATTTTTAAAATAAAAA
1 TAATATTTAAAATAAAAA
*
85643 TAATATTTAAAATTAAAA
1 TAATATTTAAAATAAAAA
85661 T-ATATT
1 TAATATT
85667 AATGAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATATTTAAAATAAAAA
Found at i:87361 original size:18 final size:20
Alignment explanation
Indices: 87320--87366 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
87310 ATAAATATAT
*
87320 AATTTATATATCTATTAATG
1 AATTTATATATCTATTAATC
*
87340 AATTTATATA-C-ATTTATC
1 AATTTATATATCTATTAATC
*
87358 AATTAATAT
1 AATTTATAT
87367 TATGAAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 13 0.54
19 1 0.04
20 10 0.42
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTTATATATCTATTAATC
Found at i:87716 original size:202 final size:202
Alignment explanation
Indices: 87358--87749 Score: 567
Period size: 202 Copynumber: 1.9 Consensus size: 202
87348 TACATTTATC
*
87358 AATTAATATTATGAAGTTTAAACCTAATGAATCTATATAAATTAAAAAAAAGAGTTAAAGCAAAA
1 AATTAATATTATGAAGTATAAACCTAATGAATCTATATAAATTAAAAAAAAGAGTTAAAGCAAAA
* *
87423 TTCTTAATAATTTATTGAAAAAATAAATAAAATTATTAAGTAATATTATAAAAATTTTATTAATT
66 TTCTTAACAATTTATTGAAAAAATAAATAAAATTATTAAGTAATATTATAAAAAATTTATTAATT
* *
87488 TTAAAAAATTCTTTAAGAAAAAACTCATAATAAACATTAGCATTTATGTTAAAAAACTATGTTTT
131 TCAAAAAATTCTTTAAGAAAAAACTCATAATAAACATTAGCATTTATGTCAAAAAACTATGTTTT
87553 ATCAATT
196 ATCAATT
* * * *
87560 AATTAATATTATGAAGTATAGA-CTCAATGAATCTATATAAATTAAAAAATA-AGTTAAAGCCAG
1 AATTAATATTATGAAGTATAAACCT-AATGAATCTATATAAATTAAAAAAAAGAGTTAAAGCAAA
* * * * * *
87623 ATTCTTAGCAATTTATTGGATAAATAAATAAAATTATTAATTAATATTTTAAAAAAATTTATTGA
65 ATTCTTAACAATTTATTGAAAAAATAAATAAAATTATTAAGTAATATTAT-AAAAAATTTATTAA
* *
87688 TTTCCAAAAAA-TCTTTCCA-AAAAAACTCATAATAAATATTAGCATTTATGTCAAAAAACTAT
129 TTT-CAAAAAATTCTTT-AAGAAAAAACTCATAATAAACATTAGCATTTATGTCAAAAAACTAT
87750 ATTTAAAGCA
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
201 56 0.33
202 106 0.63
203 7 0.04
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.36
Consensus pattern (202 bp):
AATTAATATTATGAAGTATAAACCTAATGAATCTATATAAATTAAAAAAAAGAGTTAAAGCAAAA
TTCTTAACAATTTATTGAAAAAATAAATAAAATTATTAAGTAATATTATAAAAAATTTATTAATT
TCAAAAAATTCTTTAAGAAAAAACTCATAATAAACATTAGCATTTATGTCAAAAAACTATGTTTT
ATCAATT
Found at i:87766 original size:139 final size:138
Alignment explanation
Indices: 87613--88049 Score: 527
Period size: 158 Copynumber: 3.0 Consensus size: 138
87603 AAAAAATAAG
* * * * * *
87613 TTAAAGCCAGATTCTTAGCAATTTATTGGATAAATAAATAAAATTATTAATTAATATTTTAAAAA
1 TTAAAGCAAAATTCTTAGTAATTTATT-GAAAAATAAATAAAATTATTAATTAATATTATAAAGA
* *
87678 AATTTATTGATTTCCAAAAAATCTTTCCAAAAAAACTCATAATAAATATTAGCATTTATGTCAAA
65 AATTTATTGATTTCAAAAAAATCTTTCGAAAAAAACTCATAATAAATATTAGCATTTATGTCAAA
87743 AAACTATAT
130 AAACTATAT
87752 TTAAAGCAAAATTCTTAGTAATTTATTGAAAAAATAAATAAAATTATTAATTAATATTATAAAGA
1 TTAAAGCAAAATTCTTAGTAATTTATTG-AAAAATAAATAAAATTATTAATTAATATTATAAAGA
* *
87817 AATTTATTGATTTTATAAAGAAATTTATTGATTTCAAAAAAAATTGAGAAAAAACTCATAATAAA
65 AATTTATTGA-TTT-CAAA-AAA---A-T-CTTTC----------GA-AAAAAACTCATAATAAA
87882 TATTAGCATTTATGTCAAAAAACTATAT
111 TATTAGCATTTATGTCAAAAAACTATAT
*
87910 TTAAAGCAAAATTTTTAGTAATTTATT-AAAAATAAATAAAATTATTAATTAATATTATAAAGAA
1 TTAAAGCAAAATTCTTAGTAATTTATTGAAAAATAAATAAAATTATTAATTAATATTATAAAGAA
* * *
87974 ACTTATTGATTTCAAAAAAATCTTTAAGAAAAAAAC-CTATAATAAATATTAGCATTTATGTTAA
66 ATTTATTGATTTCAAAAAAATCTTT-CGAAAAAAACTC-ATAATAAATATTAGCATTTATGTCAA
88038 AAAACTATAT
129 AAAACTATAT
88048 TT
1 TT
88050 TATATATATT
Statistics
Matches: 260, Mismatches: 16, Indels: 45
0.81 0.05 0.14
Matches are distributed among these distances:
137 1 0.00
138 45 0.17
139 69 0.27
140 3 0.01
141 2 0.01
142 3 0.01
145 1 0.00
146 1 0.00
147 4 0.02
148 3 0.01
149 1 0.00
150 1 0.00
153 3 0.01
154 3 0.01
155 3 0.01
156 45 0.17
157 1 0.00
158 71 0.27
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (138 bp):
TTAAAGCAAAATTCTTAGTAATTTATTGAAAAATAAATAAAATTATTAATTAATATTATAAAGAA
ATTTATTGATTTCAAAAAAATCTTTCGAAAAAAACTCATAATAAATATTAGCATTTATGTCAAAA
AACTATAT
Found at i:87832 original size:21 final size:21
Alignment explanation
Indices: 87808--87850 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87798 TTAATTAATA
87808 TTATAAAGAAATTTATTGATT
1 TTATAAAGAAATTTATTGATT
87829 TTATAAAGAAATTTATTGATT
1 TTATAAAGAAATTTATTGATT
87850 T
1 T
87851 CAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (21 bp):
TTATAAAGAAATTTATTGATT
Found at i:87869 original size:158 final size:156
Alignment explanation
Indices: 87668--87994 Score: 534
Period size: 158 Copynumber: 2.1 Consensus size: 156
87658 ATTAATTAAT
**
87668 ATTTTAAAAAAATTTATTGATTTCCAAAAAATCTTTCCAAAAAAACTCATAATAAATATTAGCAT
1 ATTTTAAAAAAATTTATTGATTTCCAAAAAATAATTCCAAAAAAACTCATAATAAATATTAGCAT
87733 TTATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTGAAAAAATAAATAAAATTA
66 TTATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATT--AAAAATAAATAAAATTA
