Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 98 of 147
Found at i:17999136 original size:18 final size:18
Alignment explanation
Indices: 17999113--17999151 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17999103 TCTTTGAATG
17999113 TTACAAATCTTTA-AACTT
1 TTACAAAT-TTTAGAACTT
17999131 TTACAAATTTTAGAACTT
1 TTACAAATTTTAGAACTT
17999149 TTA
1 TTA
17999152 TGAATCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (18 bp):
TTACAAATTTTAGAACTT
Found at i:17999236 original size:19 final size:20
Alignment explanation
Indices: 17999208--17999245 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
17999198 ACTCGAATTA
*
17999208 TGAATGTTTGAA-TCATTTT
1 TGAATCTTTGAATTCATTTT
17999227 TGAATCTTTGAATTCATTT
1 TGAATCTTTGAATTCATTT
17999246 ACTCAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (20 bp):
TGAATCTTTGAATTCATTTT
Found at i:17999348 original size:41 final size:41
Alignment explanation
Indices: 17999282--17999454 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 41
17999272 TAAACCTCCC
* * *
17999282 AATTATGAATCTTTGACTCTAATGTGAATCTAGATACCTTT
1 AATTGTGAATCATTGACTCTGATGTGAATCTAGATACCTTT
* * * * *
17999323 AATTGTGAATCATTGACTTTGATGTGAATCCAAAGAACTTT
1 AATTGTGAATCATTGACTCTGATGTGAATCTAGATACCTTT
* * * * **
17999364 ATTTGTAAATC-TTGACTCTGATGTGAATCTAAATGCCCCT
1 AATTGTGAATCATTGACTCTGATGTGAATCTAGATACCTTT
* * ** *
17999404 AATTGTAAATCATTCACTCAAATGTGAATCCAGAGT-CCTTT
1 AATTGTGAATCATTGACTCTGATGTGAATCTAGA-TACCTTT
*
17999445 AGTTGTGAAT
1 AATTGTGAAT
17999455 ATTTGATTTG
Statistics
Matches: 103, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
40 32 0.31
41 70 0.68
42 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (41 bp):
AATTGTGAATCATTGACTCTGATGTGAATCTAGATACCTTT
Found at i:17999445 original size:81 final size:82
Alignment explanation
Indices: 17999289--17999460 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 82
17999279 CCCAATTATG
* ** * * ***
17999289 AATCTTTGACTCTAATGTGAATCTAGATACCTTTAATTGTGAATCATTGACTTTGATGTGAATCC
1 AATCTTTGACTCTAATGTGAATCTAAATACCCCTAATTGTAAATCATTCACTCAAATGTGAATCC
*
17999354 AAAGAACTTTATTTGTA
66 AAAGAACTTTAGTTGTA
* *
17999371 AATC-TTGACTCTGATGTGAATCTAAATGCCCCTAATTGTAAATCATTCACTCAAATGTGAATCC
1 AATCTTTGACTCTAATGTGAATCTAAATACCCCTAATTGTAAATCATTCACTCAAATGTGAATCC
* ** *
17999435 AGAGTCCTTTAGTTGTG
66 AAAGAACTTTAGTTGTA
*
17999452 AATATTTGA
1 AATCTTTGA
17999461 TTTGGATTTG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
81 65 0.89
82 8 0.11
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (82 bp):
AATCTTTGACTCTAATGTGAATCTAAATACCCCTAATTGTAAATCATTCACTCAAATGTGAATCC
AAAGAACTTTAGTTGTA
Found at i:18000208 original size:101 final size:101
Alignment explanation
Indices: 17999668--18000321 Score: 375
Period size: 101 Copynumber: 6.5 Consensus size: 101
17999658 TTAAATATTT
* * * * * * * *
17999668 TAATTAACCTTCGAATTTGATGTGAACCCAGAGACCTT-TAGTTGTAAATAC-AGAGTCTTCCT-
1 TAATTAACCTTTGAATCTAATGTGAATCTAGAGA-CTTCTAGTTGTGAAT-CTAAAGTCCT-CTA
* * *
17999730 ATTATGAATCT-TTGACT-TCGATATGAATCCTAAGT-TTT
63 ATTGTGAAT-TGTTGACTCT-GATGTGAATCCTAAGTCTTC
** * * * *
17999768 TAATTAACCTTCAAATCTAATGTGAATCTAAAGACCTTC-AATTTTGAATTTAGAA-TCCTAC-A
1 TAATTAACCTTTGAATCTAATGTGAATCTAGAGA-CTTCTAGTTGTGAATCTA-AAGTCCT-CTA
* * *
17999830 ATTGTGAACTGCTGACT-TCAATGTGAATCAC-AAGTCTTC
63 ATTGTGAATTGTTGACTCT-GATGTGAATC-CTAAGTCTTC
* * * *
17999869 TAATTAACCTTTGAAACTATTGTGAAT-TAAGAGACCTT-TACTTGTGAATCCAGAA-TCCTCTA
1 TAATTAACCTTTGAATCTAATGTGAATCT-AGAGA-CTTCTAGTTGTGAATCTA-AAGTCCTCTA
* * * * *
17999931 GTTTTGAATAGTTGACTC-CA--TGAATCCCT-AGTCTTT
63 ATTGTGAATTGTTGACTCTGATGTGAAT-CCTAAGTCTTC
* * * *
17999967 TAATTAACCTTTGAATTTGATGTGAA-CTTGAGAACTT-TAGTTGTGAATATAAAGTCC-CTCAA
1 TAATTAACCTTTGAATCTAATGTGAATCTAGAG-ACTTCTAGTTGTGAATCTAAAGTCCTCT-AA
** * * * *
18000029 TTGTGAATTGTTGACTCCAATGTGAATCATGAGTTTTT
64 TTGTGAATTGTTGACTCTGATGTGAATCCTAAGTCTTC
* * * * * * * *
18000067 TAATTAACCTTCGAATGTGATCTAAATCATA-AGACCTCTAGTTGTGAATCTATAGTCCTTTAAT
1 TAATTAACCTTTGAATCTAATGTGAATC-TAGAGACTTCTAGTTGTGAATCTAAAGTCCTCTAAT
*
18000131 TATGAATTGTTGACTCTGATGTGAATCCTAAGTCTTC
65 TGTGAATTGTTGACTCTGATGTGAATCCTAAGTCTTC
* * * *
18000168 TAATTAACCTTTGAATCTAATGTGAATCTAGAGATTTCTAGTGGTGAACCCAAAGTCCTCTAATT
1 TAATTAACCTTTGAATCTAATGTGAATCTAGAGACTTCTAGTTGTGAATCTAAAGTCCTCTAATT
* ** * * * *
18000233 GTGAGTCATTGACTC-GACGTGAATCCCAAATTTTC
66 GTGAATTGTTGACTCTGATGTGAATCCTAAGTCTTC
* * * * * * * *
18000268 AAATTAAACTTTAAATCTAATGTAAATCCAAAAACCTT-TAGTTGTGAATATAAA
1 TAATTAACCTTTGAATCTAATGTGAATCTAGAGA-CTTCTAGTTGTGAATCTAAA
18000322 ACTATGAATC
Statistics
Matches: 430, Mismatches: 97, Indels: 54
0.74 0.17 0.09
Matches are distributed among these distances:
96 4 0.01
97 36 0.08
98 37 0.09
99 4 0.01
100 166 0.39
101 181 0.42
102 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (101 bp):
TAATTAACCTTTGAATCTAATGTGAATCTAGAGACTTCTAGTTGTGAATCTAAAGTCCTCTAATT
GTGAATTGTTGACTCTGATGTGAATCCTAAGTCTTC
Found at i:18002745 original size:6 final size:6
Alignment explanation
Indices: 18002726--18002851 Score: 75
Period size: 6 Copynumber: 20.5 Consensus size: 6
18002716 ATTACTGCTC
* * *
18002726 AAACTCT AAACCT AATCCT AAA--T GAAACCCT AACCCT AATCC- AAACCCT
1 AAAC-CT AAACCT AAACCT AAACCT -AAA-CCT AAACCT AAACCT AAA-CCT
* * *
18002775 AAACTT AAACCCT AAA-CT AGACTCT AAACGT AAACCCT AAACCT -AACCGT
1 AAACCT AAA-CCT AAACCT AAAC-CT AAACCT AAA-CCT AAACCT AAACC-T
18002825 AAACCT -AACCGT AAACCT AAACCT AAA
1 AAACCT AAACC-T AAACCT AAACCT AAA
18002852 TGCTAATTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
4 1 0.01
5 17 0.18
6 43 0.46
7 32 0.34
8 1 0.01
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.19
Consensus pattern (6 bp):
AAACCT
Found at i:18002785 original size:25 final size:25
Alignment explanation
Indices: 18002757--18002851 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
18002747 ATGAAACCCT
* *
18002757 AACCCTAATCCAAACCCTAAACTTA
1 AACCCTAAACCAAACCCTAAACGTA
* * *
18002782 AACCCTAAACTAGACTCTAAACGTA
1 AACCCTAAACCAAACCCTAAACGTA
* * *
18002807 AACCCTAAACCTAACCGTAAACCT-
1 AACCCTAAACCAAACCCTAAACGTA
*
18002831 AACCGTAAACCTAAA-CCTAAA
1 AACCCTAAACC-AAACCCTAAA
18002852 TGCTAATTGT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
24 15 0.27
25 40 0.73
ACGTcount: A:0.45, C:0.33, G:0.04, T:0.18
Consensus pattern (25 bp):
AACCCTAAACCAAACCCTAAACGTA
Found at i:18002822 original size:12 final size:12
Alignment explanation
Indices: 18002754--18002851 Score: 90
Period size: 12 Copynumber: 8.0 Consensus size: 12
18002744 TAAATGAAAC
*
18002754 CCTAACCCTAAT
1 CCTAACCCTAAA
*
18002766 CCAAACCCTAAA
1 CCTAACCCTAAA
*
18002778 CTTAAACCCTAAA
1 CCT-AACCCTAAA
*
18002791 -CTAGACTCTAAA
1 CCTA-ACCCTAAA
*
18002803 CGTAAACCCTAAA
1 CCT-AACCCTAAA
*
18002816 CCTAACCGTAAA
1 CCTAACCCTAAA
*
18002828 CCTAACCGTAAA
1 CCTAACCCTAAA
*
18002840 CCTAAACCTAAA
1 CCTAACCCTAAA
18002852 TGCTAATTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
11 1 0.01
12 49 0.70
13 19 0.27
14 1 0.01
ACGTcount: A:0.44, C:0.34, G:0.04, T:0.18
Consensus pattern (12 bp):
CCTAACCCTAAA
Found at i:18002845 original size:18 final size:18
Alignment explanation
Indices: 18002798--18002851 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
18002788 AAACTAGACT
*
18002798 CTAAACGTAAACCCTAAAC
1 CTAACCGTAAA-CCTAAAC
18002817 CTAACCGTAAACCT-AAC
1 CTAACCGTAAACCTAAAC
18002834 CGTAAACC-TAAACCTAAA
1 C-T-AACCGTAAACCTAAA
18002852 TGCTAATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 11 0.35
19 16 0.52
ACGTcount: A:0.46, C:0.31, G:0.06, T:0.17
Consensus pattern (18 bp):
CTAACCGTAAACCTAAAC
Found at i:18003548 original size:37 final size:37
Alignment explanation
Indices: 18003507--18003581 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
18003497 GTGGGAATGC
18003507 TAATTTTTCCCTAGGCGTAATTGAACTCCTAAATCTA
1 TAATTTTTCCCTAGGCGTAATTGAACTCCTAAATCTA
18003544 TAATTTTTCCCTAGGCGTAATTGAACTCCTAAATCTA
1 TAATTTTTCCCTAGGCGTAATTGAACTCCTAAATCTA
18003581 T
1 T
18003582 CTCTGATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (37 bp):
TAATTTTTCCCTAGGCGTAATTGAACTCCTAAATCTA
Found at i:18006065 original size:11 final size:11
Alignment explanation
Indices: 18006051--18006090 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
18006041 AATAAACTAA
18006051 TAATATAATGT
1 TAATATAATGT
*
18006062 TAATATAATAT
1 TAATATAATGT
18006073 TAATATAATG-
1 TAATATAATGT
18006083 TAATATAA
1 TAATATAA
18006091 GAATATAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (11 bp):
TAATATAATGT
Found at i:18009852 original size:18 final size:18
Alignment explanation
Indices: 18009829--18009876 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
18009819 ATTTGAGGAT
*
18009829 GATACATTTGTGGTGAAG
1 GATACATTTGTGGTAAAG
18009847 GATACATTTGTGGTAAAG
1 GATACATTTGTGGTAAAG
*
18009865 GATACATCTGTG
1 GATACATTTGTG
18009877 ATGGATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (18 bp):
GATACATTTGTGGTAAAG
Found at i:18010262 original size:6 final size:6
Alignment explanation
Indices: 18010224--18010261 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
18010214 ATAAAATTCA
*
18010224 CACCAT CACCAT CACCAT CACCAT CACCAT CATCAT CA
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CA
18010262 TTTGGACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.18
Consensus pattern (6 bp):
CACCAT
Found at i:18013430 original size:20 final size:20
Alignment explanation
Indices: 18013405--18013444 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18013395 GCAAAAGAAT
*
18013405 TGACAATAATATAAATACCA
1 TGACAACAATATAAATACCA
18013425 TGACAACAATATAAATACCA
1 TGACAACAATATAAATACCA
18013445 AAACAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (20 bp):
TGACAACAATATAAATACCA
Found at i:18013450 original size:20 final size:20
Alignment explanation
Indices: 18013407--18013453 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18013397 AAAAGAATTG
* **
18013407 ACAATAATATAAATACCATG
1 ACAACAATATAAATACCAAA
18013427 ACAACAATATAAATACCAAA
1 ACAACAATATAAATACCAAA
18013447 ACAACAA
1 ACAACAA
18013454 AAAAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.62, C:0.19, G:0.02, T:0.17
Consensus pattern (20 bp):
ACAACAATATAAATACCAAA
Found at i:18013503 original size:22 final size:22
Alignment explanation
Indices: 18013455--18013509 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
18013445 AAACAACAAA
* *
18013455 AAAATTATTAAATATAAAATCT
1 AAAATTAATAAATACAAAATCT
*
18013477 TAAATTAATAAATAACAAAATC-
1 AAAATTAATAAAT-ACAAAATCT
18013499 AAAATATAATA
1 AAAAT-TAATA
18013510 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATTAATAAATACAAAATCT
Found at i:18024193 original size:24 final size:25
Alignment explanation
Indices: 18024149--18024196 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18024139 TGAAATACAA
18024149 GAAAATGATTTTTAAATTGAATGTT
1 GAAAATGATTTTTAAATTGAATGTT
*
18024174 GAAAATGATTTTTTAA-TGAATGT
1 GAAAATGATTTTTAAATTGAATGT
18024197 AAAGAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.44
Consensus pattern (25 bp):
GAAAATGATTTTTAAATTGAATGTT
Found at i:18038896 original size:16 final size:16
Alignment explanation
Indices: 18038877--18038919 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
18038867 GAGCTTGGAA
18038877 AAAAGAAAAAAAAGTT-
1 AAAA-AAAAAAAAGTTG
*
18038893 AAAAAAGAAAAAATTTG
1 AAAAAA-AAAAAAGTTG
18038910 AAAAAAAAAA
1 AAAAAAAAAA
18038920 GAAAACAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 16 0.67
17 6 0.25
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAAAAAAAAAGTTG
Found at i:18039860 original size:17 final size:17
Alignment explanation
Indices: 18039838--18039870 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18039828 CCAAAACCTT
18039838 AACTAAAAGAAA-TAAAG
1 AACT-AAAGAAACTAAAG
18039855 AACTAAAGAAACTAAA
1 AACTAAAGAAACTAAA
18039871 AGAAAGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (17 bp):
AACTAAAGAAACTAAAG
Found at i:18042812 original size:3 final size:3
Alignment explanation
Indices: 18042804--18042829 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18042794 CTCTTAAATC
18042804 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
18042830 AGGATATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:18050018 original size:25 final size:25
Alignment explanation
Indices: 18049990--18050048 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
18049980 CTATGCAAGC
*
18049990 AAACAAGA-AAAGATAAAAAAAAAAA
1 AAACAAAAGAAAGA-AAAAAAAAAAA
18050015 AAACAAAAGAAAGAAAAAAGAAAAAA
1 AAACAAAAGAAAGAAAAAA-AAAAAA
*
18050041 GAA-AAAAG
1 AAACAAAAG
18050049 TTTAGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.83, C:0.03, G:0.12, T:0.02
Consensus pattern (25 bp):
AAACAAAAGAAAGAAAAAAAAAAAA
Found at i:18050033 original size:18 final size:18
Alignment explanation
Indices: 18049997--18050044 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18049987 AGCAAACAAG
*
18049997 AAAAGATAAAA-AAA-AA
1 AAAAGAAAAAAGAAAGAA
*
18050013 AAAA-ACAAAAGAAAGAA
1 AAAAGAAAAAAGAAAGAA
18050030 AAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
18050045 AAAGTTTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 7 0.26
17 6 0.22
18 9 0.33
ACGTcount: A:0.85, C:0.02, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAGAA
