Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold326
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: 1352760
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 6 of 8
Found at i:900090 original size:18 final size:18
Alignment explanation
Indices: 900076--900112 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
900066 TAAATATGAT
900076 TATAATAAAAAATATAAA
1 TATAATAAAAAATATAAA
*
900094 TATAATAAAAAACATAAA
1 TATAATAAAAAATATAAA
900112 T
1 T
900113 TATTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
TATAATAAAAAATATAAA
Found at i:900421 original size:28 final size:30
Alignment explanation
Indices: 900388--900443 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
900378 ATTTTTAATA
* *
900388 TTTATATTAT-AATATTACAT-ATATATTT
1 TTTATATAATAAAAATTACATAATATATTT
900416 TTTATATAATAAAAATTACATAATATAT
1 TTTATATAATAAAAATTACATAATATAT
900444 AATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTATATAATAAAAATTACATAATATATTT
Found at i:900443 original size:21 final size:23
Alignment explanation
Indices: 900418--900464 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
900408 ATATATTTTT
900418 TATATAATA-AAAATT-ACATAA
1 TATATAATATAAAATTAACATAA
*
900439 TATATAATATAAAATTAATATAA
1 TATATAATATAAAATTAACATAA
900462 TAT
1 TAT
900465 TATGTCATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 6 0.26
23 8 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATATAATATAAAATTAACATAA
Found at i:900581 original size:19 final size:19
Alignment explanation
Indices: 900557--900597 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
900547 TAAATTTTTT
*
900557 ATTTAA-ATTTATTTTTAAA
1 ATTTAATATTT-TTATTAAA
900576 ATTTAATATTTTTATTAAA
1 ATTTAATATTTTTATTAAA
900595 ATT
1 ATT
900598 CTTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTAATATTTTTATTAAA
Found at i:901026 original size:2 final size:2
Alignment explanation
Indices: 900979--901008 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
900969 CTATGTTACA
900979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
901009 CCTATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:901291 original size:16 final size:16
Alignment explanation
Indices: 901253--901295 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
901243 TGGATTCGGA
*
901253 TCGAATTATTTTATGC
1 TCGAATTATTTTAGGC
* *
901269 TCAAATTATTTTAGGT
1 TCGAATTATTTTAGGC
901285 TCGAATT-TTTT
1 TCGAATTATTTT
901296 CAAGTTTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (16 bp):
TCGAATTATTTTAGGC
Found at i:902841 original size:16 final size:15
Alignment explanation
Indices: 902820--902863 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
902810 CGAATTTGAT
902820 TTCTTTTGGGTTTAGG
1 TTCTTTTGGGTTTA-G
** *
902836 TTCTTTCAGGTTTAT
1 TTCTTTTGGGTTTAG
902851 TTCTTTTGGGTTT
1 TTCTTTTGGGTTT
902864 GGACTATTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.07, C:0.09, G:0.23, T:0.61
Consensus pattern (15 bp):
TTCTTTTGGGTTTAG
Found at i:902862 original size:15 final size:15
Alignment explanation
Indices: 902818--902863 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
902808 TTCGAATTTG
902818 ATTTCTTTTGGGTTT
1 ATTTCTTTTGGGTTT
* **
902833 AGGTTCTTTCAGGTTT
1 A-TTTCTTTTGGGTTT
902849 ATTTCTTTTGGGTTT
1 ATTTCTTTTGGGTTT
902864 GGACTATTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.09, C:0.09, G:0.22, T:0.61
Consensus pattern (15 bp):
ATTTCTTTTGGGTTT
Found at i:903674 original size:20 final size:20
Alignment explanation
Indices: 903647--903703 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
903637 GCCGTTTGAA
903647 GCCATGTATCGATACAAT-T
1 GCCATGTATCGATACAATGT
903666 -CATCATGTATCGATACAATGT
1 GC--CATGTATCGATACAATGT
903687 GCCATGTATCGATACAA
1 GCCATGTATCGATACAA
903704 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
20 31 0.91
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (20 bp):
GCCATGTATCGATACAATGT
Found at i:910219 original size:21 final size:20
Alignment explanation
Indices: 910193--910236 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
910183 TATCAACTTG
*
910193 TAATTCAATTATTTTCTTTTT
1 TAATTC-ATTATTTTCCTTTT
* *
910214 TAATTCTTTTTTTTCCTTTT
1 TAATTCATTATTTTCCTTTT
910234 TAA
1 TAA
910237 GCACATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (20 bp):
TAATTCATTATTTTCCTTTT
Found at i:912433 original size:13 final size:13
Alignment explanation
Indices: 912415--912444 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
912405 ACAATTCATC
912415 ATGTATCGATACA
1 ATGTATCGATACA
*
912428 ATGTATGGATACA
1 ATGTATCGATACA
912441 ATGT
1 ATGT
912445 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:912439 original size:33 final size:33
Alignment explanation
Indices: 912395--912461 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
912385 GTTTGAAGTC
912395 ATGTATCGATACAAT-T-CATCATGTATCGATACA
1 ATGTATCGATACAATGTGC--CATGTATCGATACA
*
912428 ATGTATGGATACAATGTGCCATGTATCGATACA
1 ATGTATCGATACAATGTGCCATGTATCGATACA
912461 A
1 A
912462 ACAGTAGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAATGTGCCATGTATCGATACA
Found at i:912516 original size:20 final size:20
Alignment explanation
Indices: 912490--912544 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
912480 CTGCCAATTT
**
912490 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
* *
912510 TATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
912529 CATGTATCGATACAAT
1 CATGTATCGATACAAT
912545 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:912548 original size:13 final size:13
Alignment explanation
Indices: 912530--912556 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
912520 TATAATGAAC
912530 ATGTATCGATACA
1 ATGTATCGATACA
912543 ATGTATCGATACA
1 ATGTATCGATACA
912556 A
1 A
912557 AGGAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:912708 original size:22 final size:21
Alignment explanation
Indices: 912681--912733 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
912671 AATATTTTCT
912681 CTTTAAAACATTTGATTT-TAAA
1 CTTTAAAACATTTG-TTTGT-AA
*
912703 GTTTAAAAACATTTGTTTGTAA
1 CTTT-AAAACATTTGTTTGTAA
912725 CTTTAAAAC
1 CTTTAAAAC
912734 TTTCATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.19
22 11 0.41
23 11 0.41
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (21 bp):
CTTTAAAACATTTGTTTGTAA
Found at i:913158 original size:20 final size:21
Alignment explanation
Indices: 913118--913168 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
913108 TTCTACAATT
* *
913118 TGTATCGATGCAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
913139 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
913159 TGTATCGATA
1 TGTATCGATA
913169 GATGTCCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:916296 original size:22 final size:21
Alignment explanation
Indices: 916265--916305 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
916255 CAACATATAA
*
916265 ATTTTTTCTTTTTTTCTTTTT
1 ATTTTTTCTTTCTTTCTTTTT
916286 ATTTTTGTCTTTCTTTCTTT
1 ATTTTT-TCTTTCTTTCTTT
916306 CTTTCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (21 bp):
ATTTTTTCTTTCTTTCTTTTT
Found at i:916394 original size:22 final size:22
Alignment explanation
Indices: 916341--916384 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
916331 TAAAGCTTAT
916341 GATATAATTTACTTTTTAATAA
1 GATATAATTTACTTTTTAATAA
*
916363 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTAATAA
916385 ATTACTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (22 bp):
GATATAATTTACTTTTTAATAA
Found at i:916586 original size:26 final size:26
Alignment explanation
Indices: 916561--916611 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
916551 CTCGGGTTCA
916561 AGTTT-TTTCAGATTCAGGTTCTTTC
1 AGTTTCTTTCAGATTCAGGTTCTTTC
** *
916586 AGTTTCTTTTTGGTTCAGGTTCTTTC
1 AGTTTCTTTCAGATTCAGGTTCTTTC
916612 GGGTTTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.12, C:0.16, G:0.18, T:0.55
Consensus pattern (26 bp):
AGTTTCTTTCAGATTCAGGTTCTTTC
Found at i:916602 original size:16 final size:16
Alignment explanation
Indices: 916583--916633 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
916573 TTCAGGTTCT
*
916583 TTCAGTTTCTTTTTGG
1 TTCAGTTTCTTTTGGG
* *
916599 TTCAGGTTCTTTCGGG
1 TTCAGTTTCTTTTGGG
**
916615 TTTTGTTTCTTTTGGG
1 TTCAGTTTCTTTTGGG
916631 TTC
1 TTC
916634 GGGCTATTTC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.04, C:0.14, G:0.24, T:0.59
Consensus pattern (16 bp):
TTCAGTTTCTTTTGGG
Found at i:919472 original size:25 final size:26
Alignment explanation
Indices: 919438--919493 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
919428 AAAAAATGAG
* *
919438 TTTGATTA-TTATACTTAACTTTAAA
1 TTTGATTATTTATACTCAAATTTAAA
*
919463 TTTGATTATTTATGCTCAAATTTAAA
1 TTTGATTATTTATACTCAAATTTAAA
919489 TTTGA
1 TTTGA
919494 ATTGAAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (26 bp):
TTTGATTATTTATACTCAAATTTAAA
Found at i:920861 original size:17 final size:16
Alignment explanation
Indices: 920817--920869 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
920807 GATAAATACA
*
920817 ATATAACATATTTAAAT
1 ATATAA-ATATTTAATT
*
