Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167906.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_171, 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: 59337
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:150 original size:72 final size:72
Alignment explanation
Indices: 74--438 Score: 209
Period size: 72 Copynumber: 5.1 Consensus size: 72
64 CCCTGCTTCC
*
74 ATAGGGAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACC
1 ATAGGGAACTTGACCAGTCTATCCACTCTCTACCTTGATCAAAATATGTTTTCTGGGTCGATACC
139 TCAAGAG
66 TCAAGAG
* * * * * * *
146 ATAGGGATGCTT-A--AATCTCT-CACTGTCTTTGA-GTTGAGTCAAAATAAT-TTCTCTGGTTC
1 ATAGGGA-ACTTGACCAGTCTATCCAC--TCTCT-ACCTTGA-TCAAAAT-ATGTTTTCTGGGTC
* * ****
205 AATCCCTGC-TTCC
60 GATACCT-CAAGAG
* *
218 ATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATACC
1 ATAGGGAACTTGACCAGTCTATCCACTCTCTACCTTGATCAAAATATGTTTTCTGGGTCGATACC
283 TCAAGAG
66 TCAAGAG
* * * * * * *
290 ATAGGGATGCTT-A--AATCTCT-CACTGTCTTTGA-GTTGAGTCAAAATAAT-TTCTCTGGTTC
1 ATAGGGA-ACTTGACCAGTCTATCCAC--TCTCT-ACCTTGA-TCAAAAT-ATGTTTTCTGGGTC
* * ****
349 AATCCCTGC-TTCC
60 GATACCT-CAAGAG
* * * *
362 ATAGGAAATTTGACCGGTCTATCCACTCTCTACCTTGAACAAAATATGTTTTCTGGGTCGATACC
1 ATAGGGAACTTGACCAGTCTATCCACTCTCTACCTTGATCAAAATATGTTTTCTGGGTCGATACC
427 TCAAGAG
66 TCAAGAG
434 ATAGG
1 ATAGG
439 CATGCTTGTA
Statistics
Matches: 204, Mismatches: 61, Indels: 56
0.64 0.19 0.17
Matches are distributed among these distances:
69 6 0.03
70 10 0.05
71 25 0.12
72 121 0.59
73 27 0.13
74 9 0.04
75 6 0.03
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (72 bp):
ATAGGGAACTTGACCAGTCTATCCACTCTCTACCTTGATCAAAATATGTTTTCTGGGTCGATACC
TCAAGAG
Found at i:268 original size:144 final size:144
Alignment explanation
Indices: 8--590 Score: 787
Period size: 144 Copynumber: 4.0 Consensus size: 144
1 GATTGGC
* * *
8 ATGCTTAAGTCTCTCACTGACTTTGCGATGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTC
1 ATGCTTAAATCTCTCACTGACTTTGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTC
*
73 CATAGGGAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATAC
66 CATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATAC
138 CTCAAGAGATAGGG
131 CTCAAGAGATAGGG
*
152 ATGCTTAAATCTCTCACTGTCTTTGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTC
1 ATGCTTAAATCTCTCACTGACTTTGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTC
217 CATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATAC
66 CATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATAC
282 CTCAAGAGATAGGG
131 CTCAAGAGATAGGG
*
296 ATGCTTAAATCTCTCACTGTCTTTGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTC
1 ATGCTTAAATCTCTCACTGACTTTGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTC
* * * *
361 CATAGGAAATTTGACCGGTCTATCCACTCTCTACCTTGAACAAAATATGTTTTCTGGGTCGATAC
66 CATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATAC
*
426 CTCAAGAGATAGGC
131 CTCAAGAGATAGGG
** * ** * * * * * *
440 ATGCTTGTATCTCTTAGAGAAC-TT-ATTTTATCTCGATAACAATTTCTCTGGTTCAATCCCCGC
1 ATGCTTAAATCTCTCACTG-ACTTTGAGTTGA-GTC-AAAATAATTTCTCTGGTTCAATCCCTGC
* * * * * * * * * * *
503 TTCCATAGGAAACTTAACCAAAT-TGTCTAGTCT-TGACCTTCATGAGAATAAGCTTTCCGGGTC
63 TTCCATAGGAAACTTGACC-AGTCTATCCACTCTCT-ACCTTTATCAAAATATGTTTTCTGGGTC
*
566 AATACCTCAAGAGATAGGG
126 GATACCTCAAGAGATAGGG
585 ATGCTT
1 ATGCTT
591 GTATATCTTA
Statistics
Matches: 396, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
143 4 0.01
144 297 0.75
145 94 0.24
146 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (144 bp):
ATGCTTAAATCTCTCACTGACTTTGAGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTC
CATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATATGTTTTCTGGGTCGATAC
CTCAAGAGATAGGG
Found at i:4962 original size:25 final size:24
Alignment explanation
Indices: 4911--4964 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4901 AATTATGTAT
*
4911 ATTTTAAAAATCAAATCAATATTA
1 ATTTTAAAAATCAAATCAATATCA
*
4935 ATTTTAAATAATCAATTTCAA-ATCA
1 ATTTTAAA-AATCAA-ATCAATATCA
4960 ATTTT
1 ATTTT
4965 CGAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTTAAAAATCAAATCAATATCA
Found at i:7490 original size:57 final size:57
Alignment explanation
Indices: 7369--7491 Score: 164
Period size: 56 Copynumber: 2.2 Consensus size: 57
7359 ATTGCTTTTG
* *
7369 TTAAAGGAAAAGTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGAAACTTATTT
1 TTAAAGAAAAAGTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAACTTATTT
*
7426 TT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTT-AAA-TT-TTAT
1 TTAAAGAAAAAGTGATACTTTCAACTTTTCC-CAAAAATAT-TTTTTTGAAACTTATT-T
7482 TTAAAGAAAA
1 TTAAAGAAAA
7492 TAAAATAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
55 2 0.03
56 31 0.53
57 20 0.34
58 6 0.10
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (57 bp):
TTAAAGAAAAAGTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAACTTATTT
Found at i:7496 original size:5 final size:5
Alignment explanation
Indices: 7488--7535 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
7478 TTATTTAAAG
7488 AAAAT AAAAT -AAA- AAAAT AAAAT AAAATT GAAAAT AAAA- AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAA
7536 GTATTAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 10 0.26
5 22 0.58
6 2 0.05
7 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:7506 original size:13 final size:13
Alignment explanation
Indices: 7483--7535 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
7473 AAATTTTATT
7483 TAAAGAAAATAAAA
1 TAAA-AAAATAAAA
7497 TAAAAAAATAAAA
1 TAAAAAAATAAAA
*
7510 T--AAAATTGAAAA
1 TAAAAAAAT-AAAA
7522 TAAAAAAAATAAAA
1 T-AAAAAAATAAAA
7536 GTATTAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 10 0.30
14 8 0.24
15 5 0.15
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:7583 original size:7 final size:7
Alignment explanation
Indices: 7560--7599 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
7550 TAATCTAATC
7560 AATAAAT
1 AATAAAT
7567 AAT-AAT
1 AATAAAT
7573 AAT-AAT
1 AATAAAT
7579 AAATAAAT
1 -AATAAAT
7587 AATAAAT
1 AATAAAT
7594 AATAAA
1 AATAAA
7600 AAAAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 9 0.29
7 19 0.61
8 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:7840 original size:9 final size:9
Alignment explanation
Indices: 7820--7849 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7810 TCAGAATTTC
7820 CTTCTC-CT
1 CTTCTCTCT
7828 CTTCTCTCT
1 CTTCTCTCT
7837 CTTCTCTCT
1 CTTCTCTCT
7846 CTTC
1 CTTC
7850 CCTCCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (9 bp):
CTTCTCTCT
Found at i:8032 original size:20 final size:20
Alignment explanation
Indices: 8009--8047 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7999 AACTTGGCCA
8009 AAAAAGTCATCAAAAAATTT
1 AAAAAGTCATCAAAAAATTT
** *
8029 AAAACTTCGTCAAAAAATT
1 AAAAAGTCATCAAAAAATT
8048 CAACTGAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAAGTCATCAAAAAATTT
Found at i:8442 original size:42 final size:42
Alignment explanation
Indices: 8384--8479 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
8374 AAATCAAATC
* * *
8384 AAATAAAAAATGTTAATAGATAATTAA-AAGAAAATAATTAGAT
1 AAAT-AAAAATATTAATAGATAAATAATAA-AAAATAAATAGAT
* *
8427 AAATAAAAATATTAATAGATAAATAATAATATATAAATAGAT
1 AAATAAAAATATTAATAGATAAATAATAAAAAATAAATAGAT
*
8469 AAATAATAATA
1 AAATAAAAATA
8480 AATACATACA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 40 0.87
43 6 0.13
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (42 bp):
AAATAAAAATATTAATAGATAAATAATAAAAAATAAATAGAT
Found at i:8452 original size:4 final size:4
Alignment explanation
Indices: 8415--8592 Score: 77
Period size: 4 Copynumber: 44.8 Consensus size: 4
8405 AATTAAAAGA
* * * * *
8415 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT -AAT -AAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * *
8461 AAAT AGAT AAAT -AAT -AAT AAAT ACAT ACAT ATACT -AAC AGAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT
* * * *
8507 AATAA AAAT AAAT AAAT ATAT TAAT AAAT AGTAAT -AAT AAAT AAAT ATAT
1 AA-AT AAAT AAAT AAAT AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
*
8557 ACAT AAGAT ACAA- AAA- AATAT AAAT AAAT AAAT AAA
1 AAAT AA-AT A-AAT AAAT AA-AT AAAT AAAT AAAT AAA
8593 AATACAAAAT
Statistics
Matches: 131, Mismatches: 29, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
3 22 0.17
4 94 0.72
5 11 0.08
6 4 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:8465 original size:22 final size:22
Alignment explanation
Indices: 8417--8479 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
8407 TTAAAAGAAA
*
8417 ATAATTAGATAAATAA-AA-AT
1 ATAAATAGATAAATAATAATAT
*
8437 ATTAATAGATAAATAATAATAT
1 ATAAATAGATAAATAATAATAT
8459 ATAAATAGATAAATAATAATA
1 ATAAATAGATAAATAATAATA
8480 AATACATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 14 0.37
21 2 0.05
22 22 0.58
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAATAGATAAATAATAATAT
Found at i:8480 original size:10 final size:10
Alignment explanation
Indices: 8415--8596 Score: 78
Period size: 10 Copynumber: 17.5 Consensus size: 10
8405 AATTAAAAGA
8415 AAATAATTAGAT
1 AAATAA-TA-AT
*
8427 AAATAAAAAT
1 AAATAATAAT
*
8437 -ATTAATAGAT
1 AAATAATA-AT
8447 AAATAATAAT
1 AAATAATAAT
*
8457 ATATAAATAGAT
1 AAAT-AATA-AT
8469 AAATAATAAT
1 AAATAATAAT
8479 AAATACATACAT
1 AAATA-ATA-AT
* *
8491 ATACTAACAGAT
1 A-AATAATA-AT
8503 AAATAATAA-
1 AAATAATAAT
8512 AAAT-A-AAT
1 AAATAATAAT
8520 AAATATATTAAT
1 AAATA-A-TAAT
*
8532 AAATAGTAAT
1 AAATAATAAT
8542 -AAT-A-AAT
1 AAATAATAAT
8549 AAATATATACAT
1 AAATA-ATA-AT
*
8561 AAGATACA-AAA
1 AA-ATA-ATAAT
8572 AAAT-ATAAAT
1 AAATAAT-AAT
8582 AAATAAATAA-
1 AAAT-AATAAT
8592 AAATA
1 AAATA
8597 CAAAATACAA
Statistics
Matches: 132, Mismatches: 16, Indels: 47
0.68 0.08 0.24
Matches are distributed among these distances:
7 5 0.04
8 9 0.07
9 13 0.10
10 35 0.27
11 29 0.22
12 34 0.26
13 7 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:8545 original size:29 final size:29
Alignment explanation
Indices: 8425--8611 Score: 102
Period size: 29 Copynumber: 6.4 Consensus size: 29
8415 AAATAATTAG
* * *
8425 ATAAATAAAAATATTAATAGATAAATAATA
1 ATAAATAAATATATTAATAAAT-AATAAAA
* * *
8455 ATATATAAATAGATAAAT-AATAAT--AA
1 ATAAATAAATATATTAATAAATAATAAAA
* **
8481 ATACATACATATACTAACAGATAAATAATAAAA
1 ATAAATA-A-ATA-TATTA-ATAAATAATAAAA
* *
8514 ATAAATAAATATATTAATAAATAGTAATA
1 ATAAATAAATATATTAATAAATAATAAAA
8543 ATAAATAAATATA-TACATAAGATACA-AAAA
1 ATAAATAAATATATTA-ATAA-ATA-ATAAAA
* * *
8573 A-ATATAAATAAATAAATAAA-AATACAAA
1 ATAAATAAATATATTAATAAATAATA-AAA
8601 ATACAA-AAATA
1 ATA-AATAAATA
8612 AAAAAAATAA
Statistics