Found at i:18050048 original size:7 final size:7
Alignment explanation
Indices: 18049997--18050048 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
18049987 AGCAAACAAG
18049997 AAAAGATA
1 AAAAGA-A
18050005 AAAA-AA
1 AAAAGAA
18050011 AAAA-AA
1 AAAAGAA
*
18050017 ACAA-AA
1 AAAAGAA
*
18050023 GAAAGAA
1 AAAAGAA
18050030 AAAAGAA
1 AAAAGAA
18050037 AAAAGAA
1 AAAAGAA
18050044 AAAAG
1 AAAAG
18050049 TTTAGATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
6 14 0.36
7 21 0.54
8 4 0.10
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:18050745 original size:16 final size:18
Alignment explanation
Indices: 18050715--18050757 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
18050705 TTAATACCTT
18050715 AACTAAAAGAAACTA-AA
1 AACTAAAAGAAACTATAA
*
18050732 AACTAAAA-AAACTATGA
1 AACTAAAAGAAACTATAA
18050749 AACTAAAAG
1 AACTAAAAG
18050758 GAAGAAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (18 bp):
AACTAAAAGAAACTATAA
Found at i:18053038 original size:21 final size:19
Alignment explanation
Indices: 18053004--18053046 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
18052994 AATAATATAT
18053004 TTTGGTTTTTATTTATTTA
1 TTTGGTTTTTATTTATTTA
*
18053023 TTTGGTTATCTTATTTGTTTA
1 TTTGGTT-T-TTATTTATTTA
18053044 TTT
1 TTT
18053047 ATTTTTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 1 0.05
21 13 0.62
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (19 bp):
TTTGGTTTTTATTTATTTA
Found at i:18053563 original size:46 final size:45
Alignment explanation
Indices: 18053488--18053673 Score: 169
Period size: 51 Copynumber: 3.9 Consensus size: 45
18053478 TTCCAAAGAT
* * *
18053488 AAAAAAAGAAATTTCTAAATT-GACCCAAATAGTGAAAAATTTAGAA
1 AAAAAAAGAAATTTCT-AATTAGACTCAAATGGTG-GAAATTTAGAA
* *
18053534 AGAAAAAGAAATTTCTAATTAGGCTCAAATGGTGGAAATTTAGAAA
1 AAAAAAAGAAATTTCTAATTAGACTCAAATGGTGGAAATTTAG-AA
18053580 TTAAAAAAAGAAGATATTTCTAATTAGACTCAAATGGTGGAAATTTAGAAA
1 --AAAAAAAG-A-A-ATTTCTAATTAGACTCAAATGGTGGAAATTTAG-AA
* *
18053631 TTAAAAAAAGAAGATATTTCTAATTTGACCCAAATGGT-GAAAT
1 --AAAAAAAG-A-A-ATTTCTAATTAGACTCAAATGGTGGAAAT
18053674 AATTAGATAT
Statistics
Matches: 124, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
45 12 0.10
46 27 0.22
48 7 0.06
49 1 0.01
50 6 0.05
51 71 0.57
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (45 bp):
AAAAAAAGAAATTTCTAATTAGACTCAAATGGTGGAAATTTAGAA
Found at i:18053604 original size:51 final size:51
Alignment explanation
Indices: 18053539--18053673 Score: 227
Period size: 51 Copynumber: 2.7 Consensus size: 51
18053529 TAGAAAGAAA
* *
18053539 AAGAAATTTCTAATTAGGCTCAAATGGTGGAAATTTAGAAATTAAAAAAAG
1 AAGATATTTCTAATTAGACTCAAATGGTGGAAATTTAGAAATTAAAAAAAG
18053590 AAGATATTTCTAATTAGACTCAAATGGTGGAAATTTAGAAATTAAAAAAAG
1 AAGATATTTCTAATTAGACTCAAATGGTGGAAATTTAGAAATTAAAAAAAG
* *
18053641 AAGATATTTCTAATTTGACCCAAATGGT-GAAAT
1 AAGATATTTCTAATTAGACTCAAATGGTGGAAAT
18053674 AATTAGATAT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 5 0.06
51 75 0.94
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (51 bp):
AAGATATTTCTAATTAGACTCAAATGGTGGAAATTTAGAAATTAAAAAAAG
Found at i:18059759 original size:16 final size:16
Alignment explanation
Indices: 18059740--18059951 Score: 86
Period size: 16 Copynumber: 13.5 Consensus size: 16
18059730 TCAATAATGG
18059740 ATGAAAAAAATAAAAA
1 ATGAAAAAAATAAAAA
*
18059756 ATGAAGAAAATAAAAAA
1 ATGAAAAAAAT-AAAAA
*
18059773 AT-AAAAAATTTAAAAA
1 ATGAAAAAA-ATAAAAA
* * **
18059789 TTTAAAAATTTAAAAA
1 ATGAAAAAAATAAAAA
* * **
18059805 TTTAAAAATTTAAAAA
1 ATGAAAAAAATAAAAA
* * **
18059821 TTTAAAAATTTAAAAA
1 ATGAAAAAAATAAAAA
* * **
18059837 TTTAAAAATTTAAAAAA
1 ATGAAAAAAAT-AAAAA
*
18059854 ATG---AAGA-AAAAA
1 ATGAAAAAAATAAAAA
18059866 ATG--AAAAATGAAAAA
1 ATGAAAAAAAT-AAAAA
18059881 ATG-AAAAAATGAAAAA
1 ATGAAAAAAAT-AAAAA
18059897 ATG-AAAAAATAAAAA
1 ATGAAAAAAATAAAAA
* *
18059912 ATGAAAAAGAGAAAAA
1 ATGAAAAAAATAAAAA
*
18059928 GA-GAAAAGGAA-AAAAA
1 -ATGAAAA-AAATAAAAA
18059944 ATGAAAAA
1 ATGAAAAA
18059952 GAAGAAAAGA
Statistics
Matches: 169, Mismatches: 15, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
12 8 0.05
13 3 0.02
14 2 0.01
15 17 0.10
16 118 0.70
17 21 0.12
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (16 bp):
ATGAAAAAAATAAAAA
Found at i:18059765 original size:9 final size:8
Alignment explanation
Indices: 18059744--18059919 Score: 99
Period size: 8 Copynumber: 21.6 Consensus size: 8
18059734 TAATGGATGA
18059744 AAAAAAT-
1 AAAAAATG
18059751 AAAAAATG
1 AAAAAATG
*
18059759 AAGAAAATA
1 AA-AAAATG
18059768 AAAAAAT-
1 AAAAAATG
*
18059775 AAAAAATTT
1 AAAAAA-TG
* *
18059784 AAAAATTT
1 AAAAAATG
* *
18059792 AAAAATTT
1 AAAAAATG
* *
18059800 AAAAATTT
1 AAAAAATG
* *
18059808 AAAAATTT
1 AAAAAATG
* *
18059816 AAAAATTT
1 AAAAAATG
* *
18059824 AAAAATTT
1 AAAAAATG
* *
18059832 AAAAATTT
1 AAAAAATG
* *
18059840 AAAAATTTA
1 AAAAA-ATG
18059849 AAAAAATG
1 AAAAAATG
18059857 AAGAAAAAAATG
1 ---AAA-AAATG
18059869 -AAAAATG
1 AAAAAATG
18059876 AAAAAATG
1 AAAAAATG
18059884 AAAAAATG
1 AAAAAATG
18059892 AAAAAATG
1 AAAAAATG
18059900 AAAAAAT-
1 AAAAAATG
18059907 AAAAAATG
1 AAAAAATG
18059915 AAAAA
1 AAAAA
18059920 GAGAAAAAGA
Statistics
Matches: 153, Mismatches: 5, Indels: 21
0.85 0.03 0.12
Matches are distributed among these distances:
7 25 0.16
8 101 0.66
9 19 0.12
11 3 0.02
12 5 0.03
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (8 bp):
AAAAAATG
Found at i:18059775 original size:24 final size:23
Alignment explanation
Indices: 18059743--18059951 Score: 104
Period size: 24 Copynumber: 8.9 Consensus size: 23
18059733 ATAATGGATG
18059743 AAAAAAATAAAAAATGAAGAAAAT
1 AAAAAAATAAAAAATGAA-AAAAT
* *
18059767 AAAAAAATAAAAAATTTAAAAATTT
1 AAAAAAATAAAAAA-TGAAAAA-AT
** * * *
18059792 AAAAATTTAAAAATTTAAAAATTT
1 AAAAAAATAAAAAATGAAAAA-AT
** * * *
18059816 AAAAATTTAAAAATTTAAAAATT
1 AAAAAAATAAAAAATGAAAAAAT
* * * ** *
18059839 TAAAAATTTAAAAA--AATGAAG
1 AAAAAAATAAAAAATGAAAAAAT
*
18059860 AAAAAAATGAAAAATGAAAAAAT
1 AAAAAAATAAAAAATGAAAAAAT
*
18059883 GAAAAAATGAAAAAATGAAAAAAT
1 AAAAAAAT-AAAAAATGAAAAAAT
*
18059907 -AAAAAATGAAAAAGA-GAAAAAGAG
1 AAAAAAAT-AAAAA-ATGAAAAA-AT
*
18059931 AAAAGGAA-AAAAAATGAAAAA
1 AAAA-AAATAAAAAATGAAAAA
18059952 GAAGAAAAGA
Statistics
Matches: 152, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
21 14 0.09
23 43 0.28
24 75 0.49
25 18 0.12
26 2 0.01
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (23 bp):
AAAAAAATAAAAAATGAAAAAAT
Found at i:18059879 original size:6 final size:7
Alignment explanation
Indices: 18059850--18059941 Score: 73
Period size: 8 Copynumber: 12.7 Consensus size: 7
18059840 AAAAATTTAA
18059850 AAAAATG
1 AAAAATG
*
18059857 AAGAA--
1 AAAAATG
18059862 AAAAATG
1 AAAAATG
18059869 AAAAATG
1 AAAAATG
18059876 AAAAAATG
1 -AAAAATG
18059884 AAAAAATG
1 -AAAAATG
18059892 AAAAAATG
1 -AAAAATG
*
18059900 AAAAAATA
1 -AAAAATG
18059908 AAAAATG
1 AAAAATG
18059915 AAAAA-G
1 AAAAATG
*
18059921 AGAAAAAG
1 A-AAAATG
*
18059929 AGAAAAGG
1 A-AAAATG
18059937 AAAAA
1 AAAAA
18059942 AAATGAAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.05
6 2 0.03
7 30 0.40
8 39 0.52
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:18059918 original size:8 final size:8
Alignment explanation
Indices: 18059861--18059919 Score: 104
Period size: 8 Copynumber: 7.6 Consensus size: 8
18059851 AAAATGAAGA
18059861 AAAAAATG
1 AAAAAATG
18059869 -AAAAATG
1 AAAAAATG
18059876 AAAAAATG
1 AAAAAATG
18059884 AAAAAATG
1 AAAAAATG
18059892 AAAAAATG
1 AAAAAATG
18059900 AAAAAAT-
1 AAAAAATG
18059907 AAAAAATG
1 AAAAAATG
18059915 AAAAA
1 AAAAA
18059920 GAGAAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.29
8 35 0.71
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:18059927 original size:23 final size:23
Alignment explanation
Indices: 18059861--18059934 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 23
18059851 AAAATGAAGA
*
18059861 AAAAAATGAAAAATGA-AAAAATG
1 AAAAAATGAAAAA-GAGAAAAAAG
*
18059884 AAAAAATGAAAAA-ATGAAAAAAT
1 AAAAAATGAAAAAGA-GAAAAAAG
18059907 AAAAAATGAAAAAGAGAAAAAGAG
1 AAAAAATGAAAAAGAGAAAAA-AG
18059931 AAAA
1 AAAA
18059935 GGAAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.02
23 37 0.84
24 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (23 bp):
AAAAAATGAAAAAGAGAAAAAAG
Found at i:18059959 original size:16 final size:15
Alignment explanation
Indices: 18059857--18059963 Score: 98
Period size: 16 Copynumber: 7.0 Consensus size: 15
18059847 TAAAAAAATG
18059857 AAGAAAAAAATGAAA
1 AAGAAAAAAATGAAA
18059872 AATG-AAAAAATGAAA
1 AA-GAAAAAAATGAAA
18059887 AA-ATGAAAAAATGAAA
1 AAGA--AAAAAATGAAA
18059903 AA-ATAAAAAATGAAA
1 AAGA-AAAAAATGAAA
18059918 AAGAGAAAAAGA-GAAA
1 AAGA-AAAAA-ATGAAA
*
18059934 AGGAAAAAAAATGAAA
1 AAG-AAAAAAATGAAA
*
18059950 AAGAAGAAAA-GAAA
1 AAGAAAAAAATGAAA
18059964 TACTCAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
14 4 0.05
15 35 0.44
16 38 0.48
17 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (15 bp):
AAGAAAAAAATGAAA
Found at i:18059963 original size:24 final size:24
Alignment explanation
Indices: 18059850--18059963 Score: 80
Period size: 24 Copynumber: 4.7 Consensus size: 24
18059840 AAAAATTTAA
18059850 AAAAATGAAGAAAA-AAATGAAAAATG
1 AAAAA-GAAGAAAAGAAA--AAAAATG
*
18059876 AAAAA-ATGAAAA-AATGAAAAAATG
1 AAAAAGAAGAAAAGAA--AAAAAATG
* *
18059900 AAAAA-ATAAAAAATG-AAAAAGA-G
1 AAAAAGA-AGAAAA-GAAAAAAAATG
18059923 AAAAAG-AGAAAAGGAAAAAAAATG
1 AAAAAGAAGAAAA-GAAAAAAAATG
18059947 AAAAAGAAGAAAAGAAA
1 AAAAAGAAGAAAAGAAA
18059964 TACTCAAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
22 6 0.08
23 12 0.17
24 37 0.51
25 10 0.14
26 7 0.10
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (24 bp):
AAAAAGAAGAAAAGAAAAAAAATG
Found at i:18061357 original size:43 final size:43
Alignment explanation
Indices: 18061296--18061757 Score: 333
Period size: 43 Copynumber: 10.9 Consensus size: 43
18061286 TTTGAGGAAC
* * * * *
18061296 TTTATTTTTTAAATTTGTTGAGCCTTTGTTTAGAGGAGCCTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAGGAGCTTTA
* * * * *
18061339 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAACCTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAGGAGCTTTA
* * *
18061382 TTTATTTTTCAAAGTTGTTGAG-CTTCTATTTATAGGAGTTTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTT-TATTTAGAGGAGCTTTA
* * *
18061425 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGATTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAGGAGCTTTA
* *
18061468 TTTATTTTTCAAAGTTGTTAAG-CTTCTATTTAGAGGAGC----
1 TTTATTTTTCAAAGTCGTTGAGCCTT-TATTTAGAGGAGCTTTA
* * * * *
18061507 ------TTTCAAAGCCGTTAAG-CTTCTGTTTATAAGAGCTTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTT-TATTTAGAGGAGCTTTA
* *
18061544 TTTATTTTTCAAAGTCATTGAGCCTTTATTTAGAGGAGCCTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAGGAGCTTTA
* * * * *
18061587 TTAATTTTTCAAAGTTGTTGA-CCTTT-TCTTAAATGAGTTTTATTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTTTAT-TTAGAGGAG----CTTTA
* * * *
18061633 TTTATTTTTTAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAGGAGCTTTA
* * * ** * *
18061676 TTTATTTTTCCAAAGTCATTAACCCTTTGCTTAAAGGATCTTTA
1 TTTATTTTT-CAAAGTCGTTGAGCCTTTATTTAGAGGAGCTTTA
* * * *
18061720 TTTATTTTTCAAAATCATTAAGCCTTTGTTTAGAGGAG
1 TTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAGGAG
18061758 TTTTTATAAA
Statistics
Matches: 339, Mismatches: 58, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
33 28 0.08
41 1 0.00
42 16 0.05
43 220 0.65
44 41 0.12
46 20 0.06
47 12 0.04
48 1 0.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (43 bp):
TTTATTTTTCAAAGTCGTTGAGCCTTTATTTAGAGGAGCTTTA
Found at i:18061511 original size:33 final size:33
Alignment explanation
Indices: 18061474--18061542 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
18061464 TTTATTTATT
** *
18061474 TTTCAAAGTTGTTAAGCTTCTATTTAGAGGAGC
1 TTTCAAAGCCGTTAAGCTTCTATTTAGAAGAGC
* *
18061507 TTTCAAAGCCGTTAAGCTTCTGTTTATAAGAGC
1 TTTCAAAGCCGTTAAGCTTCTATTTAGAAGAGC
18061540 TTT
1 TTT
18061543 ATTTATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (33 bp):
TTTCAAAGCCGTTAAGCTTCTATTTAGAAGAGC
Found at i:18061544 original size:119 final size:119
Alignment explanation
Indices: 18061388--18061605 Score: 346
Period size: 119 Copynumber: 1.8 Consensus size: 119
18061378 CTTATTTATT
** * * *
18061388 TTTCAAAGTTGTTGAGCTTCTATTTATAGGAGTTTTATTTATTTTTCAAAGTCATTGAGCCTCTA
1 TTTCAAAGCCGTTAAGCTTCTATTTATAAGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTA
* *
18061453 TTTAGAGGAGATTTATTTATTTTTCAAAGTTGTTAAGCTTCTATTTAGAGGAGC
66 TTTAGAGGAGACTTATTAATTTTTCAAAGTTGTTAAGCTTCTATTTAGAGGAGC
* *
18061507 TTTCAAAGCCGTTAAGCTTCTGTTTATAAGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTTTA
1 TTTCAAAGCCGTTAAGCTTCTATTTATAAGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTA
*
18061572 TTTAGAGGAGCCTTATTAATTTTTCAAAGTTGTT
66 TTTAGAGGAGACTTATTAATTTTTCAAAGTTGTT
18061606 GACCTTTTCT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
119 89 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (119 bp):
TTTCAAAGCCGTTAAGCTTCTATTTATAAGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTA
TTTAGAGGAGACTTATTAATTTTTCAAAGTTGTTAAGCTTCTATTTAGAGGAGC