*
87798 TTAATTAATATTATAAAGAAATTTATTG
129 TTAATTAATATTATAAAGAAACTTATTG
*
87826 ATTTTATAAAGAAATTTATTGATTT-CAAAAAA-AATT-GAGAAAAAACTCATAATAAATATTAG
1 ATTTTA-AAA-AAATTTATTGATTTCCAAAAAATAATTCCA-AAAAAACTCATAATAAATATTAG
*
87888 CATTTATGTCAAAAAACTATATTTAAAGCAAAATTTTTAGTAATTTATTAAAAATAAATAAAATT
63 CATTTATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTAAAAATAAATAAAATT
87953 ATTAATTAATATTATAAAGAAACTTATTG
128 ATTAATTAATATTATAAAGAAACTTATTG
*
87982 ATTTCAAAAAAAT
1 ATTTTAAAAAAAT
87995 CTTTAAGAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
154 4 0.03
155 3 0.02
156 49 0.31
157 1 0.01
158 79 0.49
159 10 0.06
160 14 0.09
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (156 bp):
ATTTTAAAAAAATTTATTGATTTCCAAAAAATAATTCCAAAAAAACTCATAATAAATATTAGCAT
TTATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTAAAAATAAATAAAATTATT
AATTAATATTATAAAGAAACTTATTG
Found at i:88108 original size:329 final size:328
Alignment explanation
Indices: 87734--88741 Score: 1383
Period size: 329 Copynumber: 3.0 Consensus size: 328
87724 TATTAGCATT
87734 TATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTGAAAAAATAAATAAAATTAT
1 TATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTGAAAAAATAAATAAAATTAT
87799 TAATTAATATTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTCAAAAAAA-ATTG
66 TAATTAATATTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTT-AAAAAAATATTG
* * * *
87863 AGAAAAAACTCATAATAAATATTAGCATTTATGTCAAAAAACTATATTTAAAGCAAAATTTTTAG
130 AGAAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGCAAAATTCTTAG
87928 TAATTTATTAAAAATAAATAAAATTATTAATTAATATTATAAAGAAACTTATTGATTTCAAAAAA
195 TAATTTATTAAAAATAAATAAAATTATTAATTAATATTATAAAGAAA-TTATTGATTTCAAAAAA
87993 ATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATATA
259 ATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATATA
88058 TTAT-
324 TTATA
*
88062 TAATGTCAAAAAACTATACTTAAAGCAAAATTCTTAGTAATTTATTGAAAAGATAAATAAAATTA
1 T-ATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTG--AA-A-AAAT--AA--A
*
88127 TTAATTAATATTATAAAGCAATTTAATAATTTTATAAAGAAATTTATTGATTTTATAAAGAAATT
57 -T-A--AA-ATTAT----TAA-TTAAT-A--TTATAAAGAAATTTATTGATTTTATAAAGAAATT
* *
88192 TATTGATTTTAAAAAAATTTTAAGAAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAAAT
109 TATTGA-TTTAAAAAAATATTGAGAAAAAACTCATAATAAATATTAGTATTTATGTC-AAAAAAT
* *
88257 TGTTTTTAAAGCAAAATTCTTAGTAATTTATTAATAAATAAATAAAATTATTAATTAATAGTATA
172 TGTATTTAAAGCAAAATTCTTAGTAATTTATTAA-AAATAAATAAAATTATTAATTAATATTATA
*
88322 AAGAAATTTATTGATTTCAAAAAAATCTTTAAGAAAAAAACTTATAATAAATATTAGCATTTATG
236 AAGAAA-TTATTGATTTCAAAAAAATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATG
88387 TTAAAAAACTATA-TTT-TATATATTATA
300 TTAAAAAACTATATTTTATATATATTATA
*
88414 TATGTCAAAAAACTATATTTAAAGTAAAATTCTTAGTAATTTATT-AAAAAATAAATAAAATTAT
1 TATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTGAAAAAATAAATAAAATTAT
* * *
88478 TAATTAATATTATAAA-AAATTTATTAATTTTATAAAAAAATTTATTGGCTTTAAAAAAATATTT
66 TAATTAATATTATAAAGAAATTTATTGATTTTATAAAGAAATTTATT-GATTTAAAAAAATA-TT
* * * **
88542 GAAAAAAAAAACTCATTATAAATATTAGTATTTATAT-AAAAAATTGTATTTAAAATAAAATTCT
129 G--AGAAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGCAAAATTCT
* * *
88606 TAATAATTTATGAAAAAATAAATAAAATTATTAATTAATATTATAAA-AAA-T-TTGGTTT-AAA
192 TAGTAATTTAT-TAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTATTGATTTCAAA
* * * *
88667 AAAATCTTTAAG-AAAAAACCTATAATAAATATTAGTATTTATGTTAAAATATTTTATTTTATAT
256 AAAATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATAT
*
88731 ATAATATA
321 ATATTATA
88739 TAT
1 TAT
88742 AGCGTTGAAT
Statistics
Matches: 610, Mismatches: 36, Indels: 71
0.85 0.05 0.10
Matches are distributed among these distances:
323 39 0.06
324 18 0.03
325 19 0.03
326 1 0.00
328 43 0.07
329 119 0.20
330 2 0.00
331 34 0.06
332 6 0.01
333 6 0.01
335 2 0.00
337 6 0.01
338 3 0.00
339 1 0.00
340 1 0.00
341 3 0.00
342 6 0.01
344 2 0.00
346 6 0.01
347 6 0.01
348 3 0.00
350 47 0.08
351 91 0.15
352 41 0.07
353 105 0.17
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.39
Consensus pattern (328 bp):
TATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTGAAAAAATAAATAAAATTAT
TAATTAATATTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTAAAAAAATATTGA
GAAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGCAAAATTCTTAGT
AATTTATTAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTATTGATTTCAAAAAAAT
CTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATATATT
ATA
Found at i:88156 original size:21 final size:21
Alignment explanation
Indices: 88127--88211 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
88117 AATAAAATTA
* *
88127 TTAATTAATATTATAAAGCAAT
1 TTAA-TAATTTTATAAAGAAAT
88149 TTAATAATTTTATAAAGAAAT
1 TTAATAATTTTATAAAGAAAT
* *
88170 TTATTGATTTTATAAAGAAAT
1 TTAATAATTTTATAAAGAAAT
* *
88191 TTATTGATTTTA-AAA-AAAT