Matches: 121, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
26 8 0.07
27 3 0.02
28 13 0.11
29 51 0.42
30 28 0.23
31 9 0.07
32 1 0.01
33 8 0.07
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (29 bp):
ATAAATAAATATATTAATAAATAATAAAA
Found at i:8583 original size:21 final size:20
Alignment explanation
Indices: 8425--8615 Score: 103
Period size: 21 Copynumber: 9.6 Consensus size: 20
8415 AAATAATTAG
* *
8425 ATAAATAAAAATATTAATAG
1 ATAAATAAAAATATAAATAA
*
8445 ATAAATAATAATAT--ATAA
1 ATAAATAAAAATATAAATAA
* *
8463 ATAGATAAATA-AT-AATAA
1 ATAAATAAAAATATAAATAA
* * * * *
8481 ATACATACATATACT-AACAG
1 ATAAATAAAAATA-TAAATAA
*
8501 ATAAATAATAAAAATAAATAA
1 ATAAATAA-AAATATAAATAA
*
8522 ATATATTAATAAATAGT-AAT-A
1 ATA-AATAA-AAATA-TAAATAA
* *
8543 ATAAATAAATATATACATAA
1 ATAAATAAAAATATAAATAA
8563 GATACAA-AAAAATATAAATAA
1 -ATA-AATAAAAATATAAATAA
*
8584 ATAAATAAAAATACAAAATACA
1 ATAAATAAAAATA-TAAATA-A
8606 A-AAATAAAAA
1 ATAAATAAAAA
8616 AAATAAAATG
Statistics
Matches: 134, Mismatches: 23, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
17 2 0.01
18 25 0.19
19 9 0.07
20 39 0.29
21 42 0.31
22 16 0.12
23 1 0.01
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (20 bp):
ATAAATAAAAATATAAATAA
Found at i:8923 original size:46 final size:43
Alignment explanation
Indices: 8831--9165 Score: 298
Period size: 42 Copynumber: 7.9 Consensus size: 43
8821 AGACTCATGA
* * * *
8831 ACTTTGAAACAT--ATACAGCTCCTCTAA-GAGA-GCTTCAATG
1 ACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGC-TCAACG
* * * *
8871 ACTTTGAAAAACATAAACAAGAGCTTCTCTAATCAGAGGCTTAACA
1 ACTTTG-AAAA-ATAAATAA-AGCTCCTCTAATCAGAGGCTCAACG
* * *
8917 ACTTTGAAAAATAAATAAAACTCCTCTAAACAGAAGCTCAACG
1 ACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
* *
8960 ACTTTG-AAAATAAATAAAGCTCATCTAATAAGAGGCTCAACG
1 ACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
* * *
9002 ACTTTGAAAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTTAATG
1 ACTTTG---AAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
*
9048 ACTTTG-AAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACG
1 ACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
* * * *
9090 ACTTTTGGAAAGTAAAT--TGCTCCTCTAATCAGAGGCATC-ACA
1 AC-TTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGC-TCAACG
* *
9132 ACTTTG-AAAATAAAT--GGCTCCTCTAAACAGAGGC
1 ACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGC
9166 ATCACAACTT
Statistics
Matches: 245, Mismatches: 36, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
40 31 0.13
41 7 0.03
42 94 0.38
43 31 0.13
44 17 0.07
45 14 0.06
46 49 0.20
47 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (43 bp):
ACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
Found at i:9030 original size:88 final size:85
Alignment explanation
Indices: 8847--9094 Score: 272
Period size: 88 Copynumber: 2.8 Consensus size: 85
8837 AAACATATAC
* * *
8847 AGCTCCTCT-AAGAG-AGCTTCAATGACTTTGAAAAACATAAACAAGAGCTTCTCTAATCAGAGG
1 AGCTCCTCTAAACAGAAGC-TCAATGACTTTG--AAA-ATAAATAA-AGC-TCTCTAATAAGAGG
* *
8910 CTTAACAACTTTGAAAAATAAATAAA
60 CTCAACGACTTTGAAAAATAAATAAA
*
8936 A-CTCCTCTAAACAGAAGCTCAACGACTTTGAAAATAAATAAAGCTCATCTAATAAGAGGCTCAA
1 AGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAATAAAGCTC-TCTAATAAGAGGCTCAA
9000 CGACTTTGAAAAA-AAATAAACAA
65 CGACTTTGAAAAATAAAT--A-AA
* * *
9023 AGCTCCTCTAATCAGAGGCTTAATGACTTTGAAAATAAATAAAGCTCCTCTAA-ACAGAGGCTCA
1 AGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAATAAAGCT-CTCTAATA-AGAGGCTCA
9087 ACGACTTT
64 ACGACTTT
9095 TGGAAAGTAA
Statistics
Matches: 140, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
84 6 0.04
85 30 0.21
86 8 0.06
87 7 0.05
88 69 0.49
89 17 0.12
90 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (85 bp):
AGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAATAAAGCTCTCTAATAAGAGGCTCAAC
GACTTTGAAAAATAAATAAA
Found at i:9086 original size:130 final size:133
Alignment explanation
Indices: 8855--9146 Score: 382
Period size: 130 Copynumber: 2.2 Consensus size: 133
8845 ACAGCTCCTC
* * * *
8855 TAAGAGAGCTTCAATGACTTTG-AAAAACATAAACAAGAGCTTCTCTAATCAGAGGCTTAACAAC
1 TAAGAG-GCATCAACGACTTTGAAAAAAAATAAACAAGAGCTCCTCTAATCAGAGGCTTAACAAC
8919 TTTGAAAAATAAATAAAACTCCTCTAAACAGAAGCTCAACGAC-TTT-GAAAATAAATAAAGCTC
65 TTTGAAAAATAAATAAAACTCCTCTAAACAGAAGCTCAACGACTTTTGGAAAATAAAT--AGCTC
8982 ATCTAA
128 ATCTAA
**
8988 TAAGAGGC-TCAACGACTTTGAAAAAAAATAAACAA-AGCTCCTCTAATCAGAGGCTTAATGACT
1 TAAGAGGCATCAACGACTTTGAAAAAAAATAAACAAGAGCTCCTCTAATCAGAGGCTTAACAACT
* * * * *
9051 TTG-AAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGGAAAGTAAATTGCTCCTC
66 TTGAAAAATAAATAAAACTCCTCTAAACAGAAGCTCAACGACTTTTGGAAAATAAATAGCTCATC
9115 TAA
131 TAA
* * *
9118 TCAGAGGCATC-ACAACTTTGAAAATAAAT
1 TAAGAGGCATCAACGACTTTGAAAAAAAAT
9147 GGCTCCTCTA
Statistics
Matches: 142, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
130 68 0.48
131 44 0.31
132 24 0.17
133 6 0.04
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (133 bp):
TAAGAGGCATCAACGACTTTGAAAAAAAATAAACAAGAGCTCCTCTAATCAGAGGCTTAACAACT
TTGAAAAATAAATAAAACTCCTCTAAACAGAAGCTCAACGACTTTTGGAAAATAAATAGCTCATC
TAA
Found at i:10188 original size:10 final size:10
Alignment explanation
Indices: 10175--10231 Score: 60
Period size: 11 Copynumber: 5.4 Consensus size: 10
10165 TCCTTTTTCA
10175 TTCATTTTTT
1 TTCATTTTTT
10185 TTCATTTTTTT
1 TTCA-TTTTTT
10196 TTCATTTTTAT
1 TTCATTTTT-T
**
10207 TTTTTATTTTT
1 TTCAT-TTTTT
*
10218 TTCTTTTTTT
1 TTCATTTTTT
10228 TTCA
1 TTCA
10232 AGCATAGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 17 0.43
11 19 0.47
12 4 0.10
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:10198 original size:25 final size:24
Alignment explanation
Indices: 10168--10219 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
10158 TGAGTCCTCC
10168 TTTTTCATTCATTT-TTTTTCATTTT
1 TTTTTCATT--TTTATTTTTCATTTT
*
10193 TTTTTCATTTTTATTTTTTATTTT
1 TTTTTCATTTTTATTTTTCATTTT
10217 TTT
1 TTT
10220 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 3 0.12
24 13 0.52
25 9 0.36
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTCATTTTTATTTTTCATTTT
Found at i:10209 original size:14 final size:13
Alignment explanation
Indices: 10168--10224 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
10158 TGAGTCCTCC
*
10168 TTTTTCATTCATTT
1 TTTTTCATT-TTTT
10182 TTTTTCA--TTTT
1 TTTTTCATTTTTT
10193 TTTTTCATTTTTAT
1 TTTTTCATTTTT-T
10207 TTTTT-ATTTTTT
1 TTTTTCATTTTTT
10219 TCTTTT
1 T-TTTT
10225 TTTTTCAAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 10 0.26
12 2 0.05
13 13 0.34
14 13 0.34
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCATTTTTT
Found at i:17746 original size:56 final size:58
Alignment explanation
Indices: 17679--17838 Score: 252
Period size: 58 Copynumber: 2.8 Consensus size: 58
17669 GCTTTTGTTA
*
17679 CAAGAAAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTTG-AAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
* * * *
17735 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
17793 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTT
17839 TAATTTTATT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
56 27 0.29
57 13 0.14
58 47 0.51
59 5 0.05
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.43
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
Found at i:17872 original size:13 final size:12
Alignment explanation
Indices: 17854--17915 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
17844 TTATTTAAAG
17854 AAAATAAAATTAA
1 AAAATAAAA-TAA
17867 AAAATAAAATAA
1 AAAATAAAATAA
*
17879 AAATTGAAAAT-A
1 AAAAT-AAAATAA
*
17891 AAAAT-AAA-GA
1 AAAATAAAATAA
17901 AAAATAAAATAA
1 AAAATAAAATAA
17913 AAA
1 AAA
17916 GTATTAAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
10 9 0.21
11 3 0.07
12 16 0.38
13 14 0.33
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:17875 original size:6 final size:6
Alignment explanation
Indices: 17854--17915 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
17844 TTATTTAAAG
* * *
17854 AAAATA AAATTA AAAA-A TAAAATA AAAATTG AAAATA AAAAT- -AAAGA
1 AAAATA AAAATA AAAATA -AAAATA AAAA-TA AAAATA AAAATA AAAATA
17901 AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAA
17916 GTATTAAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
4 3 0.07
5 6 0.14
6 29 0.66
7 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:17952 original size:3 final size:3
Alignment explanation
Indices: 17944--17989 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
17934 CTAATCAATA
*
17944 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
17990 CAAAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18549 original size:21 final size:19
Alignment explanation
Indices: 18525--18567 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
18515 ACAAAATATG
18525 AAATACATAAAAAATAATACA
1 AAATACA-AAAAAA-AATACA
*
18546 AAATACACAAAAAAATACA
1 AAATACAAAAAAAAATACA
18565 AAA
1 AAA
18568 CAAAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 5 0.24
21 7 0.33
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (19 bp):
AAATACAAAAAAAAATACA
Found at i:18560 original size:12 final size:11
Alignment explanation
Indices: 18511--18597 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 11
18501 TAATATTATT
18511 AAATACAAAATA
1 AAATACAAAA-A
*
18523 TGAAATACATAAA
1 --AAATACAAAAA
* *
18536 AAATA-ATACA
1 AAATACAAAAA
18546 AAATACACAAAA
1 AAATACA-AAAA
18558 AAATACAAAACAAA
1 AAATAC--AA-AAA
*
18572 AAATATAAAAA
1 AAATACAAAAA
*
18583 AAATAGAAAATA
1 AAATACAAAA-A
18595 AAA
1 AAA
18598 ATAATTGAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
10 9 0.15
11 18 0.30
12 14 0.23
13 2 0.03
14 18 0.30
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:18582 original size:25 final size:26
Alignment explanation
Indices: 18545--18598 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
18535 AAAATAATAC
18545 AAAATACACAAAAAAATACAAAACAA
1 AAAATACACAAAAAAATACAAAACAA
* * *
18571 AAAATATA-AAAAAAATAGAAAATAA
1 AAAATACACAAAAAAATACAAAACAA
18596 AAA
1 AAA
18599 TAATTGAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (26 bp):
AAAATACACAAAAAAATACAAAACAA
Found at i:18599 original size:24 final size:25
Alignment explanation
Indices: 18540--18600 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
18530 CATAAAAAAT
18540 AATACAAAATACACAAAAAAATACAA
1 AATA-AAAATACACAAAAAAATACAA
* * *
18566 AACAAAAAATATA-AAAAAAATAGAA
1 AA-TAAAAATACACAAAAAAATACAA
18591 AATAAAAATA
1 AATAAAAATA
18601 ATTGAGGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 9 0.30
27 1 0.03
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (25 bp):
