Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 51 of 126
Found at i:10167057 original size:15 final size:15
Alignment explanation
Indices: 10167037--10167124 Score: 71
Period size: 15 Copynumber: 5.9 Consensus size: 15
10167027 AGTAGTAATA
10167037 AATAAATAAATAAAT
1 AATAAATAAATAAAT
*
10167052 AATAAATACATAAGAT
1 AATAAATAAATAA-AT
*
10167068 AA-AAATGAAAGAAA-
1 AATAAAT-AAATAAAT
10167082 AATATATATAAA-AAAT
1 AATA-A-ATAAATAAAT
10167098 AAT-AAT-AATAAA-
1 AATAAATAAATAAAT
10167110 AATAAAATAAATAAA
1 AAT-AAATAAATAAA
10167125 ATAAAAATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
12 5 0.08
13 5 0.08
14 6 0.10
15 27 0.45
16 15 0.25
17 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAAATAAATAAAT
Found at i:10167110 original size:14 final size:14
Alignment explanation
Indices: 10167080--10167128 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
10167070 AAATGAAAGA
10167080 AAAAT-ATATATAA-
1 AAAATAATA-ATAAT
10167093 AAAATAATAATAAT
1 AAAATAATAATAAT
10167107 AAAAATAA-AATAAAT
1 -AAAATAATAAT-AAT
10167122 AAAATAA
1 AAAATAA
10167129 AAATGTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.28
14 13 0.41
15 10 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:10167118 original size:20 final size:20
Alignment explanation
Indices: 10167036--10167153 Score: 79
Period size: 20 Copynumber: 6.0 Consensus size: 20
10167026 TAGTAGTAAT
10167036 AAATAAAT-AAATAAATAAT-
1 AAATAAATAAAATAAA-AATA
* * *
10167055 AAATACATAAGATAAAAATG
1 AAATAAATAAAATAAAAATA
* * *
10167075 AAAGAAA-AATATATATAA-A
1 AAATAAATAAAATA-AAAATA
10167094 AAAT-AATAATAATAAAAATA
1 AAATAAATAA-AATAAAAATA
10167114 AAATAAATAAAATAAAAATGTA
1 AAATAAATAAAATAAAAA--TA
*
10167136 AAATACA-AAAA-AAAAATA
1 AAATAAATAAAATAAAAATA
10167154 GACTTACCTA
Statistics
Matches: 79, Mismatches: 11, Indels: 19
0.72 0.10 0.17
Matches are distributed among these distances:
18 4 0.05
19 23 0.29
20 35 0.44
21 9 0.11
22 8 0.10
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (20 bp):
AAATAAATAAAATAAAAATA
Found at i:10167129 original size:14 final size:14
Alignment explanation
Indices: 10167092--10167130 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
10167082 AATATATATA
10167092 AAAAATAATAATAAT
1 AAAAATAA-AATAAT
10167107 AAAAATAAAATAA-
1 AAAAATAAAATAAT
10167120 ATAAAATAAAA
1 A-AAAATAAAA
10167131 ATGTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 14 0.61
15 8 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:10175372 original size:8 final size:8
Alignment explanation
Indices: 10175347--10175439 Score: 78
Period size: 8 Copynumber: 12.2 Consensus size: 8
10175337 AGATGAAGCA
10175347 AAAAAATG
1 AAAAAATG
10175355 --AAAATG
1 AAAAAATG
10175361 -AAAAATG
1 AAAAAATG
10175368 AAAAAAGTG
1 AAAAAA-TG
10175377 AAAAAAGTG
1 AAAAAA-TG
10175386 AAAAAATG
1 AAAAAATG
*
10175394 AAAAAGTG
1 AAAAAATG
10175402 AAAAAGA-G
1 AAAAA-ATG
10175410 AAAAAAATG
1 -AAAAAATG
10175419 ---AAA-G
1 AAAAAATG
10175423 AAAAAA-G
1 AAAAAATG
10175430 AAAAAATG
1 AAAAAATG
10175438 AA
1 AA
10175440 GCTCAAATTG
Statistics
Matches: 73, Mismatches: 2, Indels: 20
0.77 0.02 0.21
Matches are distributed among these distances:
4 1 0.01
5 3 0.04
6 6 0.08
7 16 0.22
8 24 0.33
9 23 0.32
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:10175373 original size:9 final size:9
Alignment explanation
Indices: 10175361--10175439 Score: 67
Period size: 9 Copynumber: 9.0 Consensus size: 9
10175351 AATGAAAATG
10175361 AAAAATGAA
1 AAAAATGAA
*
10175370 AAAAGTGAA
1 AAAAATGAA
*
10175379 AAAAGTG-A
1 AAAAATGAA
10175387 AAAAATG-A
1 AAAAATGAA
*
10175395 AAAAGTGAA
1 AAAAATGAA
*
10175404 AAAGA-GAA
1 AAAAATGAA
10175412 AAAAATGAA
1 AAAAATGAA
*
10175421 AGAAAA-AAGA
1 A-AAAATGA-A
10175431 AAAAATGAA
1 AAAAATGAA
10175440 GCTCAAATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
8 21 0.37
9 29 0.51
10 7 0.12
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (9 bp):
AAAAATGAA
Found at i:10175397 original size:25 final size:25
Alignment explanation
Indices: 10175361--10175421 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
10175351 AATGAAAATG
*
10175361 AAAAATGAAAAAAGTGAAAAA-AGTGA
1 AAAAATG-AAAAAGTGAAAAAGAG-AA
10175387 AAAAATGAAAAAGTGAAAAAGAGAA
1 AAAAATGAAAAAGTGAAAAAGAGAA
10175412 AAAAATGAAA
1 AAAAATGAAA
10175422 GAAAAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 24 0.73
26 9 0.27
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (25 bp):
AAAAATGAAAAAGTGAAAAAGAGAA
Found at i:10176657 original size:21 final size:21
Alignment explanation
Indices: 10176587--10176914 Score: 212
Period size: 21 Copynumber: 15.2 Consensus size: 21
10176577 AGCTTTAAGA
*
10176587 AGTTTTAAATAAGAATCTTTG
1 AGTTTTAAATGAGAATCTTTG
* * * *
10176608 AGCTTTCAATAAAAATCTTTAAGG
1 AGTTTTAAATGAGAATCTTT---G
*
10176632 AGTTTTAAATGAGAATCTTCG
1 AGTTTTAAATGAGAATCTTTG
*
10176653 AGTTTTAAATAAGAATCTTTG
1 AGTTTTAAATGAGAATCTTTG
*
10176674 AGTTTTAAGTGAGAATCTTTG
1 AGTTTTAAATGAGAATCTTTG
10176695 AGTTTTAAATGAG-ATCTTTG
1 AGTTTTAAATGAGAATCTTTG
* * *****
10176715 A--ATGAGAATCTTTGTCTTTG
1 AGTTTTA-AATGAGAATCTTTG
*
10176735 AGTTTTAGATGAGAATCTTTAAG
1 AGTTTTAAATGAGAATCTTT--G
* *
10176758 AAGTTTTAAATGAAAATCTTTA
1 -AGTTTTAAATGAGAATCTTTG
**** *
10176780 AGAAAAATAATGAGAATCTTTT
1 AGTTTTA-AATGAGAATCTTTG
* * * * * *
10176802 TGTTTCAAGTAAAAATCTCTG
1 AGTTTTAAATGAGAATCTTTG
*
10176823 AGTTTTAAATGAGAATTTTTAGG
1 AGTTTTAAATGAGAATCTTT--G
*
10176846 AAGTTTTAAATAAGAATCTTTG
1 -AGTTTTAAATGAGAATCTTTG
* *
10176868 AGTTTTAAGTGAGAATCTTTA
1 AGTTTTAAATGAGAATCTTTG
* * *
10176889 AGTTTTAAATAAAAATCTTTT
1 AGTTTTAAATGAGAATCTTTG
10176910 AGTTT
1 AGTTT
10176915 AGATGTGAAA
Statistics
Matches: 231, Mismatches: 62, Indels: 28
0.72 0.19 0.09
Matches are distributed among these distances:
18 2 0.01
19 3 0.01
20 15 0.06
21 140 0.61
22 17 0.07
23 2 0.01
24 52 0.23
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (21 bp):
AGTTTTAAATGAGAATCTTTG
Found at i:10176665 original size:66 final size:62
Alignment explanation
Indices: 10176587--10176898 Score: 173
Period size: 66 Copynumber: 4.8 Consensus size: 62
10176577 AGCTTTAAGA
10176587 AGTTTTAAATAAGAATCTTTGAGCTTTCAA-TAAAAATCTTTAAGGAGTTTTAAATGAGAATCTT
1 AGTTTTAAATAAGAATCTTTGAG-TTTCAAGTAAAAATCTTT---GAGTTTTAAATGAG-ATCTT
10176651 CG
61 CG
* * * *
10176653 AGTTTTAAATAAGAATCTTTGAGTTTTAAGTGAGAATCTTTGAGTTTTAAATGAGATCTTTG
1 AGTTTTAAATAAGAATCTTTGAGTTTCAAGTAAAAATCTTTGAGTTTTAAATGAGATCTTCG
* * ***** * * * *
10176715 A--ATGAGAATCTTTGTCTTTGAGTTT-TAGATGAGAATCTTTAAGAAGTTTTAAATGAAAATCT
1 AGTTTTA-AATAAGAATCTTTGAGTTTCAAG-TAAAAATCTTT--G-AGTTTTAAATG-AGATCT
**
10176777 TTA
60 TCG
**** * ** * * *
10176780 AGAAAAATAATGAGAATCTTTTTGTTTCAAGTAAAAATCTCTGAGTTTTAAATGAGAATTTTTAG
1 AGTTTTA-AATAAGAATCTTTGAGTTTCAAGTAAAAATCTTTGAGTTTTAAATGAG-A-TCTT-C
10176845 G
62 G
* * * *
10176846 AAGTTTTAAATAAGAATCTTTGAGTTTTAAGTGAGAATCTTTAAGTTTTAAAT
1 -AGTTTTAAATAAGAATCTTTGAGTTTCAAGTAAAAATCTTTGAGTTTTAAAT
10176899 AAAAATCTTT
Statistics
