Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015183.1 Kokia drynarioides strain JFW-HI SEQ_130227, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 190473
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 171 characters in sequence are not A, C, G, or T
Found at i:855 original size:51 final size:51
Alignment explanation
Indices: 794--1032 Score: 264
Period size: 51 Copynumber: 4.6 Consensus size: 51
784 GCTATAAACG
*
794 AAAGGATCCGATGACTAAGTGTCATCGTGAGTAAATAAAACCTTTATGGATT
1 AAAGG-TCCGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTATGGATT
* * *
846 AAAGGTCCGATGACTAGGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTATGGATT
* * * * * *
897 AAAGGTCCGATGACTAGGTGCCATCATGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTATGGATT
* * * * * * **
948 AAAGGTCCGATGACTCAGTGTTATTGTGAGTATATGAATTCCTATATGGAAC
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAAT-AAATCCTTTATGGATT
*
1000 AAGAGGTCTGATGACTATA-TGTCATCGTGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCGTGAGTA
1033 TTAAATGAAA
Statistics
Matches: 157, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
51 116 0.74
52 16 0.10
53 24 0.15
54 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTATGGATT
Found at i:3387 original size:27 final size:27
Alignment explanation
Indices: 3357--3425 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
3347 TTAAATGAAG
3357 ACAAAAATATAAATAGCATAAAA-AATA
1 ACAAAAATATAAATA-CATAAAACAATA
3384 ACAAATAA-ATAAAATACATAAAACAATA
1 ACAAA-AATAT-AAATACATAAAACAATA
3412 A-ATAAAAT-TAAATA
1 ACA-AAAATATAAATA
3426 AAAGGGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 5 0.14
27 18 0.49
28 14 0.38
ACGTcount: A:0.71, C:0.07, G:0.01, T:0.20
Consensus pattern (27 bp):
ACAAAAATATAAATACATAAAACAATA
Found at i:3508 original size:21 final size:20
Alignment explanation
Indices: 3469--3508 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3459 AATAAGTAAT
*
3469 AAATAAATAATAAATATATG
1 AAATAAATAATAAAAATATG
*
3489 AAATACAATCATAAAAATAT
1 AAATA-AATAATAAAAATAT
3509 CTAACATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
AAATAAATAATAAAAATATG
Found at i:3665 original size:26 final size:26
Alignment explanation
Indices: 3622--3675 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
3612 ATGCAAATTA
* * *
3622 AATAAAATAATACTAAAAGAGATAAC
1 AATAAAATAACACGAAAAGAAATAAC
* *
3648 AATAAAATGACACGAAAATAAATAAC
1 AATAAAATAACACGAAAAGAAATAAC
3674 AA
1 AA
3676 CTAGATAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (26 bp):
AATAAAATAACACGAAAAGAAATAAC
Found at i:4676 original size:50 final size:50
Alignment explanation
Indices: 4603--5677 Score: 649
Period size: 50 Copynumber: 21.6 Consensus size: 50
4593 AGGATTTGCT
* * *
4603 TTTTGTAGCTTCAATCTATCCCTCTATAG-TTCTAAGGGTATAAGATTCGC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTT-TAAGGGTATAAGATTCAC
* *
4653 TTTTGTAGCTTCAATCTGCCCCTCTACAGATTTAAGGGTATAAGATTCAC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * * **
4703 TTTTGTAGCTTTAATCTACCCTTCTACAGC-TTAAGGGGTATAATATTTGC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAA-GGGTATAAGATTCAC
* * * *
4753 TTCTGTAGCTAT-AATCCACCCCTTTACAGCTTT-AGAGGTATAAAATTCAC
1 TTTTGTAGCT-TCAATCTACCCCTCTACAGCTTTAAG-GGTATAAGATTCAC
* * * * * * * * **
4803 CTTCGTGGTTTCAATCTGCCCCTCTATAACTTTAGGGGTATAA-ATTTGC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * * * * * * * * **
4852 TTTTGCA-ATTACATTTTGCCTCTCTATAACTTTAGGGGTATAAGATTTTC
1 TTTTGTAGCTT-CAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * *
4902 TTTTGTAGCTTCAATCTA-CCCTCTACAAACATTAAGGGTATAAGATTCGC
1 TTTTGTAGCTTCAATCTACCCCTCTAC-AGCTTTAAGGGTATAAGATTCAC
* * ** * * **
4952 CTTCGGGGCTTCATTC-ATCCCCTCTACAGCTTTAGGGGTATAAGATTTGC
1 TTTTGTAGCTTCAATCTA-CCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * * ** * *
5002 TTTTGCAACTTCAATTTGTCCCTTTACAGCTTTAAGGGTATAAGATTC-G
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* ** * * *
5051 TCTTCGCGGCTTCATTCTACCCCTCTACAACTTTAGGGGTATAAGATTCAC
1 T-TTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * * *
5102 CTTTGTGGCTTCAATCTACCCTTCTACAGCTTTAAGGGAATAAGATTCAC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* ** **
5152 TTTT-TCAGCTTCAATCTACCCCTCTTCAGCTTTAAAAGTATAAGATTTGC
1 TTTTGT-AGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
**** ** * ** *
5202 TTTCACGGCTTCAATC-ACTTCTCTACAGTTTTTGGGGTATAAGATTCGC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * * *
5251 TTTAGTAGCTTCAATCTACCTCTCTATAGCTTTAGGGGTATAAGATTCAC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * ** * *
5301 CTTCGCGGCTTCAATCTACCCCTCTACAG-TTTTAGAGGTGTAAGATTCAC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAG-GGTATAAGATTCAC
** * * **
5351 TTTTACAGCTTCAATCTGCCTCTCTTTAGCTTT-AGGGATATAAGATTCAC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGG-TATAAGATTCAC
* * ** * * * * * *
5401 CTTCGCGGCTTTAATCTGCCTCTCTAAAG-TTTTAGTGGTATAAGATCCAC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAG-GGTATAAGATTCAC
* ** * *
5451 TTTCGCTA-CTTCAATCTACCTTTCTATAGCTTTAGGGGTATAAGATTCAC
1 TTTTG-TAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* * * * * * *
5501 CTTCG-CGACTTTAATTTACCCCTCTACAGCTTTAGGGGTATAAGATTCGC
1 TTTTGTAG-CTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
* **** * **
5551 CTTCACGGCTTCAATCTACCCGTCTACAGCTTT-AGAGGTATAAGATTTTC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAG-GGTATAAGATTCAC
* * * * * * *
5601 TTTTGCAACATCAATCTGCCCTTCTATAGCTTT-AGCAGTATAAGATTCAC
1 TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAG-GGTATAAGATTCAC
* ****
5651 CTTCACGGCTTCAATCTACCCCT-TACA
1 TTTTGTAGCTTCAATCTACCCCTCTACA
5678 ACTATAAGAT
Statistics
Matches: 799, Mismatches: 196, Indels: 61
0.76 0.19 0.06
Matches are distributed among these distances:
48 2 0.00
49 100 0.13
50 671 0.84
51 26 0.03
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (50 bp):
TTTTGTAGCTTCAATCTACCCCTCTACAGCTTTAAGGGTATAAGATTCAC
Found at i:5672 original size:150 final size:148
Alignment explanation
Indices: 4610--5677 Score: 765
Period size: 150 Copynumber: 7.1 Consensus size: 148
4600 GCTTTTTGTA
* * * * * * ** *
4610 GCTTCAATCTATCCCTCTATAG-TTCTAAGGGTATAAGATTCGCTTTTGTAGCTTCAATCTGCCC
1 GCTTCAATCTACCCCTCTACAGCTT-TAGGGGTATAAGATTCACCTTCGCGGCTTCAATCT-ACC
* * * * * * *
4674 CTCTACAGATTTAAGGGTATAAGATTCACTTTTGTAGCTTTAATCTACCCTTCTACAGCTTAAGG
64 CTCTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCAATCTACCCTTCTATAGCTTTA-G
* * ** *
4739 GGTATAATATT-TGCTTC-TG
128 AGTATAAGATTCACCTTCACG
* * * * * * *
4758 TAGCTAT-AATCCACCCCTTTACAGCTTTAGAGGTATAAAATTCACCTTCGTGGTTTCAATCTGC
1 --GCT-TCAATCTACCCCTCTACAGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATCT-A
* * ** * ** *
4822 CCCTCTATAACTTTAGGGGTATAA-ATTTGCTTTTGCAA-TT-ACATTTTGCCTCTCTATAACTT
62 CCCTCTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCA-ATCTACCCT-TCTATAGCTT
* ** * ****
4884 TAGGGGTATAAGATTTTCTTTTGTA
125 TA-GAGTATAAGATTCACCTTCACG
* * * * * * *
4909 GCTTCAATCTA-CCCTCTACAAACATTAAGGGTATAAGATTCGCCTTCGGGGCTTCATTCATCCC
1 GCTTCAATCTACCCCTCTAC-AGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATC-TACC
** * * *
4973 CTCTACAGCTTTAGGGGTATAAGATTTGCTTTTGCAACTTCAATTTGTCCCTT-TACAGCTTTAA
64 CTCTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCAATCT-ACCCTTCTATAGCTTT-A
* ** *
5037 GGGTATAAGATTCGTCTTCGCG
127 GAGTATAAGATTCACCTTCACG
* * * *
5059 GCTTCATTCTACCCCTCTACAACTTTAGGGGTATAAGATTCACCTTTGTGGCTTCAATCTACCCT
1 GCTTCAATCTACCCCTCTACAGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATCTACCC-
* * * * * *
5124 TCTACAGCTTTAAGGGAATAAGATTCACTTTTTCAGCTTCAATCTACCCCTCT-TCAGCTTTAAA
65 TCTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCAATCTACCCTTCTAT-AGCTTT-AG
** *
5188 AGTATAAGATTTGCTTTCACG
128 AGTATAAGATTCACCTTCACG
