Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 45 of 121
Found at i:7932463 original size:18 final size:18
Alignment explanation
Indices: 7932381--7932454 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
7932371 TTATTTAAAG
*
7932381 AAAATAAAATAATAAAA-C
1 AAAATAAAA-AATAAAATA
* *
7932399 AAAAT-GAAAGTGAAAATA
1 AAAATAAAAAAT-AAAATA
7932417 AAAATAAAGAAAAGTAAAATA
1 AAAAT-AA-AAAA-TAAAATA
7932438 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
7932455 GAAGATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 2 0.04
17 6 0.13
18 16 0.36
19 4 0.09
20 2 0.04
21 14 0.31
22 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAATAAAAAATAAAATA
Found at i:7932463 original size:45 final size:45
Alignment explanation
Indices: 7932376--7932463 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
7932366 GGATTTTATT
* *
7932376 TAAAGAAAATAAAATAATAAAACAAAATGAAAGTGAAAATAAAAA
1 TAAAGAAAATAAAATAATAAAAAAAAATGAAAATGAAAATAAAAA
*
7932421 TAAAGAAAAGTAAAATAA-AAATAAAAAAT-AAAATGAAGATAAA
1 TAAAGAAAA-TAAAATAATAAA-AAAAAATGAAAATGAAAATAAA
7932464 TAAACTAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 24 0.63
46 14 0.37
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.16
Consensus pattern (45 bp):
TAAAGAAAATAAAATAATAAAAAAAAATGAAAATGAAAATAAAAA
Found at i:7932882 original size:19 final size:19
Alignment explanation
Indices: 7932837--7932875 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7932827 AACTCCGGTT
* *
7932837 GAATATCACCGAATTCTGG
1 GAATTTCACCGAAATCTGG
7932856 GAATTTCACCGAAATCTGG
1 GAATTTCACCGAAATCTGG
7932875 G
1 G
7932876 TTTTTCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (19 bp):
GAATTTCACCGAAATCTGG
Found at i:7933325 original size:9 final size:9
Alignment explanation
Indices: 7933311--7933343 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
7933301 ATTTTCAGCC
7933311 AAAAAAATA
1 AAAAAAATA
7933320 AAAAAAAT-
1 AAAAAAATA
7933328 -AAAAAATA
1 AAAAAAATA
7933336 AAAAAAAT
1 AAAAAAAT
7933344 TATTAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:7933331 original size:16 final size:16
Alignment explanation
Indices: 7933312--7933343 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7933302 TTTTCAGCCA
7933312 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
7933328 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
7933344 TATTAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:7933415 original size:21 final size:22
Alignment explanation
Indices: 7933390--7933438 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7933380 GAAAATTAAC
7933390 AGATAAATTA-AAAATA-ATAAT
1 AGATAAATTATAAAATATA-AAT
*
7933411 AGATAAATTATAACATATAAAT
1 AGATAAATTATAAAATATAAAT
7933433 AGATAA
1 AGATAA
7933439 GTAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 14 0.56
23 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
AGATAAATTATAAAATATAAAT
Found at i:7933506 original size:10 final size:10
Alignment explanation
Indices: 7933491--7933525 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
7933481 ATATTAACAG
7933491 AAAAGAAAGA
1 AAAAGAAAGA
7933501 AAAAGAAAGA
1 AAAAGAAAGA
*
7933511 AGAAAAAAAGA
1 A-AAAGAAAGA
7933522 AAAA
1 AAAA
7933526 AATGATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:7933595 original size:8 final size:7
Alignment explanation
Indices: 7933532--7933649 Score: 58
Period size: 7 Copynumber: 17.3 Consensus size: 7
7933522 AAAAAATGAT
7933532 AATAAT-
1 AATAATA
7933538 AATAATA
1 AATAATA
*
7933545 AA-GATA
1 AATAATA
*
7933551 TATATATA
1 AATA-ATA
*
7933559 AAT-AGA
1 AATAATA
7933565 AATAATA
1 AATAATA
7933572 AATAAGTA
1 AATAA-TA
7933580 AATAATA
1 AATAATA
7933587 AATACATA
1 AATA-ATA
7933595 AA-AGATA
1 AATA-ATA
*
7933602 AA-GA-A
1 AATAATA
7933607 AATATATA
1 AATA-ATA
*
7933615 TATATATA
1 AATA-ATA
7933623 AA-ATATA
1 AATA-ATA
7933630 AA-AAT-
1 AATAATA
7933635 AATAAT-
1 AATAATA
7933641 AATAATA
1 AATAATA
7933648 AA
1 AA
7933650 AAAAGTGGAC
Statistics
Matches: 90, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.06
6 27 0.30
7 32 0.36
8 26 0.29
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:7933596 original size:15 final size:15
Alignment explanation
Indices: 7933556--7933590 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7933546 AGATATATAT
7933556 ATAAAT-AG-AAATA
1 ATAAATAAGTAAATA
7933569 ATAAATAAGTAAATA
1 ATAAATAAGTAAATA
7933584 ATAAATA
1 ATAAATA
7933591 CATAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 2 0.10
15 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
ATAAATAAGTAAATA
Found at i:7933612 original size:58 final size:52
Alignment explanation
Indices: 7933521--7933650 Score: 133
Period size: 60 Copynumber: 2.4 Consensus size: 52
7933511 AGAAAAAAAG
* * *
7933521 AAAAA-AATGATAATAATAATA-ATAAAG--ATATATATATAAATAGAAATAAT
1 AAAAATAATAATAATAATAAAAGATAAAGAAATATATATATATATA-AAAT-AT
7933571 AAATAAGTAAATAATAAATACATAAAAGATAAAGAAAATATATATATATATAAAATAT
1 AAA-AA-T-AATAAT-AATA-ATAAAAGATAAAG-AAATATATATATATATAAAATAT
7933629 AAAAATAATAATAATAATAAAA
1 AAAAATAATAATAATAATAAAA
7933651 AAAGTGGACC
Statistics
Matches: 67, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
50 3 0.04
51 2 0.03
53 6 0.09
54 9 0.13
55 10 0.15
56 6 0.09
57 8 0.12
58 5 0.07
59 4 0.06
60 14 0.21
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.27
Consensus pattern (52 bp):
AAAAATAATAATAATAATAAAAGATAAAGAAATATATATATATATAAAATAT
Found at i:7933624 original size:28 final size:24
Alignment explanation
Indices: 7933532--7933650 Score: 73
Period size: 28 Copynumber: 4.7 Consensus size: 24
7933522 AAAAAATGAT
* *
7933532 AATAATAATAAT-AAAGATATATA
1 AATAATAATAATAAAAGATAAAAA
* **
7933555 TATAAATAGA-AATAATAA-ATAAGTA
1 AAT-AATA-ATAATAA-AAGATAAAAA
7933580 AATAATAAATACATAAAAGATAAAGAA
1 AATAAT-AATA-ATAAAAGATAAA-AA
*
7933607 AATATATATATATATAAAATATAAAAA
1 AATA-ATA-ATA-ATAAAAGATAAAAA
7933634 TAATAATAATAATAAAA
1 -AATAATAATAATAAAA
7933651 AAAGTGGACC
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
23 2 0.03
24 11 0.14
25 19 0.25
26 13 0.17
27 11 0.14
28 20 0.26
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (24 bp):
AATAATAATAATAAAAGATAAAAA
Found at i:7933976 original size:21 final size:22
Alignment explanation
Indices: 7933927--7933976 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
7933917 TAAATAATGA
7933927 ATATTTATTTATATAAAAAAGT
1 ATATTTATTTATATAAAAAAGT
* *
7933949 A-AATTATTT-T-TAAAAATTGT
1 ATATTTATTTATATAAAAA-AGT
7933969 ATATTTAT
1 ATATTTAT
7933977 AATTATAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 12 0.52
22 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATTTATTTATATAAAAAAGT
Found at i:7935144 original size:19 final size:17
Alignment explanation
Indices: 7935102--7935144 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
7935092 ATCATTCCAT
7935102 ATTTTAAATTAATTCAA
1 ATTTTAAATTAATTCAA
* *
7935119 CTTTTAAATTTATATTGAA
1 ATTTTAAA-TTA-ATTCAA
7935138 ATTTTAA
1 ATTTTAA
7935145 CCAAGCTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 3 0.14
19 11 0.52
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAAATTAATTCAA
Found at i:7935825 original size:14 final size:13
Alignment explanation
Indices: 7935802--7935834 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7935792 AACATCAACG
7935802 AAAAAA-AAACCA
1 AAAAAATAAACCA
7935814 CAAAAAATAAACCA
1 -AAAAAATAAACCA
7935828 AAAAAAT
1 AAAAAAT
7935835 GAAATCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (13 bp):
AAAAAATAAACCA
Found at i:7938013 original size:19 final size:17
Alignment explanation
Indices: 7937966--7938013 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
7937956 ACTTAATGAT
*
7937966 TTCATATTTTAAATTAA
1 TTCAAATTTTAAATTAA
*
7937983 TTCAACTTTTAAATTTATA
1 TTCAAATTTTAAA-TTA-A
*
7938002 TTGAAATTTTAA
1 TTCAAATTTTAA
7938014 CCAAGCTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 3 0.12
19 11 0.44
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (17 bp):
TTCAAATTTTAAATTAA
Found at i:7943925 original size:159 final size:157
Alignment explanation
Indices: 7943636--7943950 Score: 594
Period size: 159 Copynumber: 2.0 Consensus size: 157
7943626 TAAAATTTTA
* *
7943636 CCAAGTAATTAATTATTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
7943701 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
7943766 GATTAATTAAAGAAAAAAATCAAAATCAG
131 GATTAA-TAAA-AAAAAAATCAAAATCAG
7943795 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
7943860 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
7943925 GATTAATAAAAAAAAAATCAAAATCA
131 GATTAATAAAAAAAAAATCAAAATCA
7943951 AAGTCAAATA
Statistics
Matches: 154, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
157 16 0.10
158 4 0.03
159 134 0.87
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (157 bp):
CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
GATTAATAAAAAAAAAATCAAAATCAG
Found at i:7945003 original size:3 final size:3
Alignment explanation
Indices: 7944995--7945023 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7944985 ATCTTACAAA
7944995 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7945024 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7945314 original size:1 final size:1
Alignment explanation
Indices: 7945310--7945376 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
7945300 TTATTTTTGA
** ** * * * * *
7945310 TTTTTTTTTTTGATTTTTTTGATTTTTTTTGTTTTTGTTTTTTTGTTTTTTTTGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7945375 TT
1 TT
7945377 GGCCGAAGTT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:7945314 original size:13 final size:13
Alignment explanation
Indices: 7945296--7945327 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7945286 TCAACTCAAC
7945296 ATTTTTATTTTTG
1 ATTTTTATTTTTG
*
7945309 ATTTTTTTTTTTG
1 ATTTTTATTTTTG
7945322 ATTTTT
1 ATTTTT
7945328 TTGATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (13 bp):
ATTTTTATTTTTG
Found at i:7945326 original size:9 final size:8
Alignment explanation
Indices: 7945310--7945376 Score: 84
Period size: 9 Copynumber: 8.2 Consensus size: 8
7945300 TTATTTTTGA
7945310 TTTT-TTT
1 TTTTGTTT
7945317 TTTTGATTT
1 TTTTG-TTT
7945326 TTTTGATTT
1 TTTTG-TTT
*
7945335 TTTT-TGT
1 TTTTGTTT
7945342 TTTTGTTT
1 TTTTGTTT
7945350 TTTTGTTTT
1 TTTTG-TTT
7945359 TTTTGTTT
1 TTTTGTTT