Matches: 188, Mismatches: 44, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
60 4 0.02
61 25 0.13
62 7 0.04
63 16 0.09
64 23 0.12
65 17 0.09
66 69 0.37
67 25 0.13
68 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (62 bp):
AGTTTTAAATAAGAATCTTTGAGTTTCAAGTAAAAATCTTTGAGTTTTAAATGAGATCTTCG
Found at i:10176690 original size:42 final size:42
Alignment explanation
Indices: 10176587--10176914 Score: 185
Period size: 45 Copynumber: 7.6 Consensus size: 42
10176577 AGCTTTAAGA
* * * *
10176587 AGTTTTAAATAAGAATCTTTGAGCTTTCAATAAAAATCTTTAAGG
1 AGTTTTAAATGAGAATCTTTGAGTTTTAAATAAGAATCTTT---G
*
10176632 AGTTTTAAATGAGAATCTTCGAGTTTTAAATAAGAATCTTTG
1 AGTTTTAAATGAGAATCTTTGAGTTTTAAATAAGAATCTTTG
* *
10176674 AGTTTTAAGTGAGAATCTTTGAGTTTTAAATGAG-ATCTTTG
1 AGTTTTAAATGAGAATCTTTGAGTTTTAAATAAGAATCTTTG
* * ***** * *
10176715 A--ATGAGAATCTTTGTCTTTGAGTTTTAGATGAGAATCTTTAAG
1 AGTTTTA-AATGAGAATCTTTGAGTTTTAAATAAGAATCTTT--G
* * **** * *
10176758 AAGTTTTAAATGAAAATCTTTAAGAAAAATAATGAGAATCTTTT
1 -AGTTTTAAATGAGAATCTTTGAGTTTTA-AATAAGAATCTTTG
* * * * * * * *
10176802 TGTTTCAAGTAAAAATCTCTGAGTTTTAAATGAGAATTTTTAGG
1 AGTTTTAAATGAGAATCTTTGAGTTTTAAATAAGAATCTTT--G
* * * *
10176846 AAGTTTTAAATAAGAATCTTTGAGTTTTAAGTGAGAATCTTTA
1 -AGTTTTAAATGAGAATCTTTGAGTTTTAAATAAGAATCTTTG
* * *
10176889 AGTTTTAAATAAAAATCTTTTAGTTT
1 AGTTTTAAATGAGAATCTTTGAGTTT
10176915 AGATGTGAAA
Statistics
Matches: 219, Mismatches: 53, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
39 2 0.01
40 20 0.09
41 14 0.06
42 68 0.31
43 19 0.09
44 1 0.00
45 81 0.37
46 14 0.06
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (42 bp):
AGTTTTAAATGAGAATCTTTGAGTTTTAAATAAGAATCTTTG
Found at i:10176797 original size:22 final size:24
Alignment explanation
Indices: 10176743--10176800 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
10176733 TGAGTTTTAG
***
10176743 ATGAGAATCTTTAAGAAGTTTTAA
1 ATGAGAATCTTTAAGAAGAAATAA
*
10176767 ATGAAAATCTTTAAGAA-AAAT-A
1 ATGAGAATCTTTAAGAAGAAATAA
10176789 ATGAGAATCTTT
1 ATGAGAATCTTT
10176801 TTGTTTCAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 12 0.41
23 1 0.03
24 16 0.55
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (24 bp):
ATGAGAATCTTTAAGAAGAAATAA
Found at i:10177248 original size:16 final size:16
Alignment explanation
Indices: 10177227--10177283 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
10177217 CTTAAAATCC
10177227 TGTGAATCTAAGTTCT
1 TGTGAATCTAAGTTCT
* *
10177243 TGTGAATTTGAGTTCT
1 TGTGAATCTAAGTTCT
* *
10177259 TATGAATCTAAGTTTT
1 TGTGAATCTAAGTTCT
10177275 TGTGAATCT
1 TGTGAATCT
10177284 TAAAATTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (16 bp):
TGTGAATCTAAGTTCT
Found at i:10177397 original size:47 final size:47
Alignment explanation
Indices: 10177346--10177448 Score: 145
Period size: 48 Copynumber: 2.2 Consensus size: 47
10177336 AAATTTTGCA
* * * *
10177346 AATCAAATTCTTATGAATC-TAAGTCCTTGTGACACTAGAATTTTAAT
1 AATCAAATTCTTATGAATCTTAA-TCCTAGTGAAACTAAAATTTTAAG
10177393 AATCAAATTCTTATGAATCTTTAATCCTAGTGAAACTAAAATTTTAAG
1 AATCAAATTCTTATGAATC-TTAATCCTAGTGAAACTAAAATTTTAAG
10177441 AATCAAAT
1 AATCAAAT
10177449 CTTTGTGAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
47 19 0.38
48 28 0.56
49 3 0.06
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.37
Consensus pattern (47 bp):
AATCAAATTCTTATGAATCTTAATCCTAGTGAAACTAAAATTTTAAG
Found at i:10177550 original size:34 final size:34
Alignment explanation
Indices: 10177500--10177588 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
10177490 GAAAGTTTAT
* * *
10177500 GAACTTTAAATTCTTGCAAATTTGTGTGTCTTGC
1 GAACTTAAAATCCTTGCAAATTTGTGTGTCTTAC
* * * *
10177534 GAACTTGAAATCCTTGCTAATTTTTGTGTCTTAT
1 GAACTTAAAATCCTTGCAAATTTGTGTGTCTTAC
* *
10177568 GAACCTAAAATCCTTGAAAAT
1 GAACTTAAAATCCTTGCAAAT
10177589 CAAATTCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (34 bp):
GAACTTAAAATCCTTGCAAATTTGTGTGTCTTAC
Found at i:10177669 original size:23 final size:23
Alignment explanation
Indices: 10177643--10177709 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
10177633 TGAATATTTG
10177643 AATTGTGAATCTTTGAATTTCAA
1 AATTGTGAATCTTTGAATTTCAA
* *
10177666 AATTCG-GATTCTTTGAACTT--A
1 AATT-GTGAATCTTTGAATTTCAA
*
10177687 AACTGTGAATCTTT-AAGTTTCAA
1 AATTGTGAATCTTTGAA-TTTCAA
10177710 CTTGTATTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
20 3 0.09
21 13 0.38
23 17 0.50
24 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (23 bp):
AATTGTGAATCTTTGAATTTCAA
Found at i:10178909 original size:22 final size:23
Alignment explanation
Indices: 10178868--10178911 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10178858 AGTTTTTTAT
*
10178868 TTATTTATTTTTGTTATATGTTA
1 TTATTTATTTATGTTATATGTTA
10178891 TTATTTATTTAT-TTATATGTT
1 TTATTTATTTATGTTATATGTT
10178912 TATTTAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (23 bp):
TTATTTATTTATGTTATATGTTA
Found at i:10178916 original size:20 final size:22
Alignment explanation
Indices: 10178867--10178917 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
10178857 GAGTTTTTTA
*
10178867 TTTATTTATTTTTGTTATATGT
1 TTTATTTATTTATGTTATATGT
10178889 TATTATTTATTTAT-TTATATG-
1 T-TTATTTATTTATGTTATATGT
10178910 TTTATTTA
1 TTTATTTA
10178918 GTATTCTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 7 0.26
21 1 0.04
22 8 0.30
23 11 0.41
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (22 bp):
TTTATTTATTTATGTTATATGT
Found at i:10178922 original size:27 final size:27
Alignment explanation
Indices: 10178865--10178922 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
10178855 TTGAGTTTTT
*
10178865 TATTTATTTATTTTTGTTATATGTTAT
1 TATTTATTTATTTTTGTTATATGTTAG
10178892 TATTTATTTATTTATATGTT-TAT-TTAG
1 TATTTATTTATTT-T-TGTTATATGTTAG
10178919 TATT
1 TATT
10178923 CTGCACGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 20 0.71
28 4 0.14
29 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (27 bp):
TATTTATTTATTTTTGTTATATGTTAG
Found at i:10180185 original size:22 final size:22
Alignment explanation
Indices: 10180143--10180190 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
10180133 AAATTTTAAA
* * *
10180143 AGATCATGCTTGCAGGTCTTAT
1 AGATCATGCTAGCAGGACTTAG
10180165 AGATCATGCCTAG-AGGACTTAG
1 AGATCATG-CTAGCAGGACTTAG
10180187 AGAT
1 AGAT
10180191 TATTCTTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (22 bp):
AGATCATGCTAGCAGGACTTAG
Found at i:10180240 original size:22 final size:22
Alignment explanation
Indices: 10180199--10180264 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
10180189 ATTATTCTTG
* *
10180199 GAAGACTTACAAGATCATGCCCA
1 GAAGTCTTAC-AGATTATGCCCA
*
10180222 -AAGGTCTTACAGATTATGCTCA
1 GAA-GTCTTACAGATTATGCCCA
**
10180244 GAAGTCTTTGAGATTATGCCC
1 GAAGTCTTACAGATTATGCCC
10180265 CAAGACTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 27 0.77
23 8 0.23
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (22 bp):
GAAGTCTTACAGATTATGCCCA
Found at i:10180296 original size:66 final size:66