920834 A-ATTAATATTTAATT
1 ATATAAATATTTAATT
920849 ATATAATATATTTAATT
1 ATATAA-ATATTTAATT
920866 ATAT
1 ATAT
920870 TTAACAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 10 0.32
16 6 0.19
17 15 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATAAATATTTAATT
Found at i:920868 original size:10 final size:10
Alignment explanation
Indices: 920833--920873 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
920823 CATATTTAAA
920833 TAATTAATATT
1 TAATT-ATATT
920844 TAATTATA--
1 TAATTATATT
920852 TAA-TATATT
1 TAATTATATT
920861 TAATTATATT
1 TAATTATATT
920871 TAA
1 TAA
920874 CAGTAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
7 4 0.15
8 3 0.11
9 3 0.11
10 12 0.44
11 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TAATTATATT
Found at i:920905 original size:14 final size:14
Alignment explanation
Indices: 920888--920927 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
920878 AATTAATATT
920888 TAAAATATAATTAA
1 TAAAATATAATTAA
920902 TAAAATAT-ATT--
1 TAAAATATAATTAA
920913 T-AAATATAATTAA
1 TAAAATATAATTAA
920926 TA
1 TA
920928 TTTAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
10 6 0.27
11 4 0.18
13 4 0.18
14 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAAATATAATTAA
Found at i:920911 original size:42 final size:40
Alignment explanation
Indices: 920824--920959 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 40
920814 ACAATATAAC
* * * *
920824 ATATTTAAATAATTAATATTTAATTATATAATATATTTAATT
1 ATATTTAAATAATTAATATTTAA-AATATAAT-TAATAAAAT
920866 ATATTTAACAGTAATTAATATTTAAAATATAATTAATAAAAT
1 ATATTTAA-A-TAATTAATATTTAAAATATAATTAATAAAAT
* * *
920908 ATATTTAAATATAATTAATATTT-AAATATTATTAATATAAC
1 ATATTT-AA-ATAATTAATATTTAAAATATAATTAATAAAAT
920949 ATATTTAAATA
1 ATATTTAAATA
920960 TAATCTGATA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
39 3 0.04
40 2 0.02
41 21 0.25
42 32 0.39
43 11 0.13
44 14 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (40 bp):
ATATTTAAATAATTAATATTTAAAATATAATTAATAAAAT
Found at i:920928 original size:17 final size:17
Alignment explanation
Indices: 920908--920945 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
920898 TTAATAAAAT
920908 ATATTTAAATATAATTA
1 ATATTTAAATATAATTA
*
920925 ATATTTAAATATTATTA
1 ATATTTAAATATAATTA
920942 ATAT
1 ATAT
920946 AACATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTAAATATAATTA
Found at i:920953 original size:41 final size:40
Alignment explanation
Indices: 920816--920963 Score: 154
Period size: 41 Copynumber: 3.5 Consensus size: 40
920806 TGATAAATAC
* *
920816 AATATAACATATTT-AAATAATTAATATTTAATTATATAAT
1 AATATAACATATTTAAAATAATTAATATTTAAATAT-TATT
* * * *
920856 ATATTTAATTATATTTAACAGTAATTAATATTTAAAATATAATT
1 A-ATATAA-CATATTTAA-AATAATTAATATTT-AAATATTATT
* *
920900 AATAAAATATATTTAAATATAATTAATATTTAAATATTATT
1 AATATAACATATTTAAA-ATAATTAATATTTAAATATTATT
920941 AATATAACATATTTAAATATAAT
1 AATATAACATATTTAAA-ATAAT
920964 CTGATACCAC
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 36 0.40
42 27 0.30
43 5 0.06
44 16 0.18
45 5 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (40 bp):
AATATAACATATTTAAAATAATTAATATTTAAATATTATT
Found at i:922073 original size:57 final size:57
Alignment explanation
Indices: 921966--922127 Score: 294
Period size: 54 Copynumber: 2.9 Consensus size: 57
921956 ACACACACAC
*
921966 ACACATGTTTGGAGAGCTACCAGAATAACTTTGCATCAATGTCAGTAAAAAAAAAAA
1 ACACATCTTTGGAGAGCTACCAGAATAACTTTGCATCAATGTCAGTAAAAAAAAAAA
922023 ACACATCTTTGGAGAGCTACCAGAATAAC-TTGCATCAATGTCAGT--AAAAAAAAA
1 ACACATCTTTGGAGAGCTACCAGAATAACTTTGCATCAATGTCAGTAAAAAAAAAAA
922077 ACACATCTTTGGAGAGCTACCAGAATAACTTTGCATCAATGTCAGTAAAAA
1 ACACATCTTTGGAGAGCTACCAGAATAACTTTGCATCAATGTCAGTAAAAA
922128 TCACAAGAGA
Statistics
Matches: 101, Mismatches: 1, Indels: 6
0.94 0.01 0.06
Matches are distributed among these distances:
54 38 0.38
55 16 0.16
56 16 0.16
57 31 0.31
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.23
Consensus pattern (57 bp):
ACACATCTTTGGAGAGCTACCAGAATAACTTTGCATCAATGTCAGTAAAAAAAAAAA
Found at i:927842 original size:21 final size:21
Alignment explanation
Indices: 927817--927861 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
927807 TTTAAGTAAG
927817 ATTATTTTAGATATT-A-AATTA
1 ATTA-TTTAGA-ATTAATAATTA
927838 ATTATTTAGAATTAATAATTA
1 ATTATTTAGAATTAATAATTA
927859 ATT
1 ATT
927862 TACCTATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 7 0.32
21 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTATTTAGAATTAATAATTA
Found at i:930345 original size:115 final size:113
Alignment explanation
Indices: 930155--930382 Score: 289
Period size: 115 Copynumber: 2.0 Consensus size: 113
930145 GCTAAGGTTG
* * * * * * *
930155 TAAATTATTTAATTTAAGGCTAAATTTTATAAATATATATTAGATAAAATAAGTCCTACGTACTT
1 TAAATTATTTAATTTAAGGCTAAATTTAAAAAATATACATTAGACAAAATAAGGCCCAAGTACTT
*
930220 ATTTAATTAATTTATTT-AGTCTTATTTTATTTAATTATATTGGATCA
66 ATTTAATTAATTTATTTGAGGCTTATTTTATTTAATTATATTGGATCA
* * *
930267 TAAATTATTTAATTTAAGGTTAAGCCTTATAAAAAATATACATTAGACAAAATAGGGCCCAAGTA
1 TAAATTATTTAATTTAAGGCTAA--ATT-TAAAAAATATACATTAGACAAAATAAGGCCCAAGTA
* *
930332 -TATATTTAATTAATTTATTTGAGGGTTATTTTATTTAATTATGTTGGATCA
63 CT-TATTTAATTAATTTATTTGAGGCTTATTTTATTTAATTATATTGGATCA
930383 ATTTTTAAAC
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
112 22 0.22
114 3 0.03
115 46 0.47
116 27 0.28
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.45
Consensus pattern (113 bp):
TAAATTATTTAATTTAAGGCTAAATTTAAAAAATATACATTAGACAAAATAAGGCCCAAGTACTT
ATTTAATTAATTTATTTGAGGCTTATTTTATTTAATTATATTGGATCA
Found at i:931299 original size:19 final size:19
Alignment explanation
Indices: 931275--931311 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
931265 TCATGATGTT
931275 ATAATTTCATTTTAACATC
1 ATAATTTCATTTTAACATC
931294 ATAATTTCATTTTAACAT
1 ATAATTTCATTTTAACAT
931312 GCTTTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTTCATTTTAACATC
Found at i:933650 original size:31 final size:31
Alignment explanation
Indices: 933603--933664 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
933593 CTCGTTGTCA
* *
933603 AGGTAAAAGCATATGGCGATAACTTGGCGAT
1 AGGTAAAAGCACATGGCAATAACTTGGCGAT
* *
933634 AGGTTAAAGCACATGGCAATAGCTTGGCGAT
1 AGGTAAAAGCACATGGCAATAACTTGGCGAT
933665 TCTACTTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.23
Consensus pattern (31 bp):
AGGTAAAAGCACATGGCAATAACTTGGCGAT
Found at i:935504 original size:21 final size:20
Alignment explanation
Indices: 935458--935511 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
935448 GCTGGGCCAA
*
935458 ATGTATCGATACAGTTCTTG
1 ATGTATCGATACAGTTCTAG
935478 ATGTATCGATACAGTT-TAAG
1 ATGTATCGATACAGTTCT-AG
*
935498 CATGTATTGATACA
1 -ATGTATCGATACA
935512 ATGTTCCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 17 0.57
21 12 0.40
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAGTTCTAG
Found at i:935721 original size:146 final size:146
Alignment explanation
Indices: 935492--935780 Score: 488
Period size: 146 Copynumber: 2.0 Consensus size: 146
935482 ATCGATACAG
* * * * *
935492 TTTAAGCATGTATTGATACAATGTTCCGATACAGTCGAAGGGTAGCTCCTGCTAGTTTTATGTAT
1 TTTAAACATATATTGATACAATGTACCGATACAGTCGAAGGGTAGCTCATGCCAGTTTTATGTAT
*
935557 CGATATAATTAATGGTCTATCGATACAAAGCAATTTGTATCAATACAATGTATCGATACTTAGCA
66 CGATATAATTAATGGTCTATCAATACAAAGCAATTTGTATCAATACAATGTATCGATACTTAGCA
*
935622 ATTTGTATCAATAAAA
131 ATTTATATCAATAAAA
* * *
935638 TTTAAACATATATTGATACAATGTACTGATACAGTTGAAGGGTAGCTCATGCCAGTTTTATGTGT
1 TTTAAACATATATTGATACAATGTACCGATACAGTCGAAGGGTAGCTCATGCCAGTTTTATGTAT
935703 CGATATAATTAATGGTCTATCAATACAAAGCAATTTGTATCAATACAATGTATCGATACTTAGCA
66 CGATATAATTAATGGTCTATCAATACAAAGCAATTTGTATCAATACAATGTATCGATACTTAGCA
935768 ATTTATATCAATA
131 ATTTATATCAATA
935781 CATTTAGGTG
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
146 133 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (146 bp):
TTTAAACATATATTGATACAATGTACCGATACAGTCGAAGGGTAGCTCATGCCAGTTTTATGTAT
CGATATAATTAATGGTCTATCAATACAAAGCAATTTGTATCAATACAATGTATCGATACTTAGCA
ATTTATATCAATAAAA
Found at i:935915 original size:22 final size:22
Alignment explanation
Indices: 935881--935923 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
935871 TACAGTAAGT
935881 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTGAAAAACATTG
935903 ATTTATTAC-TTGAAAAACATT
1 ATTT-TTACTTTGAAAAACATT
935924 TAGACTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTG
Found at i:937627 original size:18 final size:18
Alignment explanation
Indices: 937600--937642 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
937590 TTTAAATACT
937600 TTAT-ATATTTAATATCA
1 TTATAATATTTAATATCA
* *
937617 TTATAATATTTAGTATTA
1 TTATAATATTTAATATCA
937635 TTATAATA
1 TTATAATA
937643 GTGTGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATAATATTTAATATCA
Found at i:937777 original size:13 final size:12
Alignment explanation
Indices: 937749--937782 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
937739 TATATTGTTT
937749 AATATTTTAATA
1 AATATTTTAATA
*
937761 AATATTATTACTA
1 AATATT-TTAATA
937774 AATATTTTA
1 AATATTTTA