Found at i:18061647 original size:46 final size:47
Alignment explanation
Indices: 18061540--18061726 Score: 140
Period size: 44 Copynumber: 4.1 Consensus size: 47
18061530 TTATAAGAGC
* * * * *
18061540 TTTATTTATTTTTCAAAGTCATTGAGCCTTTATTTAGAGGAGCCTTA
1 TTTATTTATTTTTCAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTA
* * * * *
18061587 -TTA---ATTTTTCAAAGTTGTTGA-CCT-TTTCTTAAATGAGTTTTA
1 TTTATTTATTTTTCAAAGTCGTTAAGCCTCTAT-TTAAAGGAGCTTTA
*
18061629 TTTATTTATTTTTTAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTA
1 TTTATTTATTTTTCAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTA
* * * * ** *
18061676 TTTA--T-TTTTCCAAAGTCATTAACCCTTTGCTTAAAGGATCTTTA
1 TTTATTTATTTTTCAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTA
18061720 TTTATTT
1 TTTATTT
18061727 TTCAAAATCA
Statistics
Matches: 110, Mismatches: 21, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
41 2 0.02
42 13 0.12
43 19 0.17
44 35 0.32
45 1 0.01
46 19 0.17
47 19 0.17
48 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (47 bp):
TTTATTTATTTTTCAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTA
Found at i:18061657 original size:89 final size:87
Alignment explanation
Indices: 18061540--18061757 Score: 251
Period size: 89 Copynumber: 2.5 Consensus size: 87
18061530 TTATAAGAGC
* **
18061540 TTTATTTATTTTTCAAAGTCATTGAGCCTTTATTTAGAGGAGCCTTATTAATTTTT-CAAAGTTG
1 TTTATTTATTTTTCAAAGTCATTAAGCCTTTATTTAGAGGAGCCTTATTAATTTTTCCAAAGTCA
* * *
18061604 TTGA-CCTTTTCTTAAATGAGTTTTA
66 TTAACCCTTTGCTTAAA-G-G--ATA
* * * * * *
18061629 TTTATTTATTTTTTAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTATTTATTTTTCCAAAGTCA
1 TTTATTTATTTTTCAAAGTCATTAAGCCTTTATTTAGAGGAGCCTTATTAATTTTTCCAAAGTCA
*
18061694 TTAACCCTTTGCTTAAAGGATC
66 TTAACCCTTTGCTTAAAGGATA
* *
18061716 TTTATTTATTTTTCAAAATCATTAAGCCTTTGTTTAGAGGAG
1 TTTATTTATTTTTCAAAGTCATTAAGCCTTTATTTAGAGGAG
18061758 TTTTTATAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
87 37 0.34
89 50 0.46
90 10 0.09
91 11 0.10
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (87 bp):
TTTATTTATTTTTCAAAGTCATTAAGCCTTTATTTAGAGGAGCCTTATTAATTTTTCCAAAGTCA
TTAACCCTTTGCTTAAAGGATA
Found at i:18061676 original size:47 final size:46
Alignment explanation
Indices: 18061540--18061682 Score: 143
Period size: 47 Copynumber: 3.2 Consensus size: 46
18061530 TTATAAGAGC
* * *
18061540 TTTATTTATTTTTCAAAGTCATTGAGCCTTTATTTAGAGGAGCCTTA
1 TTTATTTATTTTTCAAAGTCGTTGAGCC-TTATTTAAAGGAGCTTTA
* * * *
18061587 -TTA---ATTTTTCAAAGTTGTTGA-CCTTTTCTTAAATGAGTTTTA
1 TTTATTTATTTTTCAAAGTCGTTGAGCCTTAT-TTAAAGGAGCTTTA
* *
18061629 TTTATTTATTTTTTAAAGTCGTTAAGCCTCTATTTAAAGGAGCTTTA
1 TTTATTTATTTTTCAAAGTCGTTGAGCCT-TATTTAAAGGAGCTTTA
18061676 TTTATTT
1 TTTATTT
18061683 TTCCAAAGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
41 3 0.04
42 12 0.16
43 19 0.25
46 18 0.24
47 22 0.29
48 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (46 bp):
TTTATTTATTTTTCAAAGTCGTTGAGCCTTATTTAAAGGAGCTTTA
Found at i:18061793 original size:8 final size:8
Alignment explanation
Indices: 18061780--18061826 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
18061770 CTGAGTTTGC
18061780 ATAAAAAA
1 ATAAAAAA
18061788 ATAAAAAA
1 ATAAAAAA
18061796 A-ATAAAAA
1 ATA-AAAAA
**
18061804 ACCAAAAA
1 ATAAAAAA
18061812 ATAAAAAA
1 ATAAAAAA
18061820 ATAAAAA
1 ATAAAAA
18061827 GGTATGTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 1 0.03
8 33 0.97
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (8 bp):
ATAAAAAA
Found at i:18062748 original size:9 final size:9
Alignment explanation
Indices: 18062734--18062775 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
18062724 TTGCATGATT
18062734 AAAATTAAA
1 AAAATTAAA
18062743 AAAATTAGAA
1 AAAATTA-AA
*
18062753 AAAAATAAA
1 AAAATTAAA
18062762 AAAA-TAAA
1 AAAATTAAA
18062770 ATAAAT
1 A-AAAT
18062776 ATTTTTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 5 0.17
9 16 0.55
10 8 0.28
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAATTAAA
Found at i:18063217 original size:46 final size:44
Alignment explanation
Indices: 18063164--18063251 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 44
18063154 AAAGATAAAA
*
18063164 AAAGAAATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATAC
1 AAAGAAATTTCTAAATAGACCTAAATGGTG--AAATTTAGAAATAC
* * *
18063210 AAAGAAATTTCTATATAGGCCTATATGGTGAAATTTAGAAAT
1 AAAGAAATTTCTAAATAGACCTAAATGGTGAAATTTAGAAAT
18063252 TAAAAAGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 12 0.32
46 26 0.68
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.31
Consensus pattern (44 bp):
AAAGAAATTTCTAAATAGACCTAAATGGTGAAATTTAGAAATAC
Found at i:18066606 original size:12 final size:12
Alignment explanation
Indices: 18066589--18066622 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
18066579 ATAAAGCCCT
18066589 TCCACCATTCCC
1 TCCACCATTCCC
18066601 TCCACCATTCCC
1 TCCACCATTCCC
18066613 TCCACCATTC
1 TCCACCATTC
18066623 TAGGAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.56, G:0.00, T:0.26
Consensus pattern (12 bp):
TCCACCATTCCC
Found at i:18072701 original size:161 final size:162
Alignment explanation
Indices: 18072471--18072819 Score: 409
Period size: 161 Copynumber: 2.2 Consensus size: 162
18072461 ACCTAACTCT
* * * * * * *
18072471 GTCACGAAATCATAATAACACAACCAGTTTTACAGTTTTGTCCTTGAATGGCCTGAAATGTTGAA
1 GTCACGAAATCAGAATAACACAACCAATTTTACAGTTTTGCCCTTGAACGGCCAGAAATATTCAA
** * * *
18072536 AAAAACATTAAAATTGTTGCTTTAAAACGCATATAAGGTTTGGCAGCTCATTTCAACCATTC-AA
66 AAAAACACCAAAATTATTGCTTTAAAACACATATAAGGGTTGGCAGCTCATTTCAACCATTCGAA
*
18072600 ATAACTTCAATAT-ATACAATAGG-GCTATCTAA
131 A-AACTTAAATATCATACAAT-GGAGCTATCTAA
* * * *
18072632 GTCACGAAATCAGAATAACACAACTAATTTTATAGTTTCT-CCCTTTAACGGGCAGAAATATTCA
1 GTCACGAAATCAGAATAACACAACCAATTTTACAGTTT-TGCCCTTGAACGGCCAGAAATATTCA
* * *
18072696 AAAAAACACCAAAATTATTGCTTTAAACCACATATAAGGGTTGGCATCTCATTTCATCCATTCGA
65 AAAAAACACCAAAATTATTGCTTTAAAACACATATAAGGGTTGGCAGCTCATTTCAACCATTCGA
* *
18072761 AAAACTTAAATATCATACAATGGAGCTATTTCA
130 AAAACTTAAATATCATACAATGGAGCTATCTAA
** * *
18072794 GTCATAAAATTAGAATAACGCAACCA
1 GTCACGAAATCAGAATAACACAACCA
18072820 TTCAAACAAC
Statistics
Matches: 157, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
161 118 0.75
162 39 0.25
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (162 bp):
GTCACGAAATCAGAATAACACAACCAATTTTACAGTTTTGCCCTTGAACGGCCAGAAATATTCAA
AAAAACACCAAAATTATTGCTTTAAAACACATATAAGGGTTGGCAGCTCATTTCAACCATTCGAA
AAACTTAAATATCATACAATGGAGCTATCTAA
Found at i:18072821 original size:64 final size:64
Alignment explanation
Indices: 18072753--18072876 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
18072743 CTCATTTCAT
* * *
18072753 CCATTCGAAA-AACTTAAATATCATACAATGGAGCTATTTCAGTCATAAAATTAGAATAACGCAA
1 CCATTC-AAACAACTTAAATATCATACAATGGAGCTATTTAAGTCACAAAATCAGAATAACGCAA
* * *
18072817 CCATTCAAACAACTTCAATATCATACAATTGAGCTATTTAAGTCACAAAATCATAATAAC
1 CCATTCAAACAACTTAAATATCATACAATGGAGCTATTTAAGTCACAAAATCAGAATAAC
18072877 ACAAATAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 3 0.06
64 50 0.94
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.27
Consensus pattern (64 bp):
CCATTCAAACAACTTAAATATCATACAATGGAGCTATTTAAGTCACAAAATCAGAATAACGCAA
Found at i:18073253 original size:25 final size:25
Alignment explanation
Indices: 18073219--18073267 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
18073209 TTTAATAGCG
18073219 AATCAAGCTATCATATCATTTTAAT
1 AATCAAGCTATCATATCATTTTAAT
*
18073244 AATCAAGCTATTATATCATTTTAA
1 AATCAAGCTATCATATCATTTTAA
18073268 CACATATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (25 bp):
AATCAAGCTATCATATCATTTTAAT
Found at i:18073922 original size:20 final size:20
Alignment explanation
Indices: 18073893--18073933 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18073883 TGCTCAATGT
*
18073893 TCTTACCTTAAATGAATATA
1 TCTTACCTTAAATAAATATA
* *
18073913 TCTTATCTTATATAAATATA
1 TCTTACCTTAAATAAATATA
18073933 T
1 T
18073934 AAAAGTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.46
Consensus pattern (20 bp):
TCTTACCTTAAATAAATATA
Found at i:18074092 original size:234 final size:234
Alignment explanation
Indices: 18073683--18074144 Score: 678
Period size: 234 Copynumber: 2.0 Consensus size: 234
18073673 AAATTACATA
* **
18073683 ATCTTATATAAATATAAAAAAGCCATAACTTTAGGTAAAAAAGGAAATAGTCTTACTTGGATAAC
1 ATCTTATATAAATATAAAAAAGCCAAAACTTTAGGTAAAAAAACAAATAGTCTTACTTGGATAAC
**
18073748 ATATATTTTGACATGTGGACAGATTTAAAAAATTGCTATGTGTCTTTTAATAAATGCATTTTATT
66 ATATATTTTGACATGTAAACAGATTTAAAAAATTGCTATGTGTCTTTTAATAAATGCATTTTATT
* * **
18073813 TATTTGAAATGTTTTTATTACTTAAAAATAATTAGTTAGACTAAATTAATTCCATTTATTCTCTT
131 TATTTGAAATATTTTTATTACTTAAAAATAATTAATTAGACTAAATTAATTCCAAATATTCTCTT
**
18073878 TTAAATGCTCAATGTTCTTACCTTAAATGAATATATCTT
196 TTAAATGAACAATGTTCTTACCTTAAATGAATATATCTT
* * * *
18073917 ATCTTATATAAATATATAAAAGTCAAAATTTTAAGTTAAAAAAACAAA-AGTCTTACTTGGATAA
1 ATCTTATATAAATATAAAAAAGCCAAAACTTT-AGGTAAAAAAACAAATAGTCTTACTTGGATAA
* * *
18073981 CCTATATTTTGACATGTAAATAGATTTAAAAAATTGAC-ATTTGT-TTTTAATAAATGCATTTTA
65 CATATATTTTGACATGTAAACAGATTTAAAAAATTG-CTATGTGTCTTTTAATAAATGCATTTTA
18074044 TTTATTTGAAATATTTTTATTACTTAAAAAATAATTAATTAGACTAAATTAATTCCAAATATTCT
129 TTTATTTGAAATATTTTTATTACTT-AAAAATAATTAATTAGACTAAATTAATTCCAAATATTCT
* ** *
18074109 CTTTTAAATTAACAATGTTCTTTTCTTATATGAATA
193 CTTTTAAATGAACAATGTTCTTACCTTAAATGAATA
18074145 AGTTGCAATT
Statistics
Matches: 203, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
233 43 0.21
234 147 0.72
235 13 0.06
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.42
Consensus pattern (234 bp):
ATCTTATATAAATATAAAAAAGCCAAAACTTTAGGTAAAAAAACAAATAGTCTTACTTGGATAAC
ATATATTTTGACATGTAAACAGATTTAAAAAATTGCTATGTGTCTTTTAATAAATGCATTTTATT
TATTTGAAATATTTTTATTACTTAAAAATAATTAATTAGACTAAATTAATTCCAAATATTCTCTT
TTAAATGAACAATGTTCTTACCTTAAATGAATATATCTT
Found at i:18084009 original size:10 final size:10
Alignment explanation
Indices: 18083759--18084058 Score: 113
Period size: 10 Copynumber: 30.4 Consensus size: 10
18083749 TCATCTTTAA
18083759 AAAAACATTTCT
1 AAAAA-ATTT-T
*
18083771 AAAAACTTTT
1 AAAAAATTTT
*
18083781 TAAAAATTTT
1 AAAAAATTTT
18083791 -AAAAATTTT
1 AAAAAATTTT
18083800 AAAAAAATATTT
1 -AAAAAAT-TTT
*
18083812 -AGAAATTTT
1 AAAAAATTTT
* * * *
18083821 TACAAACTAT
1 AAAAAATTTT
*
18083831 AAAAAATTTC
1 AAAAAATTTT
*
18083841 AAAACAATTTA
1 AAAA-AATTTT
*
18083852 ACAAAAATTCT
1 A-AAAAATTTT
18083863 -AAAAATTTT
1 AAAAAATTTT
**
18083872 AAAAAATACT
1 AAAAAATTTT
*
18083882 AAAAAAATTT
1 AAAAAATTTT
18083892 AAAAAA--TT
1 AAAAAATTTT
* *
18083900 -AATAATATAT
1 AAAAAAT-TTT
* *
18083910 ATAAAATATAT
1 AAAAAAT-TTT
*
18083921 AAAAACTTTT
1 AAAAAATTTT
*
18083931 -AAAACTTTT
1 AAAAAATTTT
* **
18083940 TAAATTTTTT
1 AAAAAATTTT
* *
18083950 TAAAAATTTC
1 AAAAAATTTT
*
18083960 ATAAAAATTCT
1 A-AAAAATTTT
*
18083971 --AAATTTTT
1 AAAAAATTTT
18083979 AAAAAATTTT
1 AAAAAATTTT
*
18083989 AAAAAA-ATT
1 AAAAAATTTT
18083998 AAAAAATTTT
1 AAAAAATTTT
* *
18084008 --AACAGTTT
1 AAAAAATTTT
*
18084016 AAAAAATTCT
1 AAAAAATTTT
* *
18084026 AAATAATTAT
1 AAAAAATTTT
**
18084036 -AAAAGGTTT
1 AAAAAATTTT
*
18084045 CAAAAATTTT
1 AAAAAATTTT
18084055 AAAA
1 AAAA
18084059 GGCTTTTAAA
Statistics
Matches: 214, Mismatches: 55, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
7 4 0.02
8 14 0.07
9 42 0.20
10 104 0.49
11 39 0.18
12 11 0.05
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:18084255 original size:10 final size:11
Alignment explanation
Indices: 18084236--18084265 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18084226 TAAAAAAGTC
18084236 TAAAATTTTTT
1 TAAAATTTTTT
18084247 TAAAATTTTTT
1 TAAAATTTTTT
*
18084258 AAAAATTT
1 TAAAATTT
18084266 AAATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TAAAATTTTTT
Found at i:18084353 original size:9 final size:9
Alignment explanation
Indices: 18084341--18084375 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
18084331 AAAAATTACC
18084341 AAAATTTTA
1 AAAATTTTA
18084350 AAAATTTTA
1 AAAATTTTA
* *
18084359 AAAGTTTTG
1 AAAATTTTA
18084368 AAAATTTT
1 AAAATTTT
18084376 TTAAAAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (9 bp):
AAAATTTTA
Found at i:18084366 original size:18 final size:17
Alignment explanation
Indices: 18084244--18084375 Score: 77
Period size: 18 Copynumber: 7.2 Consensus size: 17
18084234 TCTAAAATTT
18084244 TTTTAAAATTTTTTAAAAA
1 TTTTAAAA--TTTTAAAAA
* *
18084263 TTTAAATAAATTTTAGTAAA
1 TTT-TA-AAATTTTA-AAAA
18084283 TTTTAAAATTTATAAAAA
1 TTTTAAAATTT-TAAAAA
* * *
18084301 -TTTAAAATATGAAATAC
1 TTTTAAAATTTTAAA-AA
* *
18084318 TTTTATCAATTATAAAAA
1 TTTTA-AAATTTTAAAAA
**
18084336 TTACCAAAATTTTAAAAA
1 TT-TTAAAATTTTAAAAA
*
18084354 TTTTAAAAGTTTTGAAAA
1 TTTTAAAA-TTTTAAAAA
18084372 TTTT
1 TTTT
18084376 TTAAAAACCA
Statistics
Matches: 85, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
16 3 0.04
17 14 0.16
18 40 0.47
19 18 0.21
20 7 0.08
21 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTAAAATTTTAAAAA
Found at i:18084376 original size:10 final size:8
Alignment explanation
Indices: 18084270--18084375 Score: 50
Period size: 9 Copynumber: 11.9 Consensus size: 8
18084260 AAATTTAAAT
18084270 AAATTTTA
1 AAATTTTA