7945367 TTTTGTTT
1 TTTTGTTT
7945375 TT
1 TT
7945377 GGCCGAAGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
7 10 0.19
8 20 0.37
9 24 0.44
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTGTTT
Found at i:7945335 original size:17 final size:16
Alignment explanation
Indices: 7945310--7945376 Score: 84
Period size: 16 Copynumber: 4.1 Consensus size: 16
7945300 TTATTTTTGA
7945310 TTTT-TTTTTTTGATTT
1 TTTTGTTTTTTTG-TTT
*
7945326 TTTTGATTTTTTT-TGT
1 TTTTG-TTTTTTTGTTT
7945342 TTTTGTTTTTTTGTTTT
1 TTTTGTTTTTTTG-TTT
7945359 TTTTGTTTTTTTGTTT
1 TTTTGTTTTTTTGTTT
7945375 TT
1 TT
7945377 GGCCGAAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
15 7 0.16
16 16 0.36
17 15 0.33
18 7 0.16
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (16 bp):
TTTTGTTTTTTTGTTT
Found at i:7945336 original size:23 final size:23
Alignment explanation
Indices: 7945303--7945377 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
7945293 AACATTTTTA
7945303 TTTTTGA-TTTTTT-TTTTTGATT
1 TTTTTGATTTTTTTGTTTTTG-TT
7945325 TTTTTGATTTTTTTTGTTTTTGTT
1 TTTTTGA-TTTTTTTGTTTTTGTT
*
7945349 TTTTTGTTTTTTTTGTTTTT-TT
1 TTTTTGATTTTTTTGTTTTTGTT
7945371 GTTTTTG
1 -TTTTTG
7945378 GCCGAAGTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
22 9 0.19
23 19 0.40
24 14 0.29
25 6 0.12
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (23 bp):
TTTTTGATTTTTTTGTTTTTGTT
Found at i:7945377 original size:31 final size:32
Alignment explanation
Indices: 7945303--7945377 Score: 109
Period size: 33 Copynumber: 2.4 Consensus size: 32
7945293 AACATTTTTA
*
7945303 TTTTTGATTTT-TTTTTTTGATTTTTTTGATTT
1 TTTTTGTTTTTGTTTTTTTGATTTTTTTGA-TT
*
7945335 TTTTTGTTTTTGTTTTTTTGTTTTTTTTG-TT
1 TTTTTGTTTTTGTTTTTTTGATTTTTTTGATT
7945366 TTTTTGTTTTTG
1 TTTTTGTTTTTG
7945378 GCCGAAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
31 14 0.35
32 10 0.25
33 16 0.40
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (32 bp):
TTTTTGTTTTTGTTTTTTTGATTTTTTTGATT
Found at i:7945529 original size:41 final size:41
Alignment explanation
Indices: 7945387--7946306 Score: 1240
Period size: 41 Copynumber: 22.4 Consensus size: 41
7945377 GGCCGAAGTT
* * *
7945387 CTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCT-
1 CTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTC
7945427 CTCTAAACAGAGGCA--ACGGAACTTTGAAAAGTAAATTGCT-
1 CTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATTGCTC
* *
7945467 CTCT-CACAGAGGTACCAACGACTTTGGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACC-ACGACTTT-GAAAAGTAAATTGCTC
7945509 CTCT-AACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
* *
7945549 CTCTAAACAGAGGCACTACGACTTTGGAAAAATAAATTGCTC
1 CTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTC
* *
7945591 CTCCTCAACAGAGGCA-CACGACTTTGGAAAGTAAATTGCTC
1 CT-CTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
7945632 CTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTC
* *
7945674 CTCTACAACAGAGGCACTACGACTTTGAAAAAATAAATTGCTC
1 CTCTA-AACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTC
* *
7945717 CTCTCAACAGAGGCCAACACGACTTTGAAAAGTAAATTGCTCC
1 CTCTAAACAGAGG-CACCACGACTTTGAAAAGTAAATTGCT-C
7945760 CTCT-AACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTC
*
7945799 CTCTAAACAGAGGCACGA--ACTTTGAAAAGTAAATTGCTCC
1 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCT-C
7945839 CTCTAAAACAGAGGTCA-CACGACTTTGAAAAGTAAATTGCTC
1 CTCT-AAACAGAGG-CACCACGACTTTGAAAAGTAAATTGCTC
7945881 CTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTC
* *
7945921 CTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTC
1 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
*
7945962 CTCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGCTC
1 CTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATTGCTC
7946003 CTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTC
*
7946043 CTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
* *
7946084 CTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTC
*
7946126 CTCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGCTC
1 CTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATTGCTC
7946167 CTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACG-ACTTTG-AAAAGTAAATTGCTC
7946208 CTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTC
7946250 CTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTC
7946292 CTCTAAACAGAGGCA
1 CTCTAAACAGAGGCA
7946307 ACGGAACTTT
Statistics
Matches: 810, Mismatches: 31, Indels: 76
0.88 0.03 0.08
Matches are distributed among these distances:
38 2 0.00
39 46 0.06
40 188 0.23
41 269 0.33
42 211 0.26
43 94 0.12
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
Found at i:7945573 original size:122 final size:121
Alignment explanation
Indices: 7945387--7946306 Score: 1168
Period size: 122 Copynumber: 7.5 Consensus size: 121
7945377 GGCCGAAGTT
*
7945387 CTCTAAACAGAGACTCAACG-ACTTTTG-AAAGTAAATTGCT-CTCTAAACAGAGGCA-ACGGAA
1 CTCTAAACAGAG--GCAACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC-G-A
7945448 CTTTGAAAAGTAAATTGCT-CTCTCACAGAGGTACCAACGACTTTGGAAAAGTAAATTGCTC
61 CTTTGAAAAGTAAATTGCTCCTCTCACAGAGGTACCAACGACTTT-GAAAAGTAAATTGCTC
7945509 CTCT-AACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACTACGACT
1 CTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAC-ACGACT
* * *
7945572 TTGGAAAAATAAATTGCTCCTCCTCAACAGAGGCA-C-ACGACTTTGGAAAGTAAATTGCTC
63 TT-GAAAAGTAAATTGCTCCT-CTC-ACAGAGGTACCAACGACTTTGAAAAGTAAATTGCTC
7945632 CTCTAAACAGAGGCACCACG-ACTTTGAAAAAGTAAATTGCTCCTCTACAACAGAGGCACTACGA
1 CTCTAAACAGAGGCA--ACGAACTTTG-AAAAGTAAATTGCTCCTCTA-AACAGAGGCAC-ACGA
*
7945696 CTTTGAAAAAATAAATTGCTCCTCTCAACAGAGG--CCAACACGACTTTGAAAAGTAAATTGCTC
61 CTTTG-AAAAGTAAATTGCTCCTCTC-ACAGAGGTACC-A-ACGACTTTGAAAAGTAAATTGCT-
7945759 C
121 C
7945760 CTCT-AACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CACGAACTTT
1 CTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-ACTTT
*
7945822 GAAAAGTAAATTGCTCCCTCTAAAACAGAGGT--CACACGACTTTGAAAAGTAAATTGCTC
65 GAAAAGTAAATTGCT-CCTCT--CACAGAGGTACCA-ACGACTTTGAAAAGTAAATTGCTC
*
7945881 CTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTT
1 CTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTT
* * *
7945946 GAAAAATAAATTGCTCCTCTAAACAGAGG---CAACGGAACTTTGAAAAATAAATTGCTC
65 GAAAAGTAAATTGCTCCTCT-CACAGAGGTACCAAC-G-ACTTTGAAAAGTAAATTGCTC
*
7946003 CTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTT
1 CTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTT
7946068 GAAAAGTAAATTGCTCCTCTCAACAGAGGTACC-ACGACTTTGGAAAAGTAAATTGCTC
65 GAAAAGTAAATTGCTCCTCTC-ACAGAGGTACCAACGACTTT-GAAAAGTAAATTGCTC
*
7946126 CTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA-ACGAACTT
1 CTCTAAACAGAGGCAAC-GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-ACTT
* *
7946190 TGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC-ACGACTTTTGAAAAGTAAATTGCTC
64 TG-AAAAGTAAATTGCTCCTCT-CACAGAGGTACCAACGAC-TTTGAAAAGTAAATTGCTC
7946250 CTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 CTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
7946307 ACGGAACTTT
Statistics
Matches: 737, Mismatches: 17, Indels: 85
0.88 0.02 0.10
Matches are distributed among these distances:
119 2 0.00
120 6 0.01
121 49 0.07
122 237 0.32
123 86 0.12
124 166 0.23
125 101 0.14
126 53 0.07
127 32 0.04
128 5 0.01
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (121 bp):
CTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGACTTTG
AAAAGTAAATTGCTCCTCTCACAGAGGTACCAACGACTTTGAAAAGTAAATTGCTC
Found at i:7945627 original size:83 final size:80
Alignment explanation
Indices: 7945387--7946306 Score: 1231
Period size: 83 Copynumber: 11.2 Consensus size: 80
7945377 GGCCGAAGTT
* *
7945387 CTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCT-CTCTAAACAGAGGCA-ACGGAAC
1 CTCTAAACAGAGGCAC-ACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC-G-AC
7945449 TTTGAAAAGTAAATTGCT-
62 TTTGAAAAGTAAATTGCTC
* *
7945467 CTCT-CACAGAGGTACCAACGACTTTGGAAAAGTAAATTGCTCCTCT-AACAGAGGCACCACGAC
1 CTCTAAACAGAGGCA-C-ACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGAC
7945530 TTTGAAAAGTAAATTGCTC
62 TTTGAAAAGTAAATTGCTC
* *
7945549 CTCTAAACAGAGGCACTACGACTTTGGAAAAATAAATTGCTCCTCCTCAACAGAGGCACACGACT
1 CTCTAAACAGAGGCAC-ACGACTTT-GAAAAGTAAATTGCTCCT-CTAAACAGAGGCACACGACT
*
7945614 TTGGAAAGTAAATTGCTC
63 TTGAAAAGTAAATTGCTC
7945632 CTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTACAACAGAGGCACTACGAC
1 CTCTAAACAGAGGCA-CACGACTTTG-AAAAGTAAATTGCTCCTCTA-AACAGAGGCAC-ACGAC
*
7945697 TTTGAAAAAATAAATTGCTC
62 TTTG-AAAAGTAAATTGCTC
*
7945717 CTCTCAACAGAGGCCAACACGACTTTGAAAAGTAAATTGCTCCCTCT-AACAGAGGCA-ACGAAC
1 CTCTAAACAGAGG-C-ACACGACTTTGAAAAGTAAATTGCT-CCTCTAAACAGAGGCACACG-AC
7945780 TTTGAAAAGTAAATTGCTC
62 TTTGAAAAGTAAATTGCTC
7945799 CTCTAAACAGAGG--CACGAACTTTGAAAAGTAAATTGCTCCCTCTAAAACAGAGGTCACACGAC
1 CTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCT-CCTCT-AAACAGAGG-CACACGAC
7945862 TTTGAAAAGTAAATTGCTC
62 TTTGAAAAGTAAATTGCTC
*
7945881 CTCTAAACAGAGGCA-ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTT
1 CTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTT
*
7945945 TGAAAAATAAATTGCTC
64 TGAAAAGTAAATTGCTC
*
7945962 CTCTAAACAGAGGCA-ACGGAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA-ACGAACT
1 CTCTAAACAGAGGCACAC-G-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-ACT
7946025 TTGAAAAGTAAATTGCTC
63 TTGAAAAGTAAATTGCTC
* * *
7946043 CTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGACTT
1 CTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTT
7946108 TGGAAAAGTAAATTGCTC
64 T-GAAAAGTAAATTGCTC
*
7946126 CTCTAAACAGAGGCA-ACGGAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA-ACGAACT
1 CTCTAAACAGAGGCACAC-G-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-ACT
7946189 TTGAAAAAGTAAATTGCTC
63 TTG-AAAAGTAAATTGCTC
7946208 CTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACT
1 CTCTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGAC-
7946273 TTTGAAAAGTAAATTGCTC
62 TTTGAAAAGTAAATTGCTC
7946292 CTCTAAACAGAGGCA
1 CTCTAAACAGAGGCA
7946307 ACGGAACTTT
Statistics
Matches: 766, Mismatches: 30, Indels: 84
0.87 0.03 0.10
Matches are distributed among these distances:
78 4 0.01
79 35 0.05
80 16 0.02
81 174 0.23
82 189 0.25
83 221 0.29
84 64 0.08
85 46 0.06