937783 TCCTAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTTAATA
Found at i:937922 original size:20 final size:19
Alignment explanation
Indices: 937881--937922 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
937871 TATCATCATC
* *
937881 ATTAAATAATCCTTTTCTA
1 ATTAAATAATCCTATACTA
937900 ATTAAATAATACCTATACTA
1 ATTAAATAAT-CCTATACTA
937920 ATT
1 ATT
937923 CTTTACTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTAAATAATCCTATACTA
Found at i:942022 original size:2 final size:2
Alignment explanation
Indices: 942015--942046 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
942005 ATCCATATGC
942015 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
942047 TAAACGTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:942321 original size:2 final size:2
Alignment explanation
Indices: 942314--942345 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
942304 GCCTCATTCT
942314 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
942346 GTTGTTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:944548 original size:2 final size:2
Alignment explanation
Indices: 944541--944580 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
944531 TGGTAAGCTT
944541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
944581 GTAATTACCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:945129 original size:2 final size:2
Alignment explanation
Indices: 945122--945150 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
945112 TAAAAGTTAC
945122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
945151 AGTACAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:945524 original size:19 final size:19
Alignment explanation
Indices: 945502--945540 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
945492 TCATGAAAAT
945502 TTTAATTATT-TATATAATA
1 TTTAATT-TTATATATAATA
*
945521 TTTAATTTTATATTTAATA
1 TTTAATTTTATATATAATA
945540 T
1 T
945541 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATTTTATATATAATA
Found at i:945548 original size:21 final size:23
Alignment explanation
Indices: 945497--945553 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
945487 AATATTCATG
945497 AAAATTTTAATTATTTATATAATAT
1 AAAATTTT-A-TATTTATATAATAT
**
945522 TTAATTTTATATTTA-AT-ATAT
1 AAAATTTTATATTTATATAATAT
945543 AAAATTTTATA
1 AAAATTTTATA
945554 AATAAATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 13 0.46
22 2 0.07
23 6 0.21
24 1 0.04
25 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AAAATTTTATATTTATATAATAT
Found at i:945569 original size:17 final size:18
Alignment explanation
Indices: 945547--945583 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
945537 ATATATAAAA
*
945547 TTTTATAA-ATAAATGTT
1 TTTTATAATATAAATATT
945564 TTTTATAATATAAATATT
1 TTTTATAATATAAATATT
945582 TT
1 TT
945584 ATACCATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTATAATATAAATATT
Found at i:945583 original size:16 final size:16
Alignment explanation
Indices: 945530--945586 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 16
945520 ATTTAATTTT
*
945530 ATATTTAAT-ATATAA
1 ATATTTTATAATATAA
945545 A-ATTTTATAA-ATAA
1 ATATTTTATAATATAA
*
945559 ATGTTTTTTATAATATAA
1 A--TATTTTATAATATAA
945577 ATATTTTATA
1 ATATTTTATA
945587 CCATATTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
14 11 0.32
15 2 0.06
16 8 0.24
17 8 0.24
18 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTTTATAATATAA
Found at i:945766 original size:94 final size:95
Alignment explanation
Indices: 945654--945844 Score: 321
Period size: 94 Copynumber: 2.0 Consensus size: 95
945644 AATTTTAATA
945654 AAATCTTTAATGAAAAATTTTCAAAACCATGATAACCATTTTATATAAAAAAAGTTACTCTAATA
1 AAATCTTTAATGAAAAATTTTCAAAACCATGATAACCATTTTATATAAAAAAAGTTACTCTAATA
* *
945719 TTTTTTATAACACTTTTAACCATTAATTAT
66 TTTTGTATAACACTTTTAACAATTAATTAT
* * * *
945749 AAATTTTTAATG-AAAATTTTCAATACCATGATAATCATTTTATATTAAAAAAGTTACTCTAATA
1 AAATCTTTAATGAAAAATTTTCAAAACCATGATAACCATTTTATATAAAAAAAGTTACTCTAATA
945813 TTTTGTATAACACTTTTAACAATTAATTAT
66 TTTTGTATAACACTTTTAACAATTAATTAT
945843 AA
1 AA
945845 GTAAAATTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 79 0.88
95 11 0.12
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (95 bp):
AAATCTTTAATGAAAAATTTTCAAAACCATGATAACCATTTTATATAAAAAAAGTTACTCTAATA
TTTTGTATAACACTTTTAACAATTAATTAT
Found at i:959207 original size:13 final size:13
Alignment explanation
Indices: 959133--959209 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
959123 TATTTCCAAC
*
959133 AAAAAGCTTAATT
1 AAAAAGTTTAATT
*
959146 AAAAA-CTTACATGT
1 AAAAAGTTTA-AT-T
*
959160 GAAAA-TTTAATT
1 AAAAAGTTTAATT
*
959172 AAAAATTTTATATCT
1 AAAAAGTTTA-AT-T
*
959187 ATAAAGTTTAATT
1 AAAAAGTTTAATT
959200 AAAAAGTTTA
1 AAAAAGTTTA
959210 TATGTGAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
12 9 0.17
13 23 0.43
14 12 0.23
15 9 0.17
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (13 bp):
AAAAAGTTTAATT
Found at i:959421 original size:28 final size:27
Alignment explanation
Indices: 959349--959452 Score: 82
Period size: 28 Copynumber: 3.7 Consensus size: 27
959339 TTCTATAAGT
* *
959349 AAAATTTTAATTAAAAATTTCATATATA
1 AAAAGTTTAATTGAAAATTT-ATATATA
* ** *
959377 AAATGTGCAGTTGAAAATTGTATATATA
1 AAAAGTTTAATTGAAAATT-TATATATA
* * * *
959405 AAAAGTTTAATTTAAAATTCTATTTGTG
1 AAAAGTTTAATTGAAAATT-TATATATA
*
959433 TAAAGTTTAATTGAAAATTT
1 AAAAGTTTAATTGAAAATTT
959453 CACATAAAAG
Statistics
Matches: 58, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
27 1 0.02
28 56 0.97
29 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (27 bp):
AAAAGTTTAATTGAAAATTTATATATA
Found at i:959976 original size:17 final size:18
Alignment explanation
Indices: 959946--959979 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
959936 TTTGGTATTT
*
959946 TTTTGGGATTTTAAGAAG
1 TTTTGGGATCTTAAGAAG
959964 TTTT-GGATCTTAAGAA
1 TTTTGGGATCTTAAGAA
959980 AAAGGCTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.44
Consensus pattern (18 bp):
TTTTGGGATCTTAAGAAG
Found at i:964264 original size:51 final size:51
Alignment explanation
Indices: 964201--964339 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
964191 ATTTGCCTGT
* * *
964201 ATGTATCGATACATTGAAGAATGTACTGATACATTTAGGTCAAAATC-CAAA
1 ATGTATCGATACAATGAAAAATGTA-TGATACATTTAGGTCAAAAACTCAAA
* * *
964252 ATGTATCAATACAATGAATAATGTATCGATACATTTGGGTCAAAAACTCAAA
1 ATGTATCGATACAATGAAAAATGTAT-GATACATTTAGGTCAAAAACTCAAA
* *
964304 ATATATCGATATAATGAAAAATGTATTGATACATTT
1 ATGTATCGATACAATGAAAAATGTA-TGATACATTT
964340 TCTTTTCAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.01
51 40 0.53
52 34 0.45
53 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATGATACATTTAGGTCAAAAACTCAAA
Found at i:964423 original size:20 final size:20
Alignment explanation
Indices: 964398--964435 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
964388 TTTCAGACAC
*
964398 GTATCGATACATTTACTTGT
1 GTATCGATACATTCACTTGT
964418 GTATCGATACATTCACTT
1 GTATCGATACATTCACTT
964436 ATTATAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTCACTTGT
Found at i:966068 original size:23 final size:22
Alignment explanation
Indices: 966042--966089 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
966032 ATTATACATG
*
966042 TATTATTACTTTTATTTACAAAT
1 TATTATTA-ATTTATTTACAAAT
* *
966065 TATTTTTAATTTATTTATAAAT
1 TATTATTAATTTATTTACAAAT
966087 TAT
1 TAT
966090 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTAATTTATTTACAAAT
Found at i:969874 original size:92 final size:92
Alignment explanation
Indices: 969762--969937 Score: 217
Period size: 92 Copynumber: 1.9 Consensus size: 92
969752 ATCTTTCAAC
* * * * * *
969762 TGTGATATTTACAATCAATCAACTTTTCAGCTTTTCTATAAAAAAGAATCTGATTCTTAAATATA
1 TGTGATACTTACAATCAATCAAATTTTCAGCTTTTCTACAAAAAAGAATCCGATTCTCAAATACA
*
969827 ATTTATGCATTAGTCTAATATTGGCAG
66 ATTCATGCATTAGTCTAATATTGGCAG
* *** * * **
969854 TGTGATACTTATAATCAATCAAATTTTCTTTTTTTCTACCAAAAGGAATCCGATTCTCATGTACA
1 TGTGATACTTACAATCAATCAAATTTTCAGCTTTTCTACAAAAAAGAATCCGATTCTCAAATACA
969919 ATTCATGCATTAGTCTAAT
66 ATTCATGCATTAGTCTAAT
969938 CCTTACAATC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (92 bp):
TGTGATACTTACAATCAATCAAATTTTCAGCTTTTCTACAAAAAAGAATCCGATTCTCAAATACA
ATTCATGCATTAGTCTAATATTGGCAG
Found at i:970002 original size:164 final size:164
Alignment explanation
Indices: 969793--970105 Score: 441
Period size: 164 Copynumber: 1.9 Consensus size: 164
969783 ACTTTTCAGC
* * *
969793 TTTTCTATAAAAAAGAATCTGATTCTTAAATATAATTTATGCATTAGTCTAAT-ATTGGCAGTGT
1 TTTTCTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCATT-GCAGTGT
* * * **
969857 GATACTTATAATCAATCAAAT-TTTCTTTTTTTCTACCAAAAGGAATCCGATTCTCATGTACAAT
65 GACACTTATAATCAATC-AATCTTTCTTTTTTTCTACAAAAAAGAATCCGATTCTCAAATACAAT
969921 TCATGCATTAGTCTAATCCTTACAATCTTTCTTTTT
129 TCATGCATTAGTCTAATCCTTACAATCTTTCTTTTT
* * * *
969957 TTTTCTGTAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTTTG
1 TTTTCTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCATTGCAGTGTG
* * * * *
970022 ACATTTATAATCAATCAGTCTTTCTTTTTTTCTATAAAAAAGAATCTGATTCTCAAATATAATTC