Alignment explanation
Indices: 10180200--10180323 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 66
10180190 TTATTCTTGG
* * * *
10180200 AAGACTTACAAGATCATGCCCAAAGGTCTTACAGATTATGCTCAGAA-GTCTTTGAGATTATGCC
1 AAGACTTAAAAGATCATGCCCAAAGATCTTACAAATAATGCTCA-AAGGTCTTTGAGATTATGCC
10180264 CC
65 CC
* * * *
10180266 AAGACTTAAAAGATCATGTCTAGAGATCTTATAAATAATGCTCAAAGGTCTTTGAGAT
1 AAGACTTAAAAGATCATGCCCAAAGATCTTACAAATAATGCTCAAAGGTCTTTGAGAT
10180324 AGGTTTTTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 2 0.04
66 47 0.96
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (66 bp):
AAGACTTAAAAGATCATGCCCAAAGATCTTACAAATAATGCTCAAAGGTCTTTGAGATTATGCCC
C
Found at i:10180390 original size:80 final size:79
Alignment explanation
Indices: 10180250--10180400 Score: 180
Period size: 80 Copynumber: 1.9 Consensus size: 79
10180240 CTCAGAAGTC
* * *
10180250 TTTGAGATTATGCCCCAAGACTTAAAAGATCATGTCTAGAGATCTTATAAATAATGCTCAAAGGT
1 TTTGAGATTATGCCACAAGACTTAAAAGATCATGACTAGAGATCTTATAAATAATACTCAAAGGT
10180315 CTTTGAGATAGGTT
66 CTTTGAGATAGGTT
* * * **
10180329 TTTGAGATTATG-CACAGAGAACTTAAAAGATCAT-ACATAGAGGTCTTTTAGATCGTACTCAAA
1 TTTGAGATTATGCCACA-AG-ACTTAAAAGATCATGAC-TAGAGATCTTATAAATAATACTCAAA
*
10180392 GGTTTTTGA
63 GGTCTTTGA
10180401 TACTATGCCC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.05
79 15 0.25
80 42 0.70
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (79 bp):
TTTGAGATTATGCCACAAGACTTAAAAGATCATGACTAGAGATCTTATAAATAATACTCAAAGGT
CTTTGAGATAGGTT
Found at i:10180483 original size:23 final size:23
Alignment explanation
Indices: 10180417--10180479 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
10180407 GCCCATAGGA
* *
10180417 CTTAAAAGATCATACTCGAAGGC
1 CTTAAAAGATCATGCTTGAAGGC
10180440 CTTAAAAGATCATGCTTGAAGGC
1 CTTAAAAGATCATGCTTGAAGGC
* *
10180463 CTT-ATAGATCGTGCTTG
1 CTTAAAAGATCATGCTTG
10180480 GAAGTCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 12 0.33
23 24 0.67
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (23 bp):
CTTAAAAGATCATGCTTGAAGGC
Found at i:10182414 original size:28 final size:28
Alignment explanation
Indices: 10182382--10182445 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
10182372 GAATCATAGC
10182382 AATACCCTAGAAAGTGTGAAATTACCAA
1 AATACCCTAGAAAGTGTGAAATTACCAA
10182410 AATACCCTAGAAAGTGTGAAATTACCAA
1 AATACCCTAGAAAGTGTGAAATTACCAA
10182438 AATACCCT
1 AATACCCT
10182446 TATAAGGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (28 bp):
AATACCCTAGAAAGTGTGAAATTACCAA
Found at i:10182923 original size:24 final size:24
Alignment explanation
Indices: 10182875--10182931 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
10182865 GAGGCATTTG
*
10182875 AAAAAAAAATTAGAAAGAACACAA
1 AAAAAAAAATTAGAAAGAAAACAA
10182899 ACAAAAAAAA-TAGAAA-AAAATCAA
1 A-AAAAAAAATTAGAAAGAAAA-CAA
*
10182923 AAACAAAAA
1 AAAAAAAAA
10182932 GAAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 10 0.34
24 11 0.38
25 8 0.28
ACGTcount: A:0.79, C:0.09, G:0.05, T:0.07
Consensus pattern (24 bp):
AAAAAAAAATTAGAAAGAAAACAA
Found at i:10182926 original size:26 final size:24
Alignment explanation
Indices: 10182876--10182936 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
10182866 AGGCATTTGA
* *
10182876 AAAAAAAATTAGAAAGAACACAAAC
1 AAAAAAAA-TAGAAAAAACAAAAAC
10182901 AAAAAAAATAGAAAAAAATCAAAAAC
1 AAAAAAAATAG-AAAAAA-CAAAAAC
10182927 AAAAAGAAAT
1 AAAAA-AAAT
10182937 TTAAAAGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 3 0.10
25 13 0.42
26 11 0.35
27 4 0.13
ACGTcount: A:0.77, C:0.08, G:0.07, T:0.08
Consensus pattern (24 bp):
AAAAAAAATAGAAAAAACAAAAAC
Found at i:10183933 original size:32 final size:32
Alignment explanation
Indices: 10183809--10183937 Score: 114
Period size: 32 Copynumber: 4.0 Consensus size: 32
10183799 CTGCATATAA
* * * *
10183809 TTTTTGTTTGGTTTACCTGCATGTGTTGACTA
1 TTTTGGTTTGGTTTACCTGCATATGTTGGCTG
* * * * * * *
10183841 TTTTGGTTTGGGTTGCTTGTATCTGTTTGTTG
1 TTTTGGTTTGGTTTACCTGCATATGTTGGCTG
** * *
10183873 TTTCAGTTAGGTTTACCTACATATGTTGGCTG
1 TTTTGGTTTGGTTTACCTGCATATGTTGGCTG
*
10183905 TTTTGGTTTGGTTTGCCTGCATATGTTGGCTG
1 TTTTGGTTTGGTTTACCTGCATATGTTGGCTG
10183937 T
1 T
10183938 CTCAATTCAA
Statistics
Matches: 71, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.10, C:0.12, G:0.26, T:0.52
Consensus pattern (32 bp):
TTTTGGTTTGGTTTACCTGCATATGTTGGCTG
Found at i:10186346 original size:18 final size:18
Alignment explanation
Indices: 10186325--10186390 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
10186315 CACAACATGC
10186325 CTTTTCTTCTTTTTCTTT
1 CTTTTCTTCTTTTTCTTT
10186343 C-TTTCTT-TTTTTC--T
1 CTTTTCTTCTTTTTCTTT
*
10186357 CTCTT-TTCTTTTTCTTT
1 CTTTTCTTCTTTTTCTTT
*
10186374 -TTTGCTTTCTTTTTCTT
1 CTTTTC-TTCTTTTTCTT
10186391 GCATGAGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 4 0.10
15 8 0.21
16 8 0.21
17 7 0.18
18 12 0.31
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (18 bp):
CTTTTCTTCTTTTTCTTT
Found at i:10186382 original size:27 final size:25
Alignment explanation
Indices: 10186328--10186390 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
10186318 AACATGCCTT
*
10186328 TTCTTCTTTTTCTTTCTTTCTTTTT
1 TTCTTCTTTTTCTTTCTTTCTTTCT
10186353 TTC-TCTCTTTTC-TT-TTTCTTT-T
1 TTCTTCT-TTTTCTTTCTTTCTTTCT
10186375 TTGCTTTCTTTTTCTT
1 TT-C-TTCTTTTTCTT
10186391 GCATGAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
22 3 0.09
23 8 0.24
24 10 0.30
25 12 0.36
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.78
Consensus pattern (25 bp):
TTCTTCTTTTTCTTTCTTTCTTTCT
Found at i:10186392 original size:14 final size:13
Alignment explanation
Indices: 10186331--10186390 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 13
10186321 ATGCCTTTTC
10186331 TTCTTTTTCTTTCT
1 TTCTTTTTC-TTCT
10186345 TTCTTTTT-TTCT
1 TTCTTTTTCTTCT
*
10186357 CTC-TTTTCTT-T
1 TTCTTTTTCTTCT
*
10186368 TTCTTTTT-TGCT
1 TTCTTTTTCTTCT
10186380 TTCTTTTTCTT
1 TTCTTTTTCTT
10186391 GCATGAGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 8 0.21
12 21 0.55
13 1 0.03
14 8 0.21
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (13 bp):
TTCTTTTTCTTCT
Found at i:10186772 original size:13 final size:11
Alignment explanation
Indices: 10186748--10186785 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
10186738 CAATCATCTC
10186748 TTTTTTTCTTT
1 TTTTTTTCTTT
*
10186759 TTTTTTACGTTT
1 TTTTTTTC-TTT
10186771 TTTTTTTCTTT
1 TTTTTTTCTTT
10186782 TTTT
1 TTTT
10186786 GCTTTCTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:10191601 original size:23 final size:24
Alignment explanation
Indices: 10191546--10191611 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
10191536 TCTTTGAATA
*
10191546 ATTATAA-TTTATTTTCAAAGTTTT
1 ATTATAATTTTATTTT-ATAGTTTT
*
10191570 ATTAAAATTTTATTTTATA-TTTT
1 ATTATAATTTTATTTTATAGTTTT
*
10191593 TTTATAATTTT-TCTTTATA
1 ATTATAATTTTAT-TTTATA
10191612 ATTTAGAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.03
23 19 0.53
24 8 0.22
25 8 0.22