** * * * * * **
5209 GCTTCAATC-ACTTCTCTACAGTTTTTGGGGTATAAGATTCGCTTTAGTAGCTTCAATCTACCTC
1 GCTTCAATCTACCCCTCTACAGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATCTACC-C
* * * ** * * *
5273 TCTATAGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATCTACCCCTCTACAGTTTTAGAG
65 TCTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCAATCTACCCTTCTATAGCTTTAGA-
* * * *
5338 GTGTAAGATTCACTTTTACA
129 GTATAAGATTCACCTTCACG
* * ** * * *
5358 GCTTCAATCTGCCTCTCTTTAGCTTTAGGGATATAAGATTCACCTTCGCGGCTTTAATCTGCCTC
1 GCTTCAATCTACCCCTCTACAGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATCTACC-C
* * * * * * * *
5423 TCTAAAGTTTTAGTGGTATAAGATCCACTTTCGCTACTTCAATCTACCTTTCTATAGCTTTAGGG
65 TCTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCAATCTACCCTTCTATAGCTTTA-GA
*
5488 GTATAAGATTCACCTTCGCG
129 GTATAAGATTCACCTTCACG
* * * * *
5508 ACTTTAATTTACCCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTCACGGCTTCAATCTACCCG
1 GCTTCAATCTACCCCTCTACAGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATCTACCC-
* ** * *
5573 TCTACAGCTTTAGAGGTATAAGATTTTCTTTTGCAACATCAATCTGCCCTTCTATAGCTTTAGCA
65 TCTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCAATCTACCCTTCTATAGCTTTAG-A
5638 GTATAAGATTCACCTTCACG
129 GTATAAGATTCACCTTCACG
5658 GCTTCAATCTACCCCT-TACA
1 GCTTCAATCTACCCCTCTACA
5678 ACTATAAGAT
Statistics
Matches: 731, Mismatches: 162, Indels: 51
0.77 0.17 0.05
Matches are distributed among these distances:
147 1 0.00
148 18 0.02
149 225 0.31
150 461 0.63
151 21 0.03
152 5 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (148 bp):
GCTTCAATCTACCCCTCTACAGCTTTAGGGGTATAAGATTCACCTTCGCGGCTTCAATCTACCCT
CTACAGCTTTAGGGGTATAAGATTCACTTTTGCAACTTCAATCTACCCTTCTATAGCTTTAGAGT
ATAAGATTCACCTTCACG
Found at i:6714 original size:51 final size:51
Alignment explanation
Indices: 6632--6854 Score: 259
Period size: 51 Copynumber: 4.3 Consensus size: 51
6622 GCTATAAACG
* * *
6632 AAAGGATCCGATGACTAAGTGCCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGG-TCCGATGACTAGGTGTCATCATGAGTAAATGAATCCTTTACGGATT
*
6684 AAAGGTCCGATGACTAGGTGTCATCATGAGTAAATGAATCCTTTACAGATT
1 AAAGGTCCGATGACTAGGTGTCATCATGAGTAAATGAATCCTTTACGGATT
* * * * *
6735 AAAGGTCCAATGACTAGGTGTCGTCATGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAGGTGTCATCATGAGTAAATGAATCCTTTACGGATT
* * * * **
6786 AAAGGTCCGATGACTCA-GTGTTATCGTGAGTATATGAATTCCTATACGGAAC
1 AAAGGTCCGATGACT-AGGTGTCATCATGAGTAAATGAA-TCCTTTACGGATT
*
6838 AAGAGGTCCAATGACTA
1 AA-AGGTCCGATGACTA
6855 TATGTCAGCG
Statistics
Matches: 146, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
51 118 0.81
52 16 0.11
53 12 0.08
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAGGTCCGATGACTAGGTGTCATCATGAGTAAATGAATCCTTTACGGATT
Found at i:13479 original size:27 final size:27
Alignment explanation
Indices: 13448--13500 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
13438 GATGCATCTA
*
13448 CAAATGGTCCCTTGTTGGATTGCACCG
1 CAAATGGTCCCTTATTGGATTGCACCG
13475 CAAATGGTCCCTTATTGGATTGCACC
1 CAAATGGTCCCTTATTGGATTGCACC
13501 TACACGGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (27 bp):
CAAATGGTCCCTTATTGGATTGCACCG
Found at i:13923 original size:15 final size:14
Alignment explanation
Indices: 13903--13933 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
13893 TCCTCAAAGT
13903 AAGGGAGTTATAGAC
1 AAGGGAGTTATA-AC
13918 AAGGGAGTTATAAC
1 AAGGGAGTTATAAC
13932 AA
1 AA
13934 CAATCAGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AAGGGAGTTATAAC
Found at i:19584 original size:16 final size:16
Alignment explanation
Indices: 19561--19599 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
19551 AGCACCAAAG
19561 AAGCAAG-AGAAGGGAA
1 AAGCAAGAAGAA-GGAA
*
19577 AGGCAAGAAGAAGGAA
1 AAGCAAGAAGAAGGAA
19593 AAGCAAG
1 AAGCAAG
19600 CAAATGCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.56, C:0.08, G:0.36, T:0.00
Consensus pattern (16 bp):
AAGCAAGAAGAAGGAA
Found at i:20619 original size:22 final size:19
Alignment explanation
Indices: 20578--20636 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 19
20568 TTTTCAGTAC
20578 TTAGTTTCATGCATTTTAT
1 TTAGTTTCATGCATTTTAT
20597 TTAGTTGTCATTGCATTTTTAT
1 TTAGTT-TCA-TGCA-TTTTAT
20619 TT-G--TCACTGCATTTTAT
1 TTAGTTTCA-TGCATTTTAT
20636 T
1 T
20637 CGTTAGTGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 7 0.19
18 7 0.19
19 6 0.17
20 3 0.08
21 5 0.14
22 8 0.22
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (19 bp):
TTAGTTTCATGCATTTTAT
Found at i:20636 original size:17 final size:18
Alignment explanation
Indices: 20596--20633 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20586 ATGCATTTTA
* *
20596 TTTAGTTGTCATTGCATT
1 TTTATTTGTCACTGCATT
20614 TTTATTTGTCACTGCATT
1 TTTATTTGTCACTGCATT
20632 TT
1 TT
20634 ATTCGTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (18 bp):
TTTATTTGTCACTGCATT
Found at i:21267 original size:17 final size:18
Alignment explanation
Indices: 21225--21267 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
21215 TATAAAAAAG
21225 AAAAGAAAAGAAAAGAAA
1 AAAAGAAAAGAAAAGAAA
** *
21243 AAGCGAAAAG-AATGAAA
1 AAAAGAAAAGAAAAGAAA
21260 AAAAGAAA
1 AAAAGAAA
21268 TAATTTGTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAGAAAAGAAA
Found at i:25829 original size:18 final size:18
Alignment explanation
Indices: 25808--25843 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25798 GAGATAAATT
25808 AAAATCTTGAGAATCTTC
1 AAAATCTTGAGAATCTTC
*
25826 AAAATCTTGAGATTCTTC
1 AAAATCTTGAGAATCTTC
25844 TGAACACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (18 bp):
AAAATCTTGAGAATCTTC
Found at i:26384 original size:9 final size:8
Alignment explanation
Indices: 26366--26418 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
26356 TATATGAGCA
26366 TTTTTATT
1 TTTTTATT
26374 TTTTTATT
1 TTTTTATT
*
26382 TTTTTGTT
1 TTTTTATT
*
26390 TTTTGA-T
1 TTTTTATT
*
26397 TTTTGATT
1 TTTTTATT
*
26405 TTTTCATT
1 TTTTTATT
26413 ATTTTT
1 -TTTTT
26419 TATGAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
7 7 0.18
8 27 0.71
9 4 0.11
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.81
Consensus pattern (8 bp):
TTTTTATT
Found at i:29464 original size:8 final size:8
Alignment explanation
Indices: 29451--29491 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
29441 AACGAATATC
29451 TTTTTTCT
1 TTTTTTCT
29459 TTTTTTCT
1 TTTTTTCT
*
29467 TTTTCTTGT
1 TTTT-TTCT
*
29476 ATTTTTCT
1 TTTTTTCT
29484 TTTTTTCT
1 TTTTTTCT
29492 CTACTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTTCT
Found at i:29500 original size:19 final size:17
Alignment explanation
Indices: 29451--29491 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
29441 AACGAATATC
*
29451 TTTT-TTCTTTTTTTCT
1 TTTTCTTCTATTTTTCT
*
29467 TTTTCTTGTATTTTTCT
1 TTTTCTTCTATTTTTCT
29484 TTTT-TTCT
1 TTTTCTTCT
29492 CTACTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTCTTCTATTTTTCT
Found at i:31917 original size:13 final size:13
Alignment explanation
Indices: 31899--31934 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
31889 TTTCTTTCCT
31899 TTCTTCCTCCCTC
1 TTCTTCCTCCCTC
*
31912 TTCTTCCTCCTTC
1 TTCTTCCTCCCTC
31925 TTCTT-CTCCC
1 TTCTTCCTCCC
31935 CATTTTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCTTCCTCCCTC
Found at i:44565 original size:13 final size:13
Alignment explanation
Indices: 44547--44571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44537 TTAAGGGCAG
44547 TAAATATTTTTAT
1 TAAATATTTTTAT
44560 TAAATATTTTTA
1 TAAATATTTTTA
44572 GAGTCTTATT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:52820 original size:21 final size:21
Alignment explanation
Indices: 52795--52863 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
52785 GCCTTATTTT
52795 TAATCTAATGTTTATATTTCA
1 TAATCTAATGTTTATATTTCA
* * * *
52816 TAATCATTATATTACATATTT-T
1 TAATC-TAATGTT-TATATTTCA