1 TTAATAATTTTATAAAGAAAT
88210 TT
1 TT
88212 TAAGAAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
19 6 0.10
20 3 0.05
21 46 0.78
22 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (21 bp):
TTAATAATTTTATAAAGAAAT
Found at i:88208 original size:350 final size:346
Alignment explanation
Indices: 87798--88741 Score: 1326
Period size: 353 Copynumber: 2.8 Consensus size: 346
87788 AATAAAATTA
* *
87798 TTAATTAATATTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTCAAAAAAAATTG
1 TTAA-TAATTTTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTTAAAAAAAATT-
* * * *
87863 AGAAAAAACTCATAATAAATATTAGCATTTATGTCAAAAAACTATATTTAAAGCAAAATTTTTAG
64 AGAAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGCAAAATTCTTAG
87928 TAATTTATTAAAAATAAATAAAATTATTAATTAATATTATAAAGAAACTTATTGATTTCAAAAAA
129 TAATTTATTAAAAATAAATAAAATTATTAATTAATATTATAAAGAAA-TTATTGATTTCAAAAAA
87993 ATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATATA
193 ATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATATA
*
88058 TTAT-TAATGTCAAAAAACTATACTTAAAGCAAAATTCTTAGTAATTTATTGAAAAGATAAATAA
258 TTATAT-ATGTCAAAAAACTATACTTAAAGCAAAATTCTTAGTAATTTATT-AAAAAATAAATAA
*
88122 AATTATTAATTAATATTATAAAGCAAT
321 AATTATTAATTAATATTATAAA-AAAT
*
88149 TTAATAATTTTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTTAAAAAAATTTTA
1 TTAATAATTTTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTTAAAAAAA-ATT-
*
88214 AGAAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAAATTGTTTTTAAAGCAAAATTCTTA
64 AGAAAAAACTCATAATAAATATTAGTATTTATGTC-AAAAAATTGTATTTAAAGCAAAATTCTTA
*
88279 GTAATTTATTAATAAATAAATAAAATTATTAATTAATAGTATAAAGAAATTTATTGATTTCAAAA
128 GTAATTTATTAA-AAATAAATAAAATTATTAATTAATATTATAAAGAAA-TTATTGATTTCAAAA
*
88344 AAATCTTTAAGAAAAAAACTTATAATAAATATTAGCATTTATGTTAAAAAACTATA-TTT-TATA
191 AAATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATA
* *
88407 TATTATATATGTCAAAAAACTATATTTAAAGTAAAATTCTTAGTAATTTATTAAAAAATAAATAA
256 TATTATATATGTCAAAAAACTATACTTAAAGCAAAATTCTTAGTAATTTATTAAAAAATAAATAA
88472 AATTATTAATTAATATTATAAAAAAT
321 AATTATTAATTAATATTATAAAAAAT
* * ** *
88498 TTATTAATTTTATAAAAAAATTTATTG-GCTT-TAAA-AAA---A-T-A-TTT----GAAA--A-
1 TTAATAATTTTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTTAAAAAAAATTAG
* * ** *
88547 AAAAAACTCATTATAAATATTAGTATTTATAT-AAAAAATTGTATTTAAAATAAAATTCTTAATA
66 AAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGCAAAATTCTTAGTA
* *
88611 ATTTATGAAAAAATAAATAAAATTATTAATTAATATTATAAA-AAA-T-TTGGTTT-AAAAAAAT
131 ATTTAT-TAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTATTGATTTCAAAAAAAT
* * * * *
88672 CTTTAAG-AAAAAACCTATAATAAATATTAGTATTTATGTTAAAATATTTTATTTTATATATAAT
195 CTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATATATT
88736 ATATAT
260 ATATAT
88742 AGCGTTGAAT
Statistics
Matches: 549, Mismatches: 37, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
323 39 0.07
324 18 0.03
325 19 0.03
326 1 0.00
328 3 0.01
329 65 0.12
330 2 0.00
331 30 0.05
332 1 0.00
336 2 0.00
340 3 0.01
341 1 0.00
342 1 0.00
343 1 0.00
346 3 0.01
347 4 0.01
348 2 0.00
349 28 0.05
350 88 0.16
351 92 0.17
352 41 0.07
353 105 0.19
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (346 bp):
TTAATAATTTTATAAAGAAATTTATTGATTTTATAAAGAAATTTATTGATTTTAAAAAAAATTAG
AAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGCAAAATTCTTAGTA
ATTTATTAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTATTGATTTCAAAAAAATC
TTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGTTAAAAAACTATATTTTATATATATTA
TATATGTCAAAAAACTATACTTAAAGCAAAATTCTTAGTAATTTATTAAAAAATAAATAAAATTA
TTAATTAATATTATAAAAAAT
Found at i:88332 original size:25 final size:24
Alignment explanation
Indices: 88286--88333 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
88276 TTAGTAATTT
*
88286 ATTAATAAATAAATAAAATTATTA
1 ATTAATAAATAAAGAAAATTATTA
* *
88310 ATTAATAGTATAAAGAAATTTATT
1 ATTAATA-AATAAAGAAAATTATT
88334 GATTTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTAATAAATAAAGAAAATTATTA
Found at i:88448 original size:170 final size:169
Alignment explanation
Indices: 87892--88516 Score: 740
Period size: 170 Copynumber: 3.6 Consensus size: 169
87882 TATTAGCATT
*
87892 TATGTCAAAAAACTATATTTAAAGCAAAATTTTTAGTAATTTATTAAAAATAAATAAAATTATTA
1 TATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTAAAAATAAATAAAATTATTA
* * *
87957 ATTAATATTATAAAGAAACTTATTGATTTCA-AAAAAATCTTTAAGAAAAAAACCTATAATAAAT
66 ATTAATATTATAAAGAAATTTATTAATTTCATAAAAAATCTTTAAGAAAAAAACTTATAATAAAT
88021 ATTAGCATTTATGTTAAAAAACTATATTTTATATATATTA
131 ATTAGCATTTATGTTAAAAAACTATATTTTATATATA-TA
*
88061 TTAATGTCAAAAAACTATACTTAAAGCAAAATTCTTAGTAATTTATTGAAAAGATAAATAAAATT
1 -T-ATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATT-AAAA-ATAAATAAAATT
* * * * * * *
88126 ATTAATTAATATTATAAAGCAATTTAATAATTTTATAAAGAAATTTATTGATTTTATAAAGAAAT