66 ACACTTATAATCAATCAATCTTTCTTTTTTTCTACAAAAAAGAATCCGATTCTCAAATACAATTC
970087 ATGCATTAGTCTAATCCTT
131 ATGCATTAGTCTAATCCTT
970106 GTAGTCTAAC
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
163 2 0.02
164 126 0.97
165 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (164 bp):
TTTTCTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCATTGCAGTGTG
ACACTTATAATCAATCAATCTTTCTTTTTTTCTACAAAAAAGAATCCGATTCTCAAATACAATTC
ATGCATTAGTCTAATCCTTACAATCTTTCTTTTT
Found at i:970098 original size:92 final size:92
Alignment explanation
Indices: 969954--970354 Score: 521
Period size: 91 Copynumber: 4.4 Consensus size: 92
969944 AATCTTTCTT
* *
969954 TTTTTTTCTGTAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGT
1 TTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGT
* * *
970019 TTGACATTTATAATCAATC-AGTCTTTC
66 TTAACATTTACAATCAATCAACT-TTTC
* *
970046 TTTTTTTCTATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTAGT
1 TTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGT
* ***
970111 CTAACATTTACAATTGGTCAACTTTTC
66 TTAACATTTACAATCAATCAACTTTTC
* ** * * *
970138 TTTTTTTTTAT-AAAAAGAATCCAATTCTCAGATATAATTTATACATTAGTCTAATTCTTGCAGT
1 TTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGT
*
970202 TTAACATTTAAAATCAATCAACTTTTC
66 TTAACATTTACAATCAATCAACTTTTC
* * *
970229 TTTTTTTCTATAAAAAA-AATTTGATTCTCAGATATAATTTATGCATTAGTCTAATCTTTGTCA-
1 TTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG-CAG
*
970292 TTTGACATTTACAATCAATCAACTTTTC
65 TTTAACATTTACAATCAATCAACTTTTC
*
970320 -TTTTTT-TATAAAAAAG--TCTGATTCTTAGATATAAT
1 TTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAAT
970355 CACATTTATT
Statistics
Matches: 270, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
88 17 0.06
89 9 0.03
90 6 0.02
91 141 0.52
92 95 0.35
93 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (92 bp):
TTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGT
TTAACATTTACAATCAATCAACTTTTC
Found at i:975311 original size:19 final size:18
Alignment explanation
Indices: 975281--975316 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
975271 TATGTAACAT
*
975281 ATAATGTTATATTTAATG
1 ATAATGTTATATATAATG
975299 ATAATGTTTATATATAAT
1 ATAATG-TTATATATAAT
975317 ATGGTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (18 bp):
ATAATGTTATATATAATG
Found at i:975444 original size:20 final size:19
Alignment explanation
Indices: 975413--975476 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
975403 AAACTCTTAG
* *
975413 ATAATGTTTTATGTAATTT
1 ATAATATTTTATGTAATTA
* *
975432 GTAATATTTTTATATAATATA
1 ATAATA-TTTTATGTAAT-TA
975453 ATAATATTTTATGTAATT-
1 ATAATATTTTATGTAATTA
975471 ATAATA
1 ATAATA
975477 AAATACATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 6 0.16
19 5 0.14
20 20 0.54
21 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
ATAATATTTTATGTAATTA
Found at i:975459 original size:21 final size:21
Alignment explanation
Indices: 975433--975477 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
975423 ATGTAATTTG
975433 TAATATTTTTATATAA-TATAA
1 TAATA-TTTTATATAATTATAA
*
975454 TAATATTTTATGTAATTATAA
1 TAATATTTTATATAATTATAA
975475 TAA
1 TAA
975478 AATACATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TAATATTTTATATAATTATAA
Found at i:975492 original size:25 final size:26
Alignment explanation
Indices: 975444--975492 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
975434 AATATTTTTA
* *
975444 TATAATATAATAATATTTTATGTAAT
1 TATAATAAAATAACATTTTATGTAAT
975470 TATAATAAAAT-ACATTTTATGTA
1 TATAATAAAATAACATTTTATGTA
975493 TAAATTACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
TATAATAAAATAACATTTTATGTAAT
Found at i:979607 original size:30 final size:29
Alignment explanation
Indices: 979573--979652 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 29
979563 TAAATTTCAG
979573 TTTTATTAATTTTTAGTGAATTT-T-TACGTA
1 TTTTATTAATTTTTA-TGAATTTATCTA--TA
* *
979603 TTTTAATATATATTTATGAATTTATCTATA
1 TTTTATTA-ATTTTTATGAATTTATCTATA
979633 TTTTAATTAA-TTTTATGAAT
1 TTTT-ATTAATTTTTATGAAT
979653 AACTTATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
29 9 0.21
30 21 0.50
31 10 0.24
32 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.59
Consensus pattern (29 bp):
TTTTATTAATTTTTATGAATTTATCTATA
Found at i:980449 original size:37 final size:38
Alignment explanation
Indices: 980390--980561 Score: 162
Period size: 37 Copynumber: 4.6 Consensus size: 38
980380 AAACCATGTT
*
980390 ATCGGTTAAGAATAAT-AGTTTTGTATTGAACTGTGCC
1 ATCGGTTAAGAATAGTGAGTTTTGTATTGAACTGTGCC
*
980427 ATCGATTAAGAATAGTGA-TTTTGTATTGAA-TCGTGCC
1 ATCGGTTAAGAATAGTGAGTTTTGTATTGAACT-GTGCC
* * *
980464 ACCGGTTAAGAATAGTG-GTTTTTGTTTTGAACTGTGTC
1 ATCGGTTAAGAATAGTGAG-TTTTGTATTGAACTGTGCC
* * *
980502 ATCGGTTTAA-AATAGTAATTTTTGT-TTCAAACTGTGCC
1 ATCGG-TTAAGAATAGTGAGTTTTGTATT-GAACTGTGCC
*
980540 A-CTGGTTTAGAATAGT-AGTTTT
1 ATC-GGTTAAGAATAGTGAGTTTT
980562 CATTTCGAAC
Statistics
Matches: 112, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
36 1 0.01
37 57 0.51
38 49 0.44
39 5 0.04
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (38 bp):
ATCGGTTAAGAATAGTGAGTTTTGTATTGAACTGTGCC
Found at i:980505 original size:75 final size:76
Alignment explanation
Indices: 980392--980561 Score: 204
Period size: 76 Copynumber: 2.3 Consensus size: 76
980382 ACCATGTTAT
* *
980392 CGGTTAAGAATAATAG-TTTTGTATTGAACTGTGCCATC-GATTAAGAATAGTGA-TTTTGTATT
1 CGGTTAAGAATAGTAGTTTTTGTATTGAACTGTGCCATCGGATTAA-AATAGTAATTTTTGT-TT
* *
980454 GAATC-GTGCCAC
64 CAAACTGTGCCAC
* * * *
980466 CGGTTAAGAATAGTGGTTTTTGTTTTGAACTGTGTCATCGGTTTAAAATAGTAATTTTTGTTTCA
1 CGGTTAAGAATAGTAGTTTTTGTATTGAACTGTGCCATCGGATTAAAATAGTAATTTTTGTTTCA
980531 AACTGTGCCAC
66 AACTGTGCCAC
* *
980542 TGGTTTAGAATAGTAGTTTT
1 CGGTTAAGAATAGTAGTTTT
980562 CATTTCGAAC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
74 14 0.17
75 32 0.40
76 35 0.43
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (76 bp):
CGGTTAAGAATAGTAGTTTTTGTATTGAACTGTGCCATCGGATTAAAATAGTAATTTTTGTTTCA
AACTGTGCCAC
Found at i:980508 original size:38 final size:38
Alignment explanation
Indices: 980390--980561 Score: 176
Period size: 38 Copynumber: 4.6 Consensus size: 38
980380 AAACCATGTT
*
980390 ATCGGTTAAGAATAATAG-TTTTGTATTGAACTGTGCC
1 ATCGGTTAAGAATAGTAGTTTTTGTATTGAACTGTGCC
* *
980427 ATCGATTAAGAATAGT-GATTTTGTATTGAA-TCGTGCC
1 ATCGGTTAAGAATAGTAGTTTTTGTATTGAACT-GTGCC
* * * *
980464 ACCGGTTAAGAATAGTGGTTTTTGTTTTGAACTGTGTC
1 ATCGGTTAAGAATAGTAGTTTTTGTATTGAACTGTGCC
* *
980502 ATCGGTTTAA-AATAGTAATTTTTGT-TTCAAACTGTGCC
1 ATCGG-TTAAGAATAGTAGTTTTTGTATT-GAACTGTGCC
*
980540 A-CTGGTTTAGAATAGTAGTTTT
1 ATC-GGTTAAGAATAGTAGTTTT
980562 CATTTCGAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 15
0.80 0.10 0.11
Matches are distributed among these distances:
36 2 0.02
37 51 0.45
38 55 0.49
39 5 0.04
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (38 bp):
ATCGGTTAAGAATAGTAGTTTTTGTATTGAACTGTGCC
Found at i:984137 original size:21 final size:21
Alignment explanation
Indices: 984113--984159 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
984103 TTCTATAATT
984113 TGTATCAATACAATAAGTGAA
1 TGTATCAATACAATAAGTGAA
**
984134 TGTATTGATACAATAAGTGAA
1 TGTATCAATACAATAAGTGAA
984155 TGTAT
1 TGTAT
984160 TGACATAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (21 bp):
TGTATCAATACAATAAGTGAA
Found at i:984160 original size:21 final size:21
Alignment explanation
Indices: 984120--984162 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
984110 ATTTGTATCA
984120 ATACAATAAGTGAATGTATTG
1 ATACAATAAGTGAATGTATTG
984141 ATACAATAAGTGAATGTATTG
1 ATACAATAAGTGAATGTATTG
984162 A
1 A
984163 CATAGGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.33
Consensus pattern (21 bp):
ATACAATAAGTGAATGTATTG
Found at i:986594 original size:96 final size:96
Alignment explanation
Indices: 986455--986664 Score: 262
Period size: 97 Copynumber: 2.2 Consensus size: 96
986445 AATTTTATTT
** * *
986455 ATCGGGGATACTCTAACCCCATCTTCCGAGGGGATACTCCAA-CCTTTTTTTTAA-CTCGTTAAG
1 ATCGGGGATACTCTAACCCCATCTTCCGAGGGGATACTCCAACCCCGTTTTTAAATCTC-TCAAG
* * *
986518 ATTTAAATTTTATTTTTGCTTAAATTGTCAAC
65 ATTTAAATCTTATTTGTGCTCAAATTGTCAAC
* * * *
986550 ATCGGGGATACTCCAACCCTATTCTTTCGAGGGGATACTCCAACCCCGTTTTTAAATTTCTCAAG
1 ATCGGGGATACTCTAACCCCA-TCTTCCGAGGGGATACTCCAACCCCGTTTTTAAATCTCTCAAG
*
986615 ATTTAAATCTTATTTGTGCTCAAATTGTCATC
65 ATTTAAATCTTATTTGTGCTCAAATTGTCAAC
* *
986647 ATCAGGAATACTCTAACC
1 ATCGGGGATACTCTAACC
986665 TCATTATTCT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 19 0.20
96 20 0.21
97 56 0.58
98 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (96 bp):
ATCGGGGATACTCTAACCCCATCTTCCGAGGGGATACTCCAACCCCGTTTTTAAATCTCTCAAGA
TTTAAATCTTATTTGTGCTCAAATTGTCAAC
Found at i:992537 original size:159 final size:164
Alignment explanation
Indices: 992315--992633 Score: 513
Period size: 159 Copynumber: 2.0 Consensus size: 164
992305 AATTCTTTAG
* *
992315 AATCGGATATGAAAATATTTGTACTATTTTATTGTATCTTTTTACTATTATAATTTTACTATAAC
1 AATCAGATATGAAAATATTTGTACTATTTTATTGTATCTTTTTACGATTATAATTTTACTATAAC
*