18084278 GTAAATTTTA
1 --AAATTTTA
18084288 AAATTTATA
1 AAATTT-TA
*
18084297 AAAATTTA
1 AAATTTTA
* *
18084305 AAATATGA
1 AAATTTTA
18084313 AATACTTTTA
1 AA-A-TTTTA
* *
18084323 TCAATTATAA
1 -AAATT-TTA
**
18084333 AAATTACCA
1 AAATT-TTA
18084342 AAATTTTAA
1 AAATTTT-A
18084351 AAATTTTA
1 AAATTTTA
18084359 AAAGTTTTGA
1 AAA-TTTT-A
18084369 AAATTTT
1 AAATTTT
18084376 TTAAAAACCA
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
8 19 0.25
9 37 0.49
10 18 0.24
11 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (8 bp):
AAATTTTA
Found at i:18084914 original size:9 final size:9
Alignment explanation
Indices: 18084863--18085055 Score: 97
Period size: 9 Copynumber: 20.2 Consensus size: 9
18084853 ATTCTTTTTG
18084863 AATTTTTGAA
1 AATTTTT-AA
* *
18084873 AATTTCTAG
1 AATTTTTAA
*
18084882 AATTTCTAGA
1 AATTTTTA-A
18084892 AATTTTT-A
1 AATTTTTAA
*
18084900 ATTTTTTAA
1 AATTTTTAA
18084909 AA-TTTTAA
1 AATTTTTAA
18084917 AATCTTTT-A
1 AAT-TTTTAA
18084926 AATGTTTTAAAA
1 AAT-TTTT--AA
18084938 AATTTTTAA
1 AATTTTTAA
* *
18084947 ATTTTTTAG
1 AATTTTTAA
*
18084956 AA-TTTAAA
1 AATTTTTAA
18084964 AATTTTTCAA
1 AATTTTT-AA
*
18084974 AATTATTATTA
1 AATT-TT-TAA
* *
18084985 ATTTTTTAG
1 AATTTTTAA
18084994 AATTTTTAAAA
1 AATTTTT--AA
* *
18085005 AATTGTTAG
1 AATTTTTAA
18085014 AATTTTTAGAA
1 AATTTTT--AA
**
18085025 AATTTTTGG
1 AATTTTTAA
18085034 AATTTTTAAAA
1 AATTTTT--AA
18085045 AATTTTTAA
1 AATTTTTAA
18085054 AA
1 AA
18085056 AAATTTTAGA
Statistics
Matches: 139, Mismatches: 27, Indels: 35
0.69 0.13 0.17
Matches are distributed among these distances:
8 21 0.15
9 57 0.41
10 24 0.17
11 32 0.23
12 5 0.04
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (9 bp):
AATTTTTAA
Found at i:18085056 original size:10 final size:10
Alignment explanation
Indices: 18084899--18085056 Score: 80
Period size: 10 Copynumber: 16.2 Consensus size: 10
18084889 AGAAATTTTT
*
18084899 AATTTTTTAA
1 AATTTTTAAA
18084909 AA-TTTT-AA
1 AATTTTTAAA
18084917 AATCTTTTAAA
1 AAT-TTTTAAA
** *
18084928 TGTTTTAAAA
1 AATTTTTAAA
18084938 AATTTTT--A
1 AATTTTTAAA
* *
18084946 AATTTTTTAG
1 AATTTTTAAA
18084956 AA--TTTAAA
1 AATTTTTAAA
*
18084964 AATTTTTCAA
1 AATTTTTAAA
* **
18084974 AATTATTATT
1 AATTTTTAAA
* *
18084984 AATTTTTTAG
1 AATTTTTAAA
18084994 AATTTTTAAAA
1 AATTTTT-AAA
* *
18085005 AATTGTT-AG
1 AATTTTTAAA
18085014 AATTTTTAGAA
1 AATTTTTA-AA
**
18085025 AATTTTT-GG
1 AATTTTTAAA
18085034 AATTTTTAAAA
1 AATTTTT-AAA
18085045 AATTTTTAAA
1 AATTTTTAAA
18085055 AA
1 AA
18085057 AATTTTAGAG
Statistics
Matches: 108, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
8 18 0.17
9 18 0.17
10 47 0.44
11 25 0.23
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:18085056 original size:12 final size:11
Alignment explanation
Indices: 18084994--18085063 Score: 58
Period size: 11 Copynumber: 6.7 Consensus size: 11
18084984 AATTTTTTAG
18084994 AATTTTTAAAA
1 AATTTTTAAAA
* *
18085005 AATTGTT--AG
1 AATTTTTAAAA
*
18085014 AATTTTTAGAA
1 AATTTTTAAAA
**
18085025 AATTTTT--GG
1 AATTTTTAAAA
18085034 AATTTTTAAAA
1 AATTTTTAAAA
18085045 AATTTTTAAAA
1 AATTTTTAAAA
*
18085056 AAATTTTA
1 AATTTTTA
18085064 GAGTTTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
9 14 0.30
11 32 0.70
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (11 bp):
AATTTTTAAAA
Found at i:18085070 original size:20 final size:20
Alignment explanation
Indices: 18084949--18085052 Score: 106
Period size: 20 Copynumber: 5.3 Consensus size: 20
18084939 ATTTTTAAAT
18084949 TTTTTAGAA--TTT-AAAAA
1 TTTTTAGAATTTTTAAAAAA
* * ** *
18084966 TTTTTCAAAATTATTATTAAT
1 TTTTT-AGAATTTTTAAAAAA
18084987 TTTTTAGAATTTTTAAAAAA
1 TTTTTAGAATTTTTAAAAAA
* *
18085007 TTGTTAGAATTTTTAGAAAA
1 TTTTTAGAATTTTTAAAAAA
*
18085027 TTTTTGGAATTTTTAAAAAA
1 TTTTTAGAATTTTTAAAAAA
18085047 TTTTTA
1 TTTTTA
18085053 AAAAAATTTT
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
17 5 0.07
18 3 0.04
20 52 0.78
21 7 0.10
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (20 bp):
TTTTTAGAATTTTTAAAAAA
Found at i:18085502 original size:34 final size:36
Alignment explanation
Indices: 18085450--18085516 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
18085440 TTGGTTTTAA
18085450 TTTTCTATTTTTATTTTTC-AAAAAATA-ATTTTTG
1 TTTTCTATTTTTATTTTTCTAAAAAATATATTTTTG
* *
18085484 TTTTTTATTTTT-TGTTTTCTATAAAATATATTT
1 TTTTCTATTTTTAT-TTTTCTAAAAAATATATTT
18085517 GGTAAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 1 0.04
34 16 0.57
35 7 0.25
36 4 0.14
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (36 bp):
TTTTCTATTTTTATTTTTCTAAAAAATATATTTTTG
Found at i:18092591 original size:29 final size:31
Alignment explanation
Indices: 18092558--18092628 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
18092548 ATTCACCCAT
* *
18092558 TTTGCATTTTA-GTCTAGTTATTATGTGTC-
1 TTTGCATTTTAGGACTAGTTATAATGTGTCA
* *
18092587 TTTGCATTTTAGGACTAGTTATAATTTTTCA
1 TTTGCATTTTAGGACTAGTTATAATGTGTCA
18092618 TTTGCATTTTA
1 TTTGCATTTTA
18092629 TTCATTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 11 0.31
30 14 0.39
31 11 0.31
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (31 bp):
TTTGCATTTTAGGACTAGTTATAATGTGTCA
Found at i:18097282 original size:16 final size:17
Alignment explanation
Indices: 18097256--18097287 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18097246 AAACAAAAAC
18097256 AAAAACAAAAAGAGAAG
1 AAAAACAAAAAGAGAAG
18097273 AAAAAC-AAAAGAGAA
1 AAAAACAAAAAGAGAA
18097288 ATAGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAACAAAAAGAGAAG
Found at i:18098208 original size:7 final size:7
Alignment explanation
Indices: 18098196--18098225 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
18098186 AGAAGGACGT
18098196 TGGTGCA
1 TGGTGCA
18098203 TGGTGCA
1 TGGTGCA
*
18098210 TGGTGTA
1 TGGTGCA
18098217 TGGTGCA
1 TGGTGCA
18098224 TG
1 TG
18098226 TGGAAGAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.13, C:0.10, G:0.43, T:0.33
Consensus pattern (7 bp):
TGGTGCA
Found at i:18102673 original size:18 final size:17
Alignment explanation
Indices: 18102651--18102693 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
18102641 ATTTGGTTTA
18102651 AGGTTTGGCTAGGATTT
1 AGGTTTGGCTAGGATTT
* * *
18102668 AGGGTTTAGTTAGGGTTT
1 A-GGTTTGGCTAGGATTT
18102686 AGGTTTGG
1 AGGTTTGG
18102694 GTTTGAAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.16, C:0.02, G:0.40, T:0.42
Consensus pattern (17 bp):
AGGTTTGGCTAGGATTT
Found at i:18102735 original size:50 final size:50
Alignment explanation
Indices: 18102665--18102779 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 50
18102655 TTGGCTAGGA
* * ***
18102665 TTTAGGGTTTAGTTAGGGTTTAGGTTTGGGTTTGAA-GGATTGGGGTTTTGT
1 TTTA-GGTTTGGTTAAGGTTTAGGTTCAAGTTT-AAGGGATTGGGGTTTTGT
18102716 TTTAGGTTTGGTTAAGGTTTAGGTTCAAGTTTAAGGGATTGGGGTTTTGT
1 TTTAGGTTTGGTTAAGGTTTAGGTTCAAGTTTAAGGGATTGGGGTTTTGT
18102766 TTTAGGTTTGGTTA
1 TTTAGGTTTGGTTA
18102780 GGTCTTTGGT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
49 2 0.03
50 52 0.90
51 4 0.07
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.48
Consensus pattern (50 bp):
TTTAGGTTTGGTTAAGGTTTAGGTTCAAGTTTAAGGGATTGGGGTTTTGT
Found at i:18102969 original size:20 final size:21
Alignment explanation
Indices: 18102941--18102991 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
18102931 TAAAGTTTAT
18102941 GGTTT-GGGTTTTGT-TTCGG
1 GGTTTAGGGTTTTGTATTCGG
*
18102960 GGTTTAGGG-TTTGTATTTGG
1 GGTTTAGGGTTTTGTATTCGG
18102980 GGTTTAGGGTTT
1 GGTTTAGGGTTT
18102992 AGGGGTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.36
20 16 0.57
21 2 0.07
ACGTcount: A:0.06, C:0.02, G:0.41, T:0.51
Consensus pattern (21 bp):
GGTTTAGGGTTTTGTATTCGG
Found at i:18104062 original size:22 final size:22
Alignment explanation
Indices: 18104034--18104075 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18104024 AAATCAAAGA
*
18104034 AAACTAATATGGAAAA-GCATAG
1 AAACTAACAT-GAAAATGCATAG
18104056 AAACTAACATGAAAATGCAT
1 AAACTAACATGAAAATGCAT
18104076 TAAGAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (22 bp):
AAACTAACATGAAAATGCATAG
Found at i:18104854 original size:144 final size:136
Alignment explanation
Indices: 18104523--18104925 Score: 366
Period size: 144 Copynumber: 2.9 Consensus size: 136
18104513 GCTTTTTATG
* * * * * * * **
18104523 AAAACCAACCTCAAGAATGTCAAATTATGAAATTACCCTAAAGGGCATTCTGATAATTTTATATG
1 AAAAACAATCTCAAGAAGGTCAAATTATGAAAATACCCTAAAGGGTATTTTGATAATTTAATACC
* * *
18104588 TTTTGAGGTATG-ATGAAGGTTTTTAATGCACTAAAAATCATAAAATAATATTAAAAC--ATGGC
66 TTTTGA-G-ATGCATCAA-GTTTTTAATGCACTAAAAATCATAAAATAATATCAAAACATATAGC
*
18104650 TTTTCATAA
128 TTTTCACAA
* * ** *
18104659 AAAATCAATCTCAAGAAGGTCAAATTATGAAAGTACACCCGAAGGGTATTTTGATAATTTCATAC
1 AAAAACAATCTCAAGAAGGTCAAATTATGAAAATAC-CCTAAAGGGTATTTTGATAATTTAATAC
* *
18104724 CTTTCGAGATGCAATCAAGATTTTTAATGCACTAAAAATTATAAAATAATATCAAAACATAAACT
65 CTTTTGAGATGC-ATCAAG-TTTTTAATGCACTAAAAATCATAAAATAATATCAAAACAT--A-T
18104789 AAAGCTTTTCACAA
125 --AGCTTTTCACAA
* * * *
18104803 AAAAACGA-CTTCAAGAAGGTCAAATTATGAAAATAGCCTTAAAGGGTATTTTCATAATTTAACA
1 AAAAACAATC-TCAAGAAGGTCAAATTATGAAAATA-CCCTAAAGGGTATTTTGATAATTTAATA
* * * * ** *
18104867 CCTTTTAAGGTGCGATCAAGGTCTTAATGC-CCCAAAATCATAAAATAATGTCAAAACAT
64 CCTTTTGAGATGC-ATCAAGTTTTTAATGCACTAAAAATCATAAAATAATATCAAAACAT
18104926 GATTTGGAGG
Statistics
Matches: 218, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
135 3 0.01
136 34 0.16
137 67 0.31
141 1 0.00
142 26 0.12
143 9 0.04
144 77 0.35
145 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (136 bp):
AAAAACAATCTCAAGAAGGTCAAATTATGAAAATACCCTAAAGGGTATTTTGATAATTTAATACC
TTTTGAGATGCATCAAGTTTTTAATGCACTAAAAATCATAAAATAATATCAAAACATATAGCTTT
TCACAA
Found at i:18104994 original size:141 final size:143
Alignment explanation
Indices: 18104816--18105075 Score: 314
Period size: 141 Copynumber: 1.8 Consensus size: 143
18104806 AACGACTTCA
* * * *
18104816 AGAAGGTCAAATTATGAAAATAGCCTTAAAGGGTATTTTCATAATTTAACACCTTTT-AAGGTGC
1 AGAAGGTCAAATTATGAAAATACCCCTAAAGGATATTTTCATAATTTAACAACTTTTGAA-GTGC
*
18104880 GATCAA-GG-TCTTAATGCCCCAAAATCATAAAATAATGTCAAAACATGATTTGGAGGTTTTTGC
65 GATCAAGGGTTCTTAATGCACCAAAATCATAAAATAATGTCAAAACATGATTTGGAGGTTTTTGC
18104943 AAAAAATTGATCTT
130 AAAAAATTGATCTT
** * *
18104957 AGAAGGTCAAATTA-GAAAAATACCCCT-AAGGTATATTTTGGTAGTTTCACAACTTTTGAAGTG
1 AGAAGGTCAAATTATG-AAAATACCCCTAAAGG-ATATTTTCATAATTTAACAACTTTTGAAGTG
* * * * * **
18105020 CGATCAAGGGTTTTTAATGCATCAAATTCATAAATTGATGTTGAAACATGATTTGG
64 CGATCAAGGGTTCTTAATGCACCAAAATCATAAAATAATGTCAAAACATGATTTGG
18105076 TAGTCTTCAC
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
140 5 0.05
141 52 0.53
142 4 0.04
143 37 0.38
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (143 bp):
AGAAGGTCAAATTATGAAAATACCCCTAAAGGATATTTTCATAATTTAACAACTTTTGAAGTGCG
ATCAAGGGTTCTTAATGCACCAAAATCATAAAATAATGTCAAAACATGATTTGGAGGTTTTTGCA
AAAAATTGATCTT
Found at i:18105636 original size:18 final size:19
Alignment explanation
Indices: 18105599--18105637 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18105589 TTTTCTTTAA
*
18105599 AAAATAAAAGGTATTTTTT
1 AAAATAAAAGGTATTATTT
*
18105618 AAAATAAAA-TTATTATTT
1 AAAATAAAAGGTATTATTT
18105636 AA
1 AA
18105638 GGCATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AAAATAAAAGGTATTATTT
Found at i:18105692 original size:77 final size:78
Alignment explanation
Indices: 18105536--18105720 Score: 229
Period size: 77 Copynumber: 2.4 Consensus size: 78
18105526 CTTTAATTAA
* **
18105536 AAAATAAAATAATTATTTAAGGCATTTTTTGTATAGAAATGCCTTAAATAATCTTTTCTTTAAAA
1 AAAATAAAAT-ATTATTTAAGGCATTTTTTGTATAG--A-GCCTTAAATAATCTTTTATAAAAAA
*
18105601 AATAAAAGGTATTTTTT
62 AATAAAAGGCATTTTTT
18105618 AAAATAAAATTATTATTTAAGGCATTTTATT-TA-AG-G-CTTAAATAATCCTTTTATAAAAAAA
1 AAAATAAAA-TATTATTTAAGGCATTTT-TTGTATAGAGCCTTAAATAAT-CTTTTATAAAAAAA
18105679 ATAAAAGGCATTTTTT
63 ATAAAAGGCATTTTTT
18105695 AAAAT-AAA-ATTATTTAAGGCATTTTT
1 AAAATAAAATATTATTTAAGGCATTTTT
18105721 AGGACACAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 15
0.83 0.03 0.13
Matches are distributed among these distances:
73 1 0.01
74 17 0.18
76 13 0.14
77 32 0.33
81 2 0.02
82 28 0.29
83 3 0.03
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (78 bp):
AAAATAAAATATTATTTAAGGCATTTTTTGTATAGAGCCTTAAATAATCTTTTATAAAAAAAATA
AAAGGCATTTTTT
Found at i:18106149 original size:18 final size:17
Alignment explanation
Indices: 18106122--18106155 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
18106112 AAAAATTCTC
18106122 TAAATTTTATATTTTTA
1 TAAATTTTATATTTTTA
18106139 TAAATTTTTATATTTTT
1 TAAA-TTTTATATTTTT
18106156 CATTTACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAAATTTTATATTTTTA
Found at i:18106232 original size:16 final size:18
Alignment explanation
Indices: 18106201--18106248 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18106191 TTCAAATAAA
18106201 TATTTATAATTTAATTTG
1 TATTTATAATTTAATTTG
*
18106219 TATTTA-AA-TTAATTTT
1 TATTTATAATTTAATTTG
18106235 TAATTTAT-ATTTAA
1 T-ATTTATAATTTAA
18106249 AAAAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 8 0.31
17 8 0.31
18 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTTATAATTTAATTTG
Found at i:18106260 original size:23 final size:23
Alignment explanation