52838 TAATCTAATGTTTATATTTCA
1 TAATCTAATGTTTATATTTCA
52859 TAATC
1 TAATC
52864 ATTATATTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
20 6 0.16
21 15 0.41
22 10 0.27
23 6 0.16
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (21 bp):
TAATCTAATGTTTATATTTCA
Found at i:52825 original size:16 final size:16
Alignment explanation
Indices: 52806--52871 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
52796 AATCTAATGT
52806 TTATATTTCATAATCA
1 TTATATTTCATAATCA
*
52822 TTATATTACAT-AT--
1 TTATATTTCATAATCA
* * **
52835 TTTTA-ATC-TAATGT
1 TTATATTTCATAATCA
52849 TTATATTTCATAATCA
1 TTATATTTCATAATCA
52865 TTATATT
1 TTATATT
52872 ACATTGTATC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
11 1 0.03
12 3 0.08
13 4 0.11
14 4 0.11
15 4 0.11
16 21 0.57
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.55
Consensus pattern (16 bp):
TTATATTTCATAATCA
Found at i:52841 original size:43 final size:43
Alignment explanation
Indices: 52789--52875 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
52779 GTATATGCCT
52789 TATTTTTAATCTAATGTTTATATTTCATAATCATTATATTACA
1 TATTTTTAATCTAATGTTTATATTTCATAATCATTATATTACA
52832 TATTTTTAATCTAATGTTTATATTTCATAATCATTATATTACA
1 TATTTTTAATCTAATGTTTATATTTCATAATCATTATATTACA
52875 T
1 T
52876 TGTATCTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.54
Consensus pattern (43 bp):
TATTTTTAATCTAATGTTTATATTTCATAATCATTATATTACA
Found at i:56309 original size:22 final size:22
Alignment explanation
Indices: 56273--56318 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
56263 AAAATTATGA
56273 ATATCTCATTTTACCATTTTATC
1 ATATCTCATTTTACCATTTT-TC
*
56296 ATATCTC-TTTTACCCTTTTTC
1 ATATCTCATTTTACCATTTTTC
56317 AT
1 AT
56319 TGGAACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 7 0.32
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATCTCATTTTACCATTTTTC
Found at i:66282 original size:23 final size:23
Alignment explanation
Indices: 66236--66609 Score: 419
Period size: 23 Copynumber: 16.1 Consensus size: 23
66226 CATGTTTGTT
* *
66236 CACAATATCACATCTTAATTTTTAAA
1 CACAA-ATCACA--TTAATATTTAAG
* *
66262 CATAAATCACATTAATATTTAAT
1 CACAAATCACATTAATATTTAAG
* * *
66285 TATAAATCATATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
* *
66308 CACAAATCATATTAATATTTAAA
1 CACAAATCACATTAATATTTAAG
*
66331 CATAAATCACATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
*
66354 CACAAATCACATT-ATAATTTGAG
1 CACAAATCACATTAAT-ATTTAAG
* *
66377 TACAAATCACATT-ATAATTTGAG
1 CACAAATCACATTAAT-ATTTAAG
*
66400 TACAAATCACATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
66423 CACAAATCACATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
* *
66446 CATAAATCACATTAATATTTGAG
1 CACAAATCACATTAATATTTAAG
* **
66469 CACAACTCGTATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
* * *
66492 TACTAATCACATTAATATTTGAG
1 CACAAATCACATTAATATTTAAG
* *
66515 CACAACTCATATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
* * *
66538 CATAAATTACATTAATACTTAAG
1 CACAAATCACATTAATATTTAAG
*
66561 CACAAATCACATTAATATTTAAT
1 CACAAATCACATTAATATTTAAG
* *
66584 CATAAATCATATTAATATTTAAG
1 CACAAATCACATTAATATTTAAG
66607 CAC
1 CAC
66610 CGATATAATA
Statistics
Matches: 298, Mismatches: 48, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
22 2 0.01
23 284 0.95
24 2 0.01
25 6 0.02
26 4 0.01
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (23 bp):
CACAAATCACATTAATATTTAAG
Found at i:70226 original size:43 final size:43
Alignment explanation
Indices: 70178--70281 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
70168 TAGTGGGTGA
* **
70178 TTTCCACGTAGCTTCCTTCTTTTTCATTTCTTGAA-GTAATTTT
1 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGAATGT-AGCTT
* *
70221 TTTCCACGTAGCTTCCTTCTTTGTCGTTTCTTGAATGTGGCTT
1 TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGAATGTAGCTT
70264 TTTCCACGTAGCTTCCTT
1 TTTCCACGTAGCTTCCTT
70282 TGTCTTGTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 53 0.96
44 2 0.04
ACGTcount: A:0.12, C:0.24, G:0.13, T:0.50
Consensus pattern (43 bp):
TTTCCACGTAGCTTCCTTCTTTGTCATTTCTTGAATGTAGCTT
Found at i:77960 original size:14 final size:15
Alignment explanation
Indices: 77931--77963 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
77921 TTAGGGTTTA
77931 AAATTTTTAATTAATT
1 AAATTTTT-ATTAATT
77947 AAATTTTT-TTAATT
1 AAATTTTTATTAATT
77961 AAA
1 AAA
77964 GATTTATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTTTATTAATT
Found at i:81413 original size:65 final size:65
Alignment explanation
Indices: 81285--81413 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 65
81275 GCCCATATGG
* * * *
81285 TCTGCCACATGGCCTACCACAAGATCGTGTGACCCACACGGGCTGTCACGCGGTCTACCACACGA
1 TCTGACACATGGCCTACCACAAGATCGTGTGACCCACACAGGCTGTCACACGGCCTACCACACGA
* *
81350 TCTGACACATGGCCTCCCACACGATCGTGTGACCCACACAGGCTGTCACACGGCCT-CCTACACG
1 TCTGACACATGGCCTACCACAAGATCGTGTGACCCACACAGGCTGTCACACGGCCTACC-ACACG
81414 GTTGTGTGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 2 0.04
65 55 0.96
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.17
Consensus pattern (65 bp):
TCTGACACATGGCCTACCACAAGATCGTGTGACCCACACAGGCTGTCACACGGCCTACCACACGA
Found at i:82316 original size:23 final size:23
Alignment explanation
Indices: 82289--82346 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
82279 GTTCACGAAC
* **
82289 AAGCTCGTTTATGGTTCGTTTAT
1 AAGCTCGTTTATAGCCCGTTTAT
* *
82312 TAGCTCGTTTAAAGCCCGTTTAT
1 AAGCTCGTTTATAGCCCGTTTAT
82335 AAGCTCGTTTAT
1 AAGCTCGTTTAT
82347 TAGACCCATC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (23 bp):
AAGCTCGTTTATAGCCCGTTTAT
Found at i:82321 original size:12 final size:12
Alignment explanation
Indices: 82290--82349 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
82280 TTCACGAACA
82290 AGCTCGTTTA-T
1 AGCTCGTTTATT
* *
82301 GGTTCGTTTATT
1 AGCTCGTTTATT
*
82313 AGCTCGTTTA-A
1 AGCTCGTTTATT
* *
82324 AGCCCGTTTATA
1 AGCTCGTTTATT
82336 AGCTCGTTTATT
1 AGCTCGTTTATT
82348 AG
1 AG
82350 ACCCATCAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
11 17 0.44
12 22 0.56
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (12 bp):
AGCTCGTTTATT
Found at i:83462 original size:2 final size:2
Alignment explanation
Indices: 83457--83494 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
83447 AGCAAAGAAC
83457 TA TA TA TA -A 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 TA T
83495 GTCACACGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86342 original size:23 final size:23
Alignment explanation
Indices: 86311--86388 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
86301 TTAGTTAACA
86311 TAAACGAACATGTTCGCGAACGT
1 TAAACGAACATGTTCGCGAACGT
* * *
86334 TAGATGAACATGTTAGCGAACGT
1 TAAACGAACATGTTCGCGAACGT
*
86357 TAAACGAACATGTTCACGAACGT
1 TAAACGAACATGTTCGCGAACGT
86380 TAAACGAAC
1 TAAACGAAC
86389 GAGCACGAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (23 bp):
TAAACGAACATGTTCGCGAACGT
Found at i:90496 original size:40 final size:40
Alignment explanation
Indices: 90395--90528 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 40
90385 AGTTATCTTG
* * *
90395 GATAGAATTCAAGCTTCGACTTAGCAGGCTACGAGTCGAT
1 GATAGAATTCAAGCTTCGGCTTAGCAGGCTATGAGTCGGT
* * *
90435 GGTAGAATTCAAGCTTTGGCTTAGGAGGCTATGAGTCGGT
1 GATAGAATTCAAGCTTCGGCTTAGCAGGCTATGAGTCGGT
** * * * *
90475 GATAGAATTCAAGAATCGGCTTTGTAGGTTATGAGCCGGT
1 GATAGAATTCAAGCTTCGGCTTAGCAGGCTATGAGTCGGT
*
90515 G-TTGAAATTCAAGC
1 GATAG-AATTCAAGC
90529 CAAGCTATAG
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.03
40 75 0.97
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (40 bp):
GATAGAATTCAAGCTTCGGCTTAGCAGGCTATGAGTCGGT
Found at i:90957 original size:40 final size:40
Alignment explanation
Indices: 90846--90957 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
90836 AGTTATCTTG