62 ATTAATTAATATTATAAAGAAATTTATTAATTTCATAAA-AAATCT-TT-A----AGAAAAAAAC
* ** ** ** * * ** *
88191 TTATTGAT-TTTAAAAAAATTTTAAG--AAAAAACTCATAATAAATATTAGTATT
120 TTA-TAATAAATATTAGCA-TTTATGTTAAAAAACT-ATATTTTATA-TA-TATA
* * *
88243 TATGTCAAAAAAATTGTTTTTAAAGCAAAATTCTTAGTAATTTATTAATAAATAAATAAAATTAT
1 TATGTC-AAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTAA-AAATAAATAAAATTAT
* *
88308 TAATTAATAGTATAAAGAAATTTATTGATTTCA-AAAAAATCTTTAAGAAAAAAACTTATAATAA
64 TAATTAATATTATAAAGAAATTTATTAATTTCATAAAAAATCTTTAAGAAAAAAACTTATAATAA
88372 ATATTAGCATTTATGTTAAAAAACTATATTTTATATATTATA
129 ATATTAGCATTTATGTTAAAAAACTATATTTTATATA-TATA
*
88414 TATGTCAAAAAACTATATTTAAAGTAAAATTCTTAGTAATTTATTAAAAAATAAATAAAATTATT
1 TATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATT-AAAAATAAATAAAATTATT
*
88479 AATTAATATTATAAA-AAATTTATTAATTTTATAAAAAA
65 AATTAATATTATAAAGAAATTTATTAATTTCATAAAAAA
88517 ATTTATTGGC
Statistics
Matches: 375, Mismatches: 57, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
169 14 0.04
170 73 0.19
171 63 0.17
172 25 0.07
173 50 0.13
174 3 0.01
175 5 0.01
176 3 0.01
177 3 0.01
178 5 0.01
179 3 0.01
180 57 0.15
181 58 0.15
182 11 0.03
183 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (169 bp):
TATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGTAATTTATTAAAAATAAATAAAATTATTA
ATTAATATTATAAAGAAATTTATTAATTTCATAAAAAATCTTTAAGAAAAAAACTTATAATAAAT
ATTAGCATTTATGTTAAAAAACTATATTTTATATATATA
Found at i:88484 original size:24 final size:24
Alignment explanation
Indices: 88456--88506 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
88446 TTAGTAATTT
88456 ATTAA-AAAATAAATAAAATTATTA
1 ATTAATAAAATAAA-AAAATTATTA
** *
88480 ATTAATATTATAAAAAATTTATTA
1 ATTAATAAAATAAAAAAATTATTA
88504 ATT
1 ATT
88507 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAATAAAATAAAAAAATTATTA
Found at i:88503 original size:20 final size:21
Alignment explanation
Indices: 88480--88523 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
88470 AAAATTATTA
88480 ATTAATATTAT-AAAAAATTT
1 ATTAATATTATAAAAAAATTT
*
88500 ATTAATTTTATAAAAAAATTT
1 ATTAATATTATAAAAAAATTT
88521 ATT
1 ATT
88524 GGCTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAATATTATAAAAAAATTT
Found at i:88534 original size:20 final size:21
Alignment explanation
Indices: 88487--88541 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
88477 TTAATTAATA
*
88487 TTAT-AAAAAATTTATTAATT
1 TTATAAAAAAATTTATTAACT
**
88507 TTATAAAAAAATTTATTGGCT
1 TTATAAAAAAATTTATTAACT
88528 TTA-AAAAAATATTT
1 TTATAAAAAA-ATTT
88542 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
TTATAAAAAAATTTATTAACT
Found at i:88632 original size:31 final size:32
Alignment explanation
Indices: 88594--88656 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
88584 ATTGTATTTA
*
88594 AAATAAAATTCTTAA-TAAT-TTATGAAAAAAT
1 AAATAAAATTATTAATTAATATTAT-AAAAAAT
88625 AAATAAAATTATTAATTAATATTATAAAAAAT
1 AAATAAAATTATTAATTAATATTATAAAAAAT
88657 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 14 0.48
32 11 0.38
33 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (32 bp):
AAATAAAATTATTAATTAATATTATAAAAAAT
Found at i:88697 original size:159 final size:162
Alignment explanation
Indices: 87706--88701 Score: 637
Period size: 159 Copynumber: 6.0 Consensus size: 162
87696 AAATCTTTCC
* * * * *
87706 AAAAAAACTCATAATAAATATTAGCATTTATGTCAAAAAACTATATTTAAAGCAAAATTCTTAGT
1 AAAAAAACTCATTATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGTAAAATTCTTAGT
* *
87771 AATTTATTGAAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTT-ATT-----GAT-T
66 AATTTATT-AAAAAATAAATAAAATTATTAATTAATATTATAAA-AAATTTGTTTAAAAAAATCT
* ** * ** *
87829 TTATA-AAGAAATTTATTGATTTCAAA-A--AAAATTGA
129 TTA-AGAAAAAACCTA-T-A-AT-AAATATTAGCATAGA
* * * * * * *
87864 GAAAAAACTCATAATAAATATTAGCATTTATGTCAAAAAACTATATTTAAAGCAAAATTTTTAGT
1 AAAAAAACTCATTATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGTAAAATTCTTAGT
87929 AATTTATT-AAAAATAAATAAAATTATTAATTAATATTATAAAGAAACTTATTGATTTCAAAAAA
66 AATTTATTAAAAAATAAATAAAATTATTAATTAATATTATAAA-AAA--T-TTG-TTT-AAAAAA
*
87993 ATCTTTAAGAAAAAAACCTATAATAAATATTAGCATTTATGT
125 ATCTTTAAG-AAAAAACCTATAATAAATATTAGCA--TA-GA
* * * * * * * * * *
88035 TAAAAAACTATATTTTATATA-TATTATTAATGTCAAAAAACTATACTTAAAGCAAAATTCTTAG
1 AAAAAAACT-CATTATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGTAAAATTCTTAG
* * *
88099 TAATTTATTGAAAAGATAAATAAAATTATTAATTAATATTATAAAGCAATTTAATAATTTTATAA
65 TAATTTATT-AAAAAATAAATAAAATTATTAATTAATATTATAAA--AAATT--T--GTTTA-AA
* * ** * ** ***
88164 AGAAATTTATTGATTTTATAAAGAAATTTATTGATTTTAAA-AAAATTTTA-A
122 A-AAATCT-TT-A----AGAAA-AAACCTA-T-A--ATAAATATTAGCATAGA
* * * *
88215 GAAAAAACTCATAATAAATATTAGTATTTATGTCAAAAAAATTGTTTTTAAAGCAAAATTCTTAG
1 AAAAAAACTCATTATAAATATTAGTATTTATGTC-AAAAAATTGTATTTAAAGTAAAATTCTTAG
* *
88280 TAATTTATTAATAAATAAATAAAATTATTAATTAATAGTATAAAGAAATTTATTGATTTCAAAAA