AATAAAAATACACAAAAAAATACAA
Found at i:19951 original size:15 final size:15
Alignment explanation
Indices: 19926--20069 Score: 121
Period size: 15 Copynumber: 9.4 Consensus size: 15
19916 TTCTAAAACA
19926 CCTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
* *
19941 CTTAAAGTCCAAAAT
1 CCTAAAATCCAAAAT
* *
19956 CCTAAAGTCCAAAACC
1 CCTAAAATCCAAAA-T
19972 CCTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
* **
19987 CCCTTAAATCCAAACC
1 -CCTAAAATCCAAAAT
*
20003 CCCAAAATCCAAAACT
1 CCTAAAATCCAAAA-T
* *
20019 CCTAAAATCCGAAAC
1 CCTAAAATCCAAAAT
*
20034 CCTAAAATCTTCAAACT
1 CCTAAAATC--CAAAAT
*
20051 -CTAAAAT-CAAAAC
1 CCTAAAATCCAAAAT
20064 CCTAAA
1 CCTAAA
20070 CCTTCCATAC
Statistics
Matches: 102, Mismatches: 21, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
13 4 0.04
14 5 0.05
15 46 0.45
16 44 0.43
17 3 0.03
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (15 bp):
CCTAAAATCCAAAAT
Found at i:19986 original size:31 final size:30
Alignment explanation
Indices: 19926--20069 Score: 148
Period size: 31 Copynumber: 4.7 Consensus size: 30
19916 TTCTAAAACA
* * *
19926 CCTAAAATCCAAAATCTTAAAGTCCAAAAT
1 CCTAAAATCCAAAACCCTAAAATCCAAAAT
*
19956 CCTAAAGTCCAAAACCCCTAAAATCCAAAAT
1 CCTAAAATCCAAAA-CCCTAAAATCCAAAAT
* * *
19987 CCCTTAAATCCAAACCCCCAAAATCCAAAACT
1 -CCTAAAATCCAAAACCCTAAAATCCAAAA-T
* *
20019 CCTAAAATCCGAAACCCTAAAATCTTCAAACT
1 CCTAAAATCCAAAACCCTAAAATC--CAAAAT
20051 -CTAAAAT-CAAAACCCTAAA
1 CCTAAAATCCAAAACCCTAAA
20070 CCTTCCATAC
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
30 24 0.25
31 54 0.57
32 13 0.14
33 4 0.04
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (30 bp):
CCTAAAATCCAAAACCCTAAAATCCAAAAT
Found at i:20057 original size:47 final size:46
Alignment explanation
Indices: 19920--20069 Score: 146
Period size: 47 Copynumber: 3.2 Consensus size: 46
19910 CTAGGTTTCT
* * ** *
19920 AAAACACCTAAAATCCAAAAT-CTTAAAGTCCAAAATCCTAAAGTCC
1 AAAAC-CCTAAAATCCAAAATCCCTAAAATCCAAACCCCTAAAATCC
* *
19966 AAAACCCCTAAAATCCAAAATCCCTTAAATCCAAACCCCCAAAATCC
1 AAAA-CCCTAAAATCCAAAATCCCTAAAATCCAAACCCCTAAAATCC
* *
20013 AAAACTCCTAAAATCCGAAA-CCCTAAAATCTTCAAA-CTCTAAAAT-C
1 AAAAC-CCTAAAATCCAAAATCCCTAAAATC--CAAACCCCTAAAATCC
20059 AAAACCCTAAA
1 AAAACCCTAAA
20070 CCTTCCATAC
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
45 6 0.07
46 35 0.40
47 43 0.49
48 4 0.05
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (46 bp):
AAAACCCTAAAATCCAAAATCCCTAAAATCCAAACCCCTAAAATCC
Found at i:20112 original size:29 final size:31
Alignment explanation
Indices: 20012--20129 Score: 104
Period size: 30 Copynumber: 3.9 Consensus size: 31
20002 CCCCAAAATC
*
20012 CAAAACTCCTAAAATCCGAAACCCTAAAATCTT
1 CAAAACT-CTAAAATCC-AAACCCTAAAACCTT
*
20045 C-AAACTCTAAAATCAAAACCCT-AAACCTT
1 CAAAACTCTAAAATCCAAACCCTAAAACCTT
* * *
20074 CCATAC-CTTAAAA-CCAAACCCTAAAACCCT
1 CAAAACTC-TAAAATCCAAACCCTAAAACCTT
*
20104 CAAAACT-T-AAATCCAAATCCTTAAAA
1 CAAAACTCTAAAATCCAAA-CCCTAAAA
20130 TCTGAATCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
28 3 0.04
29 22 0.31
30 32 0.45
31 8 0.11
32 5 0.07
33 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (31 bp):
CAAAACTCTAAAATCCAAACCCTAAAACCTT
Found at i:21620 original size:42 final size:42
Alignment explanation
Indices: 21536--21734 Score: 133
Period size: 42 Copynumber: 4.7 Consensus size: 42
21526 TTTCAGTCGA
* * *
21536 ATAAA-AAGAAAAAATCAAATCAAATCAAATAAAAAATGTTAATAG
1 ATAAATAATAAAAAAT-AAAT-AGAT-AAAT-AAAAATATTAATAG
* *
21581 ATAATTAA-AAGAAAATAATTAGATAAATAAAAATATTAATAG
1 ATAAATAATAA-AAAATAAATAGATAAATAAAAATATTAATAG
* * * *
21623 ATAAATAATAATATATAAATAGATAAATAATAATA--AATAC
1 ATAAATAATAAAAAATAAATAGATAAATAAAAATATTAATAG
* * *
21663 ATACATATACTAACAAATAAATA-AT-AATAAATATATATTAATAA
1 ATA-A-ATAATAAAAAATAAATAGATAAATAAA-A-ATATTAATAG
* * *
21707 AT-AGTAATAATAAATAAATAAATAAATA
1 ATAAATAATAAAAAATAAATAGATAAATA
21735 CATAAGATAC
Statistics
Matches: 125, Mismatches: 18, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
40 12 0.10
41 18 0.14
42 60 0.48
43 10 0.08
44 9 0.07
45 9 0.07
46 7 0.06
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (42 bp):
ATAAATAATAAAAAATAAATAGATAAATAAAAATATTAATAG
Found at i:21630 original size:4 final size:4
Alignment explanation
Indices: 21593--21774 Score: 96
Period size: 4 Copynumber: 45.8 Consensus size: 4
21583 AATTAAAAGA
* * * * *
21593 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT -AAT -AAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
21639 AAAT AGAT AAAT -AAT -AAT AAAT ACAT ACAT ATACT -AAC AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT
*
21685 -AAT -AAT AAAT ATATAT TAAT AAAT AGTAAT -AAT AAAT AAAT AAAT
1 AAAT AAAT AAAT A-A-AT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
* *
21730 AAAT ACAT AAGAT ACAA- AAAA AATAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AA-AT A-AAT AAAT AA-AT AAAT AAAT AAAT AAAT AAA
21775 AATACAAAAA
Statistics
Matches: 139, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
3 26 0.19
4 96 0.69
5 11 0.08
6 6 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:21643 original size:34 final size:33
Alignment explanation
Indices: 21594--21769 Score: 119
Period size: 34 Copynumber: 5.1 Consensus size: 33
21584 ATTAAAAGAA
* *
21594 AATAATTAGATAAATAAAAATATTAATAGATAAAT
1 AATAA-TATATAAATAAAAATA-TAATAAATAAAT
*
21629 AATAATATATAAATAGATAA-ATAAT-AATAAAT
1 AATAATATATAAATA-AAAATATAATAAATAAAT
*
21661 ACATACATATACTAACA-AATAAATAATAATAAATATAT
1 A-ATA-ATATA-TAA-ATAA-AAAT-ATAATAAATAAAT
* *
21699 ATTAATAAATAGTAATAATAAATA-AATAAATAAAT
1 AATAATATATA--AATAA-AAATATAATAAATAAAT
* *
21734 ACATAAGATACAAA-AAAAATATAAATAAATAAAT
1 A-ATAATATATAAATAAAAATAT-AATAAATAAAT
21768 AA
1 AA
21770 ATAAAAATAC
Statistics
Matches: 114, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
32 12 0.11
33 10 0.09
34 30 0.26
35 27 0.24
36 13 0.11
37 15 0.13
38 7 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (33 bp):
AATAATATATAAATAAAAATATAATAAATAAAT
Found at i:21777 original size:14 final size:14
Alignment explanation
Indices: 21603--21794 Score: 85
Period size: 14 Copynumber: 13.1 Consensus size: 14
21593 AAATAATTAG
21603 ATAAATAAAAATATTA
1 ATAAATAAAAATA--A
*
21619 ATAGATAAATAAT-A
1 ATAAATAAA-AATAA
*
21633 ATATATAAATAGATAA
1 ATAAATAAA-A-ATAA
*
21649 AT-AATAATAAATAC
1 ATAAATAA-AAATAA
** *
21663 ATACATATACTAACAA
1 ATA-A-ATAAAAATAA
*
21679 ATAAATAATAATAA
1 ATAAATAAAAATAA
* **
21693 ATATATATTAATAA
1 ATAAATAAAAATAA
21707 ATAGTAATAATAAATAA
1 ATA--AATAA-AAATAA
21724 ATAAATAAATACATAA
1 ATAAATAAA-A-ATAA
*
21740 GATACAA-AAAAA-AT
1 -ATA-AATAAAAATAA
21754 ATAAAT--AAATAA
1 ATAAATAAAAATAA
21766 ATAAATAAAAATACA
1 ATAAATAAAAATA-A
21781 A-AAATAAAAA-AA
1 ATAAATAAAAATAA
21793 AT
1 AT
21795 GGGCCTACCC
Statistics
Matches: 139, Mismatches: 17, Indels: 43
0.70 0.09 0.22
Matches are distributed among these distances:
11 3 0.02
12 11 0.08
13 4 0.03
14 55 0.40
15 17 0.12
16 27 0.19
17 20 0.14
18 2 0.01
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (14 bp):
ATAAATAAAAATAA
Found at i:21783 original size:8 final size:7
Alignment explanation
Indices: 21715--21791 Score: 50
Period size: 8 Copynumber: 10.3 Consensus size: 7
21705 AAATAGTAAT
21715 AATAAATA
1 AATAAA-A
21723 AATAAATA
1 AATAAA-A
21731 AATACATAA
1 AATA-A-AA
* *
21740 GATACAA
1 AATAAAA
21747 AA-AAAA
1 AATAAAA
*
21753 TATAAATA
1 AATAAA-A
21761 AATAAATA
1 AATAAA-A
21769 AAT-AAA
1 AATAAAA
21775 AATACAAA
1 AATA-AAA
21783 AATAAAA
1 AATAAAA
21790 AA
1 AA
21792 AATGGGCCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
6 8 0.14
7 13 0.23
8 30 0.53
9 5 0.09
10 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (7 bp):
AATAAAA
Found at i:21793 original size:18 final size:18
Alignment explanation
Indices: 21712--21794 Score: 75
Period size: 18 Copynumber: 4.5 Consensus size: 18
21702 AATAAATAGT
21712 AATAATAAATA-AATAAATA
1 AATAA-AAATACAA-AAATA
21731 AATACATAAGATACAAAAA-A
1 AATA-A-AA-ATACAAAAATA
*
21751 AATATAAATA-AATAAATA
1 AATAAAAATACAA-AAATA
21769 AATAAAAATACAAAAATA
1 AATAAAAATACAAAAATA
21787 AA-AAAAAT
1 AATAAAAAT
21795 GGGCCTACCC
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.04
17 12 0.21
18 19 0.34
19 6 0.11
20 9 0.16
21 6 0.11
22 2 0.04
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (18 bp):
AATAAAAATACAAAAATA
Found at i:24471 original size:16 final size:16
Alignment explanation
Indices: 24444--24487 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
24434 TTCAAACCAA
24444 AAAAAT-TAAAAA-ATT
1 AAAAATATAAAAACA-T
24459 AAAAATAATAAAAACAT
1 AAAAAT-ATAAAAACAT
24476 AAAAATATAAAA
1 AAAAATATAAAA
24488 TTTTTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 13 0.50
18 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATATAAAAACAT
Found at i:24978 original size:170 final size:170
Alignment explanation
Indices: 24519--24965 Score: 831
Period size: 170 Copynumber: 2.6 Consensus size: 170
24509 ATTACCCAAG
* * *
24519 GATGAGATTCTTAGAAATTTCAAATGGTAAATTCTTAAGAAATCTCTAGGTGAGAAATTTCCTCT
1 GATGAGATTCTTAGAAA-TTCCAATGGTAAATTTTTAAGAAATCTCTAGGTGAGAAATTTTCTCT
* *
24584 AAATTTGGCCCAAATGGTGGAATGATTTAGATGAAATTTCAACACAAGTAATTGTTTTCTTTTCC
65 AAATTTGACCCAAATGGTGGAATAATTTAGATGAAATTTCAACACAAGTAATTGTTTTCTTTTCC
24649 AGATAAAAATTTGGATTGATAATATTTGATGATTATCTAAA
130 AGATAAAAATTTGGATTGATAATATTTGATGATTATCTAAA
24690 GATGAGATTCTTAGAAATTCCAATGGTAAATTTTTAAGAAATCTCTAGGTGAGAAATTTTCTCTA
1 GATGAGATTCTTAGAAATTCCAATGGTAAATTTTTAAGAAATCTCTAGGTGAGAAATTTTCTCTA
24755 AATTTGACCCAAATGGTGGAATAATTTAGATGAAATTTCAACACAAGTAATTGTTTTCTTTTCCA
66 AATTTGACCCAAATGGTGGAATAATTTAGATGAAATTTCAACACAAGTAATTGTTTTCTTTTCCA
24820 GATAAAAATTTGGATTGATAATATTTGATGATTATCTAAA
131 GATAAAAATTTGGATTGATAATATTTGATGATTATCTAAA
*
24860 GATGAGATTCTTAGAAATTCCAATGGTAAATTTTTAAGAAATCTCTAAGTGAGAAATTTTCTCTA
1 GATGAGATTCTTAGAAATTCCAATGGTAAATTTTTAAGAAATCTCTAGGTGAGAAATTTTCTCTA
24925 AATTTGACCCAAATGGTGGAATAATTTAGATGAAATTTCAA
66 AATTTGACCCAAATGGTGGAATAATTTAGATGAAATTTCAA
24966 TAAAAATAAT
Statistics
Matches: 270, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
170 253 0.94
171 17 0.06
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (170 bp):
GATGAGATTCTTAGAAATTCCAATGGTAAATTTTTAAGAAATCTCTAGGTGAGAAATTTTCTCTA
AATTTGACCCAAATGGTGGAATAATTTAGATGAAATTTCAACACAAGTAATTGTTTTCTTTTCCA
GATAAAAATTTGGATTGATAATATTTGATGATTATCTAAA
Found at i:26310 original size:21 final size:21
Alignment explanation
Indices: 26280--26327 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
26270 GAGCTTATAA
*
26280 ATAAA-TAAAATTATTATATT
1 ATAAATTAAAATGATTATATT
* *
26300 ATGAATTAAAATGATTATTTT
1 ATAAATTAAAATGATTATATT