* * * * *
90846 GATAGAATTCAAGCTTCGACTTAGCAAGCTACGAGTTGGT
1 GATAGAATTCAAGCTTCGGCTTAGCAGGCTATGAGTCGAT
* *
90886 GGTAGAATTCAAGCTTTGGCTTAGCAGGCTATGACG-CGAT
1 GATAGAATTCAAGCTTCGGCTTAGCAGGCTATGA-GTCGAT
*
90926 GATAGAATTCAAGCATCGGCTTAGCAGGCTAT
1 GATAGAATTCAAGCTTCGGCTTAGCAGGCTAT
90958 AAGCCGGTGT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 60 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (40 bp):
GATAGAATTCAAGCTTCGGCTTAGCAGGCTATGAGTCGAT
Found at i:90975 original size:40 final size:40
Alignment explanation
Indices: 90846--91012 Score: 124
Period size: 40 Copynumber: 4.0 Consensus size: 40
90836 AGTTATCTTG
* * ** **
90846 GATAGAATTCAAGC-TTCGACTTAGCAAGCTACGAGTTGGT
1 GATAGAATTCAAGCATT-GGCTTAGCAGGCTATAAGCCGGT
* * * *
90886 GGTAGAATTCAAGCTTTGGCTTAGCAGGCTATGA-CGCGAT
1 GATAGAATTCAAGCATTGGCTTAGCAGGCTATAAGC-CGGT
*
90926 GATAGAATTCAAGCATCGGCTTAGCAGGCTATAAGCCGGT
1 GATAGAATTCAAGCATTGGCTTAGCAGGCTATAAGCCGGT
* *
90966 G-TTGAAATTCAAGCCAAGCTATGGCTTAGCAGGCGATAAGCCGGT
1 GATAG-AATTCAAG-C-A--T-TGGCTTAGCAGGCTATAAGCCGGT
91011 GA
1 GA
91013 AATCGTAAGG
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.02
40 71 0.70
41 4 0.04
42 1 0.01
44 1 0.01
45 23 0.23
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
GATAGAATTCAAGCATTGGCTTAGCAGGCTATAAGCCGGT
Found at i:94362 original size:21 final size:22
Alignment explanation
Indices: 94338--94381 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
94328 CGTATGTCAC
94338 TTTC-AAAATAGTG-GAGTCAAG
1 TTTCAAAAATAGTGTG-GTCAAG
94359 TTTCTAAAAATAGTGTGGTCAAG
1 TTTC-AAAAATAGTGTGGTCAAG
94382 CGACCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
23 15 0.75
24 1 0.05
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (22 bp):
TTTCAAAAATAGTGTGGTCAAG
Found at i:104358 original size:24 final size:24
Alignment explanation
Indices: 104325--104397 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
104315 AAATGGATGT
*
104325 TTAACTTTTCACCTTTCATC-TCC
1 TTAACCTTTCACCTTTCATCTTCC
* *
104348 ATTAACCTTTCACCTTCCATCTTTC
1 -TTAACCTTTCACCTTTCATCTTCC
104373 TTAA-CTCTTCACCTTTCAT-TTCC
1 TTAACCT-TTCACCTTTCATCTTCC
104396 TT
1 TT
104398 GTAACTCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.17
24 33 0.79
25 2 0.05
ACGTcount: A:0.18, C:0.34, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAACCTTTCACCTTTCATCTTCC
Found at i:106770 original size:18 final size:18
Alignment explanation
Indices: 106732--106771 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
106722 CCAAATATAA
* *
106732 TATTTTAAATATCTAAGT
1 TATTTTAAATATCGAAAT
*
106750 TATTTTTAATATCGAAAT
1 TATTTTAAATATCGAAAT
106768 TATT
1 TATT
106772 CAGATCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
TATTTTAAATATCGAAAT
Found at i:118357 original size:17 final size:17
Alignment explanation
Indices: 118317--118351 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
118307 GGTGCTTCCG
118317 CAATAAAATAGCTTCTA
1 CAATAAAATAGCTTCTA
118334 CAATAAAAT-GCTT-TA
1 CAATAAAATAGCTTCTA
118349 CAA
1 CAA
118352 ACTAAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 4 0.22
17 9 0.50
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.29
Consensus pattern (17 bp):
CAATAAAATAGCTTCTA
Found at i:125258 original size:19 final size:21
Alignment explanation
Indices: 125224--125273 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
125214 AAATTAAAAC
125224 AAAA-TCAAAATAATTT-TAA
1 AAAATTCAAAATAATTTATAA
125243 AAAATTCAAAAT-ATTTATAA
1 AAAATTCAAAATAATTTATAA
*
125263 AAATTTCAAAA
1 AAAATTCAAAA
125274 AAAAAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATTCAAAATAATTTATAA
Found at i:134357 original size:17 final size:18
Alignment explanation
Indices: 134331--134364 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
134321 AAAAAAAACA
134331 TTTAAATTAAAT-TTCAT
1 TTTAAATTAAATGTTCAT
*
134348 TTTAATTTAAATGTTCA
1 TTTAAATTAAATGTTCA
134365 ATTACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAAATTAAATGTTCAT
Found at i:137426 original size:17 final size:17
Alignment explanation
Indices: 137408--137465 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
137398 ATTAGGTTTT
* *
137408 AAATCCATTTAAATTTT
1 AAATACATTTAAATTTA
* *
137425 AATTAAATTTAAATTTA
1 AAATACATTTAAATTTA
137442 AAAGGTACATTTAAATTTA
1 AAA--TACATTTAAATTTA
137461 AAATA
1 AAATA
137466 AAATTGAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATACATTTAAATTTA
Found at i:138241 original size:206 final size:206
Alignment explanation
Indices: 137930--138492 Score: 725
Period size: 206 Copynumber: 2.7 Consensus size: 206
137920 ATTTCCCAGT
* * ** * * * * *
137930 ATCAGGACGTTAATCCGTTTTATTATTTCGACCTGCTTCTCAATGTCTCATCAGGAAACTGGGGT
1 ATCAGGAAGCTAA-CCGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCGTCAGGAAGCTGGGAT
* * * * * * * *
137995 TCGAAGGTTTGCTCACACCGAGCGTGGGCTTGACTTGGTCTTCTTCTCGGTATCTCATCAGAAAG
65 TCGAAGATTTGCTCACATCGAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAG
* * * * *
138060 ATGACTGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGATGAATTTGGTTCACT
130 ATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACT
138125 TCTCAGTATCTC
195 TCTCAGTATCTC
* *
138137 ATTAGGAAGCTAACCGTTTTATTGCTTCGACCTGCTTCTGAGTATCTCGTCAGGAAGCTGGGATT
1 ATCAGGAAGCTAACCGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCGTCAGGAAGCTGGGATT
*
138202 TGAAGATTTGCTCACATCGAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGA
66 CGAAGATTTGCTCACATCGAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGA
* *
138267 TGACCGCATTGCTTGTTTCAATCCGCTTCTTTGTATCTCATCAGGAAGACGAATTTGGTTCACTT
131 TGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTT
138332 CTCAGTATCTC
196 CTCAGTATCTC
* *
138343 ATCAGGAAGTTAACCGTTTTATTGCTTCGACCTGCCTCTCAGTATCTCGTCAGGAAGCT-GGAGT
1 ATCAGGAAGCTAACCGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCGTCAGGAAGCTGGGA-T
* * ** * **
138407 TCGAAGATTTGCTCGCTTTAAGCCTCGTTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGG
65 TCGAAGATTTGCTCACATCGAGCAT-GAGT--TTGATTTGGTCTTCTTCTCAGTATCTCATCAGG
* *
138472 AAGGTGACCACATCGC-TGTTT
127 AAGATGACCGCATCGCTTGTTT
138493 ATGGATGGTC
Statistics
Matches: 310, Mismatches: 42, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
205 3 0.01
206 244 0.79
207 12 0.04
208 5 0.02
209 46 0.15
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (206 bp):
ATCAGGAAGCTAACCGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCGTCAGGAAGCTGGGATT
CGAAGATTTGCTCACATCGAGCATGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGA
TGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTT
CTCAGTATCTC
Found at i:148886 original size:57 final size:58
Alignment explanation
Indices: 148753--148886 Score: 130
Period size: 57 Copynumber: 2.3 Consensus size: 58
148743 TTTCGGATAC
** *
148753 CCGGGGGCAAAATGGTAATTTTGGGAAAGCTTGGGGTTAAGAATGGAATCTTTAGACAT
1 CCGGGGGCAAAATGGTAATTTT-GGAAAGCTTAAGGTGAAGAATGGAATCTTTAGACAT
* * * * * * *
148812 TC-GGGGCTAAAAGGGTAATTTT-GAGAGTTTAAGGTCGAA-AATGGAGTTTTTGGACAT
1 CCGGGGGC-AAAATGGTAATTTTGGAAAGCTTAAGGT-GAAGAATGGAATCTTTAGACAT
148869 CCGGGGGCAAAATGGTAA
1 CCGGGGGCAAAATGGTAA
148887 AAAATGGGAT
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
57 34 0.57
58 12 0.20
59 14 0.23
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.27
Consensus pattern (58 bp):
CCGGGGGCAAAATGGTAATTTTGGAAAGCTTAAGGTGAAGAATGGAATCTTTAGACAT
Found at i:148971 original size:29 final size:29
Alignment explanation
Indices: 148929--149157 Score: 232
Period size: 29 Copynumber: 7.8 Consensus size: 29
148919 ATGGTATGTC
* *
148929 AAAAATGGGATTTTTGGAAGCTCGAGGGT
1 AAAAATGGAATTTTTGGAAGTTCGAGGGT
148958 AAAAATGGAATTTTTGGAAGTTTCGA-GGT
1 AAAAATGGAATTTTTGGAAG-TTCGAGGGT
* * *
148987 CAAAAATGGGATTTTTGGAAGCTCGGGGGT
1 -AAAAATGGAATTTTTGGAAGTTCGAGGGT
*
149017 AAAAATGGAATTTTTGGAAGTTTTG-GGGT