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTATAATTTTATTTTATAGTTTT
Found at i:10191609 original size:13 final size:12
Alignment explanation
Indices: 10191547--10191615 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 12
10191537 CTTTGAATAA
10191547 TTATAATTTATTT
1 TTATAATTT-TTT
* * *
10191560 TCA-AAGTTTTA
1 TTATAATTTTTT
*
10191571 TTAAAATTTTATT
1 TTATAATTTT-TT
10191584 TTAT-A-TTTTT
1 TTATAATTTTTT
10191594 TTATAATTTTTCT
1 TTATAATTTTT-T
10191607 TTATAATTT
1 TTATAATTT
10191616 AGAATAACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
10 6 0.14
11 8 0.18
12 14 0.32
13 16 0.36
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATAATTTTTT
Found at i:10191711 original size:22 final size:23
Alignment explanation
Indices: 10191673--10191721 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
10191663 ATTTCATAAA
*
10191673 AAAATAAATAATAAAATGAAA-C
1 AAAATAAATAATAAAATAAAACC
10191695 AAAATAAATAA-ATAAATAAAACC
1 AAAATAAATAATA-AAATAAAACC
10191718 AAAA
1 AAAA
10191722 AAACCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAATAAATAATAAAATAAAACC
Found at i:10191756 original size:32 final size:31
Alignment explanation
Indices: 10191668--10191757 Score: 99
Period size: 32 Copynumber: 2.7 Consensus size: 31
10191658 AAAACATTTC
*
10191668 ATAAAAAAATAAATAATAAAATGAAACAAAATAA
1 ATAAATAAATAAA-AATAAAA--AAACAAAATAA
** *
10191702 ATAAATAAATAAAACCAAAAAAACCAAAATGA
1 ATAAATAAATAAAAATAAAAAAA-CAAAATAA
10191734 ATAAATAAATAAAAATACAAAAAA
1 ATAAATAAATAAAAATA-AAAAAA
10191758 GGGGTCAGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
31 3 0.06
32 22 0.46
33 11 0.23
34 12 0.25
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (31 bp):
ATAAATAAATAAAAATAAAAAAACAAAATAA
Found at i:10193537 original size:16 final size:16
Alignment explanation
Indices: 10193516--10193553 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10193506 CAATGTTTTG
10193516 AGGTATGATCACACAA
1 AGGTATGATCACACAA
10193532 AGGTATGATCACACAA
1 AGGTATGATCACACAA
10193548 AGGTAT
1 AGGTAT
10193554 AATGTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (16 bp):
AGGTATGATCACACAA
Found at i:10197452 original size:18 final size:17
Alignment explanation
Indices: 10197425--10197462 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
10197415 GACTGCACCA
*
10197425 TTTTCTATTTTTTTTTC
1 TTTTCTATTTCTTTTTC
10197442 TTTTCCTATTTCTTTTTC
1 TTTT-CTATTTCTTTTTC
10197460 TTT
1 TTT
10197463 CTACTTACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTATTTCTTTTTC
Found at i:10198176 original size:21 final size:21
Alignment explanation
Indices: 10198150--10198192 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10198140 TTTGACCAAT
10198150 GGCTTATTCGACTCGGTAAAC
1 GGCTTATTCGACTCGGTAAAC
* * *
10198171 GGCTTATTTGACTTGGTCAAC
1 GGCTTATTCGACTCGGTAAAC
10198192 G
1 G
10198193 ATTTCGGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (21 bp):
GGCTTATTCGACTCGGTAAAC
Found at i:10198204 original size:22 final size:22
Alignment explanation
Indices: 10198178--10198229 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
10198168 AACGGCTTAT
*
10198178 TTGACTTGGTCAACGATTTCGG
1 TTGACTTAGTCAACGATTTCGG
*
10198200 TTGACTTAGTTAACGATTTCGGG
1 TTGACTTAGTCAACGATTTC-GG
10198223 TT-ACTTA
1 TTGACTTA
10198230 TGGGTCGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (22 bp):
TTGACTTAGTCAACGATTTCGG
Found at i:10198419 original size:28 final size:28
Alignment explanation
Indices: 10198365--10198419 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
10198355 TAGATTATAA
** *
10198365 TAAAATATTTAATATAATTTTTGAATTT
1 TAAAATATTTAATATAATACTTAAATTT
* *
10198393 TAAAATTTTTAATATGATACTTAAATT
1 TAAAATATTTAATATAATACTTAAATT
10198420 ATGAATCTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (28 bp):
TAAAATATTTAATATAATACTTAAATTT
Found at i:10198792 original size:21 final size:20
Alignment explanation
Indices: 10198768--10198807 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10198758 AAAAATTCAA
*
10198768 ACTTAATGAACCGGCTGCAAT
1 ACTT-ATGAACCGACTGCAAT
*
10198789 ACTTGTGAACCGACTGCAA
1 ACTTATGAACCGACTGCAA
10198808 GGATGGTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (20 bp):
ACTTATGAACCGACTGCAAT
Found at i:10199455 original size:4 final size:4
Alignment explanation
Indices: 10199431--10199477 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
10199421 AACAGTGTAG
*
10199431 ATAA AAAA ATTAA ATTAA ATAA ATAA AT-A ATAAA ATAA ATAA ATAA A
1 ATAA ATAA A-TAA A-TAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA A
10199478 ATGAATATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
4 24 0.63
5 11 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:10199475 original size:13 final size:13
Alignment explanation
Indices: 10199431--10199484 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
10199421 AACAGTGTAG
10199431 ATAAA-AAAATTAA
1 ATAAATAAAA-TAA
10199444 ATTAAAT-AAATAA
1 A-TAAATAAAATAA
10199457 AT-AATAAAATAA
1 ATAAATAAAATAA
*
10199469 ATAAATAAAATGA
1 ATAAATAAAATAA
10199482 ATA
1 ATA
10199485 TGATGAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 3 0.08
12 9 0.25
13 17 0.47
14 7 0.19
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:10201090 original size:17 final size:15
Alignment explanation
Indices: 10201068--10201108 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
10201058 TTTTTTGCTT
10201068 TTATTTATCTTATATTA
1 TTATTTAT-TTAT-TTA
10201085 TTATTTA-TTATTTA
1 TTATTTATTTATTTA
10201099 TTATTTATTT
1 TTATTTATTT
10201109 TGATTCGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 6 0.26
17 7 0.30
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:10201105 original size:7 final size:7
Alignment explanation
Indices: 10201077--10201107 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
10201067 TTTATTTATC
10201077 TTATATTA
1 TTAT-TTA
10201085 TTATTTA
1 TTATTTA
10201092 TTATTTA
1 TTATTTA
10201099 TTATTTA
1 TTATTTA
10201106 TT
1 TT
10201108 TTGATTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATTTA
Found at i:10201193 original size:23 final size:23
Alignment explanation
Indices: 10201167--10201215 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10201157 ATTAATCTGC
10201167 GATGTACTAACAAATTATTGAAA
1 GATGTACTAACAAATTATTGAAA
*
10201190 GATGTACTAATAAATTATTGAAA
1 GATGTACTAACAAATTATTGAAA
10201213 GAT
1 GAT
10201216 TTTTAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (23 bp):
GATGTACTAACAAATTATTGAAA
Found at i:10205398 original size:12 final size:12
Alignment explanation
Indices: 10205383--10205436 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
10205373 ACTATTATTT
*
10205383 ATATAAATACTA
1 ATATAAATAATA
10205395 ATATATAATAATA
1 ATATA-AATAATA
10205408 GATAT-AATAATA
1 -ATATAAATAATA
*
10205420 AAATAAATAA-A
1 ATATAAATAATA
10205431 ATATAA
1 ATATAA
10205437 CAAAATAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.25
12 17 0.47
13 6 0.17
14 4 0.11