Indices: 18106206--18106260 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
18106196 ATAAATATTT
* **
18106206 ATAATTTAATTTGTATTTAAATTA
1 ATAA-TTAATTTATATTTAAAAAA
**
18106230 ATTTTTAATTTATATTTAAAAAA
1 ATAATTAATTTATATTTAAAAAA
18106253 ATAATTAA
1 ATAATTAA
18106261 CATTAATTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATAATTAATTTATATTTAAAAAA
Found at i:18106333 original size:29 final size:30
Alignment explanation
Indices: 18106301--18106364 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
18106291 CTTATTTTGT
**
18106301 TACAAATTAAAA-ATAATGATTTATTTAAA
1 TACAAATTAAAAGATAAAAATTTATTTAAA
18106330 TAC-AA-TAAAAGTATAAAAATTTATTTAAA
1 TACAAATTAAAAG-ATAAAAATTTATTTAAA
18106359 TA-AAAT
1 TACAAAT
18106365 GTTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
27 5 0.17
28 2 0.07
29 22 0.76
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (30 bp):
TACAAATTAAAAGATAAAAATTTATTTAAA
Found at i:18117444 original size:20 final size:21
Alignment explanation
Indices: 18117421--18117459 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18117411 TAGCTTAGTT
*
18117421 TTACATTTT-TTTTCTTTTTC
1 TTACATTTTACTTTCTTTTTC
*
18117441 TTACGTTTTACTTTCTTTT
1 TTACATTTTACTTTCTTTT
18117460 CTCCTTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.10, C:0.15, G:0.03, T:0.72
Consensus pattern (21 bp):
TTACATTTTACTTTCTTTTTC
Found at i:18122835 original size:2 final size:2
Alignment explanation
Indices: 18122828--18122854 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18122818 CTTTTTGGTT
18122828 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18122855 CTTTGGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18133441 original size:12 final size:12
Alignment explanation
Indices: 18133416--18133484 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
18133406 GCCCAAAAAT
18133416 TTTTAATC-TAA
1 TTTTAATCTTAA
*
18133427 TTTTAATCTTGA
1 TTTTAATCTTAA
** * *
18133439 TTTTGTTTTTGA
1 TTTTAATCTTAA
** *
18133451 TTTTGCTTTTAA
1 TTTTAATCTTAA
*
18133463 TTTTAATTTTAA
1 TTTTAATCTTAA
18133475 TTTTAATCTT
1 TTTTAATCTT
18133485 TAAATTTGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
11 8 0.17
12 40 0.83
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (12 bp):
TTTTAATCTTAA
Found at i:18133466 original size:6 final size:6
Alignment explanation
Indices: 18133424--18133523 Score: 65
Period size: 6 Copynumber: 16.3 Consensus size: 6
18133414 ATTTTTAATC
* * ** * **
18133424 TAATTT TAATCT TGATTT TGTTTT TGATTT TGCTTT TAATTT TAATTT
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT
*** ** *
18133472 TAATTT TAATCTT TAAATTT GGTTTT TGTTTT TACTTT TAATTT TAATTT
1 TAATTT TAAT-TT T-AATTT TAATTT TAATTT TAATTT TAATTT TAATTT
18133522 TA
1 TA
18133524 GTAAAAACAA
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
6 69 0.90
7 5 0.06
8 3 0.04
ACGTcount: A:0.23, C:0.04, G:0.07, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:18133592 original size:21 final size:20
Alignment explanation
Indices: 18133538--18133592 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
18133528 AAACAAAAGT
18133538 AAAAAAAAAAAAAGACAAAA
1 AAAAAAAAAAAAAGACAAAA
* * **
18133558 AAAAGGAAACAAAATTCAAAA
1 AAAA-AAAAAAAAAGACAAAA
18133579 AAAAAAAAGAAAAA
1 AAAAAAAA-AAAAA
18133593 AAGAGAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAAAGACAAAA
Found at i:18134663 original size:23 final size:23
Alignment explanation
Indices: 18134635--18134706 Score: 103
Period size: 22 Copynumber: 3.2 Consensus size: 23
18134625 ATTTATTGGA
*
18134635 TTTTATATTCTGTTTGGGTTT-AT
1 TTTTATTTTCTGTTT-GGTTTGAT
18134658 TTTTATTTTCTGTTTGGTTTGA-
1 TTTTATTTTCTGTTTGGTTTGAT
*
18134680 TTTTATTTTCTATTTGGTTTGAT
1 TTTTATTTTCTGTTTGGTTTGAT
18134703 TTTT
1 TTTT
18134707 TGTTGGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 26 0.58
23 19 0.42
ACGTcount: A:0.11, C:0.04, G:0.15, T:0.69
Consensus pattern (23 bp):
TTTTATTTTCTGTTTGGTTTGAT
Found at i:18134723 original size:17 final size:17
Alignment explanation
Indices: 18134678--18134737 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
18134668 TGTTTGGTTT
18134678 GATTTTATTTTCTAT-TTG
1 GATTTTATTTT-T-TGTTG
*
18134696 G-TTTGATTTTTTGTTG
1 GATTTTATTTTTTGTTG
18134712 GATTTTATTTTTTTGTT-
1 GATTTTA-TTTTTTGTTG
*
18134729 AATTTTATT
1 GATTTTATT
18134738 ATTCTGAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 1 0.03
16 7 0.19
17 18 0.50
18 10 0.28
ACGTcount: A:0.15, C:0.02, G:0.13, T:0.70
Consensus pattern (17 bp):
GATTTTATTTTTTGTTG
Found at i:18134723 original size:18 final size:17
Alignment explanation
Indices: 18134702--18134737 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18134692 TTTGGTTTGA
*
18134702 TTTTTTGTTGGATTTTAT
1 TTTTTTGTT-AATTTTAT
18134720 TTTTTTGTTAATTTTAT
1 TTTTTTGTTAATTTTAT
18134737 T
1 T
18134738 ATTCTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (17 bp):
TTTTTTGTTAATTTTAT
Found at i:18134903 original size:24 final size:24
Alignment explanation
Indices: 18134871--18134951 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
18134861 AATTACATGG
*
18134871 TAATGTATTTAATTG-TATGATTAT
1 TAATATATTTAATTGCT-TGATTAT
* *
18134895 TAATATATTTAATTGCTTAACTAT
1 TAATATATTTAATTGCTTGATTAT
18134919 TAATATATTTAATTGCTTGATTAT
1 TAATATATTTAATTGCTTGATTAT
18134943 TAATATATT
1 TAATATATT
18134952 ATTTTCGTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 50 0.98
25 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (24 bp):
TAATATATTTAATTGCTTGATTAT
Found at i:18135018 original size:55 final size:55
Alignment explanation
Indices: 18134948--18135107 Score: 229
Period size: 55 Copynumber: 3.0 Consensus size: 55
18134938 ATTATTAATA
* *
18134948 TATTATTTTCGTGATTATATATTTAATTGCATGTTTATTTGCATGATTTATATAT
1 TATTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTTATATAT
* *
18135003 TATTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATTG-TTGATATAT
1 TATTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCA-TGATTTATATAT
* *
18135058 TTTTATTTGCATGATTATATATTTAATT-CATG-TTA-TTACATGATTTATAT
1 TATTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTTATAT
18135108 GGTTAATTGC
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
51 2 0.02
52 10 0.11
53 3 0.03
54 3 0.03
55 75 0.79
56 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.56
Consensus pattern (55 bp):
TATTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTTATATAT
Found at i:18135080 original size:22 final size:23
Alignment explanation
Indices: 18135036--18135081 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
18135026 TAATTGCATA
18135036 TTTATTTGCATTGTTGATATATT
1 TTTATTTGCATTGTTGATATATT
18135059 TTTATTTGCA-TGATT-ATATATT
1 TTTATTTGCATTG-TTGATATATT
18135081 T
1 T
18135082 AATTCATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (23 bp):
TTTATTTGCATTGTTGATATATT
Found at i:18135082 original size:20 final size:20
Alignment explanation
Indices: 18134981--18135082 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 20
18134971 TAATTGCATG
18134981 TTTATTTGCATGATTTATATA
1 TTTATTTGCATGA-TTATATA
18135002 TTATTATTTGCATGATTATATA
1 -T-TTATTTGCATGATTATATA
*
18135024 TTTAATTGCAT-ATT-TAT-
1 TTTATTTGCATGATTATATA
* * *
18135041 TTGCA-TTG-TTGA-TATATT
1 TT-TATTTGCATGATTATATA
18135059 TTTATTTGCATGATTATATA
1 TTTATTTGCATGATTATATA
18135079 TTTA
1 TTTA
18135083 ATTCATGTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.03
17 10 0.15
18 9 0.14
19 6 0.09
20 18 0.27
21 1 0.02
22 8 0.12
23 12 0.18
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTATTTGCATGATTATATA
Found at i:18135106 original size:30 final size:31
Alignment explanation
Indices: 18135067--18135127 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
18135057 TTTTTATTTG
*
18135067 CATGATTATATATTTAATT-CAT-GTTATTA
1 CATGATTATATAGTTAATTGCATGGTTATTA
*
18135096 CATGATTTATATGGTTAATTGCATGGTTATTA
1 CATGA-TTATATAGTTAATTGCATGGTTATTA
18135128 ATTTATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 5 0.19
30 12 0.44
31 3 0.11
32 7 0.26
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (31 bp):
CATGATTATATAGTTAATTGCATGGTTATTA
Found at i:18135317 original size:18 final size:17
Alignment explanation
Indices: 18135297--18135369 Score: 50
Period size: 18 Copynumber: 4.5 Consensus size: 17
18135287 TGTGTGCATA
18135297 ATTGCATGATTATATAT
1 ATTGCATGATTATATAT
*
18135314 AATTAC-T-A--ATATAT
1 -ATTGCATGATTATATAT
* *
18135328 -TTGTATGATTATATTT
1 ATTGCATGATTATATAT
*
18135344 GATTTCATGATTATATAT
1 -ATTGCATGATTATATAT
18135362 -TTGCATGA
1 ATTGCATGA
18135370 ATGGTTATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
12 2 0.05
13 1 0.02
14 7 0.17
16 13 0.32
17 1 0.02
18 17 0.41
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (17 bp):
ATTGCATGATTATATAT
Found at i:18138587 original size:20 final size:20
Alignment explanation
Indices: 18138558--18138607 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
18138548 CTAACACACC
18138558 AAGAAGCAAGAGGAAACAAG
1 AAGAAGCAAGAGGAAACAAG
* * *
18138578 AAGAATCAAGATGAATCAAG
1 AAGAAGCAAGAGGAAACAAG
18138598 -AG-AGCAAGAG
1 AAGAAGCAAGAG
18138608 CTAACAAGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 17 0.68
ACGTcount: A:0.56, C:0.10, G:0.28, T:0.06
Consensus pattern (20 bp):
AAGAAGCAAGAGGAAACAAG
Found at i:18140562 original size:21 final size:20
Alignment explanation
Indices: 18140520--18140562 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
18140510 TGAATTTTTA
*
18140520 GAAAAAGAAAATTTTGATTT
1 GAAAAAGAAAATTTTGAATT
18140540 GAAAAAG-AAATTTGATGAATT
1 GAAAAAGAAAATTT--TGAATT
18140561 GA
1 GA
18140563 CATATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (20 bp):
GAAAAAGAAAATTTTGAATT
Found at i:18143317 original size:13 final size:14
Alignment explanation
Indices: 18143280--18143317 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
18143270 GTATTTTGCA
18143280 ATATGATTG-AATG
1 ATATGATTGAAATG
*
18143293 ATTTGATTGAAAT-
1 ATATGATTGAAATG
18143306 ATATGATTGAAA
1 ATATGATTGAAA
18143318 ACTTGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (14 bp):
ATATGATTGAAATG
Found at i:18143367 original size:21 final size:19
Alignment explanation
Indices: 18143343--18143396 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
18143333 AGTTAAGTAC
18143343 TTTGCTTTGCATTGAAATAAT
1 TTTGCTTT-CATTG-AATAAT
* *
18143364 TTTGATTATAATTGAATAAT
1 TTTGCTT-TCATTGAATAAT
*
18143384 TATGCTTTCATTG
1 TTTGCTTTCATTG
18143397 TTTCTTTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 10 0.37
22 1 0.04
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCTTTCATTGAATAAT
Found at i:18143885 original size:16 final size:16
Alignment explanation
Indices: 18143866--18143900 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18143856 TGTGATAACA
* *
18143866 TATCTTTAACAGTTGG
1 TATCCTTAACAATTGG
18143882 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
18143898 TAT
1 TAT
18143901 GAGCTTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:18144570 original size:14 final size:14
Alignment explanation
Indices: 18144551--18144583 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
18144541 GGAGTTTTGC
18144551 CATATATGCTCTAA
1 CATATATGCTCTAA
18144565 CATATATGCTCTAA
1 CATATATGCTCTAA
18144579 CATAT
1 CATAT
18144584 CTTTAAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (14 bp):
CATATATGCTCTAA
Found at i:18154278 original size:31 final size:31
Alignment explanation
Indices: 18154213--18154282 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
18154203 TAGAGGGCAT
* **
18154213 AAAAAAAA-GAAAGAAAAGGAAAAAATGGCC
1 AAAAAAAATGAAAGAAAAGAAAAAAATGGAA
*
18154243 AAAAAAAATGAAAGAAAAGCAAAAAAAT-TAA
1 AAAAAAAATGAAAGAAAAG-AAAAAAATGGAA
18154274 AAAAAAAAT
1 AAAAAAAAT
18154283 TGATTGTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.24
31 19 0.56
32 7 0.21
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (31 bp):
AAAAAAAATGAAAGAAAAGAAAAAAATGGAA
Found at i:18154280 original size:20 final size:20
Alignment explanation
Indices: 18154242--18154280 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18154232 AAAAAATGGC
* *
18154242 CAAAAAAAATGAAAGAAAAG
1 CAAAAAAAATAAAAAAAAAG
*
18154262 CAAAAAAATTAAAAAAAAA
1 CAAAAAAAATAAAAAAAAA
18154281 ATTGATTGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (20 bp):
CAAAAAAAATAAAAAAAAAG
Found at i:18154748 original size:25 final size:27
Alignment explanation
Indices: 18154711--18154777 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
18154701 CAAAAAACTC
*
18154711 AAAAAATTGAAAAAAG-AATGAAAA-GG
1 AAAAAAATGAAAAAAGTAA-GAAAAGGG
18154737 AAAAAAAT-AAAAAAGTAAGAAAAGGG
1 AAAAAAATGAAAAAAGTAAGAAAAGGG
*
18154763 AAAGAAATGAAAAAA
1 AAAAAAATGAAAAAA
18154778 AAAAAGAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 12 0.33
26 18 0.50
27 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (27 bp):
AAAAAAATGAAAAAAGTAAGAAAAGGG
Found at i:18154804 original size:12 final size:12
Alignment explanation
Indices: 18154767--18154808 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
18154757 AAAGGGAAAG
18154767 AAAT-GAAAAAA
1 AAATAGAAAAAA
* **
18154778 AAAAAGAAACCA
1 AAATAGAAAAAA
18154790 AAATAGAAAAAA
1 AAATAGAAAAAA
18154802 AAATAGA
1 AAATAGA