1 AAAAATGGAATTTTTGGAAG-TTCGAGGGT
* *
149046 CAAAAATGGGATTTTTGGAAGTT-TAGGGGT
1 -AAAAATGGAATTTTTGGAAGTTCGA-GGGT
* **
149076 AAAAATGGAATTTTTTGAAGTTTTAGGGTT
1 AAAAATGGAATTTTTGGAAGTTCGAGGG-T
* *
149106 GAAAAT-GATATTTTTAGAAGTTCGAGGGT
1 AAAAATGGA-ATTTTTGGAAGTTCGAGGGT
*
149135 AAAAATAGAATTTTTGGATAGTT
1 AAAAATGGAATTTTTGGA-AGTT
149158 TAGGGACCTT
Statistics
Matches: 170, Mismatches: 18, Indels: 23
0.81 0.09 0.11
Matches are distributed among these distances:
29 89 0.52
30 81 0.48
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTCGAGGGT
Found at i:149160 original size:59 final size:59
Alignment explanation
Indices: 148926--149162 Score: 309
Period size: 59 Copynumber: 4.0 Consensus size: 59
148916 AAAATGGTAT
*
148926 GTCAAAAATGGGATTTTTGGAAGCTCGAGGGTAAAAATGGAATTTTTGGAAG-TTTCGAG
1 GTCAAAAATGGGATTTTTGGAAGCTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTAG-G
* *
148985 GTCAAAAATGGGATTTTTGGAAGCTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGGG
1 GTCAAAAATGGGATTTTTGGAAGCTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTAGG
** *
149044 GTCAAAAATGGGATTTTTGGAAG-TTTAGGGGTAAAAATGGAATTTTTTGAAGTTTTAGG
1 GTCAAAAATGGGATTTTTGGAAGCTCGA-GGGTAAAAATGGAATTTTTGGAAGTTTTAGG
** ** * * *
149103 GTTGAAAATGATATTTTTAGAAGTTCGAGGGTAAAAATAGAATTTTTGGATAG-TTTAGG
1 GTCAAAAATGGGATTTTTGGAAGCTCGAGGGTAAAAATGGAATTTTTGGA-AGTTTTAGG
149162 G
1 G
149163 ACCTTTAGGG
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.01
59 149 0.94
60 8 0.05
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (59 bp):
GTCAAAAATGGGATTTTTGGAAGCTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTAGG
Found at i:150897 original size:11 final size:11
Alignment explanation
Indices: 150869--150899 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
150859 TTATCTTAAA
150869 TATAAATTTAT
1 TATAAATTTAT
150880 T-TAAATTTAT
1 TATAAATTTAT
150890 TATAAATTTA
1 TATAAATTTA
150900 AATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATAAATTTAT
Found at i:150902 original size:17 final size:16
Alignment explanation
Indices: 150832--150888 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
150822 TGGGCCCAAC
150832 AAATTTAAATTTATTTT
1 AAATTTAAATTTA-TTT
* *
150849 AAAATTAAGTTTATCTT
1 AAATTTAAATTTAT-TT
*
150866 AAATATAAATTTATTT
1 AAATTTAAATTTATTT
150882 AAATTTA
1 AAATTTA
150889 TTATAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.27
17 24 0.73
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AAATTTAAATTTATTT
Found at i:151567 original size:24 final size:24
Alignment explanation
Indices: 151517--151568 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
151507 AAATATCATT
* **
151517 AATAATATTATTAATTATATTGGC
1 AATAATATTACTAATTATATTAAC
151541 AATAATATTACTAA-TATCATTAAC
1 AATAATATTACTAATTAT-ATTAAC
151565 AATA
1 AATA
151569 TTAATGACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (24 bp):
AATAATATTACTAATTATATTAAC
Found at i:152678 original size:29 final size:29
Alignment explanation
Indices: 152637--153243 Score: 418
Period size: 30 Copynumber: 20.6 Consensus size: 29
152627 CGGAGGACCT
152637 TAAACTGTCCAAAAATTACCATTTTACCCC
1 TAAACT-TCCAAAAATTACCATTTTACCCC
* *
152667 TAAACATCCAAAAA-TCCCATTTTTGACCCC
1 TAAACTTCCAAAAATTACCA-TTTT-ACCCC
*
152697 -AAACTTTCAAAAAATTACCATTTTACCCC
1 TAAAC-TTCCAAAAATTACCATTTTACCCC
** * *
152726 CGAACTTCCAAAAAAT-CTCATTTTTGATCCC
1 TAAACTTCCAAAAATTAC-CA-TTTT-ACCCC
* *
152757 GAATCTTCC-AAAATTACCATTTTACCCC
1 TAAACTTCCAAAAATTACCATTTTACCCC
* * *
152785 TAAACTTCTAAAAA-TCCCATTTTTGCCTCC
1 TAAACTTCCAAAAATTACCA-TTTTACC-CC
* * **
152815 GAACCTTCCAAAAATTACCATAATACCCC
1 TAAACTTCCAAAAATTACCATTTTACCCC
* *
152844 TGAACTTCCAAAAA-T-CTCATTTTTTCCCC
1 TAAACTTCCAAAAATTAC-CA-TTTTACCCC
* *
152873 TGAACCTTCCAAAAATTACCATTCTACCCCC
1 T-AAACTTCCAAAAATTACCATTTTA-CCCC
* * *
152904 TAAACTTTCAAAAA-TCCCATTTTTGACCTC
1 TAAACTTCCAAAAATTACCA-TTTT-ACCCC
* * * *
152934 GAACCTTTCAAAAATTACCATTTTACACC
1 TAAACTTCCAAAAATTACCATTTTACCCC
* * *
152963 TAAACTTTCAAAAA-TCCCATTTTTAACCC
1 TAAACTTCCAAAAATTACCA-TTTTACCCC
*
152992 TAAAACTTCTAAAAATTACCATTTTACCCC
1 T-AAACTTCCAAAAATTACCATTTTACCCC
*
153022 TAAACTTCCAAAAA-TCCCATTTTGACCCC
1 TAAACTTCCAAAAATTACCATTTT-ACCCC
* *
153051 AAAACTTCTAAAAATTACCATTTTACCCC
1 TAAACTTCCAAAAATTACCATTTTACCCC
* * *
153080 TAAA-ATCCAAAAAAT-CTCATTTTTAACCC
1 TAAACTTCCAAAAATTAC-CA-TTTTACCCC
** *
153109 TAAAACTTTTAAAAATTACTGA-TTTACCCC
1 T-AAACTTCCAAAAATTAC-CATTTTACCCC
*
153139 TAAAC-TCTCAAAAA-TCCCATTTTTGACCCC
1 TAAACTTC-CAAAAATTACCA-TTTT-ACCCC
* * *
153169 AAAACTTCTAAAAATTATCATTTTACCCC
1 TAAACTTCCAAAAATTACCATTTTACCCC
** *
153198 CGAACTTCCAAAAA-TCCCATTTTTAACCCC
1 TAAACTTCCAAAAATTACCA-TTTT-ACCCC
* *
153228 AAAACATCCAAAAATT
1 TAAACTTCCAAAAATT
153244 TCTATTTTTA
Statistics
Matches: 449, Mismatches: 87, Indels: 81
0.73 0.14 0.13
Matches are distributed among these distances:
27 3 0.01
28 50 0.11
29 171 0.38
30 172 0.38
31 49 0.11
32 4 0.01
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.31
Consensus pattern (29 bp):
TAAACTTCCAAAAATTACCATTTTACCCC
Found at i:153251 original size:59 final size:59
Alignment explanation
Indices: 152638--153243 Score: 688
Period size: 59 Copynumber: 10.3 Consensus size: 59
152628 GGAGGACCTT
*
152638 AAACTGTCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATCCCATTTTTGACCCC-
1 AAACT-TCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCCA
* ** * * *
152697 AAACTTTCAAAAAATTACCATTTTACCCCCGAACTTCCAAAAAATCTCATTTTTGATCCCG
1 AAAC-TTCCAAAAATTACCATTTTACCCCTAAACTTCC-AAAAATCCCATTTTTGACCCCA
* * *
152758 AATCTTCC-AAAATTACCATTTTACCCCTAAACTTCTAAAAATCCCATTTTTG-CCTCCG
1 AAACTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACC-CCA
* ** * * * *
152816 AACCTTCCAAAAATTACCATAATACCCCTGAACTTCCAAAAATCTCATTTTT-TCCCCTG
1 AAACTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCC-A
* * * * *
152875 AACCTTCCAAAAATTACCATTCTACCCCCTAAACTTTCAAAAATCCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACCATTTTA-CCCCTAAACTTCCAAAAATCCCATTTTTGACCCCA
* * * * * *
152935 AACCTTTCAAAAATTACCATTTTACACCTAAACTTTCAAAAATCCCATTTTTAACCCTA
1 AAACTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCCA
*
152994 AAACTTCTAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCA-TTTTGACCCCA
1 AAACTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCCA
* * * * *
153052 AAACTTCTAAAAATTACCATTTTACCCCTAAA-ATCCAAAAAATCTCATTTTTAACCCTA
1 AAACTTCCAAAAATTACCATTTTACCCCTAAACTTCC-AAAAATCCCATTTTTGACCCCA
** *
153111 AAACTTTTAAAAATTACTGA-TTTACCCCTAAAC-TCTCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATTAC-CATTTTACCCCTAAACTTC-CAAAAATCCCATTTTTGACCCCA
* * ** *
153170 AAACTTCTAAAAATTATCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCCA
*
153229 AAACATCCAAAAATT
1 AAACTTCCAAAAATT
153244 TCTATTTTTA
Statistics
Matches: 474, Mismatches: 57, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
57 4 0.01
58 78 0.16
59 311 0.66
60 75 0.16
61 6 0.01
ACGTcount: A:0.37, C:0.30, G:0.02, T:0.31
Consensus pattern (59 bp):
AAACTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATCCCATTTTTGACCCCA
Found at i:154790 original size:59 final size:58
Alignment explanation
Indices: 154719--155024 Score: 255
Period size: 59 Copynumber: 5.3 Consensus size: 58
154709 CTCGGGGAGC
154719 AAAATGGTAATTTTTGGAAATTCGAAGGTAAAATGGTAATTTTTGGAAAGTTCAGGTCAA
1 AAAATGGTAATTTTTGGAAATTCG-AGGTAAAATGGTAATTTTTGGAAAGTTCAGGTC-A
154779 AAAATGG-AATTTTTGGAAATTCG-GGT-AAATGGTAATTTTTGGAAA-TTCGAAGGT--
1 AAAATGGTAATTTTTGGAAATTCGAGGTAAAATGGTAATTTTTGGAAAGTTC--AGGTCA
*
154833 AAAATGGTAATTTTTGGAAAGTTC-AGGTCAAAAAATGG-AATTTTTGGAAA-TTCGGGT--
1 AAAATGGTAATTTTTGGAAA-TTCGAGGT---AAAATGGTAATTTTTGGAAAGTTCAGGTCA
* ** * * * *
154890 -AAATGGTAATTTTTGGAAGTGAGGGGGCAAAATGG-GATTTTTGGAAAGTTCTGGGTCA
1 AAAATGGTAATTTTTGGAAAT-TCGAGGTAAAATGGTAATTTTTGGAAAGTTC-AGGTCA
* * ** * *