992380 TCTACTAAAT-A-ATT-TATAT-T-TATATCTATGAAAGAAATTATGTTCATGGGATATATTTTG
66 TCTACTAAATGATATTATATATATATATATCTATGAAAGAAATTATGTTCATGAGATATATTTTG
992440 TGTATAAAATATGTGTAGTTTCTAAAAACCCTAA
131 TGTATAAAATATGTGTAGTTTCTAAAAACCCTAA
* * * * *
992474 AATCAGATATGAAAATATTTTTGCTATTTTATTGTATCTTTTTACGATTGTAATTTTGCTATAAT
1 AATCAGATATGAAAATATTTGTACTATTTTATTGTATCTTTTTACGATTATAATTTTACTATAAC
*
992539 TCTACTAAATGATTTTTATATATATATATATCTATGAAAGAAATTATGTTCATGAGATATATTTT
66 TCTACTAAATGA-TATTATATATATATATATCTATGAAAGAAATTATGTTCATGAGATATATTTT
992604 GTGTATAAAATATGTGTAGTTTCTAAAAAC
130 GTGTATAAAATATGTGTAGTTTCTAAAAAC
992634 AAAAAATATA
Statistics
Matches: 145, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
159 68 0.47
160 1 0.01
162 2 0.01
163 5 0.03
164 1 0.01
165 68 0.47
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (164 bp):
AATCAGATATGAAAATATTTGTACTATTTTATTGTATCTTTTTACGATTATAATTTTACTATAAC
TCTACTAAATGATATTATATATATATATATCTATGAAAGAAATTATGTTCATGAGATATATTTTG
TGTATAAAATATGTGTAGTTTCTAAAAACCCTAA
Found at i:992846 original size:20 final size:20
Alignment explanation
Indices: 992823--992865 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
992813 TCATTAATTC
*
992823 AAATCAAATCAAAATAAA-AA
1 AAATCAAAACAAAA-AAAGAA
992843 AAATCAAAACAAAAAAAGAA
1 AAATCAAAACAAAAAAAGAA
992863 AAA
1 AAA
992866 GTTATGGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.09
Consensus pattern (20 bp):
AAATCAAAACAAAAAAAGAA
Found at i:992848 original size:15 final size:15
Alignment explanation
Indices: 992828--992859 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
992818 AATTCAAATC
*
992828 AAATCAAAATAAAAA
1 AAATCAAAACAAAAA
992843 AAATCAAAACAAAAA
1 AAATCAAAACAAAAA
992858 AA
1 AA
992860 GAAAAAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (15 bp):
AAATCAAAACAAAAA
Found at i:997555 original size:14 final size:14
Alignment explanation
Indices: 997536--997563 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
997526 ACATTCATAC
997536 ATGTATCGATACAT
1 ATGTATCGATACAT
997550 ATGTATCGATACAT
1 ATGTATCGATACAT
997564 TGAAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:999376 original size:79 final size:78
Alignment explanation
Indices: 999240--999468 Score: 246
Period size: 79 Copynumber: 2.9 Consensus size: 78
999230 TGGGGATAAC
* * * * * *
999240 AACGGGGCTAGAGTATCCCCGATTAT-AGAAAATCAATGTTTTGAAAATAAAATCAGGGTTGGAG
1 AACGGGGTTAGAGTATCCCCGATTGTGA-AAAATCGATGTTTAG-AAATAAAACCAGGGTTAGAG
* *
999304 TATCCCCTCGAAAAT
64 TATCCCCGCAAAAAT
**
999319 AACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCAGGGTTAGAGT
1 AACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATG-TTTAGAAATAAAACCAGGGTTAGAGT
999384 ATCCCCGCAAAAAT
65 ATCCCCGCAAAAAT
* * * * * * *
999398 AACAGGGTTAGAGTATCTCCGATTGCGAAAAATTGGTGTTTTAGAAATAAAA-TAGGGGTTGGAG
1 AACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATG-TTTAGAAATAAAACCA-GGGTTAGAG
999462 TATCCCC
64 TATCCCC
999469 AATTGTGAGA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.01
79 121 0.95
80 5 0.04
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (78 bp):
AACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTAGAAATAAAACCAGGGTTAGAGTA
TCCCCGCAAAAAT
Found at i:999482 original size:130 final size:129
Alignment explanation
Indices: 999322--999597 Score: 304
Period size: 130 Copynumber: 2.1 Consensus size: 129
999312 CGAAAATAAC
* * * * *
999322 GGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTT-AGAAATAAGGCCAGGGTTAGAGTAT
1 GGGGTTGGAGTATCCCCAATTGTGAAAAATCAAT-ATTTAAGAAATAAAGCCAGGGTTAGAGTAT
* * * *
999386 CCCCGCAAAAATAACAGGGTTAGAGTATCTCCGATTGCGAAAAATTGGTGTTTT-AGAAATAAAA
65 CACCGCAAAAATAA-AGGGTTAGAGTATCCCCGATTACGAAAAATTGATGTTTTGA-AAATAAAA
*
999450 TA
128 CA
* * * *
999452 GGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTAAGAAATAAAGTCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTAAGAAATAAAGCCAGGGTTAGAGTATC
** * * * * * *
999517 ACTTCGAAAATAAGGGGTTGGAGTATCCCCTATTATGAAAAATTGATGTTTTGAAAATAAAACC
66 ACCGCAAAAATAAAGGGTTAGAGTATCCCCGATTACGAAAAATTGATGTTTTGAAAATAAAACA
*
999581 GGGGTTGAAGTATCCCC
1 GGGGTTGGAGTATCCCC
999598 CGAGATGAAA
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
129 59 0.49
130 62 0.51
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (129 bp):
GGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTAAGAAATAAAGCCAGGGTTAGAGTATC
ACCGCAAAAATAAAGGGTTAGAGTATCCCCGATTACGAAAAATTGATGTTTTGAAAATAAAACA
Found at i:999584 original size:78 final size:77
Alignment explanation
Indices: 999446--999594 Score: 183
Period size: 78 Copynumber: 1.9 Consensus size: 77
999436 TTTTAGAAAT
* * ** *
999446 AAAATAGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTAAGAAATAAAGTCGGGGTTGG
1 AAAATAGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAAGAAATAAAACCGGGGTTGA
999511 AGTATCACTTCG
66 AGTATCACTTCG
* ** * *
999523 AAAATAAGGGGTTGGAGTATCCCCTATTATGAAAAATTGATGTTT-TGAAAATAAAACCGGGGTT
1 AAAAT-AGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAAG-AAATAAAACCGGGGTT
999587 GAAGTATC
64 GAAGTATC
999595 CCCCGAGATG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 6 0.10
78 54 0.90
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (77 bp):
AAAATAGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAAGAAATAAAACCGGGGTTGA
AGTATCACTTCG
Found at i:1001957 original size:13 final size:13
Alignment explanation
Indices: 1001939--1001968 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1001929 GTAAACCCAA
1001939 AATGTATCGATAC
1 AATGTATCGATAC
1001952 AATGTATCGATAC
1 AATGTATCGATAC
1001965 AATG
1 AATG
1001969 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1001980 original size:62 final size:63
Alignment explanation
Indices: 1001890--1002018 Score: 197
Period size: 62 Copynumber: 2.1 Consensus size: 63
1001880 AAAATGCCTG
* *
1001890 AATGTATCGATACATTGAAAAATATATCGATACATCTGGGT-AAACCCAAAATGTATCGATAC
1 AATGTATCGATACAATGAAAAATATATCGATACATCTGGGTAAAACCCAAAATGCATCGATAC
* * * *
1001952 AATGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACCCAGAATGCATCGATGC
1 AATGTATCGATACAATGAAAAATATATCGATACATCTGGGTAAAACCCAAAATGCATCGATAC
1002015 AATG
1 AATG
1002019 AACAATGTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
62 38 0.63
63 22 0.37
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (63 bp):
AATGTATCGATACAATGAAAAATATATCGATACATCTGGGTAAAACCCAAAATGCATCGATAC
Found at i:1002032 original size:50 final size:50
Alignment explanation
Indices: 1001952--1002085 Score: 241
Period size: 50 Copynumber: 2.7 Consensus size: 50
1001942 GTATCGATAC
* *
1001952 AATGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACCCAG
1 AATGCATCGATGCAATGAACAATGTATCGATACATCTGGGTAAAACCCAG
1002002 AATGCATCGATGCAATGAACAATGTATCGATACATCTGGGTAAAACCCAG
1 AATGCATCGATGCAATGAACAATGTATCGATACATCTGGGTAAAACCCAG
*
1002052 AATGCATCGATGCAATGAACAATGTATCAATACA
1 AATGCATCGATGCAATGAACAATGTATCGATACA
1002086 AATTGTGAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (50 bp):
AATGCATCGATGCAATGAACAATGTATCGATACATCTGGGTAAAACCCAG
Found at i:1005562 original size:10 final size:10
Alignment explanation
Indices: 1005547--1005580 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
1005537 GGATTTTTTT
1005547 AAAAGAAAAA
1 AAAAGAAAAA
1005557 AAAAGAAAACAA
1 AAAAG-AAA-AA
1005569 AAAAGAAAAA
1 AAAAGAAAAA
1005579 AA
1 AA
1005581 TATAGATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.41
11 6 0.27
12 7 0.32
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:1005572 original size:12 final size:11
Alignment explanation
Indices: 1005547--1005580 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
1005537 GGATTTTTTT
1005547 AAAAG-AAAAA
1 AAAAGAAAAAA
1005557 AAAAGAAAACAA
1 AAAAGAAAA-AA
1005569 AAAAGAAAAAA
1 AAAAGAAAAAA
1005580 A
1 A
1005581 TATAGATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 6 0.27
12 11 0.50
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:1007163 original size:77 final size:77
Alignment explanation
Indices: 1007025--1007173 Score: 181
Period size: 77 Copynumber: 1.9 Consensus size: 77
1007015 TTATTGATGC
* * * * * * * *
1007025 TTACATTTGCATTATTTCACGCATATCTGCATTTTAAATGACGTTATTGTTTGCATTATTTCATA
1 TTACATTTGCATCATTTCACACACATCTGCACTTTAAATGACATTAGTATTTGCATCATTTCATA
1007090 TGCATTTGCCTT
66 TGCATTTGCCTT
* * * *
1007102 TTACATTTGTATCATTTCACACACATTTGCACTTTAAATGACATTGGTATTTGTATCATTTCATA
1 TTACATTTGCATCATTTCACACACATCTGCACTTTAAATGACATTAGTATTTGCATCATTTCATA
*
1007167 TTCATTT
66 TGCATTT
1007174 TCCATTTCAT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
77 59 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (77 bp):
TTACATTTGCATCATTTCACACACATCTGCACTTTAAATGACATTAGTATTTGCATCATTTCATA
TGCATTTGCCTT
Found at i:1008245 original size:41 final size:41
Alignment explanation
Indices: 1008163--1008271 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
1008153 CCCTGGTGTA
* * * *
1008163 CTTTCTAACTTGTTGATTTGCATGGTTTCATCCCGATCAAC
1 CTTTCTAACTTGTTGACTTGTATGGTTTCATCCCAAACAAC
1008204 CTTTCTAACTTGTTGACTTGTATGGTTTCATCCCAAACAAC
1 CTTTCTAACTTGTTGACTTGTATGGTTTCATCCCAAACAAC
** **
1008245 CCCTCTAACTCATTGACTTGT-TGGTTT
1 CTTTCTAACTTGTTGACTTGTATGGTTT