26321 ATAAATT
1 ATAAATT
26328 TATTATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
ATAAATTAAAATGATTATATT
Found at i:27777 original size:13 final size:14
Alignment explanation
Indices: 27754--27782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27744 GGGTAAGTCC
27754 ATTTGTTTATTTTT
1 ATTTGTTTATTTTT
27768 ATTT-TTTATTTTT
1 ATTTGTTTATTTTT
27781 AT
1 AT
27783 CTATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
ATTTGTTTATTTTT
Found at i:27789 original size:14 final size:14
Alignment explanation
Indices: 27759--27857 Score: 58
Period size: 14 Copynumber: 7.2 Consensus size: 14
27749 AGTCCATTTG
*
27759 TTTATTTTTAT-TT
1 TTTATTTTTATATA
*
27772 TTTATTTTTATCTA
1 TTTATTTTTATATA
***
27786 TTTATAAATATATA
1 TTTATTTTTATATA
* *
27800 TTTATTATTATTTA
1 TTTATTTTTATATA
* **
27814 TCTATTAATATATA
1 TTTATTTTTATATA
**
27828 TACATTTTTAT-TA
1 TTTATTTTTATATA
**
27841 TTTATTAATATATA
1 TTTATTTTTATATA
27855 TTT
1 TTT
27858 TTTGTTATCA
Statistics
Matches: 65, Mismatches: 19, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
13 20 0.31
14 45 0.69
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATTTTTATATA
Found at i:27838 original size:34 final size:31
Alignment explanation
Indices: 27769--27843 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 31
27759 TTTATTTTTA
*
27769 TTTT-TTATTTTTATCTATTTATAAATATAT
1 TTTTATTATTTTTATCTATTTATAAATACAT
* *
27799 ATTTATTATTATTTATCTATTAATATATATACAT
1 TTTTATTATT-TTTATCTATT--TATAAATACAT
27833 TTTTATTATTT
1 TTTTATTATTT
27844 ATTAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 10 0.27
33 1 0.03
34 18 0.49
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTTATTATTTTTATCTATTTATAAATACAT
Found at i:28197 original size:11 final size:13
Alignment explanation
Indices: 28183--28214 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
28173 TTTTAGAAGA
28183 TTTTTTTG-A-TT
1 TTTTTTTGAAGTT
28194 TTTTTTTGAAGTT
1 TTTTTTTGAAGTT
28207 TTTTTTTG
1 TTTTTTTG
28215 GAAAATTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 1 0.05
13 10 0.53
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.78
Consensus pattern (13 bp):
TTTTTTTGAAGTT
Found at i:28288 original size:31 final size:31
Alignment explanation
Indices: 28250--28309 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
28240 TCCGACGAAA
* *
28250 TTTTTTGGCGAACCTTGAATTTTCTGACGAG
1 TTTTTTGGCCAACCTTGAAGTTTCTGACGAG
*
28281 TTTTTTGGCCAACTTTGAAGTTTCTGACG
1 TTTTTTGGCCAACCTTGAAGTTTCTGACG
28310 TTATTTTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (31 bp):
TTTTTTGGCCAACCTTGAAGTTTCTGACGAG
Found at i:28800 original size:58 final size:58
Alignment explanation
Indices: 28727--28942 Score: 213
Period size: 58 Copynumber: 3.7 Consensus size: 58
28717 TTAAATAAAA
* *
28727 TTTCAAAAAATAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAG
1 TTTCAAGAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG
** * *
28786 TTTTC-AGAAAAATATTTTCCAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAA-
1 -TTTCAAGAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG
* * * * * *
28843 TTTCTAA-AAAAGTGGTTTTTTTAGGAAAAGTTGAAAGTATAAATTTTCCTCGAAATTAAAG
1 TTTC-AAGAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAG
* * *
28904 TTTCAAGAAAAAACATTTTGGGGGAAAAGTTGAAAGTAT
1 TTTCAAG-AAAAATATTTTTGAGGAAAAGTTGAAAGTAT
28943 TTGTCATAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
56 4 0.03
57 5 0.04
58 43 0.34
59 38 0.30
60 29 0.23
61 4 0.03
62 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (58 bp):
TTTCAAGAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG
Found at i:29586 original size:59 final size:58
Alignment explanation
Indices: 29403--29850 Score: 471
Period size: 59 Copynumber: 7.7 Consensus size: 58
29393 TTTGTGCAGA
* * *
29403 AAAATTTGATACATTCAACTTTTCCCC-AAAATATTTTTT-AGAAATTTTAATTTTGAA-G
1 AAAA-TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGA-AAACTTTAA-TTTCAAGG
* ** * * *
29461 AAAATTGATACTTTTAACTTTTTTCC-AAAATA-TTTTTGGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCAAGG
*
29517 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAACTTTAATTTCAAGG
** * * * *
29576 AAAATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTTGAAAA-TTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAACTTTAATTTCAAGG
* *
29635 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTCTGGAAACTTTAATTTCTAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT-TGAAAACTTTAATTTCAAGG
* * * * * **
29694 AAATTTGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAAA-TTTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCC-CCAAAAATA--TTTTTTGAAAACTTTAATTTCAAGG
** * * *
29754 AAAATTGATACTTTCAACTTTTCCCTGAAAATATTTTTTGGAAAGC-TTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAACTTTAATTTCAAGG
29812 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
29851 TTGGATTTTA
Statistics
Matches: 329, Mismatches: 47, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
55 4 0.01
56 36 0.11
57 41 0.12
58 65 0.20
59 124 0.38
60 43 0.13
61 11 0.03
62 5 0.02
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCAAGG
Found at i:29661 original size:118 final size:118
Alignment explanation
Indices: 29400--29835 Score: 571
Period size: 118 Copynumber: 3.7 Consensus size: 118
29390 GCTTTTGTGC
* * *
29400 AGAAAAATTTGATACATTCAACTTTTCCCC-AAAATATTTTTTAG-AAATTTTAATTTTGAAGAA
1 AGAAAAA-TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGAAGAA
* * ** * * * * **
29463 AATTGATACTTTTAACTTTT-TTCCAAAATA--TTTTTGGAAACTTTAATTTCG
65 AATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTTGAAAATTTATTTTTA
*
29514 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGAGGAAA
1 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGAAGAAA
29579 ATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTTGAAAATTTATTTTTA
66 ATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTTGAAAATTTATTTTTA
* * *
29632 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTCT-GGAAACTTTAATTTCTAGGAA
1 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT-TAGAAAACTTTAATTTCGAAGAA
*
29696 ATTTGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTTTTA
65 AATTGATACTTTCAACTTTTCCT-AAAAAAAACCTTTTTTGAAAATTTATTTTTA
* ** * * * *
29751 AAAAAAATTGATACTTTCAACTTTTCCCTGAAAATATTTTTTGGAAAGC-TTATTTTCAAAGAAA
1 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGAAGAAA
29815 ATTGATACTTTCAACTTTTCC
66 ATTGATACTTTCAACTTTTCC
29836 CCAAAAATAT
Statistics
Matches: 288, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
113 21 0.07
114 21 0.07
115 35 0.12
116 6 0.02
118 131 0.45
119 74 0.26
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (118 bp):
AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGAAGAAA
ATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTTGAAAATTTATTTTTA
Found at i:29704 original size:177 final size:174
Alignment explanation
Indices: 29402--29850 Score: 534
Period size: 177 Copynumber: 2.6 Consensus size: 174
29392 TTTTGTGCAG
* * ** * *
29402 AAAAATTTGATACATTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAATTTTGAAG-AAAAT
1 AAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTAGAAAATTT-ATTTTCAAGAAAAAT
* **
29466 TGATACTTTTAACTTTTTTCC-AAAATA-TTTTTGGAAACTTTAATTTCGAGAAAAATTGATACT
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTGATACT
* * *
29529 TTCAACTTTTCC-CCAAAAATA-TTTTTTAGAAAACTTTAATTTCGA
130 TTCAACTTTTCCTCAAAAAAAACTTTTTT-GAAAA-TTTAATTTCAA
** * *
29574 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTT-GAAAATTTATTTTTAAGAAAA
1 AAAAAATTGATACTTTCAACTTTTCCT-AAAAATA--TTTTTTAGAAAATTTATTTTCAAGAAAA
* * *
29638 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTCTGGAAACTTTAATTTCTAGGAAATTTGAT
63 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTT-TGGAAACTTTAATTTCGAGAAAAATTGAT
* *
29703 ACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTTTTAA
127 ACTTTCAACTTTTCCTCAAAAAAAA-CTTTTTTGAAAATTTAATTTCAA
* * **
29752 AAAAAATTGATACTTTCAACTTTTCCCTGAAAATATTTTTTGGAAAGCTTATTTTCAA-AGAAAA
1 AAAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTAGAAAATTTATTTTCAAGA-AAAA
29816 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
64 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
29851 TTGGATTTTA
Statistics
Matches: 237, Mismatches: 27, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
172 22 0.09
173 13 0.05
174 30 0.13
175 12 0.05
176 12 0.05
177 92 0.39
178 42 0.18
179 8 0.03
180 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (174 bp):
AAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTAGAAAATTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTGATACTT
TCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTAATTTCAA
Found at i:29904 original size:6 final size:6
Alignment explanation
Indices: 29868--29952 Score: 82
Period size: 6 Copynumber: 13.5 Consensus size: 6
29858 TTATTTAAAG
* * *
29868 AAAAT- AAAATAA TAAAATA AAAGTG AAAATA AAAATA AAGAAAA GTAAAATA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AA-AATA --AAAATA
*
29920 AAAATA AAAATA AAAATA AAGATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
29953 GAATATTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
5 5 0.08
6 47 0.71
7 4 0.06
8 8 0.12
9 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:29920 original size:33 final size:32
Alignment explanation
Indices: 29868--29941 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 32
29858 TTATTTAAAG
* * *
29868 AAAATAAA-ATAATAAAATAAAAGTGAAAATA
1 AAAATAAAGAAAATAAAATAAAAATAAAAATA
29899 AAAATAAAGAAAAGTAAAATAAAAATAAAAATA
1 AAAATAAAGAAAA-TAAAATAAAAATAAAAATA
29932 AAAATAAAGA
1 AAAATAAAGA
29942 TAAAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 8 0.21
32 3 0.08
33 27 0.71
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (32 bp):
AAAATAAAGAAAATAAAATAAAAATAAAAATA
Found at i:30435 original size:17 final size:16
Alignment explanation
Indices: 30387--30436 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
30377 AAATAATAAT
30387 TAGATAAATAAAAGAAA
1 TAGATAAATAAAA-AAA
*
30404 TAGATAAATAAAAAAG
1 TAGATAAATAAAAAAA
*
30420 TAGATAAATAATAAAA
1 TAGATAAATAAAAAAA
30436 T
1 T
30437 TATTGATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (16 bp):
TAGATAAATAAAAAAA
Found at i:30444 original size:19 final size:16
Alignment explanation
Indices: 30387--30435 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 16
30377 AAATAATAAT
*
30387 TAGATAAATAAAAGAAA
1 TAGATAAATAAAA-AAG
30404 TAGATAAATAAAAAAG
1 TAGATAAATAAAAAAG
30420 TAGATAAATAATAAAA
1 TAGATAAATAA-AAAA
30436 TTATTGATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.20