154948 AAAATGAT-ATTTTTGGAAGTGAGAGGGTAAAATGATAATTTTTGGAAAGTTCAGGGCCA
1 AAAATGGTAATTTTTGGAAATTCGA-GGTAAAATGGTAATTTTTGGAAAGTTCA-GGTCA
**
155007 AAAATAAT-ATTTTTGGAA
1 AAAATGGTAATTTTTGGAA
155025 GTTTGAGGGT
Statistics
Matches: 210, Mismatches: 17, Indels: 39
0.79 0.06 0.15
Matches are distributed among these distances:
54 25 0.12
55 19 0.09
56 47 0.22
57 13 0.06
58 20 0.10
59 73 0.35
60 13 0.06
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGAAATTCGAGGTAAAATGGTAATTTTTGGAAAGTTCAGGTCA
Found at i:154835 original size:85 final size:85
Alignment explanation
Indices: 154720--154965 Score: 381
Period size: 85 Copynumber: 2.9 Consensus size: 85
154710 TCGGGGAGCA
154720 AAATGGTAATTTTTGGAAATTCGAAGGTAAAATGGTAATTTTTGGAAAGTTCAGGTCAAAAAATG
1 AAATGGTAATTTTTGGAAATTCGAAGGTAAAATGGTAATTTTTGGAAAGTTCAGGTCAAAAAATG
154785 GAATTTTTGGAAATTCGGGT
66 GAATTTTTGGAAATTCGGGT
154805 AAATGGTAATTTTTGGAAATTCGAAGGTAAAATGGTAATTTTTGGAAAGTTCAGGTCAAAAAATG
1 AAATGGTAATTTTTGGAAATTCGAAGGTAAAATGGTAATTTTTGGAAAGTTCAGGTCAAAAAATG
154870 GAATTTTTGGAAATTCGGGT
66 GAATTTTTGGAAATTCGGGT
* ** ** * * *
154890 AAATGGTAATTTTTGGAAGTGAGGGGGCAAAATGG-GATTTTTGGAAAGTTCTGGGTC-AAAAAT
1 AAATGGTAATTTTTGGAAATTCGAAGGTAAAATGGTAATTTTTGGAAAGTTC-AGGTCAAAAAAT
154953 -GATATTTTTGGAA
65 GGA-ATTTTTGGAA
154966 GTGAGAGGGT
Statistics
Matches: 151, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
83 2 0.01
84 31 0.21
85 118 0.78
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.34
Consensus pattern (85 bp):
AAATGGTAATTTTTGGAAATTCGAAGGTAAAATGGTAATTTTTGGAAAGTTCAGGTCAAAAAATG
GAATTTTTGGAAATTCGGGT
Found at i:155003 original size:29 final size:29
Alignment explanation
Indices: 154719--155003 Score: 244
Period size: 29 Copynumber: 10.0 Consensus size: 29
154709 CTCGGGGAGC
*
154719 AAAATGGTAATTTTTGGAAA-TTCGAAGGT
1 AAAATGGTAATTTTTGGAAAGTTC-AGGGT
154748 AAAATGGTAATTTTTGGAAAGTTCA-GGT
1 AAAATGGTAATTTTTGGAAAGTTCAGGGT
154776 CAAAAAATGG-AATTTTTGGAAA-TTC-GGGT
1 ---AAAATGGTAATTTTTGGAAAGTTCAGGGT
*
154805 -AAATGGTAATTTTTGGAAA-TTCGAAGGT
1 AAAATGGTAATTTTTGGAAAGTTC-AGGGT
154833 AAAATGGTAATTTTTGGAAAGTTCA-GGT
1 AAAATGGTAATTTTTGGAAAGTTCAGGGT
154861 CAAAAAATGG-AATTTTTGGAAA-TTC-GGGT
1 ---AAAATGGTAATTTTTGGAAAGTTCAGGGT
* *
154890 -AAATGGTAATTTTTGG-AAG-TGAGGGGGC
1 AAAATGGTAATTTTTGGAAAGTTCA--GGGT
* *
154918 AAAATGG-GATTTTTGGAAAGTTCTGGGT
1 AAAATGGTAATTTTTGGAAAGTTCAGGGT
* **
154946 CAAAAATGAT-ATTTTTGG-AAGTGAGAGGGT
1 --AAAATGGTAATTTTTGGAAAGT-TCAGGGT
*
154976 AAAATGATAATTTTTGGAAAGTTCAGGG
1 AAAATGGTAATTTTTGGAAAGTTCAGGG
155004 CCAAAAATAA
Statistics
Matches: 215, Mismatches: 13, Indels: 56
0.76 0.05 0.20
Matches are distributed among these distances:
25 15 0.07
26 24 0.11
28 31 0.14
29 78 0.36
30 53 0.25
31 14 0.07
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAAGTTCAGGGT
Found at i:155027 original size:29 final size:29
Alignment explanation
Indices: 154748--155024 Score: 138
Period size: 30 Copynumber: 9.6 Consensus size: 29
154738 ATTCGAAGGT
* *
154748 AAAATGGTAATTTTTGGAAAGTTCAGGTCAA
1 AAAATGAT-ATTTTTGGAAAGTTCAGGGC-A
154779 AAAATGGA-ATTTTTGGAAA-TTC-GGG--
1 AAAAT-GATATTTTTGGAAAGTTCAGGGCA
* * * *
154804 TAAATGGTAATTTTTGGAAA-TTCGAAGG-T
1 AAAATGAT-ATTTTTGGAAAGTTC-AGGGCA
* *
154833 AAAATGGTAATTTTTGGAAAGTTCAGGTCAA
1 AAAATGAT-ATTTTTGGAAAGTTCAGGGC-A
154864 AAAATGGA-ATTTTTGGAAA-TTC-GGG--
1 AAAAT-GATATTTTTGGAAAGTTCAGGGCA
* * *
154889 TAAATGGTAATTTTTGG-AAG-TGAGGGGGC-
1 AAAATGAT-ATTTTTGGAAAGTTCA--GGGCA
** *
154918 AAAATGGGATTTTTGGAAAGTTCTGGGTCA
1 AAAATGATATTTTTGGAAAGTTCAGGG-CA
* **
154948 AAAATGATATTTTTGG-AAG-TGAGAGGGT
1 AAAATGATATTTTTGGAAAGTTCAG-GGCA
154976 AAAATGATAATTTTTGGAAAGTTCAGGGCCA
1 AAAATGAT-ATTTTTGGAAAGTTCAGGG-CA
*
155007 AAAATAATATTTTTGGAA
1 AAAATGATATTTTTGGAA
155025 GTTTGAGGGT
Statistics
Matches: 192, Mismatches: 28, Indels: 53
0.70 0.10 0.19
Matches are distributed among these distances:
24 2 0.01
25 11 0.06
26 22 0.11
28 30 0.16
29 50 0.26
30 55 0.29
31 20 0.10
32 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (29 bp):
AAAATGATATTTTTGGAAAGTTCAGGGCA
Found at i:155033 original size:59 final size:60
Alignment explanation
Indices: 154898--155039 Score: 184
Period size: 59 Copynumber: 2.4 Consensus size: 60
154888 GTAAATGGTA
** * * *
154898 ATTTTTGGAAGTGAG-GGG-GCAAAATG-GGATTTTTGGAAAGTTCTGGGTCAAAAATGAT
1 ATTTTTGGAAGTGAGAGGGTG-AAAATGATAATTTTTGGAAAGTTCAGGGCCAAAAATAAT
154956 ATTTTTGGAAGTGAGAGGGT-AAAATGATAATTTTTGGAAAGTTCAGGGCCAAAAATAAT
1 ATTTTTGGAAGTGAGAGGGTGAAAATGATAATTTTTGGAAAGTTCAGGGCCAAAAATAAT
**
155015 ATTTTTGGAAGTTTGAGGGTGAAAA
1 ATTTTTGGAAGTGAGAGGGTGAAAA
155040 AGCAAATTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
58 21 0.29
59 48 0.66
60 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.32
Consensus pattern (60 bp):
ATTTTTGGAAGTGAGAGGGTGAAAATGATAATTTTTGGAAAGTTCAGGGCCAAAAATAAT
Found at i:155039 original size:29 final size:28
Alignment explanation
Indices: 154948--155039 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 28
154938 TTCTGGGTCA
**
154948 AAAATGATATTTTTGGAAGTGAGAGGGT
1 AAAATGATATTTTTGGAAGTTTGAGGGT
* *
154976 AAAATGATAATTTTTGGAAAG-TTCAGGGCCA
1 AAAATGAT-ATTTTTGG-AAGTTTGAGGG--T
*
155007 AAAATAATATTTTTGGAAGTTTGAGGGT
1 AAAATGATATTTTTGGAAGTTTGAGGGT
155035 GAAAA
1 -AAAA
155040 AGCAAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
28 8 0.16
29 19 0.37
30 17 0.33
31 7 0.14
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (28 bp):
AAAATGATATTTTTGGAAGTTTGAGGGT
Found at i:155040 original size:30 final size:31
Alignment explanation
Indices: 154926--155040 Score: 109
Period size: 30 Copynumber: 3.9 Consensus size: 31
154916 GCAAAATGGG
154926 ATTTTTGGAAAGTTCT--GGGTCAAAAATGAT
1 ATTTTTGGAAAGTT-TGAGGGTCAAAAATGAT
**
154956 ATTTTTGG-AAGTGAGAGGGT--AAAATGAT
1 ATTTTTGGAAAGTTTGAGGGTCAAAAATGAT
* * *
154984 AATTTTTGGAAAG-TTCAGGGCCAAAAATAAT
1 -ATTTTTGGAAAGTTTGAGGGTCAAAAATGAT
*
155015 ATTTTTGG-AAGTTTGAGGGTGAAAAA
1 ATTTTTGGAAAGTTTGAGGGTCAAAAA
155041 GCAAATTTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
28 8 0.12
29 19 0.28
30 34 0.50
31 7 0.10
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (31 bp):
ATTTTTGGAAAGTTTGAGGGTCAAAAATGAT
Found at i:155049 original size:30 final size:28
Alignment explanation
Indices: 154926--155055 Score: 79
Period size: 30 Copynumber: 4.4 Consensus size: 28
154916 GCAAAATGGG
*
154926 ATTTTTGGAAAGTTCT--GGGTCAAAAATGAT
1 ATTTTTGG-AAGTT-TGAGGGT-AAAAA-GAA
** *
154956 ATTTTTGGAAGTGAGAGGGTAAAATGATA
1 ATTTTTGGAAGTTTGAGGGTAAAAAGA-A
* * *
154985 ATTTTTGGAAAG-TTCAGGGCCAAAAATAA
1 ATTTTTGG-AAGTTTGAGGG-TAAAAAGAA
155014 TATTTTTGGAAGTTTGAGGGTGAAAAAGCAA
1 -ATTTTTGGAAGTTTGAGGGT-AAAAAG-AA
155045 A-TTTTGGAAGT
1 ATTTTTGGAAGT
155056 CCAAGGGAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
28 2 0.03
29 34 0.44
30 40 0.51
31 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (28 bp):
ATTTTTGGAAGTTTGAGGGTAAAAAGAA
Found at i:156899 original size:17 final size:17
Alignment explanation
Indices: 156830--156900 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
156820 GGACATTATT
156830 AATTT-AAATAAATTTA
1 AATTTAAAATAAATTTA
**
156846 AA-TTACAAATGGATTTA
1 AATTTA-AAATAAATTTA
* * *
156863 AACTTAATATAAACTTA
1 AATTTAAAATAAATTTA
156880 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
156897 AATT
1 AATT
156901 CTGTTGGGCC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
15 2 0.05
16 2 0.05
17 36 0.84
18 3 0.07
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:157519 original size:2 final size:2
Alignment explanation
Indices: 157512--157550 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
157502 AGAACAATGC
157512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
157551 CGTATGTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:158049 original size:34 final size:34