65 TAATTTATTAAAAAATAAATAAAATTATTAATTAATATTATAAA-AAA--T-TTG-TTT-AAAAA
* *
88345 AATCTTTAAGAAAAAAACTTATAATAAATATTAGCATTTATGT
124 AATCTTTAAG-AAAAAACCTATAATAAATATTAGCA--TA-GA
* * * * * *
88388 TAAAAAACTATATTTTATATATTA-TA--TATGTCAAAAAACTATATTTAAAGTAAAATTCTTAG
1 AAAAAAACT-CATTATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGTAAAATTCTTAG
*
88450 TAATTTATTAAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTT-ATT-----AAT-TT
65 TAATTTATTAAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTTGTTTAAAAAAATCTT
* * * * *
88508 TATAAAAAAATTTATTGGCTTTAAAAAAATATTTG-A-A-A
130 TA-AGAAAAA---A---CCTAT-AATAAATATTAGCATAGA
* * *
88546 AAAAAAACTCATTATAAATATTAGTATTTATAT-AAAAAATTGTATTTAAAATAAAATTCTTAAT
1 AAAAAAACTCATTATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGTAAAATTCTTAGT
*
88610 AATTTATGAAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTTGGTTTAAAAAAATCTT
66 AATTTATTAAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTT-GTTTAAAAAAATCTT
88675 TAAGAAAAAACCTATAATAAATATTAG
130 TAAGAAAAAACCTATAATAAATATTAG
88702 TATTTATGTT
Statistics
Matches: 665, Mismatches: 99, Indels: 147
0.73 0.11 0.16
Matches are distributed among these distances:
156 38 0.06
157 20 0.03
158 86 0.13
159 87 0.13
160 9 0.01
161 4 0.01
163 4 0.01
164 12 0.02
165 3 0.00
166 13 0.02
167 9 0.01
168 11 0.02
169 12 0.02
170 70 0.11
171 66 0.10
172 15 0.02
173 48 0.07
174 18 0.03
175 5 0.01
176 3 0.00
177 3 0.00
178 5 0.01
179 15 0.02
180 56 0.08
181 42 0.06
182 4 0.01
183 1 0.00
184 2 0.00
185 4 0.01
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.38
Consensus pattern (162 bp):
AAAAAAACTCATTATAAATATTAGTATTTATGTCAAAAAATTGTATTTAAAGTAAAATTCTTAGT
AATTTATTAAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTTGTTTAAAAAAATCTTT
AAGAAAAAACCTATAATAAATATTAGCATAGA
Found at i:90861 original size:27 final size:27
Alignment explanation
Indices: 90793--90850 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
90783 ATCTAATAAA
90793 GAATCAATGTAACAGCAAAATGAGGGC
1 GAATCAATGTAACAGCAAAATGAGGGC
90820 GAATCAATGTAACAGCAAAATGAGGGC
1 GAATCAATGTAACAGCAAAATGAGGGC
90847 -AATC
1 GAATC
90851 TAGCTTGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.16
Consensus pattern (27 bp):
GAATCAATGTAACAGCAAAATGAGGGC
Found at i:90885 original size:2 final size:2
Alignment explanation
Indices: 90878--90918 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
90868 ACTTCTCTTT
*
90878 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90919 GATGTTGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:91890 original size:22 final size:20
Alignment explanation
Indices: 91851--91897 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
91841 AAATACGTTA
91851 TTTTAATATGTAATAATTTACT
1 TTTTAATATGTAATAA-TTA-T
*
91873 TTTTAATATTTTAA-AATTAT
1 TTTTAATA-TGTAATAATTAT
91893 TTTTA
1 TTTTA
91898 TGATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 3 0.13
22 10 0.43
23 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAATATGTAATAATTAT
Found at i:96325 original size:20 final size:20
Alignment explanation
Indices: 96300--96339 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
96290 GAATGCCCCT
*
96300 ATTCAGACTCATATACGTCA
1 ATTCAGACGCATATACGTCA
96320 ATTCAGACGCATATACGTCA
1 ATTCAGACGCATATACGTCA
96340 CTCAAGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (20 bp):
ATTCAGACGCATATACGTCA
Found at i:101524 original size:17 final size:17
Alignment explanation
Indices: 101473--101527 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
101463 CAAAAATATC
101473 TTAAAATTTATA-AAA-
1 TTAAAATTTATATAAAT
101488 TT-AAA-TTAT-TAATAT
1 TTAAAATTTATATAA-AT
101503 ATTAAAATTTATATAAAT
1 -TTAAAATTTATATAAAT
101521 TTAAAAT
1 TTAAAAT
101528 ACTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 6 0.18
14 4 0.12
15 2 0.06
16 2 0.06
17 10 0.30
18 6 0.18
19 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAAATTTATATAAAT
Found at i:108754 original size:13 final size:14
Alignment explanation
Indices: 108736--108770 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
108726 AACTCAATAG
108736 TTATAAAAA-AAAA
1 TTATAAAAATAAAA
108749 TTATAAAAATAAAA
1 TTATAAAAATAAAA
108763 TTACTAAA
1 TTA-TAAA
108771 TAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 7 0.35
15 4 0.20
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
TTATAAAAATAAAA
Found at i:109128 original size:21 final size:21
Alignment explanation
Indices: 109102--109192 Score: 69
Period size: 21 Copynumber: 4.1 Consensus size: 21
109092 ATTAAAAAAA
109102 TTAAATTAAATTAAATTATTT
1 TTAAATTAAATTAAATTATTT
109123 TTAAA-TAAATTAAATTTAAATATT
1 TTAAATTAAATTAAA-TT--AT-TT
* *
109147 TTAATATTTAATTTAAATAATTT
1 TTAA-A-TTAAATTAAATTATTT
* * *
109170 GTATATTTAATTAAATT-TTT
1 TTAAATTAAATTAAATTATTT
109190 TTA
1 TTA
109193 TTTTTTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
20 14 0.25