1008272 TCTCTCAGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 6 0.10
41 54 0.90
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (41 bp):
CTTTCTAACTTGTTGACTTGTATGGTTTCATCCCAAACAAC
Found at i:1008489 original size:41 final size:41
Alignment explanation
Indices: 1008357--1008489 Score: 126
Period size: 41 Copynumber: 3.2 Consensus size: 41
1008347 CCTTGGTCTA
** ** *
1008357 CTTTCTAACTCGTTGACTTATATGGTTTCATTTCAG-TCAAC
1 CTTTCTAACTCGTTGACTCGTACAGTTTCA-TCCAGATCAAC
* * * *
1008398 CATCCTAACTCGTTGACTCGTATAGTTTCATCCTGATCAAC
1 CTTTCTAACTCGTTGACTCGTACAGTTTCATCCAGATCAAC
* * *
1008439 CTTTCTAACTCGTTGACTTGTACAGTTTCTTCCAGGTCAAC
1 CTTTCTAACTCGTTGACTCGTACAGTTTCATCCAGATCAAC
1008480 TCTTT-TAACT
1 -CTTTCTAACT
1008490 TGTTAGTTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 69 0.91
42 4 0.05
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (41 bp):
CTTTCTAACTCGTTGACTCGTACAGTTTCATCCAGATCAAC
Found at i:1008563 original size:195 final size:192
Alignment explanation
Indices: 1008141--1008701 Score: 619
Period size: 194 Copynumber: 2.9 Consensus size: 192
1008131 CTCTTTTTCG
* * * * *
1008141 ACTTAGGTTTTGCCCTGGTGTACTTTCTAACTTGTTGATTTGCATGGTTTCATCCCGATCAACCT
1 ACTTAGGTTTTGCCCTGGTCTACTTTCTAACTCGTTGACTTGTATGGTTTCATCCAG-TCAACCT
* * * * ** *
1008206 TTCTAACTTGTTGACTTGTATGGTTTCATCCCAAACAACCCCTCTAACTCATTGACTTGT-TGGT
65 TTCTAACTCGTTGACTCGTATGGTTTCATCCTAATCAACCTTTCTAACTCGTTGACTTGTATGGT
* * * * ** * *
1008270 TTTCTCTCA-GTCAACTTTTTTAACTTGTTGTTTCGTATGATTTTGTCTTGGCCAGCTCCTTTTC
130 TTT-TC-CAGGTCAACTATTTTAACTTGTTG-TTCATATGGTTTTATCCCGGCCAACTCCTTCTC
*
1008334 G
192 A
* * * * *
1008335 ACTTAGGTTTTACCTTGGTCTACTTTCTAACTCGTTGACTTATATGGTTTCATTTCAGTCAACCA
1 ACTTAGGTTTTGCCCTGGTCTACTTTCTAACTCGTTGACTTGTATGGTTTCA-TCCAGTCAACCT
* * * **
1008400 TCCTAACTCGTTGACTCGTATAGTTTCATCCTGATCAACCTTTCTAACTCGTTGACTTGTACAGT
65 TTCTAACTCGTTGACTCGTATGGTTTCATCCTAATCAACCTTTCTAACTCGTTGACTTGTATGGT
* *
1008465 TTCTTCCAGGTCAACTCTTTTAACTTGTTAGTTCATATGGTTTTATCCCGGCCAATTCC-TCTCT
130 TT-TTCCAGGTCAACTATTTTAACTTGTT-GTTCATATGGTTTTATCCCGGCCAACTCCTTCTC-
1008529 A
192 A
* *
1008530 ACTTAGGTTTTGCCCTGGTCTATTTTTTAACTCGTTGACTTGTATGGTTTCATCCTAGTCAACCT
1 ACTTAGGTTTTGCCCTGGTCTACTTTCTAACTCGTTGACTTGTATGGTTTCATCC-AGTCAACCT
* * *
1008595 TTCTAACTCGTTGAATCGTATGGTTTCAT-CTAAGTCAACTTTTTTAACTCG-TGACTTGTATGG
65 TTCTAACTCGTTGACTCGTATGGTTTCATCCTAA-TCAACCTTTCTAACTCGTTGACTTGTATGG
* *
1008658 TTTTACCTAGGTCAACTATTTTAACTTGTTGGTTTATATGGTTT
129 TTTTTCC-AGGTCAACTATTTTAACTTGTT-GTTCATATGGTTT
1008702 CGTGATGACC
Statistics
Matches: 307, Mismatches: 51, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
193 3 0.01
194 157 0.51
195 145 0.47
196 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (192 bp):
ACTTAGGTTTTGCCCTGGTCTACTTTCTAACTCGTTGACTTGTATGGTTTCATCCAGTCAACCTT
TCTAACTCGTTGACTCGTATGGTTTCATCCTAATCAACCTTTCTAACTCGTTGACTTGTATGGTT
TTTCCAGGTCAACTATTTTAACTTGTTGTTCATATGGTTTTATCCCGGCCAACTCCTTCTCA
Found at i:1008672 original size:40 final size:40
Alignment explanation
Indices: 1008552--1008702 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 40
1008542 CCCTGGTCTA
1008552 TTTTTTAACTCGTTGACTTGTATGGTTTCATCCTAGTCAAC
1 TTTTTTAACTCGTTGACTTGTATGGTTTCA-CCTAGTCAAC
* * * * *
1008593 CTTTCTAACTCGTTGAATCGTATGGTTTCATCTAAGTCAAC
1 TTTTTTAACTCGTTGACTTGTATGGTTTCACCT-AGTCAAC
*
1008634 TTTTTTAACTCG-TGACTTGTATGGTTTTACCTAGGTCAAC
1 TTTTTTAACTCGTTGACTTGTATGGTTTCACCTA-GTCAAC
* * ** *
1008674 TATTTTAACTTGTTGGTTTATATGGTTTC
1 TTTTTTAACTCGTTGACTTGTATGGTTTC
1008703 GTGATGACCG
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 34 0.38
41 55 0.61
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.46
Consensus pattern (40 bp):
TTTTTTAACTCGTTGACTTGTATGGTTTCACCTAGTCAAC
Found at i:1008900 original size:41 final size:41
Alignment explanation
Indices: 1008854--1009003 Score: 126
Period size: 41 Copynumber: 3.7 Consensus size: 41
1008844 CTTAGTCTAT
*
1008854 TTTTTAACTTGTTGACTCGTATGGTTTCATCCCGATCAACC
1 TTTTTAACTCGTTGACTCGTATGGTTTCATCCCGATCAACC
* * *
1008895 TTTTTAACTCGTTGACTTGTATAGTTTCATCCC-AGTTAATCC
1 TTTTTAACTCGTTGACTCGTATGGTTTCATCCCGA-TCAA-CC
*** ** **
1008937 -CACTAACTCGTTGACTTATATGGTTTCATCTTGATCAA-C
1 TTTTTAACTCGTTGACTCGTATGGTTTCATCCCGATCAACC
* **
1008976 TCTTTTAACTTGTTGGTTCGTATGGTTT
1 T-TTTTAACTCGTTGACTCGTATGGTTT
1009004 TGTTCCAGTC
Statistics
Matches: 84, Mismatches: 20, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 79 0.94
42 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (41 bp):
TTTTTAACTCGTTGACTCGTATGGTTTCATCCCGATCAACC
Found at i:1009180 original size:41 final size:41
Alignment explanation
Indices: 1009048--1009720 Score: 199
Period size: 41 Copynumber: 17.2 Consensus size: 41
1009038 TGTTGGTTTA
* * *
1009048 CTTTTTAACTCGTTGGCTCATATGGTTTCATCCTGGTTAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
* * * *
1009089 CTTTCTAAATCATTAACTCATATGATTTCATCCTGGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
* **
1009130 CTCTCTAACTCGTTGACTTGTATGGTTTCATCCTGGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
* * * ** *
1009171 TTTTTTAACTTGTTGGTTTATATGGTTTCAT-C---TCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
** * * * * * * **
1009208 C-AACT-CCT-TTTCGACT--TA-AGTTTCGTCTTAGTTTA-
1 CTTTCTAACTCGTT-GACTCATATGGTTTCATCCTGGTCAAC
1009243 CTTTCTAACTCGTTGACTCATATGGTTTCAT-CTCGGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCT-GGTCAAC
* * * * *
1009284 TTTTTTAACTTGTTAACTCATATGGTTTCATCTTGGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
* * ** *
1009325 CTTTCTAACTCATTAACTTGTATGGTTT-AGT-CTCGATCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCA-TCCT-GGTCAAC
* ** * ** *
1009366 TCTTT-TAACTTGTTGGTTCTTATGGTTTCATCCCAG-CTAATT
1 -CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTC-AA-C
* **
1009408 CTTT-T---T--TT-A--CATAT-ATTTCATCCTGGTTTA-
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
* * * * *
1009438 CTTTTTAACT-ATTGACACGTATGGTTTCAT-TTCGGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCT-GGTCAAC
* * *
1009478 CATTCTAACTCATTGACTAATATGGTTTCAT-CTCGGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCT-GGTCAAC
* ** ** **
1009519 CTTTTTAACTTATTGACTTGTATGGTTT-AGTCCCAGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCA-TCCTGGTCAAC
* * ** * * **
1009560 TCCTT-TAACTTGTTGGTTCGTATGGTTTCATCCCGACCAATC
1 -CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAA-C
*** * *
1009602 CTTT-T---T--TT-ACT--TA-GGTTTTGCCCTAGTCTA-
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
* *
1009632 CTTTCTAACTCGTTGACTCATATGGTTTCGTCTTGGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
* * * ** *
1009673 CATTCTAACTCGTTGACTCATACGATTTTGTCCTAGTCAAC
1 CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
1009714 CTTTCTA
1 CTTTCTA
1009721 GCTCATTACT
Statistics
Matches: 458, Mismatches: 124, Indels: 100
0.67 0.18 0.15
Matches are distributed among these distances:
30 8 0.02
31 2 0.00
32 25 0.05
33 8 0.02
34 4 0.01
35 8 0.02
36 12 0.03
37 14 0.03
38 9 0.02
39 15 0.03
40 34 0.07
41 306 0.67
42 13 0.03
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (41 bp):
CTTTCTAACTCGTTGACTCATATGGTTTCATCCTGGTCAAC
Found at i:1009540 original size:194 final size:194
Alignment explanation
Indices: 1008759--1009987 Score: 925
Period size: 195 Copynumber: 6.3 Consensus size: 194
1008749 TTGTTGAGTC
* * * ** * *
1008759 GTATGGTTTCATCTCGGTTAACTTTTTTAACTTGTTGGTTCGTATTATTTCATCCCGGTTAATT-
1 GTATGGTTTCATCTCGATCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAGCTAATTC
* * * * * * * **
1008823 TCTTTTTGACTTAGGTTT--TGCCTTAGTCTATTTTTTAACTTGTTGACTCGTATGGTTTCATCC
66 T-TTTTTTACTTA-ATTTCAT-CC-TGGTTTACTTTTTAACTCGTTGACTCATATGGTTTCATTT
* * * ** * ** * ** *
1008886 CGATCAACCTTTTTAACTCGTTGACTTGTATAGTTTCATCCCAGTTAATCC-CACTAACTCGTTG
127 CGGTCAACCTTTCTAACTCATTGACTCATATGGTTTCATCCTGGTCAA-CCTTTCTAACTCATTG
1008950 ACTT
191 ACTT
* * ** * *
1008954 ATATGGTTTCATCTTGATCAACTCTTTTAACTTGTTGGTTCGTATGGTTTTGTTCCAG-TCAACT
1 GTATGGTTTCATCTCGATCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAGCT-AATT
** * ** * *
1009018 CTTTTTCAACTTAGGTTTCATGTTGGTTTACTTTTTAACTCGTTGGCTCATATGGTTTCA-TCCT
65 CTTTTTTTACTTA-ATTTCATCCTGGTTTACTTTTTAACTCGTTGACTCATATGGTTTCATTTC-
* * * * * *
1009082 GGTTAACCTTTCTAAATCATTAACTCATATGATTTCATCCTGGTCAACCTCTCTAACTCGTTGAC
128 GGTCAACCTTTCTAACTCATTGACTCATATGGTTTCATCCTGGTCAACCTTTCTAACTCATTGAC
1009147 TT
193 TT
* * ** * * * *
1009149 GTATGGTTTCATC-CTGGTCAACTTTTTTAACTTGTTGGTTTATATGGTTTCATCTCAACCAACT
1 GTATGGTTTCATCTC-GATCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAGCTAATT
* ** * * * * *
1009213 CCTTTTCGACTTAAGTTTCGTCTTAGTTTACTTTCTAACTCGTTGACTCATATGGTTTCATCTCG
65 CTTTTTTTACTTAA-TTTCATCCTGGTTTACTTTTTAACTCGTTGACTCATATGGTTTCATTTCG
* * ** * * *
1009278 GTCAACTTTTTTAACTTGTTAACTCATATGGTTTCATCTTGGTCAACCTTTCTAACTCATTAACT
129 GTCAACCTTTCTAACTCATTGACTCATATGGTTTCATCCTGGTCAACCTTTCTAACTCATTGACT
1009343 T
194 T
*
1009344 GTATGGTTT-AGTCTCGATCAACTCTTTTAACTTGTTGGTTCTTATGGTTTCATCCCAGCTAATT
1 GTATGGTTTCA-TCTCGATCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAGCTAATT
* * * *