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:10205433 original size:17 final size:19
Alignment explanation
Indices: 10205394--10205480 Score: 54
Period size: 19 Copynumber: 4.6 Consensus size: 19
10205384 TATAAATACT
* *
10205394 AATATATAATAATAGATAT
1 AATATATAATAATAAATAA
10205413 AATA-ATAA-AATAAATAA
1 AATATATAATAATAAATAA
* *
10205430 AATATA-ACAAAATAAGTAA
1 AATATATA-ATAATAAATAA
* * * *
10205449 ATTATAGATTTATAAATCAA
1 AATATATAATAATAAAT-AA
10205469 AATATATTAATA
1 AATATA-TAATA
10205481 TATTTTTATA
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
17 12 0.24
18 6 0.12
19 22 0.44
20 8 0.16
21 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
AATATATAATAATAAATAA
Found at i:10205441 original size:19 final size:19
Alignment explanation
Indices: 10205414--10205454 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10205404 AATAGATATA
*
10205414 ATAATAAAATAAATAAAAT
1 ATAACAAAATAAATAAAAT
* *
10205433 ATAACAAAATAAGTAAATT
1 ATAACAAAATAAATAAAAT
10205452 ATA
1 ATA
10205455 GATTTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAACAAAATAAATAAAAT
Found at i:10205519 original size:20 final size:18
Alignment explanation
Indices: 10205471--10205521 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
10205461 TAAATCAAAA
10205471 TATATT-AAT-ATATTTT
1 TATATTAAATAATATTTT
**
10205487 TATATTATTTAATATTTAT
1 TATATTAAATAATATTT-T
10205506 TAATATTAAATAATAT
1 T-ATATTAAATAATAT
10205522 AAAAATAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 6 0.22
17 1 0.04
18 6 0.22
19 2 0.07
20 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATTAAATAATATTTT
Found at i:10208722 original size:204 final size:204
Alignment explanation
Indices: 10208366--10208799 Score: 527
Period size: 204 Copynumber: 2.1 Consensus size: 204
10208356 CTTCGAATGC
*
10208366 AAGATAAAAGTGATTTGTAAGACCTTTAGGCATAATCCGTAAGTCTTTCACACATATGATCCATA
1 AAGATAAAAGTGATTTGTAAGACCTTTAGGCATAATCCGTAAGTCTATCACACATATGATCCATA
* * * * * * *
10208431 AGACCTCTAGGCATGACCTATTAAAATCTTTGGGTACCTTTTGCAAATTTCAAAGTTGTGGAGCC
66 AAACCTCCAAGCATGACCTATTAAAATCTCTAGCTACCTTTTGCAAATTTCAAAGTTATGGAGCC
* ** * *
10208496 TTTGTTTTAAGGGAATATTTTTCAAAGTTTGATTTGTAAGA-CTTCCAAGCATAATCATCAAGAC
131 TTTGTTGTAAAAGAACATTTTTCAAAGTTTGATTTGTAAAACCTT-CAAGCATAATCATCAAGA-
* *
10208560 T-TTCAGGCAT
194 TGTCCAAGCAT
* * * ** **
10208570 AAGATAAAAGTGATTTGTATGACCTTTGGGTATAATCTC-TAAGT-TATCTGGACATATGATTTA
1 AAGATAAAAGTGATTTGTAAGACCTTTAGGCATAATC-CGTAAGTCTATC-ACACATATGATCCA
* * *
10208633 TAAAACCTCCAAGCATGATCTTTTAAAATCTCTAGCTACCTTTTTCAAAATTT-AAAGTTATGGA
64 TAAAACCTCCAAGCATGACCTATTAAAATCTCTAGCTACCTTTTGC-AAATTTCAAAGTTATGGA
* **
10208697 GCCTTTGTTGTAAAAGAGCATTTTTCAAAGTTTGATTTGTAAAACCTTCGGGCATAATCATCAAG
128 GCCTTTGTTGTAAAAGAACATTTTTCAAAGTTTGATTTGTAAAACCTTCAAGCATAATCATCAAG
10208762 ATGTCCAAGCAT
193 ATGTCCAAGCAT
*
10208774 AAGATAAAAGCGATTTGTAAGACCTT
1 AAGATAAAAGTGATTTGTAAGACCTT
10208800 CAAGCCTAAT
Statistics
Matches: 195, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
203 4 0.02
204 181 0.93
205 10 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (204 bp):
AAGATAAAAGTGATTTGTAAGACCTTTAGGCATAATCCGTAAGTCTATCACACATATGATCCATA
AAACCTCCAAGCATGACCTATTAAAATCTCTAGCTACCTTTTGCAAATTTCAAAGTTATGGAGCC
TTTGTTGTAAAAGAACATTTTTCAAAGTTTGATTTGTAAAACCTTCAAGCATAATCATCAAGATG
TCCAAGCAT
Found at i:10209036 original size:15 final size:15
Alignment explanation
Indices: 10209015--10209153 Score: 63
Period size: 15 Copynumber: 8.9 Consensus size: 15
10209005 TAATTGTCGG
10209015 ATTATTTTATTTTATT
1 ATTATTTTA-TTTATT
10209031 -TTATTTTATTTATT
1 ATTATTTTATTTATT
* *
10209045 ATTATTTCATGTTTTT
1 ATTATTTTAT-TTATT
* * **
10209061 ACTAATGCATTTATTT
1 ATTATTTTATTTA-TT
*
10209077 ATATATATTTATCATATT
1 AT-TAT-TTTAT-TTATT
10209095 CATCT-TATTTATTTATT
1 -AT-TAT-TTTATTTATT
10209112 ATTATTATTA-TT-TT
1 ATTATT-TTATTTATT
*
10209126 ATCTATTTTCTTTATT
1 AT-TATTTTATTTATT
*
10209142 ATT-TTTAATTTA
1 ATTATTTTATTTA
10209154 ATTTAATTTG
Statistics
Matches: 95, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
14 19 0.20
15 29 0.31
16 24 0.25
17 6 0.06
18 12 0.13
19 5 0.05
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (15 bp):
ATTATTTTATTTATT
Found at i:10209044 original size:4 final size:5
Alignment explanation
Indices: 10209016--10209051 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
10209006 AATTGTCGGA
10209016 TTATT TTATT TTATT TTATT TTA-T TTATT ATTATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT -TTATT T
10209052 CATGTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:10209132 original size:21 final size:21
Alignment explanation
Indices: 10209102--10209146 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10209092 ATTCATCTTA
*
10209102 TTTATTTATTATT-ATTATTAT
1 TTTATCTATT-TTCATTATTAT
*
10209123 TTTATCTATTTTCTTTATTAT
1 TTTATCTATTTTCATTATTAT
10209144 TTT
1 TTT
10209147 TAATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATCTATTTTCATTATTAT
Found at i:10210494 original size:21 final size:23
Alignment explanation
Indices: 10210470--10210523 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
10210460 AAGAATTATT
*
10210470 AAATATTAAAA-ATTAA-AAATA
1 AAATAATAAAAGATTAATAAATA
10210491 AAATAATAAAAGATTAATAAATA
1 AAATAATAAAAGATTAATAAATA
10210514 ATAATAATAA
1 A-AATAATAA
10210524 TTTTTTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.34
22 5 0.17
23 6 0.21
24 8 0.28
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATAATAAAAGATTAATAAATA
Found at i:10213690 original size:17 final size:18
Alignment explanation
Indices: 10213665--10213701 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10213655 ATAGTTAAAT
*
10213665 TTTTTATTTTTTA-TTTA
1 TTTTCATTTTTTACTTTA
10213682 TTTTCATTTTTTACTTTA
1 TTTTCATTTTTTACTTTA
10213700 TT
1 TT
10213702 GCTTTATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCATTTTTTACTTTA
Found at i:10213776 original size:9 final size:9
Alignment explanation
Indices: 10213722--10213786 Score: 60
Period size: 10 Copynumber: 7.0 Consensus size: 9
10213712 TATATACATT
10213722 TTTATTTTA
1 TTTATTTTA
*
10213731 TTTATCTTA
1 TTTATTTTA
10213740 TTATATTTTA
1 TT-TATTTTA
***
10213750 CCCATTTTTA
1 TTTA-TTTTA
10213760 TTTGATTTTA
1 TTT-ATTTTA
10213770 TTTA-TTTA
1 TTTATTTTA
10213778 TTTATTTTA
1 TTTATTTTA
10213787 CTTGTTTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
8 8 0.18
9 16 0.36
10 19 0.43
11 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10213794 original size:17 final size:18
Alignment explanation
Indices: 10213756--10213795 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10213746 TTTACCCATT
*
10213756 TTTATTTGATTTTATTTA
1 TTTATTTGATTTTACTTA
*
10213774 TTTATTT-ATTTTACTTG
1 TTTATTTGATTTTACTTA
10213791 TTTAT
1 TTTAT
10213796 CCCCTCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTATTTGATTTTACTTA
Found at i:10213889 original size:12 final size:12
Alignment explanation
Indices: 10213872--10213919 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
10213862 GGTTAATTCC