86 16 0.02
87 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (80 bp):
CTCTAAACAGAGGCACACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGACTTTG
AAAAGTAAATTGCTC
Found at i:7947573 original size:10 final size:9
Alignment explanation
Indices: 7947560--7947594 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
7947550 CATTTTCTCA
*
7947560 TTTTTTCCT
1 TTTTTTCTT
7947569 TTTTTTCTAT
1 TTTTTTCT-T
7947579 TTTTTTCTT
1 TTTTTTCTT
7947588 TTTTTTC
1 TTTTTTC
7947595 ATCATCTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:7947574 original size:19 final size:18
Alignment explanation
Indices: 7947552--7947619 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
7947542 CTTTTTTTCA
7947552 TTTTCTCATTTTTTCCTTT
1 TTTTCTCATTTTTT-CTTT
7947571 TTTTCT-ATTTTTTTCTTT
1 TTTTCTCA-TTTTTTCTTT
* *
7947589 TTTT-TCATCATCTTCTTT
1 TTTTCTCAT-TTTTTCTTT
7947607 TTTTCTCATTTTT
1 TTTTCTCATTTTT
7947620 CATCCATTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.05
18 23 0.56
19 16 0.39
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTCTCATTTTTTCTTT
Found at i:7947589 original size:8 final size:8
Alignment explanation
Indices: 7947541--7947592 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
7947531 AATTTGAATC
7947541 TCTTTTTT
1 TCTTTTTT
* *
7947549 TCATTTTC
1 TCTTTTTT
7947557 TCATTTTTT
1 TC-TTTTTT
*
7947566 CCTTTTTT
1 TCTTTTTT
7947574 TCTATTTTTT
1 TC--TTTTTT
7947584 TCTTTTTT
1 TCTTTTTT
7947592 T
1 T
7947593 TCATCATCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 22 0.63
9 5 0.14
10 8 0.23
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (8 bp):
TCTTTTTT
Found at i:7947999 original size:1 final size:1
Alignment explanation
Indices: 7947993--7948019 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
7947983 TTTTGTGGTG
7947993 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
7948020 CAAAAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7951576 original size:158 final size:155
Alignment explanation
Indices: 7951297--7951604 Score: 546
Period size: 158 Copynumber: 2.0 Consensus size: 155
7951287 TAAAATTTTA
* *
7951297 CCAAGTAATTAATTATTGAAAATTATTCTCAATTGACTCTAATACTTTAGCAGAAAATTGAGAAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTAGCAGAAAATTGAGAAA
7951362 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC-G
66 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGG
7951426 ATTAATTAAAGAAAAAAATCAAAATCAG
131 ATTAA-T-AA-AAAAAAATCAAAATCAG
7951454 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATAC-TTTAGCAGAAAATTGAGAA
*
7951519 AATTCCCTCACCTCAGGAGTATGCAATAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
65 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
7951584 GATTAATAAAAAAAAATCAAA
130 GATTAATAAAAAAAAATCAAA
7951605 TCAAAGTCAA
Statistics
Matches: 146, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
156 12 0.08
157 45 0.31
158 83 0.57
159 6 0.04
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (155 bp):
CCAAGTAATTAATTATCGAAAATTATTCTCAATTAACTCTAATACTTTAGCAGAAAATTGAGAAA
ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGG
ATTAATAAAAAAAAATCAAAATCAG
Found at i:7951631 original size:32 final size:32
Alignment explanation
Indices: 7951591--7951663 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
7951581 TCGGATTAAT
* *
7951591 AAAAAAAAA-TCAAATCAAAGTCAAATAAAAAA
1 AAAAAAAAATTCAAA-AAAAGTCAAAAAAAAAA
*
7951623 AAAAAAAAATTCAAAAAAATTCAAAAAAAAAA
1 AAAAAAAAATTCAAAAAAAGTCAAAAAAAAAA
7951655 AAAAAAAAA
1 AAAAAAAAA
7951664 AAACCTGGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 32 0.86
33 5 0.14
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.11
Consensus pattern (32 bp):
AAAAAAAAATTCAAAAAAAGTCAAAAAAAAAA
Found at i:7951638 original size:10 final size:10
Alignment explanation
Indices: 7951625--7951651 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7951615 ATAAAAAAAA
7951625 AAAAAAATTC
1 AAAAAAATTC
7951635 AAAAAAATTC
1 AAAAAAATTC
7951645 AAAAAAA
1 AAAAAAA
7951652 AAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:7951664 original size:33 final size:32
Alignment explanation
Indices: 7951591--7951663 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
7951581 TCGGATTAAT
*
7951591 AAAAAAAAATCAAATCAAAGTCAAATAAAAAAA
1 AAAAAAAAATCAAATAAAAGTCAAA-AAAAAAA
* *
7951624 AAAAAAAATTCAAA-AAAATTCAAAAAAAAAA
1 AAAAAAAAATCAAATAAAAGTCAAAAAAAAAA
7951655 AAAAAAAAA
1 AAAAAAAAA
7951664 AAACCTGGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 15 0.42
32 8 0.22
33 13 0.36
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.11
Consensus pattern (32 bp):
AAAAAAAAATCAAATAAAAGTCAAAAAAAAAA
Found at i:7952060 original size:11 final size:11
Alignment explanation
Indices: 7952044--7952071 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7952034 GGGTTTTTTC
7952044 GCCGGAAGTTG
1 GCCGGAAGTTG
7952055 GCCGGAAGTTG
1 GCCGGAAGTTG
7952066 GCCGGA
1 GCCGGA
7952072 TGGTCGCCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.46, T:0.14
Consensus pattern (11 bp):
GCCGGAAGTTG
Found at i:7952150 original size:31 final size:31
Alignment explanation
Indices: 7952112--7952184 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
7952102 AAACTGGGTC
*
7952112 TGTCGCCGGAAACTTC-AAAGTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
7952143 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
7952174 TTTCGCCGGAA
1 TGTCGCCGGAA
7952185 TCTGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:7952513 original size:12 final size:12
Alignment explanation
Indices: 7952496--7952527 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7952486 CTAGCCCTCC
7952496 AAAATAAAAATT
1 AAAATAAAAATT
7952508 AAAAT-AAAATT
1 AAAATAAAAATT
7952519 AAAA-AAAAA
1 AAAATAAAAA
7952528 AATCTAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:7952882 original size:20 final size:20
Alignment explanation
Indices: 7952827--7952885 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
7952817 CCATTTGGGG
* *
7952827 CAGGCCCAAATGATCTGGGT
1 CAGGCCCAATTGATCCGGGT
7952847 CAGGCCCAATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
7952867 CAGGCCCAATTGATCCGGG
1 CAGGCCCAATTGATCCGGG
7952886 CCCGGACCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGCCCAATTGATCCGGGT
Found at i:7957675 original size:5 final size:5
Alignment explanation
Indices: 7957667--7957692 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7957657 CATGGATAAG
7957667 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
7957693 TTTACCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:7961145 original size:5 final size:5
Alignment explanation
Indices: 7961137--7961166 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
7961127 AAATGAGTTA
7961137 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
7961167 AGGAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:7961147 original size:21 final size:21
Alignment explanation
Indices: 7961121--7961166 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7961111 AAAAAAATTA
* **
7961121 AAAATAAAATGAGTTAAAAAT
1 AAAATAAAATAAAATAAAAAT
7961142 AAAATAAAATAAAATAAAAAT
1 AAAATAAAATAAAATAAAAAT
7961163 AAAA
1 AAAA
7961167 AGGAAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAAAT
Found at i:7961150 original size:10 final size:11
Alignment explanation
Indices: 7961135--7961166 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
7961125 TAAAATGAGT
7961135 TAAAAATAAAA
1 TAAAAATAAAA
7961146 T-AAAATAAAA
1 TAAAAATAAAA
7961156 TAAAAATAAAA
1 TAAAAATAAAA
7961167 AGGAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:7961154 original size:16 final size:16
Alignment explanation
Indices: 7961100--7961166 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
7961090 TTCTTAAAAT
*
7961100 AATAAAACTAGAAA-AA
1 AATAAAAATA-AAATAA
*
7961116 AATTAAAAATAAAATGA
1 AA-TAAAAATAAAATAA
**
7961133 GTTAAAAATAAAATAA
1 AATAAAAATAAAATAA
7961149 AAT-AAAATAAAAATAA
1 AATAAAAAT-AAAATAA
7961165 AA
1 AA
7961167 AGGAAAAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.12
16 28 0.68
17 8 0.20
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (16 bp):
AATAAAAATAAAATAA
Found at i:7962009 original size:13 final size:13
Alignment explanation
Indices: 7961991--7962015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7961981 AGGAAAATAA
7961991 AAATAAAATTAAG
1 AAATAAAATTAAG
7962004 AAATAAAATTAA
1 AAATAAAATTAA
7962016 AATAATAATA
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAATAAAATTAAG
Found at i:7962024 original size:3 final size:3
Alignment explanation
Indices: 7962016--7962157 Score: 50
Period size: 3 Copynumber: 48.0 Consensus size: 3
7962006 ATAAAATTAA
* * *
7962016 AAT AAT AAT AAT AAT -AT AGT AAT AAT -AT AAT AAT AGT AA- ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
7962061 -AT GAT -AT ATAT AA- CAT GAT -AT ACT ATAT ATAT AAT AAT GGT GAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT
* *
7962105 AAAT ATAT AAT AAT AAT -AT AAT ATAT AAT AAA AAT AAA AAT -AT AAT
1 -AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
7962151 ATAT AAT
1 A-AT AAT
7962158 GTAGTAAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
2 16 0.15
3 70 0.66
4 20 0.19
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:7962038 original size:11 final size:10
Alignment explanation
Indices: 7962016--7962155 Score: 66
Period size: 11 Copynumber: 13.9 Consensus size: 10
7962006 ATAAAATTAA
7962016 AATAATA-AT
1 AATAATATAT
7962025 AATAATATAGT
1 AATAATATA-T
7962036 AATAATATAAT
1 AATAATAT-AT
* *
7962047 AATAGTAAACT
1 AATAATATA-T
7962058 AAT-ATGATAT
1 AATAAT-ATAT
7962068 ATATAACATGATAT
1 A-AT-A-AT-ATAT
*
7962082 ACTATATATAT
1 AATA-ATATAT
*
7962093 AATAATGGTGAT
1 AATAAT-AT-AT
7962105 -A-AATATAT
1 AATAATATAT
7962113 AATAATA-AT
1 AATAATATAT
7962122 -ATAATATAT
1 AATAATATAT
*
7962131 AATAA-AAAT
1 AATAATATAT
7962140 AA-AA-ATAT
1 AATAATATAT
7962148 AAT-ATATA
1 AATAATATA
7962156 ATGTAGTAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
8 16 0.16
9 21 0.20
10 18 0.17
11 33 0.32
12 6 0.06
13 1 0.01
14 8 0.08
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (10 bp):
AATAATATAT
Found at i:7962038 original size:17 final size:17
Alignment explanation
Indices: 7962018--7962157 Score: 63
Period size: 17 Copynumber: 8.7 Consensus size: 17
7962008 AAAATTAAAA