1009408 CTTTTTTTACATATATTTCATCCTGGTTTACTTTTTAACT-ATTGACACGTATGGTTTCATTTCG
65 CTTTTTTTACTTA-ATTTCATCCTGGTTTACTTTTTAACTCGTTGACTCATATGGTTTCATTTCG
* * * *
1009472 GTCAACCATTCTAACTCATTGACTAATATGGTTTCAT-CTCGGTCAACCTTTTTAACTTATTGAC
129 GTCAACCTTTCTAACTCATTGACTCATATGGTTTCATCCT-GGTCAACCTTTCTAACTCATTGAC
1009536 TT
193 TT
* * *
1009538 GTATGGTTT-AGTC-CCAGTCAACTCCTTTAACTTGTTGGTTCGTATGGTTTCATCCC-GACCAA
1 GTATGGTTTCA-TCTCGA-TCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAG-CTAA
* * *** * * * *
1009600 TCCTTTTTTTACTTAGGTTTTGCCCTAGTCTACTTTCTAACTCGTTGACTCATATGGTTTCGTCT
63 TTCTTTTTTTACTTA-ATTTCATCCTGGTTTACTTTTTAACTCGTTGACTCATATGGTTTCAT-T
* * * * ** * *
1009665 T-GGTCAACCATTCTAACTCGTTGACTCATACGATTTTGTCCTAGTCAACCTTTCTAGCTCATT-
126 TCGGTCAACCTTTCTAACTCATTGACTCATATGGTTTCATCCTGGTCAACCTTTCTAACTCATTG
1009728 ACTT
191 ACTT
* * * * * * * * *
1009732 GCATGATTTCATCTCGATTAACTCCTTTAACTTGTTAGTTCATATAGTTTTATCCC-GATCAATT
1 GTATGGTTTCATCTCGATCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAGCT-AATT
* * * *
1009796 TTTTTTTTACGTAAGTTT--TGCCTTGGTATACTTTTTAACTCATTGACTCATATGGTTT--TGT
65 CTTTTTTTACTTAA-TTTCAT-CC-TGGTTTACTTTTTAACTCGTTGACTCATATGGTTTCAT-T
* * ** * * * * *
1009857 CCGGTTAACCTTTCTAACTCATTGACTTGTATGGTTTCGTCCTGGTCAATCTCTCTAACTCGTTA
126 TCGGTCAACCTTTCTAACTCATTGACTCATATGGTTTCATCCTGGTCAACCTTTCTAACTCATTG
1009922 ACTT
191 ACTT
* * * * * * * * *
1009926 GTATGGTTTCATC-CCAGTGAATTCCTTCAACTTATTGGTTCATATGTTTTCATCCTAGCTAA
1 GTATGGTTTCATCTCGA-TCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAGCTAA
1009988 CTCCTTTATG
Statistics
Matches: 829, Mismatches: 176, Indels: 59
0.78 0.17 0.06
Matches are distributed among these distances:
192 2 0.00
193 57 0.07
194 307 0.37
195 454 0.55
196 8 0.01
197 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (194 bp):
GTATGGTTTCATCTCGATCAACTCTTTTAACTTGTTGGTTCGTATGGTTTCATCCCAGCTAATTC
TTTTTTTACTTAATTTCATCCTGGTTTACTTTTTAACTCGTTGACTCATATGGTTTCATTTCGGT
CAACCTTTCTAACTCATTGACTCATATGGTTTCATCCTGGTCAACCTTTCTAACTCATTGACTT
Found at i:1009926 original size:41 final size:40
Alignment explanation
Indices: 1009831--1009935 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 40
1009821 GTATACTTTT
* ** * * *
1009831 TAACTCATTGACTCATATGGTTTTGTCCGGTTAACCTTTC
1 TAACTCATTAACTTGTATGGTTTCGTCCGGTCAACCTCTC
* *
1009871 TAACTCATTGACTTGTATGGTTTCGTCCTGGTCAATCTCTC
1 TAACTCATTAACTTGTATGGTTTCGTCC-GGTCAACCTCTC
*
1009912 TAACTCGTTAACTTGTATGGTTTC
1 TAACTCATTAACTTGTATGGTTTC
1009936 ATCCCAGTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 25 0.45
41 31 0.55
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (40 bp):
TAACTCATTAACTTGTATGGTTTCGTCCGGTCAACCTCTC
Found at i:1010534 original size:41 final size:41
Alignment explanation
Indices: 1010477--1010630 Score: 132
Period size: 41 Copynumber: 3.8 Consensus size: 41
1010467 TATTGACTTG
* * * * *
1010477 TATGGTTTCATCCTAGTCAACTCTTTTTACTCGTTGATTCA
1 TATGGTTTCATCCTAGTCAACCCCTCTAACTCGTTGACTCA
* *
1010518 TATGGTTTCGTCCTAGTCAACCCCTCTAACTCGTTGACTCC
1 TATGGTTTCATCCTAGTCAACCCCTCTAACTCGTTGACTCA
* * * * * * *
1010559 TATGGTTTCAT-CTCGATTAACACTTCTAACTCATTAACTTA
1 TATGGTTTCATCCTAG-TCAACCCCTCTAACTCGTTGACTCA
* *
1010600 TATGGCTTT-GTCCTAGTCAACCCTTCTAACT
1 TATGG-TTTCATCCTAGTCAACCCCTCTAACT
1010631 TATTGATATG
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
40 3 0.03
41 81 0.90
42 6 0.07
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (41 bp):
TATGGTTTCATCCTAGTCAACCCCTCTAACTCGTTGACTCA
Found at i:1010876 original size:106 final size:106
Alignment explanation
Indices: 1010616--1010884 Score: 274
Period size: 106 Copynumber: 2.5 Consensus size: 106
1010606 TTTGTCCTAG
* * * * *
1010616 TCAACCCTTCTAACTTATTGATATGTATGGTTTCATCCCAGCTAACTCCTTTTTGACTTAGGTTT
1 TCAACCCCTCTAACTTATTGATATGTATGGTTTCAT-CCTGATAACTCCTTTTTGACTAAGCTTT
*
1010681 TGCCCTAGTCACTTTTTATTGACTCATATAGTTTCATCTTGA
65 CGCCCTAGTCACTTTTTATTGACTCATATAGTTTCATCTTGA
* * * * * *
1010723 TCAACCCGTTTAACTTGTTGGTATGTATAGTTTCATCCTGACCAACT-CTTTTTCGACTAAGCTT
1 TCAACCCCTCTAACTTATTGATATGTATGGTTTCATCCTGA-TAACTCCTTTTT-GACTAAGCTT
** * * **
1010787 TCGCTTTGGTCAC-TTTTGTTGACTCATAT-GATTTTGTCTTGA
64 TCGCCCTAGTCACTTTTTATTGACTCATATAG-TTTCATCTTGA
* ** *
1010829 TCAACCCCTCTAACTTATTGATACGTATGGTTTTGTCTTGGATAACTCCTTTTTGA
1 TCAACCCCTCTAACTTATTGATATGTATGGTTTCATCCT-GATAACTCCTTTTTGA
1010885 GTTAGTTTCT
Statistics
Matches: 130, Mismatches: 27, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
105 1 0.01
106 69 0.53
107 60 0.46
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (106 bp):
TCAACCCCTCTAACTTATTGATATGTATGGTTTCATCCTGATAACTCCTTTTTGACTAAGCTTTC
GCCCTAGTCACTTTTTATTGACTCATATAGTTTCATCTTGA
Found at i:1012517 original size:10 final size:10
Alignment explanation
Indices: 1012494--1012527 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1012484 TCATTAATTC
*
1012494 AAATCAAATCA
1 AAATCAAA-AA
1012505 AAATCAAAAA
1 AAATCAAAAA
1012515 AAATCAAAAA
1 AAATCAAAAA
1012525 AAA
1 AAA
1012528 AATAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (10 bp):
AAATCAAAAA
Found at i:1014585 original size:17 final size:18
Alignment explanation
Indices: 1014550--1014589 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1014540 AGAATACTTT
*
1014550 ATTAATATTTTTAATAAA
1 ATTAAAATTTTTAATAAA
1014568 ATTAAAATTTTTAA-AAA
1 ATTAAAATTTTTAATAAA
1014585 ATTAA
1 ATTAA
1014590 GGCAATGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTAATAAA
Found at i:1015724 original size:15 final size:15
Alignment explanation
Indices: 1015704--1015735 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
1015694 CCATACTTAG
1015704 TTTTTTTTC--TTTC
1 TTTTTTTTCTTTTTC
1015717 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
1015732 TTTT
1 TTTT
1015736 ACTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:1016742 original size:27 final size:27
Alignment explanation
Indices: 1016707--1016773 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
1016697 TAGTAATAAG
* *
1016707 TTAAAAAAATTATAATGATAAATTAT-T
1 TTAATAAAATTATAA-AATAAATTATAT
*
1016734 TTAATAAAATTTTAAAATAAATTATAT
1 TTAATAAAATTATAAAATAAATTATAT
1016761 TTAAT-AAATTATA
1 TTAATAAAATTATA
1016774 TTTAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.46
27 19 0.54
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
TTAATAAAATTATAAAATAAATTATAT
Found at i:1016787 original size:13 final size:14
Alignment explanation
Indices: 1016724--1016790 Score: 72
Period size: 13 Copynumber: 5.0 Consensus size: 14
1016714 AATTATAATG
1016724 ATAAATTAT-TTTA
1 ATAAATTATATTTA
1016737 ATAAA--AT-TTTAAA
1 ATAAATTATATTT--A
1016750 ATAAATTATATTTA
1 ATAAATTATATTTA
1016764 ATAAATTATATTTA
1 ATAAATTATATTTA
*
1016778 A-AAATAATATTTA
1 ATAAATTATATTTA
1016791 GGATTAGCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
11 5 0.10
13 22 0.46
14 16 0.33
15 2 0.04
16 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAAATTATATTTA
Found at i:1016942 original size:22 final size:19
Alignment explanation
Indices: 1016893--1016933 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1016883 TATAAACCTT
*
1016893 TATAATATTTATTTTAATA
1 TATAATATTAATTTTAATA
1016912 TATAATATTAATTTTAA-A
1 TATAATATTAATTTTAATA
1016930 TATA
1 TATA
1016934 TTTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAATATTAATTTTAATA
Found at i:1018993 original size:20 final size:20
Alignment explanation
Indices: 1018968--1019021 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1018958 CTACCATTGT
** *
1018968 TTGTATCGATACATGGCGCA
1 TTGTATCGATACATGAAGAA
1018988 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
1019008 TTGTATCGATACAT
1 TTGTATCGATACAT
1019022 TGACTCAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGAAGAA
Found at i:1027680 original size:19 final size:19
Alignment explanation
Indices: 1027655--1027713 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
1027645 TTGTATCAAT
*
1027655 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
*
1027674 TCATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
*
1027693 ACAAATGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
1027713 A
1 A
1027714 ACTGGCAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:1027703 original size:20 final size:19
Alignment explanation
Indices: 1027659--1027713 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
1027649 ATCAATACAT
** *
1027659 TGTATCGATACATGTTCAT
1 TGTATCGATACATGAACAA
1027678 TGTATCGATACATGAACAAA
1 TGTATCGATACATGAAC-AA
1027698 TGTATCGATACATGAA
1 TGTATCGATACATGAA
1027714 ACTGGCAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATGAACAA
Found at i:1027778 original size:33 final size:32
Alignment explanation
Indices: 1027741--1027803 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
1027731 TACCACTATT
1027741 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
1027774 TGTATCGATACATGAAGAATTGTATCGATA
1 TGTATCGATACATG-AGAATTGTATCGATA
1027804 TATTGACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:1027779 original size:13 final size:13
Alignment explanation
Indices: 1027761--1027785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1027751 CATGGCACAT