Alignment explanation
Indices: 158005--158077 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
157995 TGCATTATGG
* * *
158005 TATGCTCATAACAATTTC-ATATGGTAGCAATTAA
1 TATGCACATAAC-ATATCAATATAGTAGCAATTAA
* *
158039 TATGCACATAACATATCAATATAGTAGTATTTAA
1 TATGCACATAACATATCAATATAGTAGCAATTAA
158073 TATGC
1 TATGC
158078 CTTTAACGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (34 bp):
TATGCACATAACATATCAATATAGTAGCAATTAA
Found at i:159027 original size:40 final size:40
Alignment explanation
Indices: 158972--159047 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
158962 AAAAAGATAA
158972 CAAAATTCTATTGTGATTAGGATAGAGACCAAATGGTAAC
1 CAAAATTCTATTGTGATTAGGATAGAGACCAAATGGTAAC
159012 CAAAATTCTATTGTGATTAGGATAGAGACCAAATGG
1 CAAAATTCTATTGTGATTAGGATAGAGACCAAATGG
159048 AAAGGTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAAATTCTATTGTGATTAGGATAGAGACCAAATGGTAAC
Found at i:159346 original size:31 final size:31
Alignment explanation
Indices: 159293--159365 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
159283 TATTCGAATG
* ** *
159293 TTTTCATTTAAGTCGTTGAACTA-TTCAAAA
1 TTTTTATTTAAGTCACTAAACTATTTCAAAA
* *
159323 TTTTTAATTTAAGTCACTAAACTATTTGATAA
1 TTTTT-ATTTAAGTCACTAAACTATTTCAAAA
159355 TTTTTATTTAA
1 TTTTTATTTAA
159366 AGTCCAGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
30 4 0.11
31 21 0.60
32 10 0.29
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (31 bp):
TTTTTATTTAAGTCACTAAACTATTTCAAAA
Found at i:162206 original size:41 final size:41
Alignment explanation
Indices: 162142--162328 Score: 196
Period size: 41 Copynumber: 4.6 Consensus size: 41
162132 TCCATAAACG
* * * * *
162142 CCGCAAAAGGTCAGACCACTAGCGGCGCTTTTGAGAAAGCA
1 CCGCTAAAGGTCAGAGCATTAGCGACGCTTATGAGAAAGCA
** * *
162183 CCGCTAAAGGTCAGAGCATTAGCGACATTTATGGGAAAGCG
1 CCGCTAAAGGTCAGAGCATTAGCGACGCTTATGAGAAAGCA
* * * * *
162224 CCACTAAAGGTTAGAGCATTACCGACACTTATGGGAAAGC-
1 CCGCTAAAGGTCAGAGCATTAGCGACGCTTATGAGAAAGCA
* *
162264 CTCGCTAAAGGTCAGAGCATTAGCGACGCTTATGAAAAAACA
1 C-CGCTAAAGGTCAGAGCATTAGCGACGCTTATGAGAAAGCA
* *
162306 TCGCTAAAGGTTAGAGCATTAGC
1 CCGCTAAAGGTCAGAGCATTAGC
162329 TAAAGGTCAG
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.01
41 121 0.99
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (41 bp):
CCGCTAAAGGTCAGAGCATTAGCGACGCTTATGAGAAAGCA
Found at i:162332 original size:19 final size:19
Alignment explanation
Indices: 162308--162344 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
162298 AAAAAACATC
*
162308 GCTAAAGGTTAGAGCATTA
1 GCTAAAGGTCAGAGCATTA
162327 GCTAAAGGTCAGAGCATT
1 GCTAAAGGTCAGAGCATT
162345 GTCAGAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (19 bp):
GCTAAAGGTCAGAGCATTA
Found at i:164587 original size:21 final size:22
Alignment explanation
Indices: 164569--164612 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
164559 TTCAAAATTC
164569 AAATTTAAA-CCAAAAAAATAA
1 AAATTTAAAGCCAAAAAAATAA
* *
164590 AAATTTAAAGGCAAAAAAGTAA
1 AAATTTAAAGCCAAAAAAATAA
164612 A
1 A
164613 TCAATAGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
AAATTTAAAGCCAAAAAAATAA
Found at i:164684 original size:41 final size:41
Alignment explanation
Indices: 164639--164721 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
164629 TTTATAAACA
164639 CCGCAAAAGGTAAAGAAATAGCGACGTTTGTAGGAAAAATG
1 CCGCAAAAGGTAAAGAAATAGCGACGTTTGTAGGAAAAATG
* *
164680 CCGCAAAAGGTAAAGCAATAGCGGCGTTTGTAGGAAAAATG
1 CCGCAAAAGGTAAAGAAATAGCGACGTTTGTAGGAAAAATG
164721 C
1 C
164722 TGCTAATGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.41, C:0.14, G:0.28, T:0.17
Consensus pattern (41 bp):
CCGCAAAAGGTAAAGAAATAGCGACGTTTGTAGGAAAAATG
Found at i:164786 original size:41 final size:41
Alignment explanation
Indices: 164739--164840 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
164729 GCTCTGACCT
* * *
164739 TTAGCGGCATTTATGA-GAAACTGCCGTTAAAGGTTAGAGCA
1 TTAGCGGCGTTTATGAGGAAAC-GCCGCTAAAGGTCAGAGCA
* *
164780 TTAGCGGCGTTTATGAGGAAGCGTCGCTAAAGGTCAGAGCA
1 TTAGCGGCGTTTATGAGGAAACGCCGCTAAAGGTCAGAGCA
*
164821 TTAGCAGCGTTTAT-AGGAAA
1 TTAGCGGCGTTTATGAGGAAA
164841 AATGCAGCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.09
41 44 0.83
42 4 0.08
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGTTTATGAGGAAACGCCGCTAAAGGTCAGAGCA
Found at i:167028 original size:18 final size:18
Alignment explanation
Indices: 167005--167040 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
166995 GCCGCTAAAG
* *
167005 ACCATGTTCTTTAGTGGC
1 ACCATGTGCTTTAATGGC
167023 ACCATGTGCTTTAATGGC
1 ACCATGTGCTTTAATGGC
167041 GTTTATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (18 bp):
ACCATGTGCTTTAATGGC
Found at i:167162 original size:43 final size:43
Alignment explanation
Indices: 167057--167385 Score: 319
Period size: 43 Copynumber: 7.7 Consensus size: 43
167047 GAAAAAAGAC
* * * *** *
167057 CGCTAAAGACCATGTTCTTTAGCGGTGTTTATAAAAAAAGCGC
1 CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGT
* * *
167100 CGC-AAAAACCATGTTCTTTAGTAGCGCTTGTGGGAAAAGCGT
1 CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGT
* * *
167142 CGCTAAAGACCATGTTCTTTAGCGGTGTCTGTGGGAAAAGCGT
1 CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGT
* * *
167185 CGCTAAAGACCATGTTCTTTAGCAGCGTTTATGGG-AAAGTGC
1 CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGT
* * * *
167227 CGCTAAAAACCATGTTCTTTAGCAACGTTTGTGGAAAAAGCAAT
1 CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGC-GT
* * *
167271 -GCTAAAGACCATGTTTTTTAGTAGCGTTTGTGGGAAAAAGCAAT
1 CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGG-AAAAGC-GT
* * * **
167315 -GCTAAAGATCATGTTCTTTAGCGGCATTTACGGG-AAAGCGT
1 CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGT
*
167356 CGCTAAAGACCATGTT-TTATAGTAGCGTTT
1 CGCTAAAGACCATGTTCTT-TAGCAGCGTTT
167386 TTCCTCATAA
Statistics
Matches: 234, Mismatches: 46, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.01
42 95 0.41
43 100 0.43
44 36 0.15
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
CGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGT
Found at i:167165 original size:85 final size:86
Alignment explanation
Indices: 167057--167385 Score: 344
Period size: 85 Copynumber: 3.8 Consensus size: 86
167047 GAAAAAAGAC
* ** * *
167057 CGCTAAAGACCATGTTCTTTAGCGGTGTTTATAAAAAAAGCGCCGC-AAAAACCATGTTCTTTAG
1 CGCTAAAGACCATGTTCTTTAGCGGTGTTTGTGGAAAAAGCGACGCTAAAGACCATGTTCTTTAG
*
167121 TAGCGCTTGTGGGAAAAGCGT
66 TAGCGTTTGTGGGAAAAGCGT
* * *
167142 CGCTAAAGACCATGTTCTTTAGCGGTGTCTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAG
1 CGCTAAAGACCATGTTCTTTAGCGGTGTTTGTGGAAAAAGCGACGCTAAAGACCATGTTCTTTAG
* * * *
167207 CAGCGTTTATGGG-AAAGTGC
66 TAGCGTTTGTGGGAAAAGCGT
* *** * * *
167227 CGCTAAAAACCATGTTCTTTAGCAACGTTTGTGGAAAAAGCAATGCTAAAGACCATGTTTTTTAG
1 CGCTAAAGACCATGTTCTTTAGCGGTGTTTGTGGAAAAAGCGACGCTAAAGACCATGTTCTTTAG
*
167292 TAGCGTTTGTGGGAAAAAGCAAT
66 TAGCGTTTGTGGG-AAAAGC-GT
* ** ** * *
167315 -GCTAAAGATCATGTTCTTTAGCGGCATTTACGG-GAAAGCGTCGCTAAAGACCATGTT-TTATA
1 CGCTAAAGACCATGTTCTTTAGCGGTGTTTGTGGAAAAAGCGACGCTAAAGACCATGTTCTT-TA
167377 GTAGCGTTT
65 GTAGCGTTT
167386 TTCCTCATAA
Statistics
Matches: 201, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
85 113 0.56
86 58 0.29
87 30 0.15
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (86 bp):
CGCTAAAGACCATGTTCTTTAGCGGTGTTTGTGGAAAAAGCGACGCTAAAGACCATGTTCTTTAG
TAGCGTTTGTGGGAAAAGCGT
Found at i:167259 original size:128 final size:130
Alignment explanation
Indices: 167057--167371 Score: 379
Period size: 128 Copynumber: 2.4 Consensus size: 130
167047 GAAAAAAGAC
* ***
167057 CGCTAAAGACCATGTTCTTTAGCGGTGTTTATAAAAAAAGCGCCGC-AAAAACCATGTTCTTTAG
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTAT-GGGAAAGCGCCGCTAAAAACCATGTTCTTTAG
* * * * * *
167121 TAGCGCTTGTGGGAAAAGC-GTCGCTAAAGACCATGTTCTTTAGCGGTGTCTGTGGG-AAAAGC-