Consensus pattern (16 bp):
TAGATAAATAAAAAAG
Found at i:30687 original size:1 final size:1
Alignment explanation
Indices: 30681--30733 Score: 70
Period size: 1 Copynumber: 53.0 Consensus size: 1
30671 CAACTTGACA
* * * *
30681 TTTTTTTTGTTTTTGTTTTTTTGTTTTTTTTGTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30734 GCTTGTTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (1 bp):
T
Found at i:30711 original size:23 final size:22
Alignment explanation
Indices: 30681--30734 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
30671 CAACTTGACA
30681 TTTTTTTTGTTTTTGTTTTTTTG
1 TTTTTTTTGTTTTT-TTTTTTTG
*
30704 TTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTGTTTTTTTTTTTTG
30726 TTTTTTTTG
1 TTTTTTTTG
30735 CTTGTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (22 bp):
TTTTTTTTGTTTTTTTTTTTTG
Found at i:30907 original size:42 final size:44
Alignment explanation
Indices: 30756--30940 Score: 207
Period size: 42 Copynumber: 4.3 Consensus size: 44
30746 TTTGATCAAA
* * * *
30756 GCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTG-GAAAAATAAACAAG
* * *
30801 GCTTCTCTAATCAGAGGTTCAACGACTTTTGAAAAATAAACAAG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAG
* * * *
30845 GCTCCTCTAATCAGAAGCTCAATGATTTTGGAAAAAT-AA-ATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAG
** *
30887 GCTTTTCTAATCAGAGGCTCAACGACTTTGGAAAAAT-AA-ATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAG
30929 GCTCCTCTAATC
1 GCTCCTCTAATC
30941 TTTGAAAAGT
Statistics
Matches: 119, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 49 0.41
43 2 0.02
44 43 0.36
45 25 0.21
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (44 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAG
Found at i:30911 original size:86 final size:87
Alignment explanation
Indices: 30756--30940 Score: 241
Period size: 86 Copynumber: 2.1 Consensus size: 87
30746 TTTGATCAAA
* * * *
30756 GCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTTCTCTAATCAGAGGTTC
1 GCTCCTCTAATCAGAAGCTCAATGACTTTGAGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTC
*
30821 AACGACTTTTGAAAAATAAACAAG
66 AACGACTTTGGAAAAAT-AA-AAG
* ** *
30845 GCTCCTCTAATCAGAAGCTCAATGATTTTG-GAAAAAT-AA-ATGGCTTTTCTAATCAGAGGCTC
1 GCTCCTCTAATCAGAAGCTCAATGACTTTGAGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTC
*
30907 AACGACTTTGGAAAAATAAATG
66 AACGACTTTGGAAAAATAAAAG
30929 GCTCCTCTAATC
1 GCTCCTCTAATC
30941 TTTGAAAAGT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
84 14 0.16
85 2 0.02
86 35 0.41
87 2 0.02
88 6 0.07
89 27 0.31
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (87 bp):
GCTCCTCTAATCAGAAGCTCAATGACTTTGAGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTC
AACGACTTTGGAAAAATAAAAG
Found at i:30953 original size:27 final size:28
Alignment explanation
Indices: 30912--30967 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
30902 GGCTCAACGA
30912 CTTTGGAAAAATAAATGGCTCCTCTAAT
1 CTTTGGAAAAATAAATGGCTCCTCTAAT
*
30940 CTTT-GAAAAGTAAATGGCTCCTCTAAT
1 CTTTGGAAAAATAAATGGCTCCTCTAAT
30967 C
1 C
30968 AGAGGCTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (28 bp):
CTTTGGAAAAATAAATGGCTCCTCTAAT
Found at i:30987 original size:41 final size:41
Alignment explanation
Indices: 30940--31372 Score: 439
Period size: 41 Copynumber: 10.5 Consensus size: 41
30930 CTCCTCTAAT
* * *
30940 CTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACAA
1 CTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACCACAA
** * * *
30981 CTTTGAAAA-TAACTAAAGCTCCTCTAATCAGAGGCTCAACGA
1 CTTTGAAAAGTAA--ATTGCTCCTCTAATCAGAGGCACCACAA
* * * * **
31023 CTTTTGGAAAGTAAATGGCTCCTCTAATCAGAGGCTCAATGA
1 C-TTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACCACAA
* * **
31065 CTTTTGAAAAGTACATGGCTCCTCTAATCAGAGG---CTTAA
1 C-TTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACCACAA
* * *
31104 CTTTTGGAAAGCAAATTGCTCCTCTAAAT-AGAGGCACCATAA
1 C-TTTGAAAAGTAAATTGCTCCTCT-AATCAGAGGCACCACAA
* *
31146 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCTCAA
1 CTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACCACAA
* *
31187 CTTTTAAAAAGTAAATTGCTCCTCTAAAT-AGAGGCACCATAA
1 C-TTTGAAAAGTAAATTGCTCCTCT-AATCAGAGGCACCACAA
**
31229 CTTTGAAAAGTAAATTGCTCCTCTAAAGAGAGGCACCACAA
1 CTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACCACAA
* * * *
31270 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCATCACGA
1 CTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACCACAA
*
31311 CTTTGAAAAGTAAATTACTCCTCTAAAT-AGAGGCACCACAA
1 CTTTGAAAAGTAAATTGCTCCTCT-AATCAGAGGCACCACAA
*
31352 CTTTGAAAAATAAATTGCTCC
1 CTTTGAAAAGTAAATTGCTCC
31373 ATGACAATCA
Statistics
Matches: 339, Mismatches: 40, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
39 28 0.08
40 10 0.03
41 165 0.49
42 124 0.37
43 9 0.03
44 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (41 bp):
CTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACCACAA
Found at i:31002 original size:69 final size:68
Alignment explanation
Indices: 30875--31009 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 68
30865 AATGATTTTG
** * *
30875 GAAAAATAAATGGCTTTTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCTCTAAT
1 GAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAAATAAA-GGCTCCTCTAAT
30940 CTTT
65 CTTT
*
30944 GAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAACTAAA-GCTCCTCTAA
1 GAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAA-AA-TAAAGGCTCCTCTAA
31008 TC
64 TC
31010 AGAGGCTCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
69 53 0.90
70 2 0.03
71 4 0.07
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (68 bp):
GAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAAATAAAGGCTCCTCTAATC
TTT
Found at i:31038 original size:111 final size:110
Alignment explanation
Indices: 30844--31051 Score: 294
Period size: 111 Copynumber: 1.9 Consensus size: 110
30834 AAATAAACAA
** * * **
30844 GGCTCCTCTAATCAGAAGCTCAATGATTTTGGAAAAATAAATGGCTTTTCTAATCAGAGGCTCAA
1 GGCTCCTCTAATCAGAAGCTCAACAACTTTGAAAAAATAAA-GGCTCCTCTAATCAGAGGCTCAA
30909 CGACTTTGGAAAAATAAATGGCTCCTCTAATCTTTGAAAAGTAAAT
65 CGACTTTGGAAAAATAAATGGCTCCTCTAATCTTTGAAAAGTAAAT
*
30955 GGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAACTAAA-GCTCCTCTAATCAGAGGCTCA
1 GGCTCCTCTAATCAGAAGCTCAACAACTTTGAAAA-AA-TAAAGGCTCCTCTAATCAGAGGCTCA
*
31019 ACGACTTTTGG-AAAGTAAATGGCTCCTCTAATC
64 ACGAC-TTTGGAAAAATAAATGGCTCCTCTAATC
31052 AGAGGCTCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
111 75 0.87
112 7 0.08
113 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (110 bp):
GGCTCCTCTAATCAGAAGCTCAACAACTTTGAAAAAATAAAGGCTCCTCTAATCAGAGGCTCAAC
GACTTTGGAAAAATAAATGGCTCCTCTAATCTTTGAAAAGTAAAT
Found at i:31085 original size:153 final size:155
Alignment explanation
Indices: 30805--31093 Score: 424
Period size: 153 Copynumber: 1.9 Consensus size: 155
30795 AACAAAGCTT
* * * *
30805 CTCTAATCAGAGGTTCAACGACTTTTGAAAAATAAACAAGGCTCCTCTAATCAGAAGCTCAATGA
1 CTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAATCAGAAGCTCAACGA
**
30870 TTTTGGAAAAATAAATGGCTTTTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCT
66 TTTTGGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCT
30935 CTAATCTTTGAAAAGTAAATGGCTC
131 CTAATCTTTGAAAAGTAAATGGCTC
*
30960 CTCTAATCAGAGGCTCAACAAC-TTTG-AAAAT-AACTAAAGCTCCTCTAATCAGAGGCTCAACG
1 CTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAAC-AAAGCTCCTCTAATCAGAAGCTCAACG
* * * * *
31022 ACTTTTGG-AAAGTAAATGGCTCCTCTAATCAGAGGCTCAATGACTTTTGAAAAGTACATGGCTC
65 A-TTTTGGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATGGCTC
31086 CTCTAATC
129 CTCTAATC
31094 AGAGGCTTAA
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
152 3 0.03
153 87 0.73
154 10 0.08
155 20 0.17
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (155 bp):
CTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAATCAGAAGCTCAACGA
TTTTGGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCT
CTAATCTTTGAAAAGTAAATGGCTC
Found at i:31179 original size:206 final size:204
Alignment explanation
Indices: 30940--31372 Score: 505
Period size: 206 Copynumber: 2.1 Consensus size: 204
30930 CTCCTCTAAT
* * *
30940 CTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAACTAAA-GCTCCT
1 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAACAACTTT-AAAA-AACTAAATGCTCCT
* * * * * **
31004 CT-AATCAGAGGCTCAACGACTTTTGGAAAGTAAATGGCTCCTCTAATCAGAGGCTCAATGACTT
64 CTAAAT-AGAGGCACAACAAC-TTTGAAAAGTAAATGGCTCCTCTAAACAGAGGCACAACAAC-T
* * * * * *
31068 TTGAAAAGTACATGGCTCCTCTAATCAGAGGC-TTA-ACTTTTGGAAAGCAAATTGCTCCTCTAA
126 TTGAAAAATAAATGGCTCCTCTAAACAGAGGCATCACAC-TTTGAAAAGCAAATTACTCCTCTAA
*
31131 ATAGAGGCACCATAA
190 ATAGAGGCACCACAA
** * *
31146 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCTCAACTTTTAAAAAGTAAATTGCTCCTC
1 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAACAACTTTAAAAAACTAAA-TGCTCCTC
* * * * *
31211 TAAATAGAGGCACCATAACTTTGAAAAGTAAATTGCTCCTCTAAAGAGAGGCACCACAACTTTGA
65 TAAATAGAGGCACAACAACTTTGAAAAGTAAATGGCTCCTCTAAACAGAGGCACAACAACTTTGA
* *
31276 AAAATAAATTGCTCCTCTAAACAGAGGCATCACGACTTTGAAAAGTAAATTACTCCTCTAAATAG
130 AAAATAAATGGCTCCTCTAAACAGAGGCATCAC-ACTTTGAAAAGCAAATTACTCCTCTAAATAG
31341 AGGCACCACAA
194 AGGCACCACAA
*
31352 CTTTGAAAAATAAATTGCTCC
1 CTTTGAAAAGTAAATTGCTCC
31373 ATGACAATCA
Statistics
Matches: 192, Mismatches: 29, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
204 35 0.18
205 38 0.20
206 114 0.59
207 5 0.03
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (204 bp):
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAACAACTTTAAAAAACTAAATGCTCCTCT
AAATAGAGGCACAACAACTTTGAAAAGTAAATGGCTCCTCTAAACAGAGGCACAACAACTTTGAA
AAATAAATGGCTCCTCTAAACAGAGGCATCACACTTTGAAAAGCAAATTACTCCTCTAAATAGAG
GCACCACAA
Found at i:33077 original size:17 final size:14
Alignment explanation
Indices: 33055--33109 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
33045 TCAATTTGAA
33055 TCTTTTTTTCATTTTC
1 TCTTTTTTT--TTTTC
33071 TCATTTTTTTTCTTT-
1 TC-TTTTTTTT-TTTC
33086 TCTTTTTTTTTTTC
1 TCTTTTTTTTTTTC
33100 TCTATTTTTT
1 TCT-TTTTTT
33110 CATTTTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.09
14 11 0.31
15 9 0.26
16 5 0.14
17 7 0.20
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (14 bp):
TCTTTTTTTTTTTC
Found at i:33109 original size:46 final size:46
Alignment explanation
Indices: 33058--33154 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
33048 ATTTGAATCT
** * *
33058 TTTTTTCATTTTCTCATTTTTTTTC-TTTTCTTTTTTTTTTTCTCTA
1 TTTTTTCATTTTCTCATTTTTCATCATCTTCTTTTCTTTTTTCTC-A
*
33104 TTTTTTCATTTTTTCATTTTTCATCATCTTCTTTTCTTTTTTCTCA