10213872 AATAAAAAGAAA
1 AATAAAAAGAAA
10213884 AATAAAAGAGAAA
1 AATAAAA-AGAAA
*
10213897 AATAAGAAGAATA
1 AATAAAAAGAA-A
10213910 AACTAAAAAG
1 AA-TAAAAAG
10213920 GTTTTGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.35
13 14 0.45
14 6 0.19
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.10
Consensus pattern (12 bp):
AATAAAAAGAAA
Found at i:10215373 original size:54 final size:52
Alignment explanation
Indices: 10215124--10215418 Score: 259
Period size: 55 Copynumber: 5.3 Consensus size: 52
10215114 ATTTTTTTTA
* *
10215124 AAAAATAAAATAATTTCAAAAATTGAGGAAAAAGTTTAATTATCAATTTTTCCTT
1 AAAAA-AAAATAATTTCAAAAA-TGAGGAAAAAG-TAAAATATCAATTTTTCCTT
* * * * * *
10215179 AAAAAAAACAGAATTTTAAAATTTGAGGAAAAAATTTGAAATATCAATTTTTTCTT
1 AAAAAAAA-ATAATTTCAAAA-ATGAGG-AAAAA-GTAAAATATCAATTTTTCCTT
* * * *
10215235 AAATAAAAATAATTTTAGAAAAT-ACGAAAAAAGTTAAATTATCAATTCTTTCCTTT
1 AAAAAAAAATAATTTCA-AAAATGA-GGAAAAAG-TAAAATATCAATT-TTTCC-TT
* *
10215291 AACAAAAAAATTAATTTTAAAAATGAGGAAAAAGTAGAAATATCAAATTTTCCTT
1 AA-AAAAAAA-TAATTTCAAAAATGAGGAAAAAGTA-AAATATCAATTTTTCCTT
* * * *
10215346 AAACAAAAATAATTTCAAGAAATGAGGAAAGAATTAAAATATCATTTTTTTCTT
1 AAAAAAAAATAATTTCAA-AAATGAGGAAA-AAGTAAAATATCAATTTTTCCTT
10215400 AAAACAAAAATAATTTCAA
1 AAAA-AAAAATAATTTCAA
10215419 GAAACAATCA
Statistics
Matches: 198, Mismatches: 26, Indels: 32
0.77 0.10 0.12
Matches are distributed among these distances:
53 8 0.04
54 55 0.28
55 56 0.28
56 43 0.22
57 27 0.14
58 9 0.05
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (52 bp):
AAAAAAAAATAATTTCAAAAATGAGGAAAAAGTAAAATATCAATTTTTCCTT
Found at i:10215409 original size:111 final size:112
Alignment explanation
Indices: 10215130--10215414 Score: 307
Period size: 111 Copynumber: 2.6 Consensus size: 112
10215120 TTTAAAAAAT
* * * *
10215130 AAAATAATTTCAA-AAATTGAGGAAAAAGTTTAATTATCAATTTTTCCTTAAA-AAAAACA-GAA
1 AAAATAATTTCAAGAAA-TGAGGAAAAAGTTAAATTATCATTTTTTCCTTAAACAAAAAAATTAA
* * * * * *
10215192 TTTTAAAATTTGAGGAAAAAATTTGAAATATCAATTTTTTCTTAAATA
65 TTTTAAAATATGAGGAAAAAAGTAGAAATATCAAATTTTCCTTAAACA
* * * *
10215240 AAAATAATTT-TAGAAAAT-ACGAAAAAAGTTAAATTATCAATTCTTTCCTTTAACAAAAAAATT
1 AAAATAATTTCAAG-AAATGA-GGAAAAAGTTAAATTATC-ATTTTTTCCTTAAACAAAAAAATT
10215303 AATTTTAAAA-ATGAGG-AAAAAGTAGAAATATCAAATTTTCCTTAAACA
63 AATTTTAAAATATGAGGAAAAAAGTAGAAATATCAAATTTTCCTTAAACA
* *
10215351 AAAATAATTTCAAGAAATGAGGAAAGAA-TTAAAATATCATTTTTTTCTTAAAACAAAAATAATT
1 AAAATAATTTCAAGAAATGAGGAAA-AAGTTAAATTATCATTTTTTCCTT-AAACAAAAA-AATT
10215415 TCAAGAAACA
Statistics
Matches: 144, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
109 2 0.01
110 36 0.25
111 76 0.53
112 20 0.14
113 10 0.07
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (112 bp):
AAAATAATTTCAAGAAATGAGGAAAAAGTTAAATTATCATTTTTTCCTTAAACAAAAAAATTAAT
TTTAAAATATGAGGAAAAAAGTAGAAATATCAAATTTTCCTTAAACA
Found at i:10215422 original size:55 final size:53
Alignment explanation
Indices: 10215124--10215418 Score: 281
Period size: 54 Copynumber: 5.3 Consensus size: 53
10215114 ATTTTTTTTA
* *
10215124 AAAAATAAAATAATTTCAAAAATTGAGGAAAAAGTTTAATTATCAATTTTTCCTT
1 AAAAA-AAAATAATTTCAAAAA-TGAGGAAAAAGTTAAAATATCAATTTTTCCTT
* * * * * *
10215179 AAAAAAAACAGAATTTTAAAATTTGAGGAAAAAATTTGAAATATCAATTTTTTCTT
1 AAAAAAAA-ATAATTTCAAAA-ATGAGG-AAAAAGTTAAAATATCAATTTTTCCTT
* * * *
10215235 AAATAAAAATAATTTTAGAAAAT-ACGAAAAAAGTTAAATTATCAATTCTTTCCTTT
1 AAAAAAAAATAATTTCA-AAAATGA-GGAAAAAGTTAAAATATCAATT-TTTCC-TT
* *
10215291 AACAAAAAAATTAATTTTAAAAATGAGGAAAAAG-TAGAAATATCAAATTTTCCTT
1 AA-AAAAAAA-TAATTTCAAAAATGAGGAAAAAGTTA-AAATATCAATTTTTCCTT
* * *
10215346 AAACAAAAATAATTTCAAGAAATGAGGAAAGAA-TTAAAATATCATTTTTTTCTT
1 AAAAAAAAATAATTTCAA-AAATGAGGAAA-AAGTTAAAATATCAATTTTTCCTT
10215400 AAAACAAAAATAATTTCAA
1 AAAA-AAAAATAATTTCAA
10215419 GAAACAATCA
Statistics
Matches: 200, Mismatches: 25, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
53 8 0.04
54 56 0.28
55 56 0.28
56 44 0.22
57 27 0.14
58 9 0.05
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (53 bp):
AAAAAAAAATAATTTCAAAAATGAGGAAAAAGTTAAAATATCAATTTTTCCTT
Found at i:10216537 original size:13 final size:13
Alignment explanation
Indices: 10216519--10216545 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10216509 AAGAAAATGT
10216519 CCATTTGCTTTCC
1 CCATTTGCTTTCC
10216532 CCATTTGCTTTCC
1 CCATTTGCTTTCC
10216545 C
1 C
10216546 TTTTGAGCAT
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:0.07, C:0.41, G:0.07, T:0.44
Consensus pattern (13 bp):
CCATTTGCTTTCC
Found at i:10219001 original size:5 final size:5
Alignment explanation
Indices: 10218991--10219030 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
10218981 ATGGTCAAAT
10218991 TTTTA TTTTA TTTTA CTTTTA TTTTA TTTTA TTATTA TTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TT-TTA TTT
10219031 CATGCTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:10219012 original size:16 final size:15
Alignment explanation
Indices: 10218991--10219030 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
10218981 ATGGTCAAAT
10218991 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
10219006 CTTTTATTTTATTTTA
1 -TTTTATTTTATTTTA
10219022 TTATTATTT
1 TT-TTATTT
10219031 CATGCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:10219028 original size:11 final size:10
Alignment explanation
Indices: 10218991--10219030 Score: 62
Period size: 11 Copynumber: 3.8 Consensus size: 10
10218981 ATGGTCAAAT
10218991 TTTTATTTTA
1 TTTTATTTTA
10219001 TTTTACTTTTA
1 TTTTA-TTTTA
10219012 TTTTATTTTA
1 TTTTATTTTA
10219022 TTATTATTT
1 TT-TTATTT
10219031 CATGCTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 12 0.43
11 16 0.57
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:10219115 original size:10 final size:9
Alignment explanation
Indices: 10219069--10219145 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 9
10219059 CATATACGTT
*
10219069 TTTATCTTA
1 TTTATTTTA
* *
10219078 TTTATCTTC
1 TTTATTTTA
10219087 TTATATTTTA
1 TT-TATTTTA
*
10219097 CTTATTTTTA
1 TTTA-TTTTA
10219107 TTTGATTTTA
1 TTT-ATTTTA
*
10219117 TCTAATTTTA
1 T-TTATTTTA
*
10219127 TTTA-TTTC
1 TTTATTTTA
10219135 TTTA-TTTA
1 TTTATTTTA
10219143 TTT
1 TTT
10219146 TGCTTGTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
8 13 0.24
9 14 0.25
10 26 0.47
11 2 0.04
ACGTcount: A:0.21, C:0.08, G:0.01, T:0.70
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10219265 original size:18 final size:18
Alignment explanation
Indices: 10219242--10219279 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10219232 CTAATTCCCT
10219242 AAAAAAATA-AATAAAAAG
1 AAAAAAA-AGAATAAAAAG
*
10219260 AAAAAAAAGAATGAAAAG
1 AAAAAAAAGAATAAAAAG
10219278 AA
1 AA
10219280 TAAACCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAAAAAAGAATAAAAAG
Found at i:10220579 original size:54 final size:52
Alignment explanation
Indices: 10220477--10220704 Score: 201
Period size: 53 Copynumber: 4.2 Consensus size: 52
10220467 TTAAAAAAAT
* * *