21 16 0.29
22 1 0.02
23 6 0.11
24 8 0.15
25 1 0.02
26 1 0.02
27 8 0.15
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
TTAAATTAAATTAAATTATTT
Found at i:109144 original size:15 final size:15
Alignment explanation
Indices: 109093--109144 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
109083 TCAAGTTTTA
*
109093 TTAAAAAAATTAAA-
1 TTAAATAAATTAAAT
**
109107 TTAAATTAAATTATTT
1 TTAAA-TAAATTAAAT
109123 TTAAATAAATTAAAT
1 TTAAATAAATTAAAT
109138 TTAAATA
1 TTAAATA
109145 TTTTAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 5 0.16
15 21 0.68
16 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAATAAATTAAAT
Found at i:109150 original size:15 final size:16
Alignment explanation
Indices: 109093--109157 Score: 57
Period size: 15 Copynumber: 4.2 Consensus size: 16
109083 TCAAGTTTTA
*
109093 TTAAAAAAATTAA-A-
1 TTAAATAAATTAATAT
*
109107 TTAAATTAAATT-ATTT
1 TTAAA-TAAATTAATAT
109123 TTAAATAAATTAA-AT
1 TTAAATAAATTAATAT
**
109138 TTAAATATTTTAATAT
1 TTAAATAAATTAATAT
109154 TTAA
1 TTAA
109158 TTTAAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
14 6 0.15
15 23 0.56
16 12 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATAAATTAATAT
Found at i:109169 original size:22 final size:21
Alignment explanation
Indices: 109135--109230 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
109125 AAATAAATTA
109135 AATTTAAATATTTTAATATTT
1 AATTTAAATATTTTAATATTT
109156 AATTTAAATAATTTGT-ATATTT
1 AATTTAAAT-ATTT-TAATATTT
* * *
109178 AA-TTAAATTTTTTTATTTTT
1 AATTTAAATATTTTAATATTT
* *
109198 TATTTATAT-TTTTAATA-TT
1 AATTTAAATATTTTAATATTT
*
109217 AATTT-ATTATTTTA
1 AATTTAAATATTTTA
109231 CCTTTATGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.02
19 12 0.20
20 15 0.25
21 20 0.33
22 12 0.20
23 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
AATTTAAATATTTTAATATTT
Found at i:111270 original size:15 final size:17
Alignment explanation
Indices: 111213--111263 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
111203 GTAGTTATTT
* *
111213 TATTTGAATTTAAATAAA
1 TATTT-AATATAAATATA
*
111231 TATTAAATATAAATATA
1 TATTTAATATAAATATA
111248 TATTTAATATAAATAT
1 TATTTAATATAAATAT
111264 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TATTTAATATAAATATA
Found at i:111299 original size:31 final size:32
Alignment explanation
Indices: 111244--111304 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
111234 TAAATATAAA
*
111244 TATATATTTAATATAAATATTTTTA-ATTTTT
1 TATATATTTAAAATAAATATTTTTATATTTTT
*
111275 TATATATTTAAAAT-ATTATATTTTATATTT
1 TATATATTTAAAATAAATAT-TTTTATATTT
111305 ATATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 4 0.15
31 18 0.69
32 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
TATATATTTAAAATAAATATTTTTATATTTTT
Found at i:111338 original size:13 final size:15
Alignment explanation
Indices: 111310--111343 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
111300 TATTTATATT
111310 TAAATACATAAAATA
1 TAAATACATAAAATA
111325 TAAATA-AT-AAATA
1 TAAATACATAAAATA
111338 TAAATA
1 TAAATA
111344 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 2 0.11
15 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATACATAAAATA
Found at i:112603 original size:17 final size:18
Alignment explanation
Indices: 112581--112619 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
112571 ACGATAATTT
112581 AATTAAAAT-ATTATTAA
1 AATTAAAATAATTATTAA
112598 AATTAAAATAAATTATTAA
1 AATTAAAAT-AATTATTAA
112617 AAT
1 AAT
112620 AATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAAATAATTATTAA
Found at i:113056 original size:8 final size:9
Alignment explanation
Indices: 113038--113076 Score: 64
Period size: 8 Copynumber: 4.6 Consensus size: 9
113028 CAAATTTCTT
113038 ATTTTTCAA
1 ATTTTTCAA
113047 ATTTTT-AA
1 ATTTTTCAA
113055 ATTTTTCAA
1 ATTTTTCAA
113064 A-TTTTCAA
1 ATTTTTCAA
113072 ATTTT
1 ATTTT
113077 CACTCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTTTTCAA
Found at i:113060 original size:17 final size:17
Alignment explanation
Indices: 113038--113076 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
113028 CAAATTTCTT
*
113038 ATTTTTCAAATTTTTAA
1 ATTTTTCAAATTTTCAA
113055 ATTTTTCAAATTTTCAA
1 ATTTTTCAAATTTTCAA
113072 ATTTT
1 ATTTT
113077 CACTCTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTCAAATTTTCAA
Found at i:121751 original size:18 final size:18
Alignment explanation
Indices: 121720--121764 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
121710 ATAGCATTAT
121720 AAATTAAT-AAAAATA-A
1 AAATTAATAAAAAATATA
121736 AAATTTAATAAAAAATATA
1 AAA-TTAATAAAAAATATA
121755 AAATTAATAA
1 AAATTAATAA
121765 GCATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.12
17 5 0.19
18 14 0.54
19 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTAATAAAAAATATA
Found at i:121797 original size:15 final size:15
Alignment explanation