7962018 TAATAATAATAAT-ATAG
1 TAATAAT-ATAATAATAG
7962035 TAATAATATAATAATAG
1 TAATAATATAATAATAG
*
7962052 TAAACTAATATGAT-ATA-
1 T-AA-TAATATAATAATAG
* * *
7962069 T-ATAACATGAT-ATAC
1 TAATAATATAATAATAG
*
7962084 T-ATATATATAATAATGG
1 TAATA-ATATAATAATAG
* *
7962101 TGATAA-AT-AT-ATAA
1 TAATAATATAATAATAG
7962115 TAATAATATAAT-ATA-
1 TAATAATATAATAATAG
* *
7962130 TAATAAAAATAAAAATA-
1 TAAT-AATATAATAATAG
7962147 TAAT-ATATAAT
1 TAATAATATAAT
7962158 GTAGTAAATT
Statistics
Matches: 99, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
14 18 0.18
15 18 0.18
16 23 0.23
17 24 0.24
18 8 0.08
19 8 0.08
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TAATAATATAATAATAG
Found at i:7962112 original size:20 final size:18
Alignment explanation
Indices: 7962016--7962157 Score: 83
Period size: 20 Copynumber: 7.3 Consensus size: 18
7962006 ATAAAATTAA
*
7962016 AATAATAATAATAATATAGT
1 AATAAT-ATAAT-ATATAAT
7962036 AATAATATAATAATAGTAA-
1 AATAATATAAT-ATA-TAAT
*
7962055 ACTAATATGATATATATAA-
1 AATAATAT-A-ATATATAAT
*
7962074 CATGATATACTATATATATAAT
1 AAT-A-ATA-TA-ATATATAAT
**
7962096 AATGGTGATAAATATATAAT
1 AATAAT-AT-AATATATAAT
7962116 AATAATATAATATATAAT
1 AATAATATAATATATAAT
* *
7962134 AAAAATA-AAAATATAAT
1 AATAATATAATATATAAT
7962151 ATATAAT
1 A-ATAAT
7962158 GTAGTAAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.10
18 20 0.20
19 22 0.22
20 28 0.28
21 17 0.17
22 3 0.03
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (18 bp):
AATAATATAATATATAAT
Found at i:7963399 original size:124 final size:122
Alignment explanation
Indices: 7963165--7963395 Score: 349
Period size: 122 Copynumber: 1.9 Consensus size: 122
7963155 TATAAAATTA
*
7963165 TTTTTATGTTTGAAAAATTCTAAAATATTTCTAACACTTTTAGAATATTTTAAAAAAATTCCTTT
1 TTTTTATGTTTAAAAAATTCTAAAATATTTCTAACACTTTTAGAATATTTTAAAAAAATTCCTTT
* * *
7963230 GTGTAAATATTTTTAATAAAATCACATTTGTGATTTTAGTTTTATTGTTAATAATAT
66 CTGTAAATATTTTTAATAAAATCACACTTGTAATTTTAGTTTTATTGTTAATAATAT
* *
7963287 TTTTTGATGTTTAAAAAAATTCTAAAATATTTCTAACATTTTTAGAATA-TTT-AAAAAATTTCT
1 TTTTT-ATGTTT-AAAAAATTCTAAAATATTTCTAACACTTTTAGAATATTTTAAAAAAATTCCT
* *
7963350 TTCTGTAAATATTTTTTATAAAATCACCACTTGTAATTTTATTTTT
64 TTCTGTAAATATTTTTAATAAAATCA-CACTTGTAATTTTAGTTTT
7963396 TATTTTATCA
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
122 39 0.40
123 25 0.26
124 34 0.35
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (122 bp):
TTTTTATGTTTAAAAAATTCTAAAATATTTCTAACACTTTTAGAATATTTTAAAAAAATTCCTTT
CTGTAAATATTTTTAATAAAATCACACTTGTAATTTTAGTTTTATTGTTAATAATAT
Found at i:7964612 original size:3 final size:3
Alignment explanation
Indices: 7964606--7964644 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7964596 GATGATGATG
7964606 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7964645 GTAAAATGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7965042 original size:42 final size:43
Alignment explanation
Indices: 7964963--7965060 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
7964953 AGGCTTGACA
* * **
7964963 ACTTTTGAAAATTTATAAGGCTTTTCTAAGTAGAGGCTCAACG
1 ACTTTTGAAAATTTAAAAGACTTTTCTAAACAGAGGCTCAACG
* *
7965006 ACTTTTGAAAA-TTAAAAGACTTTTCTAAACAGAGGCTCGATG
1 ACTTTTGAAAATTTAAAAGACTTTTCTAAACAGAGGCTCAACG
*
7965048 A-TTTTAAAAATTT
1 ACTTTTGAAAATTT
7965061 TATCTTGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 8 0.17
42 28 0.60
43 11 0.23
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (43 bp):
ACTTTTGAAAATTTAAAAGACTTTTCTAAACAGAGGCTCAACG
Found at i:7965103 original size:49 final size:50
Alignment explanation
Indices: 7965019--7965172 Score: 175
Period size: 49 Copynumber: 3.1 Consensus size: 50
7965009 TTTGAAAATT
** * * * * *
7965019 AAAAGACTTTTCTAAACAGAGGCTCGATGATTTTAAAAATTTTATCTTGA
1 AAAAGACTCCTCTAAGCAGAGGCTCAACGACTTTAAAAATTTCATCTTGA
* * * * *
7965069 AAAAG-CTCTTCTTAGTAGAGGCTCAACGACTTTAAAAATTTCATTTTGG
1 AAAAGACTCCTCTAAGCAGAGGCTCAACGACTTTAAAAATTTCATCTTGA
*
7965118 AAAAGACTCCTCTAAGCAGAGGCCTCAACAACTTTAAAAATTTCATCTTGA
1 AAAAGACTCCTCTAAGCAGAGG-CTCAACGACTTTAAAAATTTCATCTTGA
7965169 AAAA
1 AAAA
7965173 AGGTTTCTTT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 39 0.45
50 18 0.21
51 29 0.34
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (50 bp):
AAAAGACTCCTCTAAGCAGAGGCTCAACGACTTTAAAAATTTCATCTTGA
Found at i:7965157 original size:51 final size:49
Alignment explanation
Indices: 7965050--7965172 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 49
7965040 GCTCGATGAT
* * * * *
7965050 TTTAAAAATTTTATCTTGAAAAAGCTCTTCTTAGTAGAGGCTCAACGAC
1 TTTAAAAATTTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAAC
* *
7965099 TTTAAAAATTTCATTTTGGAAAAGACTCCTCTAAGCAGAGGCCTCAACAAC
1 TTTAAAAATTTCATCTTGAAAAAG-CTCCTCTAAGCAGAGG-CTCAACAAC
7965150 TTTAAAAATTTCATCTTGAAAAA
1 TTTAAAAATTTCATCTTGAAAAA
7965173 AGGTTTCTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 21 0.33
50 13 0.21
51 29 0.46
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (49 bp):
TTTAAAAATTTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAAC
Found at i:7972556 original size:9 final size:9
Alignment explanation
Indices: 7972544--7972576 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
7972534 TAAATAATAG
7972544 TAATAAAAA
1 TAATAAAAA
7972553 TAAT-AAAA
1 TAATAAAAA
7972561 TAATAAAAA
1 TAATAAAAA
7972570 TAATAAA
1 TAATAAA
7972577 TATATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAATAAAAA
Found at i:7972590 original size:20 final size:17
Alignment explanation
Indices: 7972544--7972576 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7972534 TAAATAATAG
7972544 TAATAAAAATAATAAAA
1 TAATAAAAATAATAAAA
7972561 TAATAAAAATAATAAA
1 TAATAAAAATAATAAA
7972577 TATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAATAAAAATAATAAAA
Found at i:7973865 original size:3 final size:3
Alignment explanation
Indices: 7973857--7973886 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7973847 AAATGCTGAA
7973857 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7973887 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7974289 original size:23 final size:21
Alignment explanation
Indices: 7974233--7974293 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
7974223 AAATCAAACC
*
7974233 CTAAACACCCTAAACCTTAAAAT
1 CTAAAC-CCC-AAACCTTAAAAA
* *
7974256 CAAAACTCCAAACCTTCATAAAA
1 CTAAACCCCAAACCTT-A-AAAA
7974279 CTAAACCCCAAACCT
1 CTAAACCCCAAACCT
7974294 CCAAACCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 7 0.23
22 3 0.10
23 21 0.68
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (21 bp):
CTAAACCCCAAACCTTAAAAA
Found at i:7974329 original size:16 final size:15
Alignment explanation
Indices: 7974279--7974348 Score: 65
Period size: 14 Copynumber: 4.8 Consensus size: 15
7974269 CTTCATAAAA
*
7974279 CTAAACCCCAAACCT
1 CTAAACCCTAAACCT
* *
7974294 CCAAACCCTAAA-AT
1 CTAAACCCTAAACCT
7974308 -TAAACCCTAAATCCT
1 CTAAACCCTAAA-CCT
*
7974323 CTAAACCCTAAA-AT
1 CTAAACCCTAAACCT
*
7974337 CAAAACCCTAAA
1 CTAAACCCTAAA
7974349 ACCAAAACTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.22
14 13 0.29
15 11 0.24
16 11 0.24
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (15 bp):
CTAAACCCTAAACCT
Found at i:7974332 original size:29 final size:28
Alignment explanation
Indices: 7974274--7974348 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
7974264 CAAACCTTCA
* *
7974274 TAAAACTAAACCCCAAACCTCCAAACCC
1 TAAAATTAAACCCTAAACCTCCAAACCC
*
7974302 TAAAATTAAACCCTAAATCCTCTAAACCC
1 TAAAATTAAACCCTAAA-CCTCCAAACCC
*
7974331 TAAAATCAAAACCCTAAA
1 TAAAAT-TAAACCCTAAA
7974349 ACCAAAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 15 0.37
29 16 0.39
30 10 0.24
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.17
Consensus pattern (28 bp):
TAAAATTAAACCCTAAACCTCCAAACCC
Found at i:7974344 original size:14 final size:14
Alignment explanation
Indices: 7974296--7974418 Score: 74
Period size: 14 Copynumber: 8.7 Consensus size: 14
7974286 CCAAACCTCC
*
7974296 AAACCCTAAAAT-T
1 AAACCCTAAAATCA
* *
7974309 AAACCCTAAATCCTCT
1 AAACCCTAAA--ATCA
7974325 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
7974339 AAACCCTAAAACCA
1 AAACCCTAAAATCA
* *
7974353 AAA-CTTCAAACTTC-
1 AAACCCT-AAA-ATCA
7974367 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
7974381 AAACCC-CAAATCTC
1 AAACCCTAAAATC-A
* *
7974395 AAACTCTAAAATTA
1 AAACCCTAAAATCA
*
7974409 AAAACCTAAA
1 AAACCCTAAA
7974419 CCCCAAAATC
Statistics
Matches: 84, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
13 19 0.23
14 46 0.55
15 8 0.10
16 11 0.13
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:7974372 original size:71 final size:71
Alignment explanation
Indices: 7974295--7974489 Score: 182
Period size: 71 Copynumber: 2.7 Consensus size: 71
7974285 CCCAAACCTC
* * *
7974295 CAAACCCTAAAAT-TAAACCCTAAATCCTCTAAACCCTAAAATCAAAACCCTAAA-ACCAAAA-C
1 CAAACCCTAAAATCAAAACCCCAAAT-CTC-AAACCCTAAAATCAAAAACCTAAACACCAAAATC
7974357 TTCAAACTT
64 -TCAAACTT
* * * *
7974366 CAAACCCTAAAATCAAAACCCCAAATCTCAAACTCTAAAATTAAAAACCTAAACCCCAAAATCTG
1 CAAACCCTAAAATCAAAACCCCAAATCTCAAACCCTAAAATCAAAAACCTAAACACCAAAATCTC
7974431 AAACTT
66 AAACTT
* ** * * * * * *
7974437 AAAACCCT-ACCTCTGAAATCCAAAATCTCAAGCCTTAAAATCCAAAACCTAAA
1 CAAACCCTAAAATC-AAAACCCCAAATCTCAAACCCTAAAATCAAAAACCTAAA
7974490 AATCTAAATT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
70 24 0.24
71 67 0.66
72 11 0.11
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (71 bp):
CAAACCCTAAAATCAAAACCCCAAATCTCAAACCCTAAAATCAAAAACCTAAACACCAAAATCTC
AAACTT
Found at i:7974390 original size:28 final size:28
Alignment explanation
Indices: 7974339--7974411 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
7974329 CCTAAAATCA
* **
7974339 AAACCCTAAAACCAAAACTTCAAA-CTTC
1 AAACCCTAAAATCAAAACCCCAAATC-TC
7974367 AAACCCTAAAATCAAAACCCCAAATCTC
1 AAACCCTAAAATCAAAACCCCAAATCTC
* *
7974395 AAACTCTAAAATTAAAA
1 AAACCCTAAAATCAAAA
7974412 ACCTAAACCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (28 bp):
AAACCCTAAAATCAAAACCCCAAATCTC
Found at i:7974417 original size:42 final size:42
Alignment explanation
Indices: 7974329--7974418 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
7974319 TCCTCTAAAC
* * * *
7974329 CCTAAAATCAAAACCCTAAAACCAAAACTTCAAACTTCAAAC
1 CCTAAAATCAAAACCCCAAAACCAAAACTTCAAAATTAAAAA
*