18154809 GGAAGAGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.07
Consensus pattern (12 bp):
AAATAGAAAAAA
Found at i:18156247 original size:20 final size:20
Alignment explanation
Indices: 18156219--18156256 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18156209 TGCATCGTGG
18156219 AAAGAACATCTGCATTTGCCA
1 AAAGAACAT-TGCATTTGCCA
18156240 AAAG-ACATTGCATTTGC
1 AAAGAACATTGCATTTGC
18156257 ATTATGGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAGAACATTGCATTTGCCA
Found at i:18157230 original size:43 final size:43
Alignment explanation
Indices: 18157150--18157233 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
18157140 GTAATATCCA
* * * * * *
18157150 AGTGTTCAAAGTGTAAGTTTTCAAATTTTGATGGTGATATTTG
1 AGTGTTCAAAATCTAAATTTTCAAATCTTAATAGTGATATTTG
*
18157193 AGTGTTCAAAATCTAAATTTTTAAATCTTAATAGTGATATT
1 AGTGTTCAAAATCTAAATTTTCAAATCTTAATAGTGATATT
18157234 CAACTCTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (43 bp):
AGTGTTCAAAATCTAAATTTTCAAATCTTAATAGTGATATTTG
Found at i:18157401 original size:35 final size:35
Alignment explanation
Indices: 18157344--18157411 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
18157334 CAAATTTGAA
* *
18157344 TTTCATTAAAATTTTTTCAGTGGTAAAATCCAACC
1 TTTCATTAAAATCTCTTCAGTGGTAAAATCCAACC
* *
18157379 TTTCATTAAAACTCTCTT-AGTGGTCATATCCAA
1 TTTCATTAAAA-TCTCTTCAGTGGTAAAATCCAA
18157412 AATTTTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.86
36 4 0.14
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (35 bp):
TTTCATTAAAATCTCTTCAGTGGTAAAATCCAACC
Found at i:18157528 original size:46 final size:47
Alignment explanation
Indices: 18157427--18157534 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 47
18157417 TTCAAAATCA
* *
18157427 CTTGGTGGTGATATCCAAGTATTCATGTCTGAATATCTTTAAAATTT
1 CTTGATGGTGATATCCAAGTATTCAAGTCTGAATATCTTTAAAATTT
* *
18157474 CTTGATGGTGATATCCAAGTATTTAAGT-TGGAATTTC-TTAAAATTT
1 CTTGATGGTGATATCCAAGTATTCAAGTCT-GAATATCTTTAAAATTT
18157520 CTTGATGGTGATATC
1 CTTGATGGTGATATC
18157535 TGAGCTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
46 25 0.45
47 31 0.55
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (47 bp):
CTTGATGGTGATATCCAAGTATTCAAGTCTGAATATCTTTAAAATTT
Found at i:18165591 original size:14 final size:14
Alignment explanation
Indices: 18165565--18165606 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
18165555 AGGAAAAAGC
18165565 CCAAAAAAGAAAATA
1 CCAAAAAA-AAAATA
18165580 CCAAAACAAAAAATA
1 CCAAAA-AAAAAATA
18165595 CCAAAAAAAAAA
1 CCAAAAAAAAAA
18165607 CTGTTGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.23
15 18 0.69
16 2 0.08
ACGTcount: A:0.76, C:0.17, G:0.02, T:0.05
Consensus pattern (14 bp):
CCAAAAAAAAAATA
Found at i:18165941 original size:28 final size:28
Alignment explanation
Indices: 18165910--18165978 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
18165900 AAAAAAGGAA
18165910 AAAAGAAAGAAAA-AAATAACAAAAAATG
1 AAAAGAAAGAAAATAAA-AACAAAAAATG
* * **
18165938 AAAA-AAGTGAAAATGAAAATGAAAAATG
1 AAAAGAA-AGAAAATAAAAACAAAAAATG
18165966 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
18165979 GGAAGAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.06
28 27 0.82
29 4 0.12
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.09
Consensus pattern (28 bp):
AAAAGAAAGAAAATAAAAACAAAAAATG
Found at i:18167587 original size:18 final size:18
Alignment explanation
Indices: 18167573--18167607 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18167563 TTTACATTGC
*
18167573 CATTTGCATTCACATCAA
1 CATTTGCATTCACATTAA
18167591 CATTTGCATTCACATTA
1 CATTTGCATTCACATTA
18167608 TTTGATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (18 bp):
CATTTGCATTCACATTAA
Found at i:18167975 original size:36 final size:35
Alignment explanation
Indices: 18167935--18168713 Score: 205
Period size: 36 Copynumber: 21.7 Consensus size: 35
18167925 CAGTCATTCT
* * * *
18167935 TTACTTTCTAACTTGTGATGTTATCCCAATCATCAG
1 TTACTTT-TAACTTGCGATGTTATCCTAGTCATCAC
* *
18167971 TTACTTTTTTACTTACTG-TGTTATCCTAGTCATTC-C
1 TTAC-TTTTAACTTGC-GATGTTATCCTAGTCA-TCAC
*
18168007 TTACTTTTAACTTGCAATGTTATCCTAGTCATTC-C
1 TTACTTTTAACTTGCGATGTTATCCTAGTCA-TCAC
* * *
18168042 TTACTTTTTGAA-TTGCGATGTTATCATGGTCATCAG
1 TTAC-TTTT-AACTTGCGATGTTATCCTAGTCATCAC
* * *
18168078 TTACTTTTCAACTTACGATGTTATCCCAGTCATCAA
1 TTACTTTT-AACTTGCGATGTTATCCTAGTCATCAC
* * * * * * * *
18168114 TAATTTTTTGACTTACGGTATTGT-CTCAATCATTC-C
1 TTA-CTTTTAACTTGCGATGTTATCCT-AGTCA-TCAC
* * * *
18168150 TTACTTTTTGACTTACGGTGTTATCCTAGTCATCAA
1 TTAC-TTTTAACTTGCGATGTTATCCTAGTCATCAC
* * *
18168186 TTACTTTTCAACTTGCGGTGTTATCC-CGATCATCAA
1 TTACTTTT-AACTTGCGATGTTATCCTAG-TCATCAC
* ** * * *
18168222 TTACTTTTTGACTTATGATGTTGT-CTCGATCATTC-G
1 TTAC-TTTTAACTTGCGATGTTATCCTAG-TCA-TCAC
* ** *
18168258 TTACTTTTTGACTTATGATGTTATCCTGGTCATTC-C
1 TTAC-TTTTAACTTGCGATGTTATCCTAGTCA-TCAC
* *
18168294 TTACTTCTGAA-TTGCTATGTTATCCTAGTCATTC-C
1 TTACTT-TTAACTTGCGATGTTATCCTAGTCA-TCAC
* * *
18168329 TTACTTTTTGACTTGC-AGTGTTAT-CTCAGTTATCAG
1 TTAC-TTTTAACTTGCGA-TGTTATCCT-AGTCATCAC
* * * *
18168365 TTACTTTTTTACTTG-TAGTGTTATCCCAGTCATCAG
1 TTAC-TTTTAACTTGCGA-TGTTATCCTAGTCATCAC
* * * * * * ** *
18168401 TTATTTTTTGACTTACGGTATTGTCCCGGTCATTC-T
1 TTA-CTTTTAACTTGCGATGTTATCCTAGTCA-TCAC
* * * *
18168437 TTACTTTTTAACTTGTGGTGTTATCCTAGTCATTAA
1 TTAC-TTTTAACTTGCGATGTTATCCTAGTCATCAC
* * * **
18168473 TTACTTTCTGACTTGCGATGTTATCTTCGTTGTCGA-
1 TTACTTT-TAACTTGCGATGTTATCCTAGTCATC-AC
* * * * *
18168509 TTATTTTTTAACTTGTGGTGTTGT-CTCGATCATTC-C
1 TTA-CTTTTAACTTGCGATGTTATCCTAG-TCA-TCAC
* * *
18168545 TTACTTTTCAACTTGCAATGTCAT-CTCAGTCATCAG
1 TTACTTTT-AACTTGCGATGTTATCCT-AGTCATCAC
* * ** * *
18168581 TTACTTTCTAACTTGTGGTGTTATCCCGGTCATTAG
1 TTACTTT-TAACTTGCGATGTTATCCTAGTCATCAC
* * * * * *
18168617 TTATTTTTTGACTTGTGGTGTTGTCCCAGTCATTC-C
1 TTA-CTTTTAACTTGCGATGTTATCCTAGTCA-TCAC
* * * * *
18168653 TTACTTTTCGACTTGCGATGTTATCTTGGTCATTAG
1 TTACTTTT-AACTTGCGATGTTATCCTAGTCATCAC
* * *
18168689 TTACTTTCCAACTTACGGTGTTATC
1 TTACTTT-TAACTTGCGATGTTATC
18168714 TCGATTATTT
Statistics
Matches: 566, Mismatches: 128, Indels: 98
0.71 0.16 0.12
Matches are distributed among these distances:
35 99 0.17
36 426 0.75
37 41 0.07
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.46
Consensus pattern (35 bp):
TTACTTTTAACTTGCGATGTTATCCTAGTCATCAC
Found at i:18168218 original size:72 final size:72
Alignment explanation
Indices: 18167928--18170999 Score: 1068
Period size: 72 Copynumber: 42.8 Consensus size: 72
18167918 ATTGTCCCAG
* * * * * * * * * *
18167928 TCATTCTTTACTTTCTAACTTGTGATGTTATCCCAATCATCAGTTACTTTTTTACTTACTGTGTT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGTT
*
18167993 AT-CCTA
66 ATCCCGA
* ** * * *
18167999 GTCATTCCTTAC-TTTTAACTTGCAATGTTATCCTAGTCATTC-CTTACTTTTTGAATTGCGATG
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCA-TCAGTTACTTTTTGACTTGCGGTG
** *
18168062 TTATCATGG
64 TTATCCCGA
* ** * * * * * * * *
18168071 TCA-TCAGTTACTTTTCAACTTACGATGTTATCCCAGTCATCAATAATTTTTTGACTTACGGTAT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGT
* * *
18168135 TGTCTCAA
65 TATCCCGA
* * **
18168143 TCATTCCTTACTTTTTGACTTACGGTGTTATCCTAGTCATCAATTACTTTTCAACTTGCGGTGTT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGTT
18168208 ATCCCGA
66 ATCCCGA
* ** * * * ** *
18168215 TCA-TCAATTACTTTTTGACTTATGATGTTGT-CTCGATCATTC-GTTACTTTTTGACTTATGAT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTGACTTGCGGT
* *
18168277 GTTATCCTGG
63 GTTATCCCGA
* * ** * *
18168287 TCATTCCTTAC-TTCTGAATTGCTATGTTATCCTAGTCATTC-CTTACTTTTTGACTTGCAGTGT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCA-TCAGTTACTTTTTGACTTGCGGTGT
*
18168350 TATCTC-A
65 TATCCCGA
* * * ** * * * *
18168357 GTTA-TCAGTTACTTTTTTACTTGTAGTGTTATCCCAGTCATCAGTTATTTTTTGACTTACGGTA
1 -TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTG
* *
18168421 TTGTCCCGG
64 TTATCCCGA
* * * * * * *
18168430 TCATTCTTTACTTTTTAACTTGTGGTGTTATCCTAGTCATTAATTACTTTCTGACTTGCGATGTT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGTT
*
18168495 ATCTTCG-
66 ATC-CCGA
* * * * * * * ** **
18168502 T--TGTCGATTATTTTTTAACTTGTGGTGTTGT-CTCGATCATTC-CTTACTTTTCAACTTGCAA
1 TCAT-TC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTGACTTGCGG
* *
18168563 TGTCATCTC-A
62 TGTTATCCCGA
* * * * ** * * *
18168573 GTCA-TCAGTTACTTTCTAACTTGTGGTGTTATCCCGGTCATTAGTTATTTTTTGACTTGTGGTG
1 -TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTG
*
18168637 TTGTCCC-A
64 TTATCCCGA
* * * * * *** *
18168645 GTCATTCCTTACTTTTCGACTTGCGATGTTATCTTGGTCATTAGTTACTTTCCAACTTACGGTGT
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGT
*
18168710 TATCTCGA
65 TATCCCGA
* * * ** * * * **
18168718 TTATTTCTTACTTTTCGACTTGTAGTGTTAT-CTCGATCATTC-CTTACTTTTTGACTTGTGGCA
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTGACTTGCGGTG
* **
18168781 TT-TTCTTA
64 TTATCCCGA
* * * * * *
18168789 GTCA-TCAGTTACTTTTTAACTTGTGGTGTTATCC-CGATCATCCA-TTATTTTTTGACTTACGG
1 -TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCAT-CAGTTACTTTTTGACTTGCGG
* *
18168851 TGTT-GCCCAA
62 TGTTATCCCGA
* * * * **
18168861 TCATTCATTACTTTTCGACTTGCAGTGTTATCCCAGTCATCAGTTAC--TTT---TTGCAATGTT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGTT
* *
18168921 ATTCTGA
66 ATCCCGA
* * ** * * * ***
18168928 TCA-TCAATTACTTTTGGACTTGCAATGTTAT-CTCGATCATTC-CTTACTTTTAGACTTGAATT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTGACTTGCGGT
*
18168990 GTTATCCTGA
63 GTTATCCCGA
* * * * * * * * *
18169000 TCA-TCTATTAATTTTTTACTTACGGTGTTAT-CTCGATCATGAGTTACTTTTTGACTTGTGATA
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCATCAGTTACTTTTTGACTTGCGGTG
18169063 TTATCCC-A
64 TTATCCCGA
* ** * * * *
18169071 GTCATTCTTTACTTTTTGACTTGTAGTGTTAT-CTCAATCATTC-CTTACTTTTCGACTTGCGAT
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCT-AGTCA-TCAGTTACTTTTTGACTTGCGGT
*
18169134 GTTACCCCGA
63 GTTATCCCGA
* ** ** * * **
18169144 TCA-TCAGTTACTTTTCAACTTATGGTGTTAT-CTTGATCATCAGTTATTTTTTGACTTATGGTG
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCATCAGTTACTTTTTGACTTGCGGTG
* *
18169207 TTATCCTGG
64 TTATCCCGA
* * * * * * **
18169216 TTATTCCTTA-TTTTCTAACTTACAGTGTTATCTTATTCATCAGTTACTTTTCAACTTGCGGTGT
1 TCATTCCTTACTTTT-TGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGT
*
18169280 TATCCCAA
65 TATCCCGA
* * * * * * * * *
18169288 TCA-TCAGC-TATTTTTTGACTTACAGTGTTGTCCCAATCATTC-TTTACTTTCTGACTTGCAGT
1 TCATTC--CTTACTTTTTGACTTGCGGTGTTATCCTAGTCA-TCAGTTACTTTTTGACTTGCGGT
* **
18169350 ATTATCCTAA
63 GTTATCCCGA
* * * **
18169360 TCA-TCAGTTACTTTTTGACTTGCGATGTTAT-CTCAGTCATTC-TTTACTTTTTGACTTGCAAT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCT-AGTCA-TCAGTTACTTTTTGACTTGCGGT
* ** *
18169422 ATTATCTAGG
63 GTTATCCCGA
* * * ** * * ** * * **
18169432 TCA-TCAGTTATTTTTTGACTTACAATGTTGTCC-CGATCATTC-CCTACTTTTTTACTTACAAT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTGACTTGCGGT
**
18169494 GTTATCCTAA
63 GTTATCCCGA
* * * * * * * *
18169504 TCA-TCGTTATTTTTTGGCTTACGGTGTTAT-CTAGATCATTC-CTTGCTTGTTGACTTGTGGTG
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTGACTTGCGGTG
*
18169566 TTATCCCAA
64 TTATCCCGA
* ** * * * * *
18169575 TCATTCCTTACTTTTCGACTTGCAATGTTATCCCAATCATCAGTTACTTTTTAACTTGTGGCGTT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGTT
*
18169640 ATCTCGA
66 ATCCCGA
* * * * *
18169647 TCA-TCAATTATTTTTTGACTTACGGTGTTATCCT-GATCATTC-CTTACTTTTTGACTTACGGT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTGACTTGCGGT
* *
18169709 GTTATCCTGG
63 GTTATCCCGA
** ** * * * * *
18169719 TCATT-AGTATCTTTTCAAATTACGATGTTATCCTAGTCATCAGTTATTTTTTGACTTGTGGTGT
1 TCATTCCTTA-CTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGT
* **
18169783 TGTCTTGA
65 TATCCCGA
* * * **
18169791 TTATTCCTTACTTTTTGATTTGTGGTGTTAT-CTAGGTCATCAGTTACTTTTTGACTTGTAGTGT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTA-GTCATCAGTTACTTTTTGACTTGCGGTGT
*
18169855 TATCTCGA
65 TATCCCGA
* ** ** * * * * * *
18169863 TAATTAGTTACTTTTTGACTTGTAGTGTTAT-CTCGATCTTTC-TTTACTTTCTAACTTGCAGTG
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAG-TC-ATCAGTTACTTTTTGACTTGCGGTG
*
18169926 TTATCTCGA
64 TTATCCCGA
* * *** * * * *
18169935 TCAATCCTTACTTTTTGATTTGTACTGTTATACTAGTCATCAGTTACTTTTTAACTTGCGATATT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGTT
*
18170000 ATCCTGA
66 ATCCCGA
* * * * *
18170007 TCA-TCAGTTACTTTTTGACTTGCGATGTTAT-CTCAATCATTC-TTTACTTTTTGACTTGCGAT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCT-AGTCA-TCAGTTACTTTTTGACTTGCGGT
**
18170069 GTTAT-CTTA
63 GTTATCCCGA
* * * * * * * *
18170078 GTCATTCTTTACTTTCTGACTTGTGGTGTTATCCCAGTCATTAGTTACTTTTTTACTTACGGTGC
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGT
18170143 TATCCCGA
65 TATCCCGA
* * * ** * * ***
18170151 TCA-TCAATTA-TTTTTCAACTTACGAAGTTATCCCAGTCATTC-CTTACTTTTTGACTTATAGT
1 TCATTC-CTTACTTTTT-GACTTGCGGTGTTATCCTAGTCA-TCAGTTACTTTTTGACTTGCGGT
* *
18170213 GTTACCCCAA
63 GTTATCCCGA
* * * * *
18170223 TC-TTCGGTTACTTTTTGACTTACGGTGTTATCCTAGTCATTC-CTTACTTTTCGACTTGTGGTG
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAGTCA-TCAGTTACTTTTTGACTTGCGGTG
* **
18170286 TTTTTTCGA
64 TTATCCCGA
* ** ** * * **