1 TTTTTTCATTTTCTCATTTTTCATCATCTTCTTTTCTTTTTTCTCA
33150 TTTTT
1 TTTTT
33155 CACCCATTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 28 0.62
47 17 0.38
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.75
Consensus pattern (46 bp):
TTTTTTCATTTTCTCATTTTTCATCATCTTCTTTTCTTTTTTCTCA
Found at i:33115 original size:17 final size:14
Alignment explanation
Indices: 33066--33124 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
33056 CTTTTTTTCA
33066 TTTTCTCATTTTTT
1 TTTTCTCATTTTTT
* *
33080 TTCTTTTCTTTTTTT
1 TT-TTCTCATTTTTT
33095 TTTTCTCTATTTTTT
1 TTTTCTC-ATTTTTT
*
33110 CATTTTTTCATTTTT
1 --TTTTCTCATTTTT
33125 CATCATCTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 6 0.17
15 18 0.50
16 6 0.17
17 6 0.17
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTCATTTTTT
Found at i:34697 original size:6 final size:6
Alignment explanation
Indices: 34686--34765 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
34676 TATCTTTGTC
* * * ** * *
34686 ATTTTT ATTTTTT ATTTTT A-TTTT A-TTGT ATTATT ACTAAT ATATAT
1 ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
34733 ATTTTT A-TTTT -TTTTT ATTTTAT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTT-T ATTTTT ATTT
34766 ATCTAATTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
5 17 0.29
6 30 0.51
7 12 0.20
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:34760 original size:17 final size:16
Alignment explanation
Indices: 34696--34767 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
34686 ATTTTTATTT
34696 TTTATTTTTA-TTTTA
1 TTTATTTTTATTTTTA
* * *
34711 TTGTATTATTACTAATATA
1 TT-TATTTTTA-T-TTTTA
* *
34730 TATATTTTTATTTTTT
1 TTTATTTTTATTTTTA
34746 TTTATTTTATATTTTTA
1 TTTATTTT-TATTTTTA
34763 TTTAT
1 TTTAT
34768 CTAATTATAT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
15 2 0.05
16 16 0.38
17 13 0.31
18 7 0.17
19 4 0.10
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:34790 original size:49 final size:45
Alignment explanation
Indices: 34689--34779 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 45
34679 CTTTGTCATT
*
34689 TTTATT-TTTTATTTTTATTTTAT-TGTATTATTACTAATATATATA
1 TTTATTATTTT-TTTTTATTTTATAT-TTTTATTACTAATATATATA
34734 TTT-TTATTTTTTTTTATTTTATATTTTTATTTATCTAAT-TATATA
1 TTTATTATTTTTTTTTATTTTATATTTTTA-TTA-CTAATATATATA
34779 T
1 T
34780 CTGATATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
44 18 0.44
45 18 0.44
46 5 0.12
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (45 bp):
TTTATTATTTTTTTTTATTTTATATTTTTATTACTAATATATATA
Found at i:34802 original size:57 final size:57
Alignment explanation
Indices: 34687--34809 Score: 144
Period size: 57 Copynumber: 2.1 Consensus size: 57
34677 ATCTTTGTCA
* * *
34687 TTTTTATTTTTTATTTTTATTTTATTGTATTATTACTAATATATATATTTTTATTTT
1 TTTTTATTTTATATTTTTATTTTATTGAATTATTACTAATATATATATTATTATTTT
*
34744 TTTTTATTTTATATTTTTA-TTTATCT-AATTATATATCTGATAT-TATTATTATTATTTT
1 TTTTTATTTTATATTTTTATTTTAT-TGAATTAT-TA-CTAATATATA-TATTATTATTTT
34802 TTATTTAT
1 TT-TTTAT
34810 CCTATAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
56 10 0.18
57 23 0.40
58 19 0.33
59 5 0.09
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (57 bp):
TTTTTATTTTATATTTTTATTTTATTGAATTATTACTAATATATATATTATTATTTT
Found at i:34803 original size:55 final size:50
Alignment explanation
Indices: 34690--34807 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 50
34680 TTTGTCATTT
*
34690 TTATTTTTTATTTTTATTTTATTGTATTATTACTAATATATATATTTTTA
1 TTATTTTTTATTTTTATTTTATTGTATTATTACTAATATATATATTATTA
* *
34740 TTTTTTTTTATTTTATATTTTTATT-TATCTAATTA-TATATCTGATATTATTATTA
1 TTATTTTTTATTTT-TA-TTTTATTGTAT-T-ATTACTA-ATAT-ATA-TATTATTA
34795 TTATTTTTTATTT
1 TTATTTTTTATTT
34808 ATCCTATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
50 13 0.23
51 5 0.09
52 10 0.18
53 7 0.12
54 3 0.05
55 19 0.33
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (50 bp):
TTATTTTTTATTTTTATTTTATTGTATTATTACTAATATATATATTATTA
Found at i:35158 original size:21 final size:22
Alignment explanation
Indices: 35132--35174 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35122 GAGAGTTCTA
*
35132 GGAA-TTATCAGAAATTTTTTT
1 GGAATTTATCAAAAATTTTTTT
*
35153 GGAATTTTTCAAAAATTTTTTT
1 GGAATTTATCAAAAATTTTTTT
35175 CTGGGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (22 bp):
GGAATTTATCAAAAATTTTTTT
Found at i:35377 original size:20 final size:19
Alignment explanation
Indices: 35334--35378 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
35324 TCCGACGAAC
35334 ATCCGATGAAATTTTCAGA
1 ATCCGATGAAATTTTCAGA
* * *
35353 TTCCGGTGACATTTTCCAGA
1 ATCCGATGAAATTTT-CAGA
35373 ATCCGA
1 ATCCGA
35379 CATCGGTGTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (19 bp):
ATCCGATGAAATTTTCAGA
Found at i:35609 original size:5 final size:5
Alignment explanation
Indices: 35599--35639 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
35589 CCAGCCCCCT
*
35599 CCGAG CCGAG CCGAG CCGAG CCGCG CCGATAG CCGAG CCGA
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG--AG CCGAG CCGA
35640 TCCAGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.41, G:0.37, T:0.02
Consensus pattern (5 bp):
CCGAG
Found at i:35685 original size:12 final size:12
Alignment explanation
Indices: 35670--35702 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
35660 TTTTCAGAAA
*
35670 TTTTTTATTTGT
1 TTTTTTATTTAT
35682 TTTTTTATTTAT
1 TTTTTTATTTAT
35694 TTTTTTATT
1 TTTTTTATT
35703 AGGTTAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:35748 original size:20 final size:20
Alignment explanation
Indices: 35723--35778 Score: 75
Period size: 18 Copynumber: 3.0 Consensus size: 20
35713 TATTTAATAT
35723 TTTTTTATCTTTATCTTATA
1 TTTTTTATCTTTATCTTATA
35743 TTTTTT-TACTTT-TCTT-TA
1 TTTTTTAT-CTTTATCTTATA
35761 TTTTTTATCTTTAT-TTAT
1 TTTTTTATCTTTATCTTAT
35779 TTTCACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 14 0.44
19 8 0.25
20 10 0.31
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTATCTTTATCTTATA
Found at i:35758 original size:19 final size:21
Alignment explanation
Indices: 35711--35778 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
35701 TTAGGTTAGA
35711 TTTAT-TTAATATTTTTTTATC
1 TTTATCTT-ATATTTTTTTATC
35732 TTTATCTTATATTTTTTTA-C
1 TTTATCTTATATTTTTTTATC
35752 TTT-TCTT-TA-TTTTTTATC
1 TTTATCTTATATTTTTTTATC
35770 TTTAT-TTAT
1 TTTATCTTAT
35779 TTTCACTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.16
18 8 0.19
19 6 0.14
20 4 0.09
21 16 0.37
22 2 0.05
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTATCTTATATTTTTTTATC
Found at i:35773 original size:13 final size:13
Alignment explanation
Indices: 35723--35776 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
35713 TATTTAATAT
35723 TTTTTTATCTTTA
1 TTTTTTATCTTTA
* *
35736 TCTTATAT-TTT-
1 TTTTTTATCTTTA
35747 TTTACTTT-TCTTTA
1 TTT--TTTATCTTTA
35761 TTTTTTATCTTTA
1 TTTTTTATCTTTA
35774 TTT
1 TTT
35777 ATTTTCACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
11 2 0.06
12 7 0.22
13 20 0.62
14 3 0.09
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTATCTTTA
Found at i:35788 original size:22 final size:22
Alignment explanation
Indices: 35763--35804 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35753 TTTCTTTATT
35763 TTTTATCTTTATT-TATTTTCAC
1 TTTTAT-TTTATTCTATTTTCAC
*
35785 TTTTATTTTGTTCTATTTTC
1 TTTTATTTTATTCTATTTTC
35805 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATTTTATTCTATTTTCAC
Found at i:35910 original size:58 final size:57
Alignment explanation
Indices: 35836--36045 Score: 312
Period size: 58 Copynumber: 3.6 Consensus size: 57
35826 AAAAAAATAT
* *
35836 ATATTTTTGAGAAAAAGTTGAAAGAATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCAAAAAA
* *
35894 ATATTTTTGAGTAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAAAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAA-TTTC-AAAAAA
* *
35954 TATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAA
1 -ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAA
*
36012 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
36046 TCCCACAAAA
Statistics
Matches: 140, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
57 33 0.24
58 46 0.33
59 11 0.08
60 9 0.06
61 41 0.29
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAA
Found at i:36048 original size:119 final size:120
Alignment explanation
Indices: 35827--36045 Score: 370
Period size: 119 Copynumber: 1.8 Consensus size: 120
35817 TAAGGTTTAA
*
35827 AAAAAATATATATTTTTGAGAAAAAGTTGAAAGAATCAATTTTCCTTAGAAATAAATTTTCAAAA
1 AAAAAATATATATTTTTGAGAAAAAGTTGAAAGAATCAATTTTCCTTAAAAATAAATTTTCAAAA
*
35892 AAATATTTTTGAGTAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
66 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
* * *
35947 AAAAAA-ATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCCAAA
1 AAAAAATATATATTTTTGAGAAAAAGTTGAAAGAATCAATTTTCCTTAAAAATAAATTTTCAAAA
*
36010 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
66 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
36046 TCCCACAAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 41 0.44
119 46 0.49
120 6 0.06
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (120 bp):
AAAAAATATATATTTTTGAGAAAAAGTTGAAAGAATCAATTTTCCTTAAAAATAAATTTTCAAAA
AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
Found at i:41267 original size:41 final size:40
Alignment explanation
Indices: 41213--41458 Score: 341
Period size: 41 Copynumber: 6.0 Consensus size: 40
41203 CAAGGAGCCT
* *
41213 TTTAATTTCCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGTAA
1 TTTACTTTCCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCAA
* *
41254 TTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAA
1 TTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAA
*
41295 TTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAA
1 TTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAA
*
41336 TTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAA
* *
41377 TTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAA
1 TTTAC-TTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAA
41419 TTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 TTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
41459 TTGATAAAAA
Statistics
Matches: 190, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 1 0.01
41 146 0.77
42 40 0.21
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTACTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAA
Found at i:41439 original size:83 final size:82
Alignment explanation
Indices: 41235--41458 Score: 385
Period size: 83 Copynumber: 2.7 Consensus size: 82