7974371 CCTAAAATCAAAACCCCAAATCTC-AAAC-TCTAAAATTAAAAA
1 CCTAAAATCAAAACCCCAAAAC-CAAAACTTC-AAAATTAAAAA
7974413 CCTAAA
1 CCTAAA
7974419 CCCCAAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.05
42 38 0.93
43 1 0.02
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (42 bp):
CCTAAAATCAAAACCCCAAAACCAAAACTTCAAAATTAAAAA
Found at i:7974425 original size:28 final size:28
Alignment explanation
Indices: 7974366--7974445 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
7974356 CTTCAAACTT
* * * * *
7974366 CAAACCCTAAAATCAAAACCCCAAATCT
1 CAAACTCTAAAATTAAAACCCTAAACCC
*
7974394 CAAACTCTAAAATTAAAAACCTAAACCC
1 CAAACTCTAAAATTAAAACCCTAAACCC
* *
7974422 CAAAATCTGAAACTTAAAACCCTA
1 CAAACTCT-AAAATTAAAACCCTA
7974446 CCTCTGAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 29 0.69
29 13 0.31
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (28 bp):
CAAACTCTAAAATTAAAACCCTAAACCC
Found at i:7974764 original size:16 final size:16
Alignment explanation
Indices: 7974743--7974781 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
7974733 TCTAATCCTC
*
7974743 ATTAATAATGAGACTA
1 ATTAATAATGAGAATA
7974759 ATTAATAATGAGAATA
1 ATTAATAATGAGAATA
7974775 A-TAATAA
1 ATTAATAA
7974782 AATGGAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (16 bp):
ATTAATAATGAGAATA
Found at i:7975745 original size:26 final size:26
Alignment explanation
Indices: 7975695--7975745 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
7975685 CAATGATTGG
* *
7975695 ATTTAATTAGTTTTATTTGATATTTA
1 ATTTAATTACTTTTATTTGAAATTTA
* *
7975721 ATTTAATTTCTTTTATTTTAAATTT
1 ATTTAATTACTTTTATTTGAAATTT
7975746 TCATAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
ATTTAATTACTTTTATTTGAAATTTA
Found at i:7982679 original size:41 final size:39
Alignment explanation
Indices: 7982583--7982696 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 39
7982573 ATATAAAAAG
* * * *
7982583 AGACATTCATAGTTGCATCACTTGCTTGTGCATCATGAA
1 AGACATTCGTATTTGCATCACTTGCATCTGCATCATGAA
* * *
7982622 AGGGATATTTGCATTTGCATCACTTGCATCTGCATCATAAGAA
1 A--GACATTCGTATTTGCATCACTTGCATCTGCATCAT--GAA
* *
7982665 AGACATTCGTATTTGCATCATTTGCATTTGCA
1 AGACATTCGTATTTGCATCACTTGCATCTGCA
7982697 CTTGTGTAAG
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
39 1 0.02
41 54 0.92
43 4 0.07
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (39 bp):
AGACATTCGTATTTGCATCACTTGCATCTGCATCATGAA
Found at i:7983104 original size:41 final size:41
Alignment explanation
Indices: 7983002--7983105 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
7982992 TGAAAGTTTT
* * *
7983002 AAAGTCTCTGTTTAAGAGGAACCATTTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAGAGGAACAAATTTCAATCAAGATTTC
*
7983043 AAAGCCTCTATTTAAGAGGAACAAATTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAGAGGAACAAATTTCAATCAAGATTTC
*
7983084 AAAGCCTTTGTTT-AGAAGGAAC
1 AAAGCCTCTGTTTAAG-AGGAAC
7983106 CTTCTTCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.04
41 54 0.96
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (41 bp):
AAAGCCTCTGTTTAAGAGGAACAAATTTCAATCAAGATTTC
Found at i:7983263 original size:22 final size:22
Alignment explanation
Indices: 7983235--7983288 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7983225 TTAAGATTTG
*
7983235 TAAGACCTCCAAGTATAATCTT-
1 TAAGACCTCCAAGCATAA-CTTC
7983257 TAAGACCTCCAAGCATAACTTC
1 TAAGACCTCCAAGCATAACTTC
*
7983279 TAAAACCTCC
1 TAAGACCTCC
7983289 GGGCAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (22 bp):
TAAGACCTCCAAGCATAACTTC
Found at i:7983494 original size:22 final size:21
Alignment explanation
Indices: 7983466--7983513 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
7983456 TTTTGACATG
7983466 ATTTTTAAGACCTTCAGGCATA
1 ATTTTT-AGACCTTCAGGCATA
**
7983488 ATTTTTAGACCTTTGGGCATA
1 ATTTTTAGACCTTCAGGCATA
7983509 ATTTT
1 ATTTT
7983514 GATTTGTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
ATTTTTAGACCTTCAGGCATA
Found at i:7983683 original size:22 final size:22
Alignment explanation
Indices: 7983573--7983676 Score: 88
Period size: 22 Copynumber: 4.7 Consensus size: 22
7983563 TATCCCAGTC
*
7983573 GATTTTGTAAGACCTTCAGGTAT
1 GATTTT-TAAGACCTTCAGGCAT
*
7983596 GATTTTTAAGACCTCCAGGCAT
1 GATTTTTAAGACCTTCAGGCAT
* * * *
7983618 AATCTTTAAGGCC-TCCGAGCAT
1 GATTTTTAAGACCTTCAG-GCAT
*
7983640 GATTTTTAAG-TCTTCCCA-GCAT
1 GATTTTTAAGACCTT--CAGGCAT
7983662 GATTTTTAAGACCTT
1 GATTTTTAAGACCTT
7983677 TGGGCATAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
21 3 0.05
22 51 0.80
23 9 0.14
24 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GATTTTTAAGACCTTCAGGCAT
Found at i:7983778 original size:175 final size:175
Alignment explanation
Indices: 7983462--7983784 Score: 474
Period size: 176 Copynumber: 1.8 Consensus size: 175
7983452 AGACTTTTGA
***
7983462 CATGATTTTTAAGACCTTCAGGCATAATTTTTAGACCTTTGGGCATAATTTTGATTTGTGGTGTT
1 CATGATTTTTAAGACCTTCAGGCATAATTTTTAGACCTTTGGGCATAATTTTGATTTACAGTGTT
* *
7983527 ATCCCGATCGATTCCTTACTTTTTGACTTACGGTGTTATCCCAGTCGATTTTGTAAGACCTTCAG
66 ATCCCGATCGATTCCTTACTTTTTGACTTACGGTGTTATCCCAGTCGATTCTATAAGACCTTCAG
*
7983592 GTATGATTTTTAAGACCTCCAGGCATAATCTTTAAGGCCTCCGAG
131 GCATGATTTTTAAGACCTCCAGGCATAATCTTTAAGGCCTCCGAG
* *
7983637 CATGATTTTTAAG-TCTTCCCA-GCATGATTTTTAAGACCTTTGGGCATAATTTTGATTTACAGT
1 CATGATTTTTAAGACCTT--CAGGCATAATTTTT-AGACCTTTGGGCATAATTTTGATTTACAGT
* * *
7983700 GTTATCTCGATCGATTTCTTATTTTTTGACTTACGGTGTTAT-CCAGTCGATTCTATAAGACC-T
63 GTTATCCCGATCGATTCCTTACTTTTTGACTTACGGTGTTATCCCAGTCGATTCTATAAGACCTT
*
7983763 CTGGACATGATTTTTAAGACCT
128 CAGG-CATGATTTTTAAGACCT
7983785 TCGGGTATAA
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
174 7 0.05
175 57 0.43
176 68 0.52
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (175 bp):
CATGATTTTTAAGACCTTCAGGCATAATTTTTAGACCTTTGGGCATAATTTTGATTTACAGTGTT
ATCCCGATCGATTCCTTACTTTTTGACTTACGGTGTTATCCCAGTCGATTCTATAAGACCTTCAG
GCATGATTTTTAAGACCTCCAGGCATAATCTTTAAGGCCTCCGAG
Found at i:7983797 original size:22 final size:22
Alignment explanation
Indices: 7983755--7983820 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
7983745 GTCGATTCTA
* *
7983755 TAAGACCT-CTGGACATGATTTT
1 TAAGACCTCCAGG-CATAATTTT
* * * *
7983777 TAAGACCTTCGGGTATAATTTC
1 TAAGACCTCCAGGCATAATTTT
7983799 TAAGACCTCCAGGCATAATTTT
1 TAAGACCTCCAGGCATAATTTT
7983821 GATTCGCGGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 32 0.91
23 3 0.09
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAGACCTCCAGGCATAATTTT
Found at i:7984047 original size:22 final size:22
Alignment explanation
Indices: 7984019--7984105 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 22
7984009 ATTGATTTTA
* * *
7984019 TAAGACCTCCGAGCATGATTTT
1 TAAGACCTTCGAGCATAATTTC
7984041 TAAGACCTTCG-GACATAATTTC
1 TAAGACCTTCGAG-CATAATTTC
*
7984063 TAAGACCTTCAAGCATAATTTC
1 TAAGACCTTCGAGCATAATTTC
* *
7984085 TAAGACTTTCAAGCATAATTT
1 TAAGACCTTCGAGCATAATTT
7984106 TGATTCATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
21 1 0.02
22 56 0.97
23 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGAGCATAATTTC
Found at i:7984084 original size:132 final size:132
Alignment explanation
Indices: 7983624--7984084 Score: 538
Period size: 132 Copynumber: 3.5 Consensus size: 132
7983614 GCATAATCTT
* * ** * * **
7983624 TAAGGCCTCCGAGCATGATTTTTAAG-TCTTCCCAGCATGATTTTTAAGACCTTTGGGCATAATT
1 TAAGACCTCCGAGCATGATTTTTAAGACCTTCGGA-CATAATTTCTAAGACCTTCAGGCATAATT
* ** *
7983688 TTGATTTACAGTGTTATCTCGATCGATTTCTTATTTTTTGACTTACGGTGTTA-TCCAGTCGATT
65 TCGATTCGCGGTGTTATCTCGATCGATTTCTTATTTTTTGACTTACGGTGTTATTCCAGTCGATT
7983752 CTA
130 CTA
* ** *
7983755 TAAGACCTCTG-GACATGATTTTTAAGACCTTCGGGTATAATTTCTAAGACCTCCAGGCATAATT
1 TAAGACCTCCGAG-CATGATTTTTAAGACCTTCGGACATAATTTCTAAGACCTTCAGGCATAATT
* * * * * * *
7983819 TTGATTCGCGGTGTTATC-CTGATTGATTGCTTATTTTTTGACTTGCGATGTTCTTCTAGTCGAT
65 TCGATTCGCGGTGTTATCTC-GATCGATTTCTTATTTTTTGACTTACGGTGTTATTCCAGTCGAT
7983883 TCTA
129 TCTA
* * * *
7983887 TAAGACCTCCGGGCATGATTTTTAAAACC-TCTGGGCATAATTTCTAAGA-CTTGCAGGTATAAT
1 TAAGACCTCCGAGCATGATTTTTAAGACCTTC-GGACATAATTTCTAAGACCTT-CAGGCATAAT
* * * *
7983950 TTCGATTCGTGGTGTTATCTCGATCGATTTCTTATTTTTTGAGTTACGGTGTTATTCCAATTGAT
64 TTCGATTCGCGGTGTTATCTCGATCGATTTCTTATTTTTTGACTTACGGTGTTATTCCAGTCGAT
*
7984015 TTTA
129 TCTA
*
7984019 TAAGACCTCCGAGCATGATTTTTAAGACCTTCGGACATAATTTCTAAGACCTTCAAGCATAATTT
1 TAAGACCTCCGAGCATGATTTTTAAGACCTTCGGACATAATTTCTAAGACCTTCAGGCATAATTT
7984084 C
66 C
7984085 TAAGACTTTC
Statistics
Matches: 277, Mismatches: 43, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
130 2 0.01
131 92 0.33
132 176 0.64
133 7 0.03
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (132 bp):
TAAGACCTCCGAGCATGATTTTTAAGACCTTCGGACATAATTTCTAAGACCTTCAGGCATAATTT
CGATTCGCGGTGTTATCTCGATCGATTTCTTATTTTTTGACTTACGGTGTTATTCCAGTCGATTC
TA
Found at i:7984180 original size:154 final size:154
Alignment explanation
Indices: 7983921--7984216 Score: 394
Period size: 154 Copynumber: 1.9 Consensus size: 154
7983911 AAACCTCTGG
* * * * * *
7983921 GCATAATTTCTAAGACTTGCAGGTATAATTTCGATTCGTGGTGTTATCTCGATCGATTTCTTATT
1 GCATAATTTCTAAGACTTGCAAGCATAATTTCGATTCATAGTGTTATCCCAATCGATTTCTTATT
* ** * * *
7983986 TTTTGAGTTACGGTGTTATTCCAATTGATTTTATAAGACCTCCGAGCATGATTTTTAAGACCTTC
66 TTTTGACTTACGGTGTTAACCCAATCGATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCC
7984051 GGACATAATTTCTAAGACCTTCAA
131 GGACATAATTTCTAAGACCTTCAA
* *
7984075 GCATAATTTCTAAGACTTTCAAGCATAATTTTGATTCATAGTGTTATCCCAATCGATTTCTTATT
1 GCATAATTTCTAAGACTTGCAAGCATAATTTCGATTCATAGTGTTATCCCAATCGATTTCTTATT
* * * * ** *
7984140 TTTTGACTTGCGGTGTTAACCCAGTCGATTCTGTATGACCTTTGGGCATGATTTTTAAGACCTCC
66 TTTTGACTTACGGTGTTAACCCAATCGATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCC
*
7984205 GGGCATAATTTC
131 GGACATAATTTC
7984217 GATTCGCAAT
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
154 120 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (154 bp):
GCATAATTTCTAAGACTTGCAAGCATAATTTCGATTCATAGTGTTATCCCAATCGATTTCTTATT
TTTTGACTTACGGTGTTAACCCAATCGATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCC
GGACATAATTTCTAAGACCTTCAA
Found at i:7984298 original size:110 final size:110
Alignment explanation
Indices: 7984059--7984306 Score: 282
Period size: 110 Copynumber: 2.3 Consensus size: 110
7984049 TCGGACATAA
* * * * * *
7984059 TTTCTAAGACCTTCAAGCATAATTTCTAAGACTTTCAAGCATAATTTTGATTCATAGTGTTATCC