10220477 AAAATAATTTTAAAAAAAATGAGGAAAAAGTT-AAATTATCAATTTTTCCTTTAACA
1 AAAATAATTTT---AAAAATGAGAAAAAAGTTGAAA--ATAAATTTTTCCTTAAACA
* *
10220533 AAAATAATTTTAAAATTTGAGAAAAAAGTTGAAGAATAAATTTTTCCTTAAATA
1 AAAATAATTTTAAAA-ATGAGAAAAAAGTTGAA-AATAAATTTTTCCTTAAACA
* * * * *
10220587 AAAATAATTTCAAAAATGAGAAAAAAGTTGAATTATCAGTTTTTCCTTTAACA
1 AAAATAATTTTAAAAATGAGAAAAAAGTTGAA-AATAAATTTTTCCTTAAACA
* * *
10220640 AAAAAAATTAATTAAAAAAAGGGAAAAAAGTT-AAAATATCAATTTTT-CTTAAACA
1 AAAATAATT--TT-AAAAATGAGAAAAAAGTTGAAAATA--AATTTTTCCTTAAACA
10220695 AAAATAATTT
1 AAAATAATTT
10220705 CAATAGTTGA
Statistics
Matches: 142, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
53 44 0.31
54 44 0.31
55 20 0.14
56 34 0.24
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (52 bp):
AAAATAATTTTAAAAATGAGAAAAAAGTTGAAAATAAATTTTTCCTTAAACA
Found at i:10220621 original size:107 final size:106
Alignment explanation
Indices: 10220491--10220707 Score: 294
Period size: 107 Copynumber: 2.0 Consensus size: 106
10220481 TAATTTTAAA
* * ***
10220491 AAAAATGAGGAAAAAGTTAAATTATCAATTTTTCCTTTAACAAAAATAATT-TTAAAATTTGAGA
1 AAAAATGAGAAAAAAGTTAAATTATCAATTTTTCCTTTAACAAAAAAAATTATTAAAAAAAGAGA
*
10220555 AAAAAGTTGAAGAATA-AATTTTTCCTTAAATAAAAATAATTTC
66 AAAAAGTT-AA-AATACAATTTTT-CTTAAACAAAAATAATTTC
* * *
10220598 AAAAATGAGAAAAAAGTTGAATTATCAGTTTTTCCTTTAACAAAAAAAATTAATTAAAAAAAGGG
1 AAAAATGAGAAAAAAGTTAAATTATCAATTTTTCCTTTAACAAAAAAAATT-ATTAAAAAAAGAG
10220663 AAAAAAGTTAAAATATCAATTTTTCTTAAACAAAAATAATTTC
65 AAAAAAGTTAAAATA-CAATTTTTCTTAAACAAAAATAATTTC
10220706 AA
1 AA
10220708 TAGTTGAAAT
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
107 51 0.53
108 22 0.23
109 24 0.25
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (106 bp):
AAAAATGAGAAAAAAGTTAAATTATCAATTTTTCCTTTAACAAAAAAAATTATTAAAAAAAGAGA
AAAAAGTTAAAATACAATTTTTCTTAAACAAAAATAATTTC
Found at i:10220630 original size:53 final size:53
Alignment explanation
Indices: 10220491--10220707 Score: 238
Period size: 54 Copynumber: 4.0 Consensus size: 53
10220481 TAATTTTAAA
* * *
10220491 AAAAATGAGGAAAAAGTTAAATTATCAATTTTTCCTTTAACAAAAATAATTTT
1 AAAAATGAGAAAAAAGTTAAATTATCAATTTTTCCTTAAACAAAAATAATTTC
* * ** * *
10220544 AAAATTTGAGAAAAAAGTTGAAGAATAAATTTTTCCTTAAATAAAAATAATTTC
1 AAAA-ATGAGAAAAAAGTTAAATTATCAATTTTTCCTTAAACAAAAATAATTTC
* * * * *
10220598 AAAAATGAGAAAAAAGTTGAATTATCAGTTTTTCCTTTAACAAAAAAAATTAATTA
1 AAAAATGAGAAAAAAGTTAAATTATCAATTTTTCCTTAAACAAAAATAA-T--TTC
* * *
10220654 AAAAAAGGGAAAAAAGTTAAAATATCAATTTTT-CTTAAACAAAAATAATTTC
1 AAAAATGAGAAAAAAGTTAAATTATCAATTTTTCCTTAAACAAAAATAATTTC
10220706 AA
1 AA
10220708 TAGTTGAAAT
Statistics
Matches: 134, Mismatches: 26, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
52 4 0.03
53 41 0.31
54 46 0.34
55 13 0.10
56 30 0.22
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAAATGAGAAAAAAGTTAAATTATCAATTTTTCCTTAAACAAAAATAATTTC
Found at i:10220718 original size:41 final size:41
Alignment explanation
Indices: 10220668--10220748 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
10220658 AAGGGAAAAA
* *
10220668 AGTTAAAATATCAATTTTTCTTAAACAAAAATAATTTCAAT
1 AGTTAAAATATCAAATTTCCTTAAACAAAAATAATTTCAAT
* * * *
10220709 AGTTGAAATATTAAATTTCCTTGAATAAAAATAATTTCAA
1 AGTTAAAATATCAAATTTCCTTAAACAAAAATAATTTCAA
10220749 GATTTTGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (41 bp):
AGTTAAAATATCAAATTTCCTTAAACAAAAATAATTTCAAT
Found at i:10223987 original size:40 final size:40
Alignment explanation
Indices: 10223934--10224026 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
10223924 CGTGGTGAAC
* * *
10223934 TTTTTTGTCCATTTGGG-TAATAAATGCTAACATGGCAATT
1 TTTTTTATCCATTTGGGAAAAAAAATGCTAACATGGCAA-T
* * *
10223974 TTTTTTATCCATTTGGGAAAAAAAATGCTGACGTGGTAAT
1 TTTTTTATCCATTTGGGAAAAAAAATGCTAACATGGCAAT
10224014 TTTTTTATCCATT
1 TTTTTTATCCATT
10224027 CATTTAAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 30 0.65
41 16 0.35
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (40 bp):
TTTTTTATCCATTTGGGAAAAAAAATGCTAACATGGCAAT
Found at i:10225484 original size:9 final size:10
Alignment explanation
Indices: 10225461--10225504 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
10225451 CCAATTGGTC
10225461 TTTATTTTTA
1 TTTATTTTTA
10225471 TTTATTTTTA
1 TTTATTTTTA
*
10225481 -TTATTTTTC
1 TTTATTTTTA
*
10225490 TTTGATTTTTT
1 TTT-ATTTTTA
10225501 TTTA
1 TTTA
10225505 GTTGATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:10225486 original size:19 final size:20
Alignment explanation
Indices: 10225462--10225499 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10225452 CAATTGGTCT
10225462 TTATTTTTATTT-ATTTTTA
1 TTATTTTTATTTGATTTTTA
*
10225481 TTATTTTTCTTTGATTTTT
1 TTATTTTTATTTGATTTTT
10225500 TTTTAGTTGA
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:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (20 bp):
TTATTTTTATTTGATTTTTA
Found at i:10227723 original size:58 final size:59
Alignment explanation
Indices: 10227575--10227762 Score: 256
Period size: 61 Copynumber: 3.2 Consensus size: 59
10227565 CTAGTTCCTT
** * *
10227575 AAATATTTTTTAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAGTTTTTTTCAAAA
1 AAATATTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-CTTTCT-AAAA
* *
10227636 AATTATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT-AAA
1 AAATATTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAA
*
10227694 AAATATTTTTTAGGAAAAA-TTGAAAGTATCAATTTTTCC-TAAAAATAAGCTTTCTAAAA
1 AAATATTTTTTA-GAAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAGCTTTCTAAAA
10227753 AAATATTTTT
1 AAATATTTTT
10227763 AGTATCAATT
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
58 41 0.36
59 25 0.22
60 4 0.03
61 45 0.39
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (59 bp):
AAATATTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAA
Found at i:10227764 original size:58 final size:60
Alignment explanation
Indices: 10227575--10227762 Score: 251
Period size: 59 Copynumber: 3.2 Consensus size: 60
10227565 CTAGTTCCTT
** * * *
10227575 AAATATTTTTTA-GAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAGTTTTTTTCAAA
1 AAATATTTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCCTGAAAATAAG-CTTTCTAAAA
*
10227635 AAAT-TATTTTTAAGAAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAGCTTTCT-AAA
1 AAATAT-TTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCC-TGAAAATAAGCTTTCTAAAA
*
10227694 AAATATTTTTTAGGAAAAA-TTGAAAGTATCAATTTTTCCTAAAAATAAGCTTTCTAAAA
1 AAATATTTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCCTGAAAATAAGCTTTCTAAAA
10227753 AAATATTTTT
1 AAATATTTTT
10227763 AGTATCAATT
Statistics
Matches: 116, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
58 28 0.24
59 39 0.34
60 19 0.16
61 30 0.26
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (60 bp):
AAATATTTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCCTGAAAATAAGCTTTCTAAAA
Found at i:10227774 original size:103 final size:102
Alignment explanation