65 CAACGCTTGTGGAAAAAGCAAT-GCTAAAGACCATGTTCTTTAGCAGCGTCTGTGGGAAAAAGCA
*
167183 GT
129 AT
* *
167185 CGCTAAAGACCATGTTCTTTAGCAGCGTTTATGGGAAAGTGCCGCTAAAAACCATGTTCTTTAGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTATGGGAAAGCGCCGCTAAAAACCATGTTCTTTAGC
* * * *
167250 AACGTTTGTGGAAAAAGCAATGCTAAAGACCATGTTTTTTAGTAGCGTTTGTGGGAAAAAGCAAT
66 AACGCTTGTGGAAAAAGCAATGCTAAAGACCATGTTCTTTAGCAGCGTCTGTGGGAAAAAGCAAT
* * * * *
167315 -GCTAAAGATCATGTTCTTTAGCGGCATTTACGGGAAAGCGTCGCTAAAGACCATGTT
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTATGGGAAAGCGCCGCTAAAAACCATGTT
167372 TTATAGTAGC
Statistics
Matches: 159, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
127 9 0.06
128 92 0.58
129 57 0.36
130 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (130 bp):
CGCTAAAGACCATGTTCTTTAGCGGCGTTTATGGGAAAGCGCCGCTAAAAACCATGTTCTTTAGC
AACGCTTGTGGAAAAAGCAATGCTAAAGACCATGTTCTTTAGCAGCGTCTGTGGGAAAAAGCAAT
Found at i:170123 original size:376 final size:378
Alignment explanation
Indices: 169407--170161 Score: 1370
Period size: 376 Copynumber: 2.0 Consensus size: 378
169397 TCTCAACACG
169407 AAAAGAATTCAAAAAACCCATCTTAGCAATAATATTATCCACCCTAACTCCACTAACACGAGGTT
1 AAAAGAATTCAAAAAACCCATCTTAGCAATAATATTATCCACCCTAACTCCACTAACACGAGGTT
*
169472 TTAAGAAACAAGTCAAGTGTGGAGAAAATTATTTCCTGTATTCTTTGACAATATAATGAAAGTAG
66 CTAAGAAACAAGTCAAGTGTGGAG-AAATTATTTCCTGTATTCTTTGACAATATAATGAAAGTAG
169537 GGATGTCCCGCACCCTAGCAATTCCAACAAAAAATATTAATATCCATAAAATAATCAAAAAGTAA
130 GGATGTCCCGCACCCTAGCAATTCCAACAAAAAATATTAATATCCATAAAATAATCAAAAAGTAA
*
169602 AGAAATCATACCTGAAAAAAAAACTATCAATGCGTGGCTGATGACTCAACATGCGCATTAACAAA
195 AGAAATCATACCTGAAAAAAAAACAATCAATGCGTGGCTGATGACTCAACATGCGCATTAACAAA
**
169667 CGTGGCTTCCTCCGGTACTCAATCTTTATCCATCAAAGTTGGATCGATCGATTCTTTTTCCAAAC
260 CGTGGCTTCCTCCGCAACTCAATCTTTATCCATCAAAGTTGGATCGATCGATTCTTTTTCCAAAC
* *
169732 CACCTATTATGCATTCCATTGTTGTCTTCAACTCCAAAGAATCACAATGACTAT
325 CACCTATTATGCATTCCATTGCTGTCTCCAACTCCAAAGAATCACAATGACTAT
*
169786 AAAAGAATTTAAAAAACCCATCTTAGCAATAATATTATCCACCCTAACTCCACTAACACGAGGTT
1 AAAAGAATTCAAAAAACCCATCTTAGCAATAATATTATCCACCCTAACTCCACTAACACGAGGTT
* *
169851 CTAAGAAACAATTCAAGTGTGGAG-AATTCTTTCCTGTATTCTTTGACAATATAATGAAAGTAGG
66 CTAAGAAACAAGTCAAGTGTGGAGAAATTATTTCCTGTATTCTTTGACAATATAATGAAAGTAGG
169915 GATGTCCCGCACCCTAGCAATTCCAACAAAAAATATTAATATCCATAAAATAATCAAAAAGTAAA
131 GATGTCCCGCACCCTAGCAATTCCAACAAAAAATATTAATATCCATAAAATAATCAAAAAGTAAA
*
169980 GAAATCATACTTGAAAAAAAAA-AATCAATGCGTGGCTGATGACTCAACATGCGCATTAACAAAC
196 GAAATCATACCTGAAAAAAAAACAATCAATGCGTGGCTGATGACTCAACATGCGCATTAACAAAC
* *
170044 GTGGCTTCCTCCGCAACTCGATCTTTATCCATCAAAGTTGGATCGGTCGATTCTTTTTCCAAACC
261 GTGGCTTCCTCCGCAACTCAATCTTTATCCATCAAAGTTGGATCGATCGATTCTTTTTCCAAACC
*
170109 ACCTATTATGCATTCCATTGCTGTCTCCAGCTCCAAAGAATCACAATGACTAT
326 ACCTATTATGCATTCCATTGCTGTCTCCAACTCCAAAGAATCACAATGACTAT
170162 TAATTAAAAT
Statistics
Matches: 363, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
376 152 0.42
377 125 0.34
379 86 0.24
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (378 bp):
AAAAGAATTCAAAAAACCCATCTTAGCAATAATATTATCCACCCTAACTCCACTAACACGAGGTT
CTAAGAAACAAGTCAAGTGTGGAGAAATTATTTCCTGTATTCTTTGACAATATAATGAAAGTAGG
GATGTCCCGCACCCTAGCAATTCCAACAAAAAATATTAATATCCATAAAATAATCAAAAAGTAAA
GAAATCATACCTGAAAAAAAAACAATCAATGCGTGGCTGATGACTCAACATGCGCATTAACAAAC
GTGGCTTCCTCCGCAACTCAATCTTTATCCATCAAAGTTGGATCGATCGATTCTTTTTCCAAACC
ACCTATTATGCATTCCATTGCTGTCTCCAACTCCAAAGAATCACAATGACTAT
Found at i:176280 original size:22 final size:23
Alignment explanation
Indices: 176233--176296 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
176223 TATTATTTAG
* *
176233 TTTTGTATTTAATTTACAT-TTTA
1 TTTTTTATTT-ATTTACTTATTTA
176256 TTTTTTATTT-TTTACTTATTTA
1 TTTTTTATTTATTTACTTATTTA
*
176278 TTTGTTATTTATTT-CTTAT
1 TTTTTTATTTATTTACTTAT
176297 GCCATTTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.17
22 18 0.50
23 12 0.33
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (23 bp):
TTTTTTATTTATTTACTTATTTA
Found at i:176285 original size:11 final size:11
Alignment explanation
Indices: 176252--176296 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
176242 TAATTTACAT
*
176252 TTTATTTTTTA
1 TTTATTTCTTA
176263 TTT-TTTACTTA
1 TTTATTT-CTTA
*
176274 TTTATTTGTTA
1 TTTATTTCTTA
176285 TTTATTTCTTA
1 TTTATTTCTTA
176296 T
1 T
176297 GCCATTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 3 0.10
11 23 0.79
12 3 0.10
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTATTTCTTA
Found at i:179742 original size:319 final size:319
Alignment explanation
Indices: 179142--179770 Score: 1064
Period size: 319 Copynumber: 2.0 Consensus size: 319
179132 ACAGTCCTTG
* * *
179142 AAACTTGTTCCATTGGTCAGCTTTCCATGCCTAAATATTCCTTCTTAACTTGACTCCTCACACCA
1 AAACTTGTTCCATTGGTCAGCTTCCCATGCCAAAATATTCCTCCTTAACTTGACTCCTCACACCA
*
179207 AAAATTGATTAATCCAATCACCAAATTGAACTATTTTTCTTGTCTTTATGGTAGCCAATACAAAA
66 AAAATTGATTAATCCAATCACCAAACTGAACTATTTTTCTTGTCTTTATGGTAGCCAATACAAAA
*
179272 ATTCTTGGAAAGGCTTCATATAAGGGGCAGTCACCCACCCACACATTTGACCAAAAGTTCAAGTA
131 ATTCTCGGAAAGGCTTCATATAAGGGGCAGTCACCCACCCACACATTTGACCAAAAGTTCAAGTA
*
179337 GCACCCATTGCCCACAAACAATTTTATCTTATTAAAAAAATCCACATTAGGCTTCTATGAATTAT
196 GCAACCATTGCCCACAAACAATTTTATCTTATTAAAAAAATCCACATTAGGCTTCTATGAATTAT
*
179402 ATACTAAAGCAACAATGCCTCTCCAAGGTCCTGACCATTTCAATC-CAAAAGAGATTAT
261 ATAATAAAGCAACAATGCCTCTCCAAGGTCCTGACCATTTCAATCTCAAAAGAGATTAT
179460 AAACTTTGTTCCATTGGTCAGCTTCCCATGCCAAAATATTCCTCCTTAACTTGACTCCTCACACC
1 AAAC-TTGTTCCATTGGTCAGCTTCCCATGCCAAAATATTCCTCCTTAACTTGACTCCTCACACC
* *
179525 AAAAATTGATTAATCCAATTACCAAACT-AAGCTATTTTTCTTGTCTTTATGGTAGCCAATGCAA
65 AAAAATTGATTAATCCAATCACCAAACTGAA-CTATTTTTCTTGTCTTTATGGTAGCCAATACAA
* *
179589 AAATTCTCGGAAAGGCTTCATATAAGGGGCGGTCACCCACCCACACATTTGACCAAAAGTTCATG
129 AAATTCTCGGAAAGGCTTCATATAAGGGGCAGTCACCCACCCACACATTTGACCAAAAGTTCAAG
* * *
179654 TAGCAACCATTGCCCACAATCAATTTTATCTTATTGAAAAAATCTACATTAGGCTTCTATGAATT
194 TAGCAACCATTGCCCACAAACAATTTTATCTTATTAAAAAAATCCACATTAGGCTTCTATGAATT
* * * *
179719 ATATAATGAAGCAATAGTGCCTCTCCAAGGTCCTGACCATTTCGATCTCAAA
259 ATATAATAAAGCAACAATGCCTCTCCAAGGTCCTGACCATTTCAATCTCAAA
179771 GTCTATTTCG
Statistics
Matches: 290, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
318 6 0.02
319 280 0.97
320 4 0.01
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (319 bp):
AAACTTGTTCCATTGGTCAGCTTCCCATGCCAAAATATTCCTCCTTAACTTGACTCCTCACACCA
AAAATTGATTAATCCAATCACCAAACTGAACTATTTTTCTTGTCTTTATGGTAGCCAATACAAAA
ATTCTCGGAAAGGCTTCATATAAGGGGCAGTCACCCACCCACACATTTGACCAAAAGTTCAAGTA
GCAACCATTGCCCACAAACAATTTTATCTTATTAAAAAAATCCACATTAGGCTTCTATGAATTAT
ATAATAAAGCAACAATGCCTCTCCAAGGTCCTGACCATTTCAATCTCAAAAGAGATTAT
Found at i:187960 original size:21 final size:21
Alignment explanation
Indices: 187936--187999 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
187926 ATTTTTTTAG
*
187936 AATTTTGATAATCATTTTATA
1 AATTTTAATAATCATTTTATA
**
187957 AATTTTAATAATTTTTTTAT-
1 AATTTTAATAATCATTTTATA
* *
187977 ATTTTTAA-AATCTTTTTA-A
1 AATTTTAATAATCATTTTATA
187996 AATT
1 AATT
188000 ATTTACTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.33
20 7 0.19
21 17 0.47
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTTAATAATCATTTTATA
Found at i:187981 original size:40 final size:39
Alignment explanation
Indices: 187922--187999 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
187912 AAATTGTTTA
*
187922 TAATATTTTTTTAGAATTTTGATAATCATTTTATAAATTT
1 TAATATTTTTTTAGAATTTTGAAAATCATTTTA-AAATTT
* * *
187962 TAATAATTTTTTTA-TATTTTTAAAATCTTTTTAAAATT
1 TAAT-ATTTTTTTAGAATTTTGAAAATCATTTTAAAATT
188000 ATTTACTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.15
40 19 0.58
41 9 0.27
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (39 bp):
TAATATTTTTTTAGAATTTTGAAAATCATTTTAAAATTT
Done.