1 TTTCTAAGACCTTCAGGCATAATTTCTAAGACCTCCAAGCATAATTTCGATTCACAATGTTATCC
7984124 CAATCGATTTCTTATTTTTTGACTTGCGGTGTTAACCCAGTCGAT
66 CAATCGATTTCTTATTTTTTGACTTGCGGTGTTAACCCAGTCGAT
* * * ** * * ** * *
7984169 TCTGTATGACCTTTGGGCATGATTTTTAAGACCTCCGGGCATAATTTCGATTCGCAATGTTGTCC
1 TTTCTAAGACCTTCAGGCATAATTTCTAAGACCTCCAAGCATAATTTCGATTCACAATGTTATCC
* * *
7984234 CGATCGATTT-TTAATTTTTTGACTTGCGGTGTTATCCTAGTCGAT
66 CAATCGATTTCTT-ATTTTTTGACTTGCGGTGTTAACCCAGTCGAT
* *
7984279 TTTCTAAAACCTTCAGGCATCATTTCTA
1 TTTCTAAGACCTTCAGGCATAATTTCTA
7984307 CAATCTTCGG
Statistics
Matches: 109, Mismatches: 28, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
109 2 0.02
110 107 0.98
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (110 bp):
TTTCTAAGACCTTCAGGCATAATTTCTAAGACCTCCAAGCATAATTTCGATTCACAATGTTATCC
CAATCGATTTCTTATTTTTTGACTTGCGGTGTTAACCCAGTCGAT
Found at i:7984611 original size:21 final size:21
Alignment explanation
Indices: 7984580--7984637 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
7984570 TTGAAATTGT
* *
7984580 TAATTATAATAGTAAATAATAG
1 TAATAATAATA-TAAATAATAA
7984602 TAATAA-AATA-AAAT-ATAA
1 TAATAATAATATAAATAATAA
7984620 TAATAATAATAATAAATA
1 TAATAATAAT-ATAAATA
7984638 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 9 0.30
19 7 0.23
20 1 0.03
21 8 0.27
22 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
TAATAATAATATAAATAATAA
Found at i:7984624 original size:3 final size:3
Alignment explanation
Indices: 7984580--7984634 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
7984570 TTGAAATTGT
* * *
7984580 TAA TTA TAA TAG TAAA TAA TAG TAA TAA -AA TAA -AA T-A TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7984623 TAA TAA TAA TAA
1 TAA TAA TAA TAA
7984635 ATATATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.14
3 34 0.81
4 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7984638 original size:21 final size:21
Alignment explanation
Indices: 7984595--7984640 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
7984585 ATAATAGTAA
*
7984595 ATAATAGTAATAAAATAAAAT
1 ATAATAATAATAAAATAAAAT
7984616 ATAATAATAATAATAATAAATAT
1 ATAATAATAATAA-AATAAA-AT
7984639 AT
1 AT
7984641 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 6 0.27
23 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATAATAATAAAATAAAAT
Found at i:7984744 original size:12 final size:12
Alignment explanation
Indices: 7984724--7984761 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7984714 CCCTGTTGCC
7984724 CCCTATAGCCTA
1 CCCTATAGCCTA
* *
7984736 CCCTGTAGCTTA
1 CCCTATAGCCTA
7984748 CCCTATAGCC-A
1 CCCTATAGCCTA
7984759 CCC
1 CCC
7984762 CTTGTCTAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.21, C:0.45, G:0.11, T:0.24
Consensus pattern (12 bp):
CCCTATAGCCTA
Found at i:7986049 original size:3 final size:3
Alignment explanation
Indices: 7986041--7986070 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7986031 AAATGCTTAA
7986041 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7986071 CTAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7986269 original size:12 final size:12
Alignment explanation
Indices: 7986234--7986276 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7986224 TAAAAAAAGC
*
7986234 ATAATAATAATA
1 ATAATAATATTA
*
7986246 ATAATAAAATTA
1 ATAATAATATTA
*
7986258 ATAATATTATTA
1 ATAATAATATTA
*
7986270 TTAATAA
1 ATAATAA
7986277 ATTTTCATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATAATATTA
Found at i:7986419 original size:14 final size:14
Alignment explanation
Indices: 7986400--7986696 Score: 101
Period size: 14 Copynumber: 20.9 Consensus size: 14
7986390 TGTTTTCTTT
7986400 AAACCCTAAAATCC
1 AAACCCTAAAATCC
* *
7986414 AAACCCTAAATTTC
1 AAACCCTAAAATCC
* **
7986428 AAACCCAAAAATTG
1 AAACCCTAAAATCC
7986442 AAACCCTAAAAT-C
1 AAACCCTAAAATCC
* *
7986455 AAACCCCAAACACCC
1 AAACCCTAAA-ATCC
* *
7986470 TAAACCTTAAAATCA
1 -AAACCCTAAAATCC
* *
7986485 AAACTCC-AAACTTTC
1 AAAC-CCTAAA-ATCC
*
7986500 AAACCCTAAAA-CT
1 AAACCCTAAAATCC
* ** *
7986513 AAACCCCAGACCTTC
1 AAACCCTA-AAATCC
*
7986528 AAACCCTAAAAT-T
1 AAACCCTAAAATCC
*
7986541 AAACCAT-AAATCCTC
1 AAACCCTAAAAT-C-C
* *
7986556 TAAACCTTCAAA-CC
1 -AAACCCTAAAATCC
* * ** *
7986570 AAAACTTCGAACCTC
1 AAACCCTAAAATC-C
7986585 AAACCCTAAAAT-C
1 AAACCCTAAAATCC
*
7986598 AAATCCCTAAAACATCA
1 AAA-CCCT-AAA-ATCC
*
7986615 AAACCCTAAAATCA
1 AAACCCTAAAATCC
7986629 AAACCCTAAAA-CC
1 AAACCCTAAAATCC
* * * *
7986642 AAAACTTCAAACCTC
1 AAACCCTAAAATC-C
*
7986657 AAACCCTAAAATCAA
1 AAACCCTAAAATC-C
7986672 AAACCC--AAATCTC
1 AAACCCTAAAATC-C
7986685 AAACCCTAAAAT
1 AAACCCTAAAAT
7986697 AAAAAACCTA
Statistics
Matches: 208, Mismatches: 52, Indels: 45
0.68 0.17 0.15
Matches are distributed among these distances:
12 4 0.02
13 55 0.26
14 69 0.33
15 54 0.26
16 20 0.10
17 6 0.03
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAATCC
Found at i:7986475 original size:29 final size:30
Alignment explanation
Indices: 7986442--7986520 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
7986432 CCAAAAATTG
7986442 AAACCCTAAAATC-AAACCCCAAACACCCT
1 AAACCCTAAAATCAAAACCCCAAACACCCT
* * ***
7986471 AAACCTTAAAATCAAAACTCCAAACTTTC-
1 AAACCCTAAAATCAAAACCCCAAACACCCT
*
7986500 AAACCCTAAAA-CTAAACCCCA
1 AAACCCTAAAATCAAAACCCCA
7986521 GACCTTCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 8 0.20
29 22 0.54
30 11 0.27
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.15
Consensus pattern (30 bp):
AAACCCTAAAATCAAAACCCCAAACACCCT
Found at i:7986616 original size:86 final size:85
Alignment explanation
Indices: 7986413--7986630 Score: 210
Period size: 86 Copynumber: 2.5 Consensus size: 85
7986403 CCCTAAAATC
* * *
7986413 CAAACCCTAAATTTCAAACCCAAAA-ATTGAAACCCTAAAATCAAACCCCAAACACCCTAAACCT
1 CAAACCCTAAA-ATCAAACCCAAAACA-TCAAACCCTAAAATCAAACCACAAACACCCTAAACCT
* *
7986477 TAAAATCAAAACTCCAAACTTT
64 TAAAACCAAAACTCCAAACTCT
* * * * * *
7986499 CAAACCCTAAAA-CTAAACCCCAGACCTTCAAACCCTAAAATTAAACCATAAATC-CTCTAAACC
1 CAAACCCTAAAATC-AAA-CCCAAAACATCAAACCCTAAAATCAAACCACAAA-CACCCTAAACC
* * *
7986562 TTCAAACCAAAACTTCGAAC-CT
63 TTAAAACCAAAACTCCAAACTCT
7986584 CAAACCCTAAAATCAAATCCCTAAAACATCAAAACCCTAAAATCAAA
1 CAAACCCTAAAATCAAA-CCC-AAAACATC-AAACCCTAAAATCAAA
7986631 ACCCTAAAAC
Statistics
Matches: 106, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
84 1 0.01
85 22 0.21
86 67 0.63
87 16 0.15
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (85 bp):
CAAACCCTAAAATCAAACCCAAAACATCAAACCCTAAAATCAAACCACAAACACCCTAAACCTTA
AAACCAAAACTCCAAACTCT
Found at i:7986633 original size:72 final size:70
Alignment explanation
Indices: 7986565--7986708 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 70
7986555 CTAAACCTTC
* * *
7986565 AAACCAAAACTTCGAACCTCAAACCCTAAAATC-AAATCCCTAAAACATCAAAACCCTAAAATCA
1 AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAAACCC-AAAAC-TC-AAACCCTAAAATAA
7986629 AAACCCTA
63 AAACCCTA
*
7986637 AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAAACCCAAATCTCAAACCCTAAAATAAAAA
1 AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAAACCCAAAACTCAAACCCTAAAATAAAAA
*
7986702 ACCTA
66 CCCTA
7986707 AA
1 AA
7986709 CCCCAAAATC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 22 0.33
71 2 0.03
72 36 0.55
73 6 0.09
ACGTcount: A:0.54, C:0.31, G:0.01, T:0.15
Consensus pattern (70 bp):
AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAAACCCAAAACTCAAACCCTAAAATAAAAA
CCCTA
Found at i:7986660 original size:28 final size:28
Alignment explanation
Indices: 7986629--7986715 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
7986619 CCTAAAATCA
* *
7986629 AAACCCTAAAA-CCAAAACTTCAAACCTC
1 AAACCCTAAAATCAAAAAC-CCAAACCTC
*
7986657 AAACCCTAAAATCAAAAACCCAAATCTC
1 AAACCCTAAAATCAAAAACCCAAACCTC
* * *
7986685 AAACCCTAAAATAAAAAACCTAAACCCC
1 AAACCCTAAAATCAAAAACCCAAACCTC
7986713 AAA
1 AAA
7986716 ATCTGAAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 45 0.88
29 6 0.12
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (28 bp):
AAACCCTAAAATCAAAAACCCAAACCTC
Found at i:7986732 original size:71 final size:70
Alignment explanation
Indices: 7986565--7986780 Score: 224
Period size: 71 Copynumber: 3.0 Consensus size: 70
7986555 CTAAACCTTC
* *
7986565 AAACCAAAACTTCGAACCTCAAACCCTAAAATC-AAATCCCTAAAACATCAAAACCCTAAAATCA
1 AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAATCCC-AAATC-TC-AAACCCTAAAATCA
*
7986629 AAACCCTA
63 AAAACCTA
* *
7986637 AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAAACCCAAATCTCAAACCCTAAAATAAAAA
1 AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAATCCCAAATCTCAAACCCTAAAATCAAAA
7986702 ACCTA
66 ACCTA
* * *** * *
7986707 AACCCCAAAA-TCTGAAA-CTCGAAACCCT-ACCCCTAAAATCCAAAATCTCAAGCCCTAAAATC
1 AA-ACCAAAACT-TCAAACCTC-AAACCCTAAAATC-AAAATCCCAAATCTCAAACCCTAAAATC
*
7986769 CAAAACCTA
62 AAAAACCTA
7986778 AAA
1 AAA
7986781 ATCCAAATTT
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
70 28 0.23
71 53 0.43
72 36 0.29
73 6 0.05
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (70 bp):
AAACCAAAACTTCAAACCTCAAACCCTAAAATCAAAATCCCAAATCTCAAACCCTAAAATCAAAA
ACCTA
Found at i:7991671 original size:22 final size:20
Alignment explanation
Indices: 7991624--7991672 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
7991614 AGGTATGAAA
*
7991624 TTTTAGAAAAAGAAAATTTTG
1 TTTT-GAAAAAAAAAATTTTG
*
7991645 ATTTGAAAAAAAAAATTTGATG
1 TTTTGAAAAAAAAAATTT--TG
7991667 TTTTGA
1 TTTTGA
7991673 TGAATGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.57
21 3 0.13
22 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (20 bp):
TTTTGAAAAAAAAAATTTTG
Found at i:7995049 original size:22 final size:21
Alignment explanation
Indices: 7995008--7995049 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7994998 CTTATTGCAA
* *
7995008 TTGGTATAGGAGTTTAAACAT
1 TTGGTATAAGAGCTTAAACAT
7995029 TTGGTATAAAGAGCTTAAACA
1 TTGGTAT-AAGAGCTTAAACA
7995050 ATAAGGGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (21 bp):
TTGGTATAAGAGCTTAAACAT
Found at i:7997797 original size:21 final size:21
Alignment explanation
Indices: 7997764--7997805 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7997754 GATACTAGGC
*
7997764 CTTTTAGAAAGAGAAAGAGAG
1 CTTTGAGAAAGAGAAAGAGAG
* *
7997785 CTTTGAGAGAGAGAGAGAGAG
1 CTTTGAGAAAGAGAAAGAGAG