41225 AGTTCCGTTG
* *
41235 CCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAATTTAC
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
*
41300 TTTCCAAAGTCGTGGTG
66 TTTCCAAAGTCGTGGTA
*
41317 CCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
*
41382 TTTTTCAAAGTCGTGGTA
66 -TTTCCAAAGTCGTGGTA
*
41400 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
41459 TTGATAAAAA
Statistics
Matches: 134, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 62 0.46
83 72 0.54
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (82 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
TTTCCAAAGTCGTGGTA
Found at i:41441 original size:124 final size:123
Alignment explanation
Indices: 41233--41458 Score: 407
Period size: 124 Copynumber: 1.8 Consensus size: 123
41223 AAAGTTCCGT
* *
41233 TGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAATTT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAAGAGCAATTT
41298 ACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCGTGG
66 ACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCGTGG
*
41356 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTACCTCTGTTTAGAAGAGCAATT
*
41421 TACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
65 TACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCA
41459 TTGATAAAAA
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
123 25 0.26
124 73 0.74
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (123 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAAGAGCAATTT
ACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCGTGG
Found at i:41470 original size:1 final size:1
Alignment explanation
Indices: 41464--41516 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
41454 GAGCATTGAT
* * * * * *
41464 AAAAAAAAAAAAACAAAAAACAAAAAACAAAAAACAAAATAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
41517 GGGTTACCTC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:41476 original size:7 final size:7
Alignment explanation
Indices: 41464--41502 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
41454 GAGCATTGAT
*
41464 AAAAAAA
1 AAAAAAC
41471 AAAAAAC
1 AAAAAAC
41478 AAAAAAC
1 AAAAAAC
41485 AAAAAAC
1 AAAAAAC
41492 AAAAAAC
1 AAAAAAC
41499 AAAA
1 AAAA
41503 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:41483 original size:14 final size:14
Alignment explanation
Indices: 41464--41516 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
41454 GAGCATTGAT
41464 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
41478 AAAAAACAAAAAAC
1 AAAAAAAAAAAAAC
41492 AAAAAACAAAATAAA-
1 AAAAAA-AAAA-AAAC
41507 AAATAAAAAA
1 AAA-AAAAAA
41517 GGGTTACCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 19 0.56
15 9 0.26
16 6 0.18
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.04
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:41502 original size:26 final size:26
Alignment explanation
Indices: 41466--41516 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
41456 GCATTGATAA
41466 AAAAAAAAAAACAAAAAACAAAAAAC
1 AAAAAAAAAAACAAAAAACAAAAAAC
* * *
41492 AAAAAACAAAATAAAAAATAAAAAA
1 AAAAAAAAAAACAAAAAACAAAAAA
41517 GGGTTACCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAAACAAAAAACAAAAAAC
Found at i:41597 original size:1 final size:1
Alignment explanation
Indices: 41591--41680 Score: 81
Period size: 1 Copynumber: 90.0 Consensus size: 1
41581 GAGCTTTGGT
* * * ** * **
41591 AAAAAAAAATAAAAAAAAAACAAAAAAAATAAAAAAAAAAGCAAAAAAACAAAAAAAAGCAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
41656 AAAAAAACAAAAACAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
41681 GGGTCGAGTT
Statistics
Matches: 69, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:41617 original size:20 final size:19
Alignment explanation
Indices: 41592--41680 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 19
41582 AGCTTTGGTA
41592 AAAAAAAATAAAAAAAAAAC
1 AAAAAAAA-AAAAAAAAAAC
41612 AAAAAAAATAAAAAAAAAAGC
1 AAAAAAAA-AAAAAAAAAA-C
* *
41633 -AAAAAAACAAAAAAAAGC
1 AAAAAAAAAAAAAAAAAAC
*
41651 AAAAAAAAAAAACAAAAAC
1 AAAAAAAAAAAAAAAAAAC
41670 AAAAACAAAAA
1 AAAAA-AAAAA
41681 GGGTCGAGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
18 1 0.02
19 28 0.46
20 31 0.51
21 1 0.02
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAAC
Found at i:41636 original size:29 final size:28
Alignment explanation
Indices: 41593--41674 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 28
41583 GCTTTGGTAA
41593 AAAAAAATAAAAAAAAAACAAAAAAAA-T
1 AAAAAAA-AAAAAAAAAACAAAAAAAAGT
*
41621 AAAAAAAAAAGCAAAAAAACAAAAAAAAGC
1 AAAAAAAAAA--AAAAAAACAAAAAAAAGT
41651 AAAAAAAAAAAACAAAAACAAAAA
1 AAAAAAAAAAAA-AAAAACAAAAA
41675 CAAAAAGGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
27 3 0.06
28 9 0.18
29 27 0.55
30 10 0.20
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.02
Consensus pattern (28 bp):
AAAAAAAAAAAAAAAAACAAAAAAAAGT
Found at i:41938 original size:38 final size:39
Alignment explanation
Indices: 41871--41947 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
41861 TGTATTATTA
* *
41871 CTAATATATATATCTTTATTATTTTTTATT-TTTATTTAT
1 CTAATATATATATCTATATTATTTATTATTATTT-TTTAT
41910 CTAAT-TATATATCTGATATTA-TTATTATTATTTTTTAT
1 CTAATATATATATCT-ATATTATTTATTATTATTTTTTAT
41948 TTATCCTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 21 0.62
39 13 0.38
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (39 bp):
CTAATATATATATCTATATTATTTATTATTATTTTTTAT
Found at i:41962 original size:42 final size:38
Alignment explanation
Indices: 41855--41963 Score: 107
Period size: 39 Copynumber: 2.7 Consensus size: 38
41845 TTTATTTTTA
*
41855 TTTTATTGTATTA-TTA-CTAATATATATATCTTTATTATT
1 TTTTATT-T-TTATTTATCTAATA-ATATATCTATATTATT
*
41894 TTTTATTTTTATTTATCTAATTATATATCTGATATTATT
1 TTTTATTTTTATTTATCTAATAATATATCT-ATATTATT
41933 ATTATTATTTTTTATTTATCCT-ATAATATAT
1 -TT-TTA-TTTTTATTTAT-CTAATAATATAT
41964 TTTTTCTTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
37 3 0.05
38 12 0.20
39 19 0.32
40 2 0.03
41 3 0.05
42 19 0.32
43 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (38 bp):
TTTTATTTTTATTTATCTAATAATATATCTATATTATT
Found at i:42299 original size:21 final size:22
Alignment explanation
Indices: 42273--42315 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42263 GAGAGTTCTA
*
42273 GGAA-TTATCAGAAATTTTTTT
1 GGAATTTATCAAAAATTTTTTT
*
42294 GGAATTTTTCAAAAATTTTTTT
1 GGAATTTATCAAAAATTTTTTT
42316 CTGGGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (22 bp):
GGAATTTATCAAAAATTTTTTT
Found at i:42839 original size:12 final size:12
Alignment explanation
Indices: 42824--42856 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
42814 TTTTCAAAAA
*
42824 TTTTTTATTTGT
1 TTTTTTATTTAT
42836 TTTTTTATTTAT
1 TTTTTTATTTAT
42848 TTTTTTATT
1 TTTTTTATT
42857 AGGTTAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:42903 original size:20 final size:20
Alignment explanation
Indices: 42878--42933 Score: 75
Period size: 18 Copynumber: 3.0 Consensus size: 20
42868 ATTTAATATT
42878 TTTTTTATCTTTATCTTATA
1 TTTTTTATCTTTATCTTATA
42898 TTTTTT-TACTTT-TCTT-TA
1 TTTTTTAT-CTTTATCTTATA
42916 TTTTTTATCTTTAT-TTAT
1 TTTTTTATCTTTATCTTAT
42934 TTTCACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 14 0.44
19 8 0.25
20 10 0.31
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTATCTTTATCTTATA
Found at i:42913 original size:19 final size:20
Alignment explanation
Indices: 42877--42929 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
42867 TATTTAATAT
42877 TTTTTTTATCTTTATCTTATA
1 TTTTTTTATCTTTATCTT-TA
42898 TTTTTTTA-CTTT-TCTTTA
1 TTTTTTTATCTTTATCTTTA
42916 -TTTTTTATCTTTAT
1 TTTTTTTATCTTTAT
42930 TTATTTTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.23
18 6 0.20
19 5 0.17
20 4 0.13
21 8 0.27
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTTATCTTTATCTTTA
Found at i:42928 original size:13 final size:13
Alignment explanation
Indices: 42878--42931 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
42868 ATTTAATATT
42878 TTTTTTATCTTTA
1 TTTTTTATCTTTA
* *
42891 TCTTATAT-TTT-
1 TTTTTTATCTTTA
42902 TTTACTTT-TCTTTA
1 TTT--TTTATCTTTA
42916 TTTTTTATCTTTA
1 TTTTTTATCTTTA
42929 TTT
1 TTT
42932 ATTTTCACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
11 2 0.06
12 7 0.22
13 20 0.62
14 3 0.09
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTATCTTTA
Found at i:42943 original size:22 final size:22
Alignment explanation
Indices: 42918--42959 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
42908 TTTCTTTATT
42918 TTTTATCTTTATT-TATTTTCAC
1 TTTTAT-TTTATTCTATTTTCAC
*
42940 TTTTATTTTGTTCTATTTTC
1 TTTTATTTTATTCTATTTTC
42960 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATTTTATTCTATTTTCAC
Found at i:43063 original size:58 final size:59
Alignment explanation
Indices: 42966--43257 Score: 401
Period size: 59 Copynumber: 4.9 Consensus size: 59
42956 TTTCTTAAAA
* * * *
42966 TAAAAATAAGGTTTAAAAAAAATATATTTTTGAGAAAAAGTTGAAAGAATCAATTTTCCT
1 TAAAAATAAAGTTTCAAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
43026 TAGAAATAAA-TTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
43084 TAAAAATAAATTTTCAAAAAAAAGATTTTTGAGTAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** *
43143 TGGAAATCAAAGTTTCAAAAAAATATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCT
1 TAAAAAT-AAAGTTTCAAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
43204 TAAAAATAAATTTTC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TAAAAATAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
43258 TCCCACAAAA
Statistics
Matches: 206, Mismatches: 23, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
57 32 0.16
58 48 0.23
59 58 0.28
60 29 0.14
61 39 0.19
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (59 bp):
TAAAAATAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:46249 original size:57 final size:57
Alignment explanation
Indices: 46161--46548 Score: 398
Period size: 57 Copynumber: 6.7 Consensus size: 57
46151 TTTTGTGCAG
* *
46161 GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAATTTTGA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTAGAAACTTTAATTTTGA
* * *
46218 GAAAAATTTATACTTTCAACTTTTTCCCAAAATA-TTTTTGGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTAGAAACTTTAATTTTGA
* * * *
46274 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAA-ACCTTTTTT-GAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCC-CAAAATA--TTTTTTAGAAACTTTAATTTTGA
* *
46331 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTCCC-AAAATATTTTTTAG-AAACTTTAATTTTGA