Indices: 121777--121820 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
121767 ATTTATTTTT
121777 TAAAAATATAATAAC
1 TAAAAATATAATAAC
*
121792 TAAAAAT-TAATAAA
1 TAAAAATATAATAAC
*
121806 TAAAAA-ATGATAAC
1 TAAAAATATAATAAC
121820 T
1 T
121821 TTATAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (15 bp):
TAAAAATATAATAAC
Found at i:122064 original size:13 final size:12
Alignment explanation
Indices: 122043--122079 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
122033 CAATATTTAT
122043 TTATTAATATAA
1 TTATTAATATAA
122055 TTACTTAATAT--
1 TTA-TTAATATAA
122066 TTATTAATATAA
1 TTATTAATATAA
122078 TT
1 TT
122080 GTCGCTACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.32
11 3 0.14
12 5 0.23
13 7 0.32
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATTAATATAA
Found at i:123245 original size:51 final size:51
Alignment explanation
Indices: 123185--123299 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
123175 AAATAACGGG
* * *
123185 GTTGGAGTATCCTCGATTGTGAGAAATTGGTGTTTT-GAAACTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAA-TAAAATCGGA
* *
123236 GTTGGAGTATCCCCGGTTGTGAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
123287 GTTGGAGTATCCC
1 GTTGGAGTATCCC
123300 TTCAGAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:123616 original size:51 final size:51
Alignment explanation
Indices: 123424--123637 Score: 240
Period size: 51 Copynumber: 4.2 Consensus size: 51
123414 AAATAACGGG
* ** *
123424 GTTGGAGTATCCCCAATTGTG-AAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGGA
* * *
123474 GTTGGAGTATCCCC-ATTAAGAAAAATTGATGTTTTGGAGATGAAACTGGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT-AAAATCGGA
** ** * * *
123525 -TTGGAGTATCCCCGATTGTGGTAAA-TCATTGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGA-TGTTTTGGAAATAAAATCGGA
123575 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGG-
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGGA
123625 GATTGGAGTATCC
1 G-TTGGAGTATCC
123638 TCGAGATGAA
Statistics
Matches: 134, Mismatches: 23, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
49 4 0.03
50 55 0.41
51 73 0.54
52 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:123627 original size:102 final size:99
Alignment explanation
Indices: 123418--123637 Score: 314
Period size: 102 Copynumber: 2.2 Consensus size: 99
123408 CCTCAGAAAT
* ** * *
123418 AACGGGGTTGGAGTATCCCCAATTGTGAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTA
1 AACGGGATTGGAGTATCCCCAATTGTGAAAATCAGTGCTTTAGAAATAAAATCGGAGTTGGAGTA
* *
123483 TCCCCATTAAGAAAAATTGATGTTTTGGAGATGA
66 TCCCCATTAAGAAAAATTGATGTTTTGGAAATAA
* * *
123517 AACTGGGATTGGAGTATCCCCGATTGTGGTAAATCATTGCTTTAGAAATAAAATCGGAGTTGGAG
1 AAC-GGGATTGGAGTATCCCCAATTGT-GAAAATCAGTGCTTTAGAAATAAAATCGGAGTTGGAG
123582 TATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAA
64 TATCCCC-ATTAAGAAAAATTGATGTTTTGGAAATAA
123619 AATCGGGATTGGAGTATCC
1 AA-CGGGATTGGAGTATCC
123638 TCGAGATGAA
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
99 3 0.03
100 21 0.20
101 38 0.36
102 44 0.41
103 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (99 bp):
AACGGGATTGGAGTATCCCCAATTGTGAAAATCAGTGCTTTAGAAATAAAATCGGAGTTGGAGTA
TCCCCATTAAGAAAAATTGATGTTTTGGAAATAA
Found at i:125596 original size:333 final size:332
Alignment explanation
Indices: 124990--125659 Score: 1214
Period size: 333 Copynumber: 2.0 Consensus size: 332
124980 AAAGGGACTT
*
124990 CTAAGATGTCATCAATGGCCAAAATAGAAACCAAAAGGATCAAGGTAGAGAGAATATACGAAAGA
1 CTAAGATGTCATCAATGGCCAAAACAGAAACCAAAAGGATCAAGGTAGAGAGAATATACGAAAGA
*
125055 GCTTGAACTTTCCTTGTTTCTCGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTCTTTGCTAT
66 GCTTGAACTTTCCTTGTTTCCCGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTCTTTGCTAT
* *
125120 TATTTAGCAAGAAAATGATAAAAGGAGGTAGCTTTTGGGTAGTATGGTTGAGGGAGGAGCTGTTT
131 TATTTAGCAAGAAAATGATAAAAGAAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTT
*
125185 TAAGGTGAAAGTGTGAGGAATATGGAGTTTTTAGAGGTTCTTTGATAGTTATTTTTTATAGCTAC
196 TAAGGTGAAAGTGTGAGGAATATGGAGTTTTTAGAGGTTCTTTGATAGTGATTTTTTATAGCTAC
* *
125250 GGAAATGGGGTTTGAAACTAATGGAATAGTATTTTTTTTTTGTGTTTTTGGTCTTTTGTTGCTAA
261 GGAAATGGGGTTTGAAACCAATGGAATAGTA-TTTTTTTTTGTGTTTTTGGTCTTTTATTGCTAA
125315 AGGATTTC
325 AGGATTTC
*
125323 CTAAGATGTCATCTATGGCCAAAACAGAAACCAAAAGGATCAAGGTAGAGAGAATATACGAAAGA
1 CTAAGATGTCATCAATGGCCAAAACAGAAACCAAAAGGATCAAGGTAGAGAGAATATACGAAAGA
125388 GCTTGAACTTTCCTTGTTTCCCGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTCTTTGCTAT
66 GCTTGAACTTTCCTTGTTTCCCGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTCTTTGCTAT
*
125453 TATTTAGCAAGAAAATGATAAAATAAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTT
131 TATTTAGCAAGAAAATGATAAAAGAAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTT
* * *
125518 TAAGGTGAAAGTGTGAGGAATATGGAGTTTTTGGAGGTTCTTTGGTAGTGGTTTTTTATAGCTAC