7997806 AGAAGTTAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.36, T:0.17
Consensus pattern (21 bp):
CTTTGAGAAAGAGAAAGAGAG
Found at i:7998681 original size:121 final size:122
Alignment explanation
Indices: 7998453--7998681 Score: 327
Period size: 122 Copynumber: 1.9 Consensus size: 122
7998443 TGATAAAATA
7998453 AAAAATAAAACCACAAGTGGTGATTTTATAAAAAAAACTTACACAAAAGAATTTTCTAAAATATT
1 AAAAATAAAACCACAAGTGGTGATTTTATAAAAAAAACTTACACAAAAGAATTTTCTAAAATATT
* ** *
7998518 CTAAAAGTGTTAGAAATATTTTAGATTTTTTTAATATAAAAAAATATTATTAACAAT
66 CTAAAAGTGTTAGAAATATTTTAAATTTTTCAAACATAAAAAAATATTATTAACAAT
* * * * * * *
7998575 AAAAATATAATCACAAGTGGTGATTTTATTAAAAATATTTATACTAAAA-ATTTTTCT-AAATAT
1 AAAAATAAAACCACAAGTGGTGATTTTATAAAAAAAACTTACAC-AAAAGAATTTTCTAAAATAT
7998638 TCTAAAAGTGTTAGAAATATTTTAAAATTTTTCAAACATAAAAA
65 TCTAAAAGTGTTAGAAATATTTT-AAATTTTTCAAACATAAAAA
7998682 TAAATAAATA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
121 29 0.31
122 61 0.65
123 4 0.04
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (122 bp):
AAAAATAAAACCACAAGTGGTGATTTTATAAAAAAAACTTACACAAAAGAATTTTCTAAAATATT
CTAAAAGTGTTAGAAATATTTTAAATTTTTCAAACATAAAAAAATATTATTAACAAT
Found at i:8004541 original size:120 final size:122
Alignment explanation
Indices: 8004314--8004541 Score: 307
Period size: 122 Copynumber: 1.9 Consensus size: 122
8004304 TGATAAAATA
*
8004314 AAAAATAAAACCACAAGTGGTGATTTTACAAAAAAAACTTACACAAAAGAATTTTCTAAAATATT
1 AAAAATAAAACCACAAGCGGTGATTTTACAAAAAAAACTTACACAAAAGAATTTTCTAAAATATT
* ** *
8004379 CTAAAAGTGTTAGAAATATTTTAGATTTTTTTAATATAAAAAAATATTATTAACAAT
66 CTAAAAGTGTTAGAAATATTTTAAATTTTTCAAACATAAAAAAATATTATTAACAAT
* * ** * * * * *
8004436 AAAAATATAATCACAAGCGGTGATTTTATTAAAAATATTTATACTAAA-AATTTT-TTAAATATT
1 AAAAATAAAACCACAAGCGGTGATTTTACAAAAAAAACTTACACAAAAGAATTTTCTAAAATATT
8004499 CTAAAAGTGTTAGAAATATTTTAAAATTTTTCAAACATAAAAA
66 CTAAAAGTGTTAGAAATATTTT-AAATTTTTCAAACATAAAAA
8004542 TAAATAACTA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
120 30 0.33
121 22 0.24
122 39 0.43
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (122 bp):
AAAAATAAAACCACAAGCGGTGATTTTACAAAAAAAACTTACACAAAAGAATTTTCTAAAATATT
CTAAAAGTGTTAGAAATATTTTAAATTTTTCAAACATAAAAAAATATTATTAACAAT
Found at i:8015833 original size:50 final size:50
Alignment explanation
Indices: 8015691--8015883 Score: 137
Period size: 49 Copynumber: 3.9 Consensus size: 50
8015681 TCAAGAAAAA
** *
8015691 ATGAAGATTTTTAAAGTCATTGA--CTCTACTTAGAAGGA-CTTTTTTTAAG
1 ATGAA-ATTTTTAAAGTTGTTGAGCCTCAACTTAG-AGGAGCTTTTTTTAAG
* * * * ** **
8015740 ATGAATTTTTTAAAATTGTTAAGTCTCTGCTTAGATAAG-TTTTTTTAAG
1 ATGAAATTTTTAAAGTTGTTGAGCCTCAACTTAGAGGAGCTTTTTTTAAG
*
8015789 ATGAAATTTTTAAAGTTGTTGAGCCTCAACATT-GAGGAGCTTTTTCT-AG
1 ATGAAATTTTTAAAGTTGTTGAGCCTCAAC-TTAGAGGAGCTTTTTTTAAG
* * ** ** *
8015838 ATAGAGATTTTTGAAGTCATTGAGCCTCTTCTTAGATGAGCTTTTT
1 AT-GAAATTTTTAAAGTTGTTGAGCCTCAACTTAGAGGAGCTTTTT
8015884 AAAGCTGTTG
Statistics
Matches: 113, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
48 12 0.11
49 51 0.45
50 50 0.44
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (50 bp):
ATGAAATTTTTAAAGTTGTTGAGCCTCAACTTAGAGGAGCTTTTTTTAAG
Found at i:8016067 original size:49 final size:50
Alignment explanation
Indices: 8015993--8016145 Score: 184
Period size: 49 Copynumber: 3.1 Consensus size: 50
8015983 TTAAAGAAAC
*
8015993 CTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGT
1 CTTTTTCAAGATGAAATTTTTAAAGTCGTTGAGCCTCTGCTTAGAGGAGT
* * * * *
8016043 CTTTTCCAAAATGAAA-TTTTAAAGTCGTTGAGCCTCTACTAAGAAGAG-
1 CTTTTTCAAGATGAAATTTTTAAAGTCGTTGAGCCTCTGCTTAGAGGAGT
* * * * * *
8016091 CTTTTTCAAGATAAAATTTTTAAAATCATCGAGCCTCTGTTTAGAGAAGT
1 CTTTTTCAAGATGAAATTTTTAAAGTCGTTGAGCCTCTGCTTAGAGGAGT
8016141 CTTTT
1 CTTTT
8016146 AAATTTTCAA
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
48 13 0.15
49 52 0.62
50 19 0.23
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (50 bp):
CTTTTTCAAGATGAAATTTTTAAAGTCGTTGAGCCTCTGCTTAGAGGAGT
Found at i:8016170 original size:43 final size:43
Alignment explanation
Indices: 8016104--8016202 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
8016094 TTTCAAGATA
* ** * *
8016104 AAATTTTTAAAA-TCATCGAGCCTCTGTTTAGAGAAGTCTTTT
1 AAATTTTCAAAAGTCATCGAGCCTCTACTTAGAAAAGCCTTTT
* *
8016146 AAATTTTCAAAAGTCGTTGAGCCTCTACTTAGAAAAGCCTTTT
1 AAATTTTCAAAAGTCATCGAGCCTCTACTTAGAAAAGCCTTTT
8016189 AAATTTTCAAAAGT
1 AAATTTTCAAAAGT
8016203 TGTCAAGCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 11 0.22
43 38 0.78
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (43 bp):
AAATTTTCAAAAGTCATCGAGCCTCTACTTAGAAAAGCCTTTT
Found at i:8016529 original size:3 final size:3
Alignment explanation
Indices: 8016521--8016568 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
8016511 CCCATTTTAC
8016521 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8016569 CATCATCATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8016799 original size:18 final size:17
Alignment explanation
Indices: 8016761--8016803 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
8016751 AAGGCCATCC
*
8016761 AAAAAAAAAACCTTGTA
1 AAAAAAAAAACCTAGTA
8016778 AAAACAAAAAACCTAGATA
1 AAAA-AAAAAACCTAG-TA
8016797 AAAAAAA
1 AAAAAAA
8016804 TTCTCCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.72, C:0.12, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAACCTAGTA
Found at i:8016869 original size:25 final size:25
Alignment explanation
Indices: 8016841--8016888 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8016831 CTTTGTAAAA
* * *
8016841 AAAAAAACCAAGAATAAAAAAAATC
1 AAAAAAACAAACAAGAAAAAAAATC
*
8016866 AAAAACACAAACAAGAAAAAAAA
1 AAAAAAACAAACAAGAAAAAAAA
8016889 CACAACCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.79, C:0.12, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAAACAAACAAGAAAAAAAATC
Found at i:8017951 original size:3 final size:3
Alignment explanation
Indices: 8017910--8018051 Score: 50
Period size: 3 Copynumber: 48.0 Consensus size: 3
8017900 AATTTACTAC
* *
8017910 ATT ATAT ATT A-T ATT TTT ATT TTT ATT ATAT ATT A-T ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* ** * * *
8017955 ATAT ATTT ATC ACC ATT ATT ATAT ATAT AGT A-T ATC A-T GTT A-T ATAT
1 AT-T A-TT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT AT-T
* * * *
8018002 ATC A-T ATT AGT -TT ACT ATT ATT A-T ATT ATT ACT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8018046 ATT ATT
1 ATT ATT
8018052 TTAATTTTAT
Statistics
Matches: 104, Mismatches: 20, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
2 14 0.13
3 70 0.67
4 19 0.18
5 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:8017956 original size:11 final size:11
Alignment explanation
Indices: 8017910--8018047 Score: 70
Period size: 11 Copynumber: 12.0 Consensus size: 11
8017900 AATTTACTAC
8017910 ATTATATATTAT
1 ATTAT-TATTAT
* *
8017922 ATTTTTATTTTT
1 ATTATTA-TTAT
8017934 ATTATATATTAT
1 ATTAT-TATTAT
8017946 ATTATTATTAT
1 ATTATTATTAT
8017957 A-TA-T-TTAT
1 ATTATTATTAT
**
8017965 CACCATTATTAT
1 -ATTATTATTAT
*
8017977 A-TATATAGTAT
1 ATTAT-TATTAT
*
8017988 ATCATGTTATATAT
1 AT--TATTAT-TAT
8018002 ATCATATTAGTT-T
1 AT--TATTA-TTAT
*
8018015 ACTATTATTAT
1 ATTATTATTAT
*
8018026 ATTATTACTAT
1 ATTATTATTAT
8018037 ATTATTATTAT
1 ATTATTATTAT
8018048 TATTTTAATT
Statistics
Matches: 99, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
8 4 0.04
9 2 0.02
10 7 0.07
11 42 0.42
12 23 0.23
13 6 0.06
14 14 0.14
15 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTATTATTAT
Found at i:8017972 original size:20 final size:19
Alignment explanation
Indices: 8017932--8017980 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
8017922 ATTTTTATTT
**
8017932 TTATTATATA-TTATATTA
1 TTATTATATATTTATACCA
8017950 TTATTATATATTTATCACCA
1 TTATTATATATTTAT-ACCA
8017970 TTATTATATAT
1 TTATTATATAT
8017981 ATAGTATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 10 0.37
19 4 0.15
20 13 0.48
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATATATTTATACCA
Found at i:8018070 original size:13 final size:13
Alignment explanation
Indices: 8018052--8018076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8018042 TATTATTATT
8018052 TTAATTTTATTTC
1 TTAATTTTATTTC
8018065 TTAATTTTATTT
1 TTAATTTTATTT
8018077 TTATTTTCCT
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTAATTTTATTTC
Found at i:8018441 original size:20 final size:20
Alignment explanation
Indices: 8018385--8018442 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
8018375 TCGAGAATTT
* *
8018385 TGATTTTGGGATTTATGGGTT
1 TGATTTTGGG-TTTTTGGGTG
*** *
8018406 TGATTTAAAGTCTTTGGGTG
1 TGATTTTGGGTTTTTGGGTG
8018426 TGATTTTGGGTTTTTGG
1 TGATTTTGGGTTTTTGG
8018443 AAGTACGCTT
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.52
Consensus pattern (20 bp):
TGATTTTGGGTTTTTGGGTG
Found at i:8018912 original size:13 final size:13
Alignment explanation
Indices: 8018890--8018946 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
8018880 CAATCGTAAG
*
8018890 TTTTCTTTTTTTCT
1 TTTTC-TTTTTTAT
8018904 TTTTC-TTTTTAT
1 TTTTCTTTTTTAT
*
8018916 TTTTATTTTTTAT
1 TTTTCTTTTTTAT
*
8018929 TTTATTTTATTTTAT
1 TTT-TCTT-TTTTAT
8018944 TTT
1 TTT
8018947 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 10 0.27
13 10 0.27
14 8 0.22
15 9 0.24
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTTTTAT
Found at i:8018972 original size:5 final size:5
Alignment explanation
Indices: 8018910--8018956 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
8018900 TTCTTTTTCT
*
8018910 TTTTA TTTT- TATT- TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
8018957 TAACTCATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 6 0.15
5 33 0.85
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:8018980 original size:7 final size:6
Alignment explanation
Indices: 8018897--8018958 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
8018887 AAGTTTTCTT
* *
8018897 TTTTTC TTTTTC TTTTTA TTTTTA TTTTT- TATTTTA -TTTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA
8018943 -TTTTA -TTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA
8018959 ACTCATTTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
5 21 0.40
6 31 0.60
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:8022415 original size:5 final size:5
Alignment explanation