* * * * *
46390 GAAAAATTGATACTTTTAAC-TTTTCCTAAAAAAAAACCTTTTTT-GAAAATTT-ATTTTTA
1 GAAAAATTGATACTTTCAACTTTTTCC---CAAAATA--TTTTTTAGAAACTTTAATTTTGA
* *
46449 AAGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTCTAAAAACTTTAATTTCT-A
1 GA-AAAATTGATACTTTCAACTTTTTCCC-AAAATATTTTT-TAGAAACTTTAATTT-TGA
**
46509 GGCAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCCC-AAAATATTTTTT
46549 TTGGATTTTA
Statistics
Matches: 277, Mismatches: 33, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
55 7 0.03
56 42 0.15
57 76 0.27
58 40 0.14
59 65 0.23
60 33 0.12
61 8 0.03
62 6 0.02
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTAGAAACTTTAATTTTGA
Found at i:46467 original size:119 final size:118
Alignment explanation
Indices: 46161--46540 Score: 510
Period size: 119 Copynumber: 3.3 Consensus size: 118
46151 TTTTGTGCAG
** * * * *
46161 GAAAAATTGATACTTTCAACTTTTCC-CCAAAATA--TTTTTTAGAAATTTTAATTTTGAGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTT-GAAAATTTATTTTTAAGAAAA
* *
46223 ATTTATACTTTCAACTTTTTCCC-AAAATA-TTTTT-GGAAACTTTAATTTCGA
65 ATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAAACTTTAATTTCGA
* *
46274 GGAAAATTGATACTTTCAACTTTTCCT--CAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAA
*
46337 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAACTTTAATTTCGA
66 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAAACTTTAATTTCGA
*
46390 GAAAAATTGATACTTTTAACTTTTCCTAAAAAAAAACCTTTTTTGAAAATTTATTTTTAA-AGAA
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAAAAACCTTTTTTGAAAATTTATTTTTAAGA-AA
*
46454 AATTGATACTTTCAACTTTTTCCCAAAAATATTTTTCTA-AAAACTTTAATTTCTA
64 AATTGATACTTTCAACTTTTTCCCAAAAATATTTTT-TAGAAAACTTTAATTTCGA
** *
46509 GGCAAATTGATACTTTCAACTTTTCCCAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAA
46541 TATTTTTTTT
Statistics
Matches: 238, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
112 4 0.02
113 64 0.27
114 12 0.05
115 5 0.02
116 41 0.17
118 6 0.03
119 104 0.44
120 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (118 bp):
GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAA
TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAAACTTTAATTTCGA
Found at i:46574 original size:5 final size:5
Alignment explanation
Indices: 46566--46629 Score: 64
Period size: 5 Copynumber: 12.8 Consensus size: 5
46556 TTATTTAAAG
46566 AAAAT AAAAT --AAT AAAAT AAAAT AAAAGT GAAAAT -AAA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
46614 AAAGAT AAAAAT AAAA
1 AAA-AT -AAAAT AAAA
46630 GAATATTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.06
4 6 0.12
5 29 0.57
6 6 0.12
7 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:46599 original size:17 final size:15
Alignment explanation
Indices: 46566--46629 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 15
46556 TTATTTAAAG
46566 AAAATAAAAT--AAT
1 AAAATAAAATAAAAT
46579 AAAATAAAATAAAAGT
1 AAAATAAAATAAAA-T
46595 GAAAAT-AAA-AAAAT
1 -AAAATAAAATAAAAT
46609 AAAATAAAGATAAAAAT
1 AAAATAAA-AT-AAAAT
46626 AAAA
1 AAAA
46630 GAATATTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 15 0.35
14 3 0.07
15 7 0.16
16 4 0.09
17 14 0.33
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:46600 original size:30 final size:31
Alignment explanation
Indices: 46565--46623 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
46555 TTTATTTAAA
*
46565 GAAAATAAAATAATAAAATAAA-ATAAAAGT
1 GAAAATAAAAAAATAAAATAAAGATAAAAGT
46595 GAAAATAAAAAAATAAAATAAAGATAAAA
1 GAAAATAAAAAAATAAAATAAAGATAAAA
46624 ATAAAAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (31 bp):
GAAAATAAAAAAATAAAATAAAGATAAAAGT
Found at i:46601 original size:12 final size:10
Alignment explanation
Indices: 46566--46629 Score: 64
Period size: 8 Copynumber: 6.4 Consensus size: 10
46556 TTATTTAAAG
46566 AAAATAAAAT
1 AAAATAAAAT
46576 --AATAAAAT
1 AAAATAAAAT
46584 AAAATAAAAGT
1 AAAATAAAA-T
46595 GAAAAT-AAA-
1 -AAAATAAAAT
46604 AAAATAAAAT
1 AAAATAAAAT
46614 AAAGATAAAAAT
1 AAA-AT-AAAAT
46626 AAAA
1 AAAA
46630 GAATATTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
8 13 0.28
9 3 0.07
10 10 0.22
11 7 0.15
12 13 0.28
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:46624 original size:25 final size:25
Alignment explanation
Indices: 46571--46634 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
46561 TAAAGAAAAT
* *
46571 AAAATAATAAAATAAAATAAAAGTG
1 AAAATAAAAAAATAAAATAAAAGTA
46596 AAAATAAAAAAATAAAAT-AAAGATA
1 AAAATAAAAAAATAAAATAAAAG-TA
*
46621 AAAATAAAAGAATA
1 AAAATAAAAAAATA
46635 TTAAACAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 4 0.11
25 31 0.89
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAATAAAAAAATAAAATAAAAGTA
Found at i:47068 original size:39 final size:41
Alignment explanation
Indices: 47019--47122 Score: 108
Period size: 39 Copynumber: 2.6 Consensus size: 41
47009 ATTAATCAAA
* *
47019 ATAAAAAGATAAATATATTAATAGATAACA-CAAAAAA-TA-
1 ATAAATAGATAAATATATTAATAGATAA-ATAAAAAAAGTAG
* * **
47058 ATAATTAGATAAATAAAAAAATAGATAAATAAAAAAAGTAG
1 ATAAATAGATAAATATATTAATAGATAAATAAAAAAAGTAG
*
47099 ATAAATA-ATAAAAATATTAATAGA
1 ATAAATAGATAAATATATTAATAGA
47123 AAAAAATAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
38 1 0.02
39 29 0.57
40 15 0.29
41 6 0.12
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (41 bp):
ATAAATAGATAAATATATTAATAGATAAATAAAAAAAGTAG
Found at i:47084 original size:16 final size:15
Alignment explanation
Indices: 47066--47172 Score: 92
Period size: 16 Copynumber: 6.7 Consensus size: 15
47056 TAATAATTAG
47066 ATAAATAAAAAAATA
1 ATAAATAAAAAAATA
47081 GATAAATAAAAAAAGTA
1 -ATAAATAAAAAAA-TA
47098 GATAAATAATAAAAATA
1 -ATAAATAA-AAAAATA
* *
47115 TTAATAGAAAAAAATA
1 ATAA-ATAAAAAAATA
47131 A-AAATAAAAAATATA
1 ATAAATAAAAAA-ATA
*
47146 TATTAAATAATGAAAATA
1 -A-TAAATAA-AAAAATA
47164 A-AAATAAAA
1 ATAAATAAAA
47173 GCCCATTTGG
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.10
15 11 0.14
16 24 0.31
17 17 0.22
18 14 0.18
19 3 0.04
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (15 bp):
ATAAATAAAAAAATA
Found at i:47101 original size:33 final size:32
Alignment explanation
Indices: 47063--47172 Score: 95
Period size: 33 Copynumber: 3.4 Consensus size: 32
47053 AAATAATAAT
*
47063 TAGATAAATAAAAAAATAGATAAATAAAAAAAG
1 TAGATAAATAAAAAAATA-ATAAATAAAAAAAA
*
47096 TAGATAAATAATAAAAAT-ATTAATAGAAAAAAA
1 TAGATAAATAA-AAAAATAATAAATA-AAAAAAA
**
47129 TA-A-AAATAAAAAATATATATTAAATAATGAAAA
1 TAGATAAATAAAAAA-ATA-A-TAAATAAAAAAAA
47162 TA-A-AAATAAAA
1 TAGATAAATAAAA
47173 GCCCATTTGG
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
30 4 0.06
31 8 0.12
32 7 0.11
33 36 0.55
34 11 0.17
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (32 bp):
TAGATAAATAAAAAAATAATAAATAAAAAAAA
Found at i:47126 original size:48 final size:49
Alignment explanation
Indices: 47069--47172 Score: 113
Period size: 48 Copynumber: 2.1 Consensus size: 49
47059 TAATTAGATA
* *
47069 AATAAAAAAATAGATAAATAAAAAA-AGTAGA-TAAATAATAAAAATATT
1 AATAAAAAAAAAGAAAAATAAAAAATA-TAGATTAAATAATAAAAATATT
* * * * **
47117 AATAGAAAAAAATAAAAATAAAAAATATATATTAAATAATGAAAATAAA
1 AATAAAAAAAAAGAAAAATAAAAAATATAGATTAAATAATAAAAATATT
47166 AATAAAA
1 AATAAAA
47173 GCCCATTTGG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
48 24 0.53
49 21 0.47
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (49 bp):
AATAAAAAAAAAGAAAAATAAAAAATATAGATTAAATAATAAAAATATT
Found at i:51351 original size:54 final size:55
Alignment explanation
Indices: 51250--51358 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
51240 TACATCAATA
* * * **
51250 GTAATAATTATCTTTATTAAATTAATGTCCACATTGCAAAATATAAAAATTTAAG
1 GTAAAAATTATCTTTATTAAATCAATATCCACATCACAAAATATAAAAATTTAAG
* *
51305 GTAAAAATTATTTTTGTTAAATCAATATCCA-ATCACAAAATATAAAAATTTAAG
1 GTAAAAATTATCTTTATTAAATCAATATCCACATCACAAAATATAAAAATTTAAG
51359 TTGAGTTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 21 0.45
55 26 0.55
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (55 bp):
GTAAAAATTATCTTTATTAAATCAATATCCACATCACAAAATATAAAAATTTAAG
Found at i:54420 original size:58 final size:59
Alignment explanation
Indices: 54324--54559 Score: 345
Period size: 58 Copynumber: 4.0 Consensus size: 59
54314 TTCCTTTAAA
54324 TAAAAATCAAAATTTCCAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATC-AAATTTCC-AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
*
54385 TAAAAAT-AAATTTCCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** *
54443 TGGAAATCAAAGTTTCAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAA-TTTCCAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
54504 TAGAAAT-AAATTTCC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAATCAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
54560 CCACACAAAA
Statistics
Matches: 163, Mismatches: 8, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
57 35 0.21
58 50 0.31
59 16 0.10
60 13 0.08
61 49 0.30
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (59 bp):
TAAAAATCAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:54464 original size:119 final size:118
Alignment explanation
Indices: 54327--54559 Score: 387
Period size: 119 Copynumber: 2.0 Consensus size: 118
54317 CTTTAAATAA
*
54327 AAATCAAAATTTCCAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 AAATCAAAATTTCAAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
54391 TAAATTTCCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
65 TAAATTTCC-AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
* * *
54446 AAATCAAAGTTTCAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATCAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
54511 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
66 AAATTTCCAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
54560 CCACACAAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
118 39 0.36
119 67 0.63
120 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (118 bp):
AAATCAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
AAATTTCCAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGG
Found at i:58445 original size:31 final size:29
Alignment explanation
Indices: 58381--58448 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
58371 ACAATGGATG
* *
58381 AAAAATGAGAAAAAAAAAAAGATGATGAAA
1 AAAAAAGAAAAAAAAAAAAAGA-GATGAAA
*
58411 AAAAAAGAAAAAAAAAAGAAAGA-ATGAATC
1 AAAAAAGAAAAAAAAAA-AAAGAGATGAA-A
58441 AAAAAAGA
1 AAAAAAGA
58449 GATTCAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.15
30 23 0.70
31 5 0.15
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.07
Consensus pattern (29 bp):
AAAAAAGAAAAAAAAAAAAAGAGATGAAA
Done.