1027761 TGTATCGATACAA
1 TGTATCGATACAA
1027774 TGTATCGATACA
1 TGTATCGATACA
1027786 TGAAGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1030643 original size:7 final size:7
Alignment explanation
Indices: 1030624--1030665 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
1030614 GATGATATTT
1030624 TAATATA
1 TAATATA
1030631 -AATATA
1 TAATATA
1030637 TAATATA
1 TAATATA
1030644 TAATATA
1 TAATATA
1030651 TAATAATA
1 TAAT-ATA
1030659 TAATATA
1 TAATATA
1030666 ATCTTAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
7 20 0.61
8 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAATATA
Found at i:1030659 original size:22 final size:18
Alignment explanation
Indices: 1030624--1030667 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 18
1030614 GATGATATTT
1030624 TAATATAAATATATAATATA
1 TAATATAAATA-AT-ATATA
1030644 TAATATATAATAATATAATA
1 TAATATA-AATAATAT-ATA
1030664 TAAT
1 TAAT
1030668 CTTAATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATATAAATAATATATA
Found at i:1032278 original size:8 final size:9
Alignment explanation
Indices: 1032254--1032280 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1032244 CCTATCAATA
1032254 ATTAAAAAT
1 ATTAAAAAT
1032263 ATTAAAAAT
1 ATTAAAAAT
1032272 ATTAAAAAT
1 ATTAAAAAT
1032281 TTATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:1032298 original size:22 final size:20
Alignment explanation
Indices: 1032270--1032310 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1032260 AATATTAAAA
1032270 ATATTAAAAATTTATAAATTTT
1 ATATTAAAAA-TTA-AAATTTT
*
1032292 ATATTAATAATTAAAATTT
1 ATATTAAAAATTAAAATTT
1032311 AATTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAAAAATTAAAATTTT
Found at i:1032310 original size:20 final size:21
Alignment explanation
Indices: 1032269--1032323 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
1032259 AAATATTAAA
*
1032269 AATATTAAAAATTTATAAATTT
1 AATATTAATAA-TTATAAATTT
*
1032291 TATATTAATAATTA-AAATTT
1 AATATTAATAATTATAAATTT
1032311 AAT-TTAATTAATT
1 AATATTAA-TAATT
1032324 CACATAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.14
20 13 0.45
21 3 0.10
22 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTAATAATTATAAATTT
Found at i:1032975 original size:19 final size:19
Alignment explanation
Indices: 1032951--1032993 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1032941 CTATTCATGT
1032951 TATTTTTATATCATAATAG
1 TATTTTTATATCATAATAG
* *
1032970 TATTTTTATGTCGTAATAG
1 TATTTTTATATCATAATAG
1032989 TATTT
1 TATTT
1032994 AACATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (19 bp):
TATTTTTATATCATAATAG
Found at i:1035772 original size:12 final size:14
Alignment explanation
Indices: 1035755--1035788 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1035745 TCCAACAGAA
1035755 TTTCTTTT-C-CTT
1 TTTCTTTTCCACTT
1035767 TTTCTTTTCCACTT
1 TTTCTTTTCCACTT
1035781 TTTCTTTT
1 TTTCTTTT
1035789 GCTTCCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 1 0.05
14 11 0.55
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTTTTCCACTT
Found at i:1039215 original size:22 final size:23
Alignment explanation
Indices: 1039189--1039235 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1039179 TGCAATCAGT
1039189 TTTCTGCTTGAACATCAAGA-AG
1 TTTCTGCTTGAACATCAAGAGAG
* *
1039211 TTTCTGTTTGAACATCTAGAGAG
1 TTTCTGCTTGAACATCAAGAGAG
1039234 TT
1 TT
1039236 ATTTTCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (23 bp):
TTTCTGCTTGAACATCAAGAGAG
Found at i:1039729 original size:24 final size:24
Alignment explanation
Indices: 1039683--1039786 Score: 73
Period size: 24 Copynumber: 4.5 Consensus size: 24
1039673 TTTATAAAAA
1039683 TTAAAT-TATTATTAGTATAATATAT
1 TTAAATATATTA-TA-TATAATATAT
* *
1039708 TTAAATATATTATATTTAATATTT
1 TTAAATATATTATATATAATATAT
* *
1039732 TTATTAAT-T-TTAAAAATAATAT-T
1 TTA--AATATATTATATATAATATAT
1039755 TTAAA-ATA-TA-A-A-AATATAT
1 TTAAATATATTATATATAATATAT
1039774 TTAAATATATTAT
1 TTAAATATATTAT
1039787 TTTTAATTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 21
0.71 0.05 0.23
Matches are distributed among these distances:
18 5 0.08
19 7 0.11
20 4 0.06
21 7 0.11
23 4 0.06
24 21 0.32
25 9 0.14
26 8 0.12
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
TTAAATATATTATATATAATATAT
Found at i:1039783 original size:20 final size:21
Alignment explanation
Indices: 1039742--1039783 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
1039732 TTATTAATTT
1039742 TAAAAATAATATTTTAAAATA
1 TAAAAATAATATTTTAAAATA
1039763 TAAAAAT-ATA-TTTAAATATA
1 TAAAAATAATATTTTAAA-ATA
1039783 T
1 T
1039784 TATTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAATAATATTTTAAAATA
Found at i:1044923 original size:14 final size:14
Alignment explanation
Indices: 1044906--1044933 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1044896 AAAATATTCT
1044906 TTATATAATATAAA
1 TTATATAATATAAA
1044920 TTATATAATATAAA
1 TTATATAATATAAA
1044934 ACTATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATATAATATAAA
Found at i:1054033 original size:16 final size:16
Alignment explanation
Indices: 1053978--1054077 Score: 123
Period size: 16 Copynumber: 6.4 Consensus size: 16
1053968 ATTTGAGATC
*
1053978 AAATT-TTTAAAATTT
1 AAATTATTTTAAATTT
*
1053993 AAATTATTTTAGATTT
1 AAATTATTTTAAATTT
* *
1054009 AGA-TATTTTAGATTT
1 AAATTATTTTAAATTT
1054024 AAATTATTTTAAATTT
1 AAATTATTTTAAATTT
*
1054040 AAATAATTTTAAATTT
1 AAATTATTTTAAATTT
*
1054056 AAATTATTTTAAGTTT
1 AAATTATTTTAAATTT
*
1054072 ATATTA
1 AAATTA
1054078 ATCAAATTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
15 19 0.26
16 55 0.74
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
AAATTATTTTAAATTT
Found at i:1054085 original size:47 final size:47
Alignment explanation
Indices: 1053987--1054087 Score: 116
Period size: 47 Copynumber: 2.1 Consensus size: 47
1053977 CAAATTTTTA
* * * * *
1053987 AAATTTAAATTATTTTAGATTTAGATATTTTAGATTTAAATTATTTT
1 AAATTTAAATAATTTTAAATTTAAATATTTTAGATTTAAATTATATC
*
1054034 AAATTTAAATAATTTTAAATTTAAATTATTTTA-AGTTTATATTA-ATC
1 AAATTTAAATAATTTTAAATTTAAA-TATTTTAGA-TTTAAATTATATC
1054081 AAATTTA
1 AAATTTA
1054088 TGTTTAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 31 0.67
48 15 0.33
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (47 bp):
AAATTTAAATAATTTTAAATTTAAATATTTTAGATTTAAATTATATC
Found at i:1054275 original size:12 final size:12
Alignment explanation
Indices: 1054260--1054307 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
1054250 AATTTTATTA
1054260 AAATATAAAAAT
1 AAATATAAAAAT
1054272 AAATAGT--AAAT
1 AAATA-TAAAAAT
*
1054283 AATATTTAAAAAT
1 AA-ATATAAAAAT
1054296 AAATATAAAAAT
1 AAATATAAAAAT
1054308 TATAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 7 0.23
12 16 0.53
13 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATATAAAAAT
Found at i:1059677 original size:2 final size:2
Alignment explanation
Indices: 1059670--1059708 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1059660 ATACATACAT
*
1059670 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1059709 GGCTTTAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1068538 original size:24 final size:23
Alignment explanation
Indices: 1068511--1068563 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
1068501 CTTAAAAAAT
*
1068511 TTTAAAAATAT-TTTTATATTAATA
1 TTTAAAAATATCTTATA-ATTAA-A
* *
1068535 TTTATATATATCTTATAATTAAA
1 TTTAAAAATATCTTATAATTAAA
1068558 TTTAAA
1 TTTAAA
1068564 TAAAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 6 0.25
24 14 0.58
25 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAAAAATATCTTATAATTAAA
Found at i:1072156 original size:33 final size:32
Alignment explanation
Indices: 1072113--1072174 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
1072103 CACACCCAGA
*
1072113 TGTATCGATACAT-TCTGCTTTGTATCGATATAT
1 TGTATCGATACATGT-T-CATTGTATCGATATAT
*
1072146 TGTATTGATACATGTTCATTGTATCGATA
1 TGTATCGATACATGTTCATTGTATCGATA
1072175 CATAGACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 12 0.46
33 13 0.50
34 1 0.04
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATATAT
Found at i:1078556 original size:21 final size:22
Alignment explanation
Indices: 1078532--1078581 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1078522 ATCAAATCTT
* *
1078532 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1078553 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1078575 --TCAAAAT
1 CTTCAAAAT
1078582 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:1081085 original size:19 final size:19
Alignment explanation
Indices: 1081061--1081132 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 19
1081051 CACACCCAGA
1081061 TGTATCGATACAT-TATGC-T
1 TGTATCGATACATGT-T-CAT
1081080 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
1081099 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
1081119 TGTATCGATACATG
1 TGTATCGATACATG
1081133 AAACTGGTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.02
19 30 0.62
20 17 0.35
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Done.