18170295 TCATTCTTTACTTTTCAACTTATGATGTTAT-CTCGATCATCAGTTACTTTTTGACTTTTGGTGT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAG-TCATCAGTTACTTTTTGACTTGCGGTGT
* *
18170359 TAGCCCAA
65 TATCCCGA
* * * * * * * * *
18170367 TCA-TCAGTTATTTTTTGATTTACGATGTTATCC-CGATCATTC-CTTAC-TTTTGAACTTACGA
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAG-TCA-TCAGTTACTTTTTG-ACTTGCGG
*
18170428 TGTTATCCCAA
62 TGTTATCCCGA
* * ** * * **
18170439 TCA-TCAATTA-TGTTTTGACTTGCGATGTTATCCCGGTCATCAATTATTTTTTGACTTGCGGCA
1 TCATTC-CTTACT-TTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTG
*
18170502 TTATCTC-A
64 TTATCCCGA
* * * * * * * *
18170510 GCCATTCCTTACTTTCTAACTTGTGGTGTTATCCTGGTCATTC-TTTAATTTTTGACTTGTGGTG
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCA-TCAGTTACTTTTTGACTTGCGGTG
*
18170574 TTATCTC-A
64 TTATCCCGA
* * ** * * * ** * * *
18170582 GTCATTCTTTATTTTTTGACTTGCAATGTTATCAT-GATCATCAATTACTGTACGACTCGTGATG
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAG-TCATCAGTTACTTTTTGACTTGCGGTG
* *
18170646 TTATCCTGG
64 TTATCCCGA
* * * * * * * **
18170655 TCATTCCTTACTTTTTGACTTGCTGTGTTATCCCAATCATTAATTA-TTTTTCTACTTACAATGT
1 TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTT-GACTTGCGGTGT
*
18170719 TGTCCC-A
65 TATCCCGA
** * * **
18170726 GTCATTCCTTACTTTTTGACTTGCAATGTTATCCTAGTCATCAGTTATTTTTTTACTTATGGTGT
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGT
* *
18170791 TGT-CCTA
65 TATCCCGA
* ** * * *
18170798 GTCATTCCTTACTTTCTGACTTATGGTGTTATCC-AGGTCATCAGTTATTTTTTTTTACTTGTGG
1 -TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTA-GTCATCAGTTA--CTTTTTGACTTGCGG
*
18170862 TGTTGTCCC-A
62 TGTTATCCCGA
* * * * * *
18170872 GTCA-TCAATTACTTTCTGACTTGCGGTGTTATCTTAATCATTAGTTACTTTTTGACTTGTGGTG
1 -TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTG
*
18170936 TTGTCCCGA
64 TTATCCCGA
* *** * * *
18170945 TCA-TCAATTA-TTTTTGAC-TGCGACATTGTCCCAGTCATCAGTTATTTTTTGACTT
1 TCATTC-CTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTT
18171000 ACAGTGTTGT
Statistics
Matches: 2288, Mismatches: 583, Indels: 260
0.73 0.19 0.08
Matches are distributed among these distances:
66 11 0.00
67 35 0.02
68 2 0.00
69 5 0.00
70 36 0.02
71 276 0.12
72 1779 0.78
73 84 0.04
74 57 0.02
75 3 0.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (72 bp):
TCATTCCTTACTTTTTGACTTGCGGTGTTATCCTAGTCATCAGTTACTTTTTGACTTGCGGTGTT
ATCCCGA
Found at i:18168298 original size:108 final size:107
Alignment explanation
Indices: 18167928--18170760 Score: 1064
Period size: 108 Copynumber: 26.3 Consensus size: 107
18167918 ATTGTCCCAG
* * * ** * * *
18167928 TCATTCTTTACTTTCTAACTTGTGATGTTATCCCAATCA-TCAGTTACTTTTTTACTTACTGTGT
1 TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATCATTC-GTTACTTTTTGACTTGCGGTGT
* * * * *
18167992 TAT-CCTAGTCATTCCTTAC-TTTTAACTTGCAATGTTATC-CTA
65 TATCCCGA-TCA-TCATTACTTTTTGACTTGCGATGTTATCTCGA
* * * * * ** * *
18168034 GTCATTCCTTACTTTTTGAATTGCGATGTTATCATGGTCA-TCAGTTACTTTTCAACTTACGATG
1 -TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATCATTC-GTTACTTTTTGACTTGCGGTG
* * * * * * *
18168098 TTATCCC-AGTCATCAATAATTTTTTGACTTACGGTATTGTCTCAA
64 TTATCCCGA-TCATC-ATTACTTTTTGACTTGCGATGTTATCTCGA
* ** * * **
18168143 TCATTCCTTACTTTTTGACTTACGGTGTTATCCT-AGTCA-TCAATTACTTTTCAACTTGCGGTG
1 TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGA-TCATTC-GTTACTTTTTGACTTGCGGTG
** *
18168206 TTATCCCGATCATCAATTACTTTTTGACTTATGATGTTGTCTCGA
64 TTATCCCGATCATC-ATTACTTTTTGACTTGCGATGTTATCTCGA
* * * * * **
18168251 TCATTCGTTACTTTTTGACTTATGATGTTATCCTGGTCATTCCTTAC-TTCTGAATTGCTATGTT
1 TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTGTT
* *
18168315 AT-CCTAGTCATTCCTTACTTTTTGACTTGC-AGTGTTATCTC-A
66 ATCCCGA-TCA-TCATTACTTTTTGACTTGCGA-TGTTATCTCGA
* * * * *
18168357 GTTA-TCAGTTACTTTTTTACTTGT-AGTGTTATCC-CAGTCA-TCAGTTATTTTTTGACTTACG
1 -TCATTC-GTTACTTTTTGACTTGTGA-TGTTATCCTGA-TCATTC-GTTACTTTTTGACTTGCG
* * * * * * * *
18168418 GTATTGTCCCGGTCATTCTTTACTTTTTAACTTGTGGTGTTATC-CTA
61 GTGTTATCCCGATCA-TCATTACTTTTTGACTTGCGATGTTATCTCGA
** * * * * * *
18168465 GTCATTAATTACTTTCTGACTTGCGATGTTAT-CT--TCGTTGTCGATTATTTTTTAACTTGTGG
1 -TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATC-AT-TCG-TTACTTTTTGACTTGCGG
* * * ** * *
18168527 TGTTGTCTCGATCATTCCTTACTTTTCAACTTGCAATGTCATCTC-A
62 TGTTATCCCGATCA-TCATTACTTTTTGACTTGCGATGTTATCTCGA
* * * * * * * *
18168573 GTCA-TCAGTTACTTTCTAACTTGTGGTGTTATCCCGGTCATTAGTTATTTTTTGACTTGTGGTG
1 -TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTG
* * * * *
18168637 TTGTCCC-AGTCATTCCTTACTTTTCGACTTGCGATGTTATCTTGG
64 TTATCCCGA-TCA-TCATTACTTTTTGACTTGCGATGTTATCTCGA
* *** ** * * * **
18168682 TCATTAGTTACTTTCCAACTTACGGTGTTAT-CTCGATTATTTC-TTACTTTTCGACTTGTAGTG
1 TCATTCGTTACTTTTTGACTTGTGATGTTATCCT-GATCA-TTCGTTACTTTTTGACTTGCGGTG
* * * *
18168745 TTATCTCGATCATTCCTTACTTTTTGACTTGTGGCAT-TT-TCT-TA
64 TTATCCCGATCA-TCATTACTTTTTGACTTG-CG-ATGTTATCTCGA
* * * * * * *
18168789 GTCA-TCAGTTACTTTTTAACTTGTGGTGTTATCCCGATCATCCATTATTTTTTGACTTACGGTG
1 -TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTG
* * * *
18168853 TT-GCCCAATCATTCATTACTTTTCGACTTGC-AGTGTTATC-CCA
64 TTATCCCGATCA-TCATTACTTTTTGACTTGCGA-TGTTATCTCGA
* * * * **
18168896 GTCA-TCAGTTACTTTTTG-C----AATGTTATTCTGATCA-TCAATTACTTTTGGACTTGCAAT
1 -TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTC-GTTACTTTTTGACTTGCGGT
* * * *
18168954 GTTATCTCGATCATTCCTTACTTTTAGACTTG-AATTGTTATC-CTGA
63 GTTATCCCGATCA-TCATTACTTTTTGACTTGCGA-TGTTATCTC-GA
* * * ** * ** * * *
18169000 TCA-TCTATTAATTTTTTACTTACGGTGTTAT-CTCGATCATGAGTTACTTTTTGACTTGTGATA
1 TCATTC-GTTACTTTTTGACTTGTGATGTTATCCT-GATCATTCGTTACTTTTTGACTTGCGGTG
* * *
18169063 TTATCCC-AGTCATTCTTTACTTTTTGACTTG-TAGTGTTATCTCAA
64 TTATCCCGA-TCA-TCATTACTTTTTGACTTGCGA-TGTTATCTCGA
* * * * * ** **
18169108 TCATTCCTTACTTTTCGACTTGCGATGTTACCCCGATCA-TCAGTTACTTTTCAACTTATGGTGT
1 TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATCATTC-GTTACTTTTTGACTTGCGGTGT
** * ** * *
18169172 TATCTTGATCATCAGTTATTTTTTGACTTATGGTGTTATC-CTGG
65 TATCCCGATCATCA-TTACTTTTTGACTTGCGATGTTATCTC-GA
* * * ** * **
18169216 TTATTCCTTA-TTTTCTAACTT-ACAGTGTTAT-CTTATTCA-TCAGTTACTTTTCAACTTGCGG
1 TCATTCGTTACTTTT-TGACTTGTGA-TGTTATCCTGA-TCATTC-GTTACTTTTTGACTTGCGG
* * * * * * *
18169277 TGTTATCCCAATCATCAGCTATTTTTTGACTTAC-AGTGTTGTCCCAA
62 TGTTATCCCGATCATCA-TTACTTTTTGACTTGCGA-TGTTATCTCGA
* * * * * *
18169324 TCATTCTTTACTTTCTGACTTG-CAGTATTATCCTAATCA-TCAGTTACTTTTTGACTTGCGATG
1 TCATTCGTTACTTTTTGACTTGTGA-TGTTATCCTGATCATTC-GTTACTTTTTGACTTGCGGTG
* * * * * *
18169387 TTATCTC-AGTCATTCTTTACTTTTTGACTTGCAATATTATCTAGG
64 TTATCCCGA-TCA-TCATTACTTTTTGACTTGCGATGTTATCTCGA
* *** * * ** * * **
18169432 TCA-TCAGTTATTTTTTGACTTACAATGTTGTCCCGATCATTCCCTACTTTTTTACTTACAATGT
1 TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTGT
** * * * * * *
18169496 TATCCTAATCATCGTTATTTTTTGGCTTACGGTGTTATCTAGA
65 TATCCCGATCATCATTACTTTTTGACTTGCGATGTTATCTCGA
* * * * ** * * **
18169539 TCATTCCTTGCTTGTTGACTTGTGGTGTTATCCCAATCATTCCTTACTTTTCGACTTGCAATGTT
1 TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTGTT
* * * **
18169604 ATCCCAATCATCAGTTACTTTTTAACTTGTGGCGTTATCTCGA
66 ATCCCGATCATCA-TTACTTTTTGACTTGCGATGTTATCTCGA
* * ** * * *
18169647 TCA-TCAATTATTTTTTGACTTACGGTGTTATCCTGATCATTCCTTACTTTTTGACTTACGGTGT
1 TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTGT
* * * * ** * * *
18169711 TATCCTGGTCATTAGTATCTTTTCAAATTACGATGTTATC-CTA
65 TATCCCGATCATCATTA-CTTTTTGACTTGCGATGTTATCTCGA
* * * * * * * *
18169754 GTCA-TCAGTTATTTTTTGACTTGTGGTGTTGTCTTGATTATTCCTTACTTTTTGATTTGTGGTG
1 -TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTG
** * *
18169818 TTATCTAGGTCATCAGTTACTTTTTGACTTG-TAGTGTTATCTCGA
64 TTATCCCGATCATCA-TTACTTTTTGACTTGCGA-TGTTATCTCGA
* * * * * * *
18169863 TAATTAGTTACTTTTTGACTTGT-AGTGTTAT-CTCGATCTTTCTTTACTTTCTAACTTGCAGTG
1 TCATTCGTTACTTTTTGACTTGTGA-TGTTATCCT-GATCATTCGTTACTTTTTGACTTGCGGTG
* * * * *
18169926 TTATCTCGATCAATCCTTACTTTTTGATTTG-TACTGTTATACTAG-
64 TTATCCCGATC-ATCATTACTTTTTGACTTGCGA-TGTTAT-CTCGA
* * * *
18169971 TCA-TCAGTTACTTTTTAACTTGCGATATTATCCTGATCA-TCAGTTACTTTTTGACTTGCGATG
1 TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTC-GTTACTTTTTGACTTGCGGTG
* * * *
18170034 TTATCTCAATCATTCTTTACTTTTTGACTTGCGATGTTATCT-TA
64 TTATCCCGATCA-TCATTACTTTTTGACTTGCGATGTTATCTCGA
* * * * * * *
18170078 GTCATTCTTTACTTTCTGACTTGTGGTGTTATCC-CAGTCATTAGTTACTTTTTTACTTACGGTG
1 -TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGA-TCATTCGTTACTTTTTGACTTGCGGTG
* * * * *
18170142 CTATCCCGATCATCAATTA-TTTTTCAACTTACGAAGTTATC-CCA
64 TTATCCCGATCATC-ATTACTTTTT-GACTTGCGATGTTATCTCGA
* * * ** *
18170186 GTCATTCCTTACTTTTTGACTTAT-AGTGTTACCCCAATC-TTCGGTTACTTTTTGACTTACGGT
1 -TCATTCGTTACTTTTTGACTTGTGA-TGTTATCCTGATCATTC-GTTACTTTTTGACTTGCGGT
* * * * * * *
18170249 GTTAT-CCTAGTCATTCCTTACTTTTCGACTTGTGGTGTTTTTTCGA
63 GTTATCCCGA-TCA-TCATTACTTTTTGACTTGCGATGTTATCTCGA
* ** * **
18170295 TCATTCTTTACTTTTCAACTTATGATGTTAT-CTCGATCA-TCAGTTACTTTTTGACTTTTGGTG
1 TCATTCGTTACTTTTTGACTTGTGATGTTATCCT-GATCATTC-GTTACTTTTTGACTTGCGGTG
* * * * * *
18170358 TTAGCCCAATCATCAGTTATTTTTTGATTTACGATGTTATCCCGA
64 TTATCCCGATCATCA-TTACTTTTTGACTTGCGATGTTATCTCGA
* ** ** * *
18170403 TCATTCCTTAC-TTTTGAACTTACGATGTTATCCCAATCA-TCAATTA-TGTTTTGACTTGCGAT
1 TCATTCGTTACTTTTTG-ACTTGTGATGTTATCCTGATCATTC-GTTACT-TTTTGACTTGCGGT
* * ***
18170465 GTTATCCCGGTCATCAATTATTTTTTGACTTGCGGCATTATCTC-A
63 GTTATCCCGATCATC-ATTACTTTTTGACTTGCGATGTTATCTCGA
* * * * * * * * *
18170510 GCCATTCCTTACTTTCTAACTTGTGGTGTTATCCTGGTCATTCTTTAATTTTTGACTTGTGGTGT
1 -TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTGT
* * * *
18170575 TATCTC-AGTCATTCTTTATTTTTTGACTTGCAATGTTATCAT-GA
65 TATCCCGA-TCA-TCATTACTTTTTGACTTGCGATGTTATC-TCGA
* * ** * * * *
18170619 TCA-TCAATTACTGTACGACTCGTGATGTTATCCTGGTCATTCCTTACTTTTTGACTTGCTGTGT
1 TCATTC-GTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTGT
* * * * * * *
18170683 TATCCCAATCATTAATTA-TTTTTCTACTTACAATGTTGTC-CCA
65 TATCCCGATCA-TCATTACTTTTT-GACTTGCGATGTTATCTCGA
* **
18170726 GTCATTCCTTACTTTTTGACTTGCAATGTTATCCT
1 -TCATTCGTTACTTTTTGACTTGTGATGTTATCCT
18170761 AGTCATCAGT
Statistics
Matches: 2092, Mismatches: 494, Indels: 279
0.73 0.17 0.10
Matches are distributed among these distances:
101 1 0.00
102 30 0.01
103 45 0.02
104 3 0.00
105 3 0.00
106 15 0.01
107 324 0.15
108 1580 0.76
109 86 0.04
110 3 0.00
111 2 0.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (107 bp):
TCATTCGTTACTTTTTGACTTGTGATGTTATCCTGATCATTCGTTACTTTTTGACTTGCGGTGTT
ATCCCGATCATCATTACTTTTTGACTTGCGATGTTATCTCGA
Found at i:18168459 original size:287 final size:287
Alignment explanation
Indices: 18167935--18168552 Score: 786
Period size: 287 Copynumber: 2.2 Consensus size: 287
18167925 CAGTCATTCT
* * * * *
18167935 TTACTTTCTAACTTGTGATGTTATCCCAATCA-TCAGTTACTTTTTTACTTACTGTGTTATCCTA
1 TTACTTTTTAACTTGTGATGTTGTCTCGATCATTC-GTTACTTTTTGACTTACTGTGTTATCCTA
*
18167999 GTCATTCCTTACTTTTAACTTGCAATGTTATCCTAGTCATTCCTTACTTTTTGAATTGCGATGTT
65 GTCATTCCTTACTTTGAACTTGCAATGTTATCCTAGTCATTCCTTACTTTTTGAATTGCGATGTT
*
18168064 ATCATGGTCATCAGTTACTTTTCAACTTACGATGTTATCCCAGTCATCAATAATTTTTTGACTTA
130 ATCATAGTCATCAGTTACTTTTCAACTTACGATGTTATCCCAGTCATCAATAATTTTTTGACTTA
* *
18168129 CGGTATTGTCTCAATCATTCCTTACTTTTTGACTTACGGTGTTATCCTAGTCATCAATTACTTT-
195 CGGTATTGTCCCAATCATTCCTTACTTTTTAACTTACGGTGTTATCCTAGTCATCAATTACTTTC
*
18168193 TCAACTTGCGGTGTTATC-CCGATCATCAA
260 T-AACTTGCGATGTTATCTCCG-TCATCAA
* * *
18168222 TTACTTTTTGACTTATGATGTTGTCTCGATCATTCGTTACTTTTTGACTTA-TGATGTTATCCTG
1 TTACTTTTTAACTTGTGATGTTGTCTCGATCATTCGTTACTTTTTGACTTACTG-TGTTATCCTA
* *
18168286 GTCATTCCTTACTTCTGAA-TTGCTATGTTATCCTAGTCATTCCTTACTTTTTGACTTGC-AGTG
65 GTCATTCCTTACTT-TGAACTTGCAATGTTATCCTAGTCATTCCTTACTTTTTGAATTGCGA-TG
* ** * *
18168349 TTATC-TCAGTTATCAGTTACTTTTTTACTT--GTAGTGTTATCCCAGTCATCAGTTATTTTTTG
128 TTATCAT-AGTCATCAGTTACTTTTCAACTTACG-A-TGTTATCCCAGTCATCAATAATTTTTTG
** * ** *
18168411 ACTTACGGTATTGTCCCGGTCATTCTTTACTTTTTAACTTGTGGTGTTATCCTAGTCATTAATTA
190 ACTTACGGTATTGTCCCAATCATTCCTTACTTTTTAACTTACGGTGTTATCCTAGTCATCAATTA
* * ** *
18168476 CTTTCTGACTTGCGATGTTATCTTCGTTGTCGA
255 CTTTCTAACTTGCGATGTTATCTCCGTCATCAA
* * *
18168509 TTATTTTTTAACTTGTGGTGTTGTCTCGATCATTCCTTACTTTT
1 TTACTTTTTAACTTGTGATGTTGTCTCGATCATTCGTTACTTTT
18168553 CAACTTGCAA
Statistics
Matches: 286, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
285 1 0.00
286 5 0.02
287 272 0.95
288 8 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (287 bp):
TTACTTTTTAACTTGTGATGTTGTCTCGATCATTCGTTACTTTTTGACTTACTGTGTTATCCTAG
TCATTCCTTACTTTGAACTTGCAATGTTATCCTAGTCATTCCTTACTTTTTGAATTGCGATGTTA
TCATAGTCATCAGTTACTTTTCAACTTACGATGTTATCCCAGTCATCAATAATTTTTTGACTTAC
GGTATTGTCCCAATCATTCCTTACTTTTTAACTTACGGTGTTATCCTAGTCATCAATTACTTTCT
AACTTGCGATGTTATCTCCGTCATCAA
Found at i:18168768 original size:36 final size:36
Alignment explanation
Indices: 18168118--18170948 Score: 924
Period size: 36 Copynumber: 78.8 Consensus size: 36
18168108 CATCAATAAT
** * * * *
18168118 TTTTTGACTTACGGTATTGTCTCAATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
** * *
18168154 TTTTTGACTTACGGTGTTATC-CTAGTCA-TCAATTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
** * * *
18168190 TTTTCAACTTGCGGTGTTATCCCGATCA-TCAATTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* * *