196 TAAGGTGAAAGTGTGAGGAATATGGAGTTTTTAGAGGTTCTTTGATAGTGATTTTTTATAGCTAC
*
125583 GGGAATGGGGTTTGAAACCAATGGAATAGTATTTTTTTTTGTGTTTTTGGTCTTTTATTGCTAAA
261 GGAAATGGGGTTTGAAACCAATGGAATAGTATTTTTTTTTGTGTTTTTGGTCTTTTATTGCTAAA
125648 GGATTTC
326 GGATTTC
125655 CTAAG
1 CTAAG
125660 GGTTTTCTGC
Statistics
Matches: 324, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
332 45 0.14
333 279 0.86
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (332 bp):
CTAAGATGTCATCAATGGCCAAAACAGAAACCAAAAGGATCAAGGTAGAGAGAATATACGAAAGA
GCTTGAACTTTCCTTGTTTCCCGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTCTTTGCTAT
TATTTAGCAAGAAAATGATAAAAGAAGGTAGCTTTTGGGTAGTATGGTTGAGAGAGGAGCTGTTT
TAAGGTGAAAGTGTGAGGAATATGGAGTTTTTAGAGGTTCTTTGATAGTGATTTTTTATAGCTAC
GGAAATGGGGTTTGAAACCAATGGAATAGTATTTTTTTTTGTGTTTTTGGTCTTTTATTGCTAAA
GGATTTC
Found at i:126150 original size:20 final size:20
Alignment explanation
Indices: 126103--126212 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
126093 AAAATACCTG
* *
126103 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGC
126123 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
126143 AA--TAT--AT-CGAT-A-C
1 AATGTATCGATACAATGAGC
*
126156 AATGTATCGATACCATGAGC
1 AATGTATCGATACAATGAGC
* * *
126176 AATGTATCTATACCATTAGC
1 AATGTATCGATACAATGAGC
126196 AATGTATCGATACAATG
1 AATGTATCGATACAATG
126213 CAAAATGTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
13 3 0.04
14 1 0.01
15 6 0.08
16 2 0.03
17 2 0.03
18 6 0.08
19 2 0.03
20 51 0.70
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:126165 original size:33 final size:33
Alignment explanation
Indices: 126123--126188 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
126113 TACATTGTAA
126123 AATGTATCGATACAATGAGCAATATATCGATAC
1 AATGTATCGATACAATGAGCAATATATCGATAC
* * *
126156 AATGTATCGATACCATGAGCAATGTATCTATAC
1 AATGTATCGATACAATGAGCAATATATCGATAC
126189 CATTAGCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATATATCGATAC
Found at i:126166 original size:53 final size:53
Alignment explanation
Indices: 126103--126212 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
126093 AAAATACCTG
126103 AATGTATCGATA-CATTGTA-AAATGTATCGATACAATGAGCAATATATCGATAC
1 AATGTATCGATACCA-TG-AGAAATGTATCGATACAATGAGCAATATATCGATAC
* * * * *
126156 AATGTATCGATACCATGAGCAATGTATCTATACCATTAGCAATGTATCGATAC
1 AATGTATCGATACCATGAGAAATGTATCGATACAATGAGCAATATATCGATAC
126209 AATG
1 AATG
126213 CAAAATGTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 1 0.02
53 47 0.94
54 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACCATGAGAAATGTATCGATACAATGAGCAATATATCGATAC
Found at i:128754 original size:16 final size:18
Alignment explanation
Indices: 128731--128770 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
128721 TGGCTAATGA
* *
128731 TAAAAAAACAATT-TAAT
1 TAAAAAATCAATTCCAAT
128748 TAAAAAATCAATTCCAAT
1 TAAAAAATCAATTCCAAT
128766 TAAAA
1 TAAAA
128771 TTCAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAAATCAATTCCAAT
Found at i:130434 original size:17 final size:17
Alignment explanation
Indices: 130392--130435 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
130382 TAAAAATTAA
130392 ATATTATTTTATTAAGT
1 ATATTATTTTATTAAGT
* *
130409 -TTTTAATTTATATAAGT
1 ATATTATTTTAT-TAAGT
130426 ATATTATTTT
1 ATATTATTTT
130436 TAATTATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
16 9 0.43
17 5 0.24
18 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (17 bp):
ATATTATTTTATTAAGT
Found at i:130557 original size:23 final size:21
Alignment explanation
Indices: 130523--130588 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
130513 TTAAACAATA
130523 TATT-TTATTAATAATTTTAATTT
1 TATTATTA-TAATAA-TTTAA-TT
130546 TATTATTATAAT-ATTTAATT
1 TATTATTATAATAATTTAATT
* * * *
130566 TATCATTACAATAAATAAATT
1 TATTATTATAATAATTTAATT
130587 TA
1 TA
130589 CTGTTACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 12 0.32
21 13 0.35
22 1 0.03
23 8 0.22
24 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTATAATAATTTAATT
Found at i:130568 original size:20 final size:21
Alignment explanation
Indices: 130524--130566 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 21
130514 TAAACAATAT
130524 ATTTTATTA--ATAAT-TTTA
1 ATTTTATTATTATAATATTTA
130542 ATTTTATTATTATAATATTTA
1 ATTTTATTATTATAATATTTA
130563 ATTT
1 ATTT
130567 ATCATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
20 5 0.23
21 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTATTATTATAATATTTA
Found at i:130573 original size:20 final size:21
Alignment explanation
Indices: 130533--130578 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
130523 TATTTTATTA
*
130533 ATAAT-TTTAATTTTATTATT
1 ATAATATTTAATTTTATCATT
130553 ATAATATTTAA-TTTATCATT
1 ATAATATTTAATTTTATCATT
*
130573 ACAATA
1 ATAATA
130579 AATAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAATATTTAATTTTATCATT
Done.