Indices: 8022405--8022430 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8022395 AAGGGGTAAA
8022405 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
8022431 CTTATCCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:8030518 original size:114 final size:114
Alignment explanation
Indices: 8030330--8030699 Score: 377
Period size: 114 Copynumber: 3.2 Consensus size: 114
8030320 CTCGACACTA
* * ** * * *
8030330 GTCAAATCATATTCAGACTTGCAGCATTGTCCCAGTCTTTAATATTCAACCTTGA-TTGGGTCTT
1 GTCAAATCATATTCAGACTCGTAGCATCATCCCAATCATTAATATTCGACCTTGACTT-GGTCTT
* * *
8030394 GGTCATTTTTTAACTTGCAACAATATCTCAGTCATCCGATCTTGACTCAG
65 GGTCATTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAG
* * *
8030444 GTCAAATCATATTTAGACTCGTAGCATCATCCCAATCATTAATATTTGACCTCGACTTGGTCTTG
1 GTCAAATCATATTCAGACTCGTAGCATCATCCCAATCATTAATATTCGACCTTGACTTGGTCTTG
* * * * * * *
8030509 GTCACTTTTTGACTTGTAGTAATGTTTCAGTCATCTGAACTTGGCTCAG
66 GTCATTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAG
* * * * * * * * * *
8030558 ATCAGATCATATTCAGACTAGCG-A-TATCTTCTCGATCATTAATCTACGACCTTGACTCGATCT
1 GTCAAATCATATTCAGACT--CGTAGCATCATCCCAATCATTAATATTCGACCTTGACTTGGTCT
* *
8030621 TGGTCATTTTTTGACTTGCAGCATTATCTCAGTCATCTGATCTCGACTCAG
64 TGGTCATTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAG
* * *
8030672 GTTAGATCATATTCAGACTCATAGCATC
1 GTCAAATCATATTCAGACTCGTAGCATC
8030700 GTCTCGATTA
Statistics
Matches: 205, Mismatches: 46, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
112 1 0.00
113 1 0.00
114 198 0.97
115 3 0.01
116 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (114 bp):
GTCAAATCATATTCAGACTCGTAGCATCATCCCAATCATTAATATTCGACCTTGACTTGGTCTTG
GTCATTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAG
Found at i:8030705 original size:114 final size:114
Alignment explanation
Indices: 8030390--8030752 Score: 386
Period size: 114 Copynumber: 3.2 Consensus size: 114
8030380 CTTGATTGGG
* * * * *
8030390 TCTTGGTCATTTTTTAACTTGCAACAATATCTCAGTCATCCGATCTTGACTCAGGTCAAATCATA
1 TCTTGGTCACTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAGGTCAGATCATA
* * * * * ** * * *
8030455 TTTAGACTCGTAGCATCATCCCAATCATTAATATTTGACCTCGACTTGG
66 TTCAGACTCATAGCATCATCTCGATCATTAATCTACGACCTTGACTCGA
* * * * * * *
8030504 TCTTGGTCACTTTTTGACTTGTAGTAATGTTTCAGTCATCTGAACTTGGCTCAGATCAGATCATA
1 TCTTGGTCACTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAGGTCAGATCATA
** * *
8030569 TTCAGACT-AGCGATATCTTCTCGATCATTAATCTACGACCTTGACTCGA
66 TTCAGACTCATAG-CATCATCTCGATCATTAATCTACGACCTTGACTCGA
* * * *
8030618 TCTTGGTCATTTTTTGACTTGCAGCATTATCTCAGTCATCTGATCTCGACTCAGGTTAGATCATA
1 TCTTGGTCACTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAGGTCAGATCATA
* * * * *
8030683 TTCAGACTCATAGCATCGTCTCGATTATTAACCTACAACCTTGACTCAA
66 TTCAGACTCATAGCATCATCTCGATCATTAATCTACGACCTTGACTCGA
*
8030732 TCTTGATCACTTTTTGACTTG
1 TCTTGGTCACTTTTTGACTTG
8030753 TGACATTGTC
Statistics
Matches: 200, Mismatches: 47, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
113 1 0.00
114 197 0.99
115 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (114 bp):
TCTTGGTCACTTTTTGACTTGCAGCAATATCTCAGTCATCTGATCTTGACTCAGGTCAGATCATA
TTCAGACTCATAGCATCATCTCGATCATTAATCTACGACCTTGACTCGA
Found at i:8030812 original size:114 final size:114
Alignment explanation
Indices: 8030390--8030827 Score: 267
Period size: 114 Copynumber: 3.8 Consensus size: 114
8030380 CTTGATTGGG
* * * * * * * * *
8030390 TCTTGGTCATTTTTTAACTTGCAACAATATCTCAGTCATCCGATCTTGACTCAGGTCAAATCATA
1 TCTTGATCACTTTTTGACTTGCAGCATTATCTCAATCATCCAATCTCGACTCAGGTCAGATCATA
* * * * * * ** *** * ***
8030455 TTTAGACTCGTAGCATCATCCCAATCATTAATATTTGACCTCGACTTGG
66 TTCAGACTAGCAGCATCGTCTCGATCATTAACCTACAACCTTGACTCAA
* * * * * * * * * * *
8030504 TCTTGGTCACTTTTTGACTTGTAGTAATGTTTCAGTCATCTGAA-CTTGGCTCAGATCAGATCAT
1 TCTTGATCACTTTTTGACTTGCAGCATTATCTCAATCATC-CAATCTCGACTCAGGTCAGATCAT
* * * * *
8030568 ATTCAGACTAGC-GATATCTTCTCGATCATTAATCTACGACCTTGACTCGA
65 ATTCAGACTAGCAG-CATCGTCTCGATCATTAACCTACAACCTTGACTCAA
* * * ** *
8030618 TCTTGGTCATTTTTTGACTTGCAGCATTATCTCAGTCATCTGATCTCGACTCAGGTTAGATCATA
1 TCTTGATCACTTTTTGACTTGCAGCATTATCTCAATCATCCAATCTCGACTCAGGTCAGATCATA
* *
8030683 TTCAGACTCA-TAGCATCGTCTCGATTATTAACCTACAACCTTGACTCAA
66 TTCAGACT-AGCAGCATCGTCTCGATCATTAACCTACAACCTTGACTCAA
* * * *
8030732 TCTTGATCACTTTTTGACTTG-TGACATTGTC-CTAATCATCCAATCTTGGCAT-AGGTCAGATC
1 TCTTGATCACTTTTTGACTTGCAG-CATTATCTC-AATCATCCAATCTCGAC-TCAGGTCAGATC
* * * * *
8030794 ATATTCAGGCTTGCAGCATTGTCTTGGTCATTAA
63 ATATTCAGACTAGCAGCATCGTCTCGATCATTAA
8030828 TATATGATCT
Statistics
Matches: 254, Mismatches: 61, Indels: 18
0.76 0.18 0.05
Matches are distributed among these distances:
113 4 0.02
114 246 0.97
115 4 0.02
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (114 bp):
TCTTGATCACTTTTTGACTTGCAGCATTATCTCAATCATCCAATCTCGACTCAGGTCAGATCATA
TTCAGACTAGCAGCATCGTCTCGATCATTAACCTACAACCTTGACTCAA
Found at i:8030827 original size:228 final size:228
Alignment explanation
Indices: 8030330--8030842 Score: 518
Period size: 228 Copynumber: 2.2 Consensus size: 228
8030320 CTCGACACTA
* * * * * * * * *
8030330 GTCAAATCATATTCAGACTTGCAGCATTGTCCCAGTCTTTAATATTCAACCTTGATTGGGTCTTG
1 GTCAGATCATATTCAGACTTGCAGCATTGTCTCGGTCATTAATATACGACCTTGACTCGATCTTG
* *
8030395 GTCATTTTTTAACTTGCAACAATATCTCAGTCATCCGATCTTGACTCAGGTCAAATCATATTTAG
66 GTCATTTTTTAACTTGCAACAATATCTCAGTCATCCGATCTCGACTCAGGTCAAATCATATTCAG
* * *** *** *
8030460 ACTCGTAGCATCATCCCAATCATTAATATTTGACCTCGACTTGGTCTTGGTCACTTTTTGACTTG
131 ACTCATAGCATCATCCCAATCATTAACATACAACCTCGACTCAATCTTGATCACTTTTTGACTTG
* * *
8030525 TAGTAATGTTTCAGTCATCTGAACTTGGCTCAG
196 TAGTAATGTCTCAATCATCTCAACTTGGCTCAG
* * * * *
8030558 ATCAGATCATATTCAGACTAGC-G-ATATCTTCTCGATCATTAATCTACGACCTTGACTCGATCT
1 GTCAGATCATATTCAGACTTGCAGCAT-T-GTCTCGGTCATTAATATACGACCTTGACTCGATCT
* * * * * *
8030621 TGGTCATTTTTTGACTTGCAGCATTATCTCAGTCATCTGATCTCGACTCAGGTTAGATCATATTC
64 TGGTCATTTTTTAACTTGCAACAATATCTCAGTCATCCGATCTCGACTCAGGTCAAATCATATTC
* * * * * *
8030686 AGACTCATAGCATCGTCTCGATTATTAACCTACAACCTTGACTCAATCTTGATCACTTTTTGACT
129 AGACTCATAGCATCATCCCAATCATTAACATACAACCTCGACTCAATCTTGATCACTTTTTGACT
8030751 TGT-G-ACATTGTC-CTAATCATC-CAATCTTGGCAT-AG
194 TGTAGTA-A-TGTCTC-AATCATCTCAA-CTTGGC-TCAG
* * * *
8030786 GTCAGATCATATTCAGGCTTGCAGCATTGTCTTGGTCATTAATATATGATCTTGACT
1 GTCAGATCATATTCAGACTTGCAGCATTGTCTCGGTCATTAATATACGACCTTGACT
8030843 TAGTCTTGAA
Statistics
Matches: 227, Mismatches: 49, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
226 3 0.01
227 7 0.03
228 212 0.93
229 3 0.01
230 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (228 bp):
GTCAGATCATATTCAGACTTGCAGCATTGTCTCGGTCATTAATATACGACCTTGACTCGATCTTG
GTCATTTTTTAACTTGCAACAATATCTCAGTCATCCGATCTCGACTCAGGTCAAATCATATTCAG
ACTCATAGCATCATCCCAATCATTAACATACAACCTCGACTCAATCTTGATCACTTTTTGACTTG
TAGTAATGTCTCAATCATCTCAACTTGGCTCAG
Found at i:8031157 original size:3 final size:3
Alignment explanation
Indices: 8031149--8031243 Score: 58
Period size: 3 Copynumber: 33.3 Consensus size: 3
8031139 ATTACTTTAC
**
8031149 TAT TAT TA- TAT TAT TGC TA- TAT TAT TAT TAT TAT TAT T-T T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
8031193 TTT TAT TCT TAT TCT TAT TTT TAT TTT TAT CTTT TAT T-T T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
*
8031237 TTT TAT T
1 TAT TAT T
8031244 TTTCTTTTGT
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
2 12 0.17
3 56 0.80
4 2 0.03
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:8031198 original size:13 final size:13
Alignment explanation
Indices: 8031176--8031251 Score: 77
Period size: 13 Copynumber: 6.0 Consensus size: 13
8031166 TATATTATTA
*
8031176 TTATTATTATTTT
1 TTATTTTTATTTT
*
8031189 TTATTTTTA-TTC
1 TTATTTTTATTTT
*
8031201 TTATTCTTA-TTT
1 TTATTTTTATTTT
*
8031213 TTATTTTTATCTT
1 TTATTTTTATTTT
8031226 TTATTTTT-TATTT
1 TTATTTTTAT-TTT
*
8031239 TTATTTTTCTTTT
1 TTATTTTTATTTT
8031252 GTGCAATATG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
12 21 0.40
13 31 0.58
14 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:8031198 original size:25 final size:24
Alignment explanation
Indices: 8031170--8031246 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
8031160 TATTGCTATA
8031170 TTATTATTATTATTATTTTTTATTT
1 TTATTATTATT-TTATTTTTTATTT
*
8031195 TTATTCTTATTCTTA-TTTTTATTT
1 TTATTATTATT-TTATTTTTTATTT
* *
8031219 TTATCTTTTATTTTTTATTTTTATTT
1 TTAT-TATTATTTTAT-TTTTTATTT
8031245 TT
1 TT
8031247 CTTTTGTGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
24 15 0.33
25 19 0.42
26 11 0.24
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (24 bp):
TTATTATTATTTTATTTTTTATTT
Found at i:8031244 original size:6 final size:6
Alignment explanation
Indices: 8031170--8031251 Score: 92
Period size: 6 Copynumber: 13.2 Consensus size: 6
8031160 TATTGCTATA
* * * *
8031170 TTATTA TTATTA TTATTTT TTATTT TTATTC TTATTC TTATTT TTATTT
1 TTATTT TTATTT TTA-TTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
8031219 TTATCTT TTATTTT TTATTT TTATTT TTCTTT T
1 TTAT-TT TTA-TTT TTATTT TTATTT TTATTT T
8031252 GTGCAATATG
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
6 53 0.77
7 15 0.22
8 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:8032081 original size:19 final size:18
Alignment explanation
Indices: 8032054--8032099 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
8032044 CGATCACAGG
*
8032054 TTTTCTTTTTTGATTTTA
1 TTTTATTTTTTGATTTTA
8032072 TTTTTATTTTTTGATTTTA
1 -TTTTATTTTTTGATTTTA
8032091 TTTTATTTT
1 TTTTATTTT
8032100 ATTTTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTGATTTTA
Found at i:8034198 original size:2 final size:2
Alignment explanation
Indices: 8034191--8034215 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8034181 TGTTTTTAAG
8034191 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 T
8034216 TTTTATCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8035135 original size:22 final size:22
Alignment explanation
Indices: 8035109--8035160 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
8035099 TAATTTTTTT
8035109 TAAAAAATATTAAAATTTATAAA
1 TAAAAAATATTAAAATTT-TAAA
* *
8035132 -AAAAATTCTTAAAATTTTAAA
1 TAAAAAATATTAAAATTTTAAA
8035153 TAAAAAAT
1 TAAAAAAT
8035161 TTCATAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAAATATTAAAATTTTAAA
Done.