18168226 TTTTTGACTTATGATGTTGTCTCGATCATTCGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * * *
18168262 TTTTTGACTTATGATGTTATC-CTGGTCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTCGTTAC
* * * * *
18168298 -TTCTGAATTGCT-ATGTTATC-CTAGTCATTCCTTAC
1 TTTTTGACTTG-TGGTGTTATCTCGA-TCATTCGTTAC
** *
18168333 TTTTTGACTTGCAGTGTTATCTC-AGTTA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
* * * *
18168369 TTTTTTACTTGTAGTGTTATC-CCAGTCA-TCAGTTAT
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
** * * * * *
18168405 TTTTTGACTTACGGTATTGTCCCGGTCATTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * **
18168441 TTTTTAACTTGTGGTGTTATC-CTAGTCATTAATTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * * *
18168477 TTTCTGACTTGCGATGTTATCTTCG-T--TGTCGATTAT
1 TTTTTGACTTGTGGTGTTATC-TCGATCAT-TCG-TTAC
* * *
18168513 TTTTTAACTTGTGGTGTTGTCTCGATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
** *** *
18168549 TTTTCAACTTGCAATGTCATCTC-AGTCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
* * * * * *
18168585 TTTCTAACTTGTGGTGTTATCCCGGTCATTAGTTAT
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * *
18168621 TTTTTGACTTGTGGTGTTGTC-CCAGTCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * * * * *
18168657 TTTTCGACTTGCGATGTTATCTTGGTCATTAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
*** ** *
18168693 TTTCCAACTTACGGTGTTATCTCGATTATTTC-TTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCA-TTCGTTAC
* * *
18168729 TTTTCGACTTGTAGTGTTATCTCGATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
** * *
18168765 TTTTTGACTTGTGGCATTTTCT-TAGTCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
* * * * *
18168801 TTTTTAACTTGTGGTGTTATCCCGATCATCCATTAT
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
** * * * *
18168837 TTTTTGACTTACGGTGTT-GCCCAATCATTCATTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* ** *
18168872 TTTTCGACTTGCAGTGTTATC-CCAGTCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
** *
18168908 TTTTTG-C----AATGTTAT-TCTGATCA-TCAATTAC
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTC-GTTAC
* *** *
18168939 TTTTGGACTTGCAATGTTATCTCGATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* *** * *
18168975 TTTTAGACTTGAATTGTTATC-CTGATCA-TCTATTAA
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTC-GTTAC
* ** **
18169011 TTTTTTACTTACGGTGTTATCTCGATCATGAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * * *
18169047 TTTTTGACTTGTGATATTATC-CCAGTCATTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * *
18169083 TTTTTGACTTGTAGTGTTATCTCAATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * * * *
18169119 TTTTCGACTTGCGATGTTACCCCGATCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
** * * *
18169155 TTTTCAACTTATGGTGTTATCTTGATCA-TCAGTTAT
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* * * *
18169191 TTTTTGACTTATGGTGTTATC-CTGGTTATTCCTTA-
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTCGTTAC
* *** *
18169226 TTTTCTAACTTACAGTGTTATCT-TATTCA-TCAGTTAC
1 TTTT-TGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
** * * * * *
18169263 TTTTCAACTTGCGGTGTTATCCCAATCA-TCAGCTAT
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
*** * * * *
18169299 TTTTTGACTTACAGTGTTGTCCCAATCATTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* ** * *
18169335 TTTCTGACTTGCAGTATTATC-CTAATCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTC-GTTAC
* * *
18169371 TTTTTGACTTGCGATGTTATCTC-AGTCATTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
*** * * * *
18169407 TTTTTGACTTGCAATATTATCTAGGTCA-TCAGTTAT
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
**** * * **
18169443 TTTTTGACTTACAATGTTGTCCCGATCATTCCCTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* **** * *
18169479 TTTTTTACTTACAATGTTATC-CTAATCA-TCGTTAT
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTCGTTAC
* ** * * *
18169514 TTTTTGGCTTACGGTGTTATCTAGATCATTCCTTGC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * * *
18169550 TTGTTGACTTGTGGTGTTATCCCAATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* *** * *
18169586 TTTTCGACTTGCAATGTTATCCCAATCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* * * *
18169622 TTTTTAACTTGTGGCGTTATCTCGATCA-TCAATTAT
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
** *
18169658 TTTTTGACTTACGGTGTTATC-CTGATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTCGTTAC
** * *
18169694 TTTTTGACTTACGGTGTTATC-CTGGTCATTAG-TATC
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTCGTTA-C
** * ** * * *
18169730 TTTTCAAATTACGATGTTATC-CTAGTCA-TCAGTTAT
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
* * * *
18169766 TTTTTGACTTGTGGTGTTGTCTTGATTATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * *
18169802 TTTTTGATTTGTGGTGTTATCTAGGTCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* * *
18169838 TTTTTGACTTGTAGTGTTATCTCGATAATTAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * *
18169874 TTTTTGACTTGTAGTGTTATCTCGATCTTTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * ** * *
18169910 TTTCTAACTTGCAGTGTTATCTCGATCAATCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* ** *
18169946 TTTTTGATTTGTACTGTTATACTAG-TCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTAT-CTCGATCATTC-GTTAC
* * * *
18169982 TTTTTAACTTGCGATATTATC-CTGATCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTC-GTTAC
* * * *
18170018 TTTTTGACTTGCGATGTTATCTCAATCATTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* * * *
18170054 TTTTTGACTTGCGATGTTATCT-TAGTCATTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * *
18170090 TTTCTGACTTGTGGTGTTATC-CCAGTCATTAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* ** * * *
18170126 TTTTTTACTTACGGTGCTATCCCGATCA-TCAATTA-
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* ** ** * *
18170161 TTTTTCAACTTACGAAGTTATC-CCAGTCATTCCTTAC
1 TTTTT-GACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * * * *
18170198 TTTTTGACTTATAGTGTTACCCCAATC-TTCGGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
** * *
18170234 TTTTTGACTTACGGTGTTATC-CTAGTCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * * *
18170270 TTTTCGACTTGTGGTGTTTTTTCGATCATTCTTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
** * *
18170306 TTTTCAACTTATGATGTTATCTCGATCA-TCAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* * * * *
18170342 TTTTTGACTTTTGGTGTTAGCCCAATCA-TCAGTTAT
1 TTTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* ** * * *
18170378 TTTTTGATTTACGATGTTATCCCGATCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
** * * * *
18170414 -TTTTGAACTTACGATGTTATCCCAATCA-TCAATTA-
1 TTTTTG-ACTTGTGGTGTTATCTCGATCATTC-GTTAC
* * * * * *
18170449 TGTTTTGACTTGCGATGTTATCCCGGTCA-TCAATTAT
1 T-TTTTGACTTGTGGTGTTATCTCGATCATTC-GTTAC
* ** * *
18170486 TTTTTGACTTGCGGCATTATCTC-AGCCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * * * *
18170522 TTTCTAACTTGTGGTGTTATC-CTGGTCATTCTTTAA
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTCGTTAC
* *
18170558 TTTTTGACTTGTGGTGTTATCTC-AGTCATTCTTTAT
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
*** *
18170594 TTTTTGACTTGCAATGTTATCAT-GATCA-TCAATTAC
1 TTTTTGACTTGTGGTGTTATC-TCGATCATTC-GTTAC
* ** * * * *
18170630 TGTACGACTCGTGATGTTATC-CTGGTCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTCGTTAC
* * **
18170666 TTTTTGACTTGCT-GTGTTATCCCAATCATTAATTA-
1 TTTTTGACTTG-TGGTGTTATCTCGATCATTCGTTAC
* **** * * *
18170701 TTTTTCTACTTACAATGTTGTC-CCAGTCATTCCTTAC
1 TTTTT-GACTTGTGGTGTTATCTCGA-TCATTCGTTAC
*** * *
18170738 TTTTTGACTTGCAATGTTATC-CTAGTCA-TCAGTTAT
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
* * * * *
18170774 TTTTTTACTTATGGTGTTGTC-CTAGTCATTCCTTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTCGTTAC
* * * *
18170810 TTTCTGACTTATGGTGTTATC-CAGGTCA-TCAGTTATTT
1 TTTTTGACTTGTGGTGTTATCTC-GATCATTC-GTTA--C
* * * *
18170848 TTTTTTACTTGTGGTGTTGTC-CCAGTCA-TCAATTAC
1 TTTTTGACTTGTGGTGTTATCTCGA-TCATTC-GTTAC
* * ** *
18170884 TTTCTGACTTGCGGTGTTATCTTAATCATTAGTTAC
1 TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
* *
18170920 TTTTTGACTTGTGGTGTTGTCCCGATCAT
1 TTTTTGACTTGTGGTGTTATCTCGATCAT
18170949 CAATTATTTT
Statistics
Matches: 2138, Mismatches: 520, Indels: 274
0.73 0.18 0.09
Matches are distributed among these distances:
31 23 0.01
32 2 0.00
34 1 0.00
35 177 0.08
36 1814 0.85
37 92 0.04
38 29 0.01
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (36 bp):
TTTTTGACTTGTGGTGTTATCTCGATCATTCGTTAC
Found at i:18171071 original size:19 final size:19
Alignment explanation
Indices: 18171047--18171105 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
18171037 TGATGTTGTC
*
18171047 AAAACATAAGC-AATAAAAA
1 AAAACA-AAGCAAACAAAAA
18171066 AAAACAAAGCAAACAAAAA
1 AAAACAAAGCAAACAAAAA
18171085 ACAAACAAA--ATAACAAAAA
1 A-AAACAAAGCA-AACAAAAA
18171104 AA
1 AA
18171106 GGAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 6 0.17
19 23 0.64
20 7 0.19
ACGTcount: A:0.78, C:0.14, G:0.03, T:0.05
Consensus pattern (19 bp):
AAAACAAAGCAAACAAAAA
Found at i:18171083 original size:16 final size:15
Alignment explanation
Indices: 18171064--18171093 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18171054 AAGCAATAAA
18171064 AAAAAACAAAGCAAAC
1 AAAAAACAAA-CAAAC
18171080 AAAAAACAAACAAA
1 AAAAAACAAACAAA
18171094 ATAACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAACAAACAAAC
Found at i:18171117 original size:13 final size:13
Alignment explanation
Indices: 18171099--18171132 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18171089 ACAAAATAAC
18171099 AAAAAAAG-GAAA
1 AAAAAAAGAGAAA
18171111 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
*
18171124 AAGAAAAGA
1 AAAAAAAGA
18171133 AAGCAAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:18175559 original size:20 final size:20
Alignment explanation
Indices: 18175517--18175561 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18175507 ACGCCCAAGG
* *
18175517 TCAAACTTTGTCAAATCTTA
1 TCAAACTTAGTCAAATCTAA
18175537 TCAAACTTAGTCAAAATC-AA
1 TCAAACTTAGTC-AAATCTAA
18175557 TCAAA
1 TCAAA
18175562 ATGGATGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (20 bp):
TCAAACTTAGTCAAATCTAA
Found at i:18177519 original size:49 final size:49
Alignment explanation
Indices: 18177465--18177560 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
18177455 ATACATTTTT
* *
18177465 CATGCATCAAAATTTA-CATTTTTGCCAATGGC-ATTTTCATTATTTGCCA
1 CATGCATCAAAATTTACCA-TTTTACAAAT-GCTATTTTCATTATTTGCCA
*
18177514 CATGCATCAATATTTACCATTTTACAAATGCTATTTTCATTATTTGC
1 CATGCATCAAAATTTACCATTTTACAAATGCTATTTTCATTATTTGC
18177561 TTTTATGACA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 2 0.05
49 38 0.90
50 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (49 bp):
CATGCATCAAAATTTACCATTTTACAAATGCTATTTTCATTATTTGCCA
Found at i:18177603 original size:14 final size:14
Alignment explanation
Indices: 18177584--18177621 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
18177574 TTTTCTTATG
*
18177584 AAACCTTAAATTTC
1 AAACCTTAAATTCC
18177598 AAACCTTAAATTCC
1 AAACCTTAAATTCC
*
18177612 AAACCCTAAA
1 AAACCTTAAA
18177622 CCACCCTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
AAACCTTAAATTCC
Found at i:18177633 original size:19 final size:19
Alignment explanation
Indices: 18177609--18177684 Score: 91
Period size: 19 Copynumber: 4.0 Consensus size: 19
18177599 AACCTTAAAT
18177609 TCCAAACCCTAAACCACCC
1 TCCAAACCCTAAACCACCC
* *
18177628 TCCAAAACCTTAAACCAACC
1 TCC-AAACCCTAAACCACCC
** *
18177648 TTGAAACACTAAA-CACCC
1 TCCAAACCCTAAACCACCC
18177666 TCCAAACCCTAAACCACCC
1 TCCAAACCCTAAACCACCC
18177685 ATGAAACCTT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
18 14 0.31
19 16 0.36
20 15 0.33
ACGTcount: A:0.41, C:0.45, G:0.01, T:0.13
Consensus pattern (19 bp):
TCCAAACCCTAAACCACCC
Found at i:18177680 original size:37 final size:39
Alignment explanation
Indices: 18177612--18177701 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 39
18177602 CTTAAATTCC
* * *
18177612 AAACCCTAAACCACCCTCCAAAACCTTAAACCAACCTTG
1 AAACACTAAACCACCCTCCAAAACCCTAAACCAACCATG
*
18177651 AAACACTAAA-CACCCTCC-AAACCCTAAACCACCCATG
1 AAACACTAAACCACCCTCCAAAACCCTAAACCAACCATG
18177688 AAAC-CTTAAACCAC
1 AAACAC-TAAACCAC
18177702 TTGTGAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
36 1 0.02
37 24 0.53
38 11 0.24
39 9 0.20
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.13
Consensus pattern (39 bp):
AAACACTAAACCACCCTCCAAAACCCTAAACCAACCATG
Found at i:18177691 original size:19 final size:19
Alignment explanation
Indices: 18177612--18177701 Score: 85
Period size: 19 Copynumber: 4.7 Consensus size: 19
18177602 CTTAAATTCC
*
18177612 AAACCCTAAACCACCCTCCA
1 AAACCCTAAACCACCCT-CG
* * *
18177632 AAACCTTAAACCAACCTTG
1 AAACCCTAAACCACCCTCG
* *
18177651 AAACACTAAA-CACCCTCC
1 AAACCCTAAACCACCCTCG
18177669 AAACCCTAAACCACCCAT-G
1 AAACCCTAAACCACCC-TCG
*
18177688 AAACCTTAAACCAC
1 AAACCCTAAACCAC
18177702 TTGTGAAATC
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
18 14 0.25
19 26 0.46
20 16 0.29
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.13
Consensus pattern (19 bp):
AAACCCTAAACCACCCTCG
Done.