Indices: 10227660--10227855 Score: 288
Period size: 103 Copynumber: 1.9 Consensus size: 102
10227650 AAAAGTTGAA
** * *
10227660 AGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA-ATATTTTTTAGGAAAAATTGAAAGTATC
1 AGTATCAATTTTCCTAAAAAATAAGCTTTC-AAAAATAAAATTTTTAGGAAAAATTGAAAGTATC
10227724 AATTTTTCC-TAAAAATAAGCTTTCTAAAAAAATATTTTT
65 AA-TTTTCCTTAAAAATAAGCTTTC-AAAAAAATATTTTT
* *
10227763 AGTATCAATTTTCCTAAAAAATAAGTTTTCAAAAATAAAATTTTTAGGAAAAGTTGAAAGTATCA
1 AGTATCAATTTTCCTAAAAAATAAGCTTTCAAAAATAAAATTTTTAGGAAAAATTGAAAGTATCA
*
10227828 ATTTTCCTTAAAAATAAGTTTTCAAAAA
66 ATTTTCCTTAAAAATAAGCTTTCAAAAA
10227856 TGGATTTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
102 16 0.19
103 68 0.81
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (102 bp):
AGTATCAATTTTCCTAAAAAATAAGCTTTCAAAAATAAAATTTTTAGGAAAAATTGAAAGTATCA
ATTTTCCTTAAAAATAAGCTTTCAAAAAAATATTTTT
Found at i:10227782 original size:44 final size:46
Alignment explanation
Indices: 10227718--10227809 Score: 136
Period size: 45 Copynumber: 2.0 Consensus size: 46
10227708 AAAAATTGAA
*
10227718 AGTATCAATTTTTCCT-AAAAATAAGCTTTCTAAAAA-AATATTTTT
1 AGTATCAATTTTTCCTAAAAAATAAGCTTTC-AAAAATAAAATTTTT
*
10227763 AGTATCAA-TTTTCCTAAAAAATAAGTTTTCAAAAATAAAATTTTT
1 AGTATCAATTTTTCCTAAAAAATAAGCTTTCAAAAATAAAATTTTT
10227808 AG
1 AG
10227810 GAAAAGTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 12 0.28
45 31 0.72
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (46 bp):
AGTATCAATTTTTCCTAAAAAATAAGCTTTCAAAAATAAAATTTTT
Found at i:10227828 original size:58 final size:58
Alignment explanation
Indices: 10227763--10227947 Score: 218
Period size: 58 Copynumber: 3.2 Consensus size: 58
10227753 AAATATTTTT
10227763 AGTATCAATTTTCCTAAAAAATAAGTTTTCAAAAATAAAATTTTTAGGAAAAGTTGAA
1 AGTATCAATTTTCCTAAAAAATAAGTTTTCAAAAATAAAATTTTTAGGAAAAGTTGAA
* **
10227821 AGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAAT-GGATTTTTAAGGAAAAGTTGAA
1 AGTATCAATTTTCCTAAAAAATAAGTTTTCAAAAATAAAATTTTT-AGGAAAAGTTGAA
* * * * * *
10227879 AATATCAATTTTCTTCAAAATTAAAG-TTTCTAAAA-AATA-TTTT-GGAAAAAAGTTGAA
1 AGTATCAATTTTCCTAAAAAAT-AAGTTTTCAAAAATAAAATTTTTAGG--AAAAGTTGAA
10227936 AGTATCAATTTT
1 AGTATCAATTTT
10227948 TCCTGTACAA
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
55 2 0.02
57 31 0.28
58 75 0.68
59 3 0.03
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (58 bp):
AGTATCAATTTTCCTAAAAAATAAGTTTTCAAAAATAAAATTTTTAGGAAAAGTTGAA
Found at i:10227872 original size:161 final size:160
Alignment explanation
Indices: 10227627--10227921 Score: 411
Period size: 161 Copynumber: 1.8 Consensus size: 160
10227617 AAATAAGTTT
** *
10227627 TTTTCAAAAAATTATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTA
1 TTTTCAAAAAAAAATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTA
* *
10227692 AAAAATATTTTTTAGGAAAAATTGAAAGTATCAATTTTTCCT-AAAAAT-AAGCTTTCTAAAAAA
66 AAAAATATTTTTAAGGAAAAATTGAAAATATCAA-TTTTCCTCAAAAATAAAG-TTTCT-AAAAA
10227755 ATATTTTTAGTATCAATTTTCCTAAAAAATAAG
128 ATATTTTTAGTATCAATTTTCCTAAAAAATAAG
*
10227788 TTTTCAAAAATAAAATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTT-T
1 TTTTCAAAAA-AAAATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
* * * *
10227850 CAAAAATGGATTTTTAAGGAAAAGTTGAAAATATCAATTTTCTTCAAAATTAAAGTTTCTAAAAA
65 AAAAAAT--ATTTTTAAGGAAAAATTGAAAATATCAATTTTCCTCAAAAATAAAGTTTCTAAAAA
10227915 ATATTTT
128 ATATTTT
10227922 GGAAAAAAGT
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
159 7 0.06
160 21 0.18
161 81 0.68
162 10 0.08
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (160 bp):
TTTTCAAAAAAAAATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTA
AAAAATATTTTTAAGGAAAAATTGAAAATATCAATTTTCCTCAAAAATAAAGTTTCTAAAAAATA
TTTTTAGTATCAATTTTCCTAAAAAATAAG
Found at i:10228515 original size:66 final size:66
Alignment explanation
Indices: 10228422--10228547 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
10228412 TTATGACAAG
* * * * *
10228422 CAAAATGGGGAAGTGGGTTTAAGAAGTGGTGAGCAAAAT-AGAGAAAATGGTAATGTAGATTGTG
1 CAAAATAGGGAAGTGAGTTTAAGAAGTGATGAACAAAATGAGA-AAAATAGTAATGTAGATTGTG
10228486 AA
65 AA
* * *
10228488 CAAAATAGGGATGTGAGTTTAGGAAGTGATGAACATAATGAGAAAAATAGTAATGTAGAT
1 CAAAATAGGGAAGTGAGTTTAAGAAGTGATGAACAAAATGAGAAAAATAGTAATGTAGAT
10228548 GTTAATGATA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 48 0.94
67 3 0.06
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (66 bp):
CAAAATAGGGAAGTGAGTTTAAGAAGTGATGAACAAAATGAGAAAAATAGTAATGTAGATTGTGA
A
Found at i:10228787 original size:18 final size:17
Alignment explanation
Indices: 10228730--10228791 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
10228720 TGATTTCCAT
*
10228730 GATGATGATGCTGATGGA
1 GATGATAATGCTGAT-GA
* *
10228748 TATGATAATGAC-AATGA
1 GATGATAATG-CTGATGA
10228765 TGATGATAATGCTGATAGA
1 -GATGATAATGCTGAT-GA
10228784 GATGATAA
1 GATGATAA
10228792 GGATGATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.09
18 29 0.83
19 3 0.09
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (17 bp):
GATGATAATGCTGATGA
Found at i:10236184 original size:3 final size:3
Alignment explanation
Indices: 10236178--10236217 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
10236168 AATAATTTTG
10236178 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10236218 TCACCAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10243015 original size:24 final size:24
Alignment explanation
Indices: 10243001--10243065 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
10242991 ATGAGCAAAA
**
10243001 TCTAACAATGCATCATGAGTGGCG
1 TCTAACAATGCATCATGAGCAGCG
*
10243025 TCTAACAATGCATCATGACCAGCG
1 TCTAACAATGCATCATGAGCAGCG
10243049 TCTAACAATGCATCATG
1 TCTAACAATGCATCATG
10243066 GTCACCCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (24 bp):
TCTAACAATGCATCATGAGCAGCG
Found at i:10243474 original size:23 final size:23
Alignment explanation
Indices: 10243444--10243489 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10243434 TTTTTGAAGA
* **
10243444 AAAATTTTCTCCTGAACACCCTT
1 AAAATTTTCCCCCAAACACCCTT
10243467 AAAATTTTCCCCCAAACACCCTT
1 AAAATTTTCCCCCAAACACCCTT
10243490 TCCACCCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATTTTCCCCCAAACACCCTT
Found at i:10249425 original size:22 final size:23
Alignment explanation
Indices: 10249395--10249437 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10249385 ACATTATTTA
*
10249395 ATCTAATCCTATTC-ATAATATC
1 ATCTAATCCTATCCTATAATATC
*
10249417 ATCTTATCCTATCCTATAATA
1 ATCTAATCCTATCCTATAATA
10249438 ATCTTGTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (23 bp):
ATCTAATCCTATCCTATAATATC
Found at i:10250762 original size:28 final size:29
Alignment explanation
Indices: 10250713--10250783 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
10250703 CGTATAACTC
*
10250713 TTAAATTATAATAAAATATTTACTATATTAT
1 TTAAATTAT-A-AAAATATTTACTATATTAG
* *
10250744 TTAAATTTTAAAAAT-TTTAGTATATTAG
1 TTAAATTATAAAAATATTTACTATATTAG
10250772 TTAAATTATAAA
1 TTAAATTATAAA
10250784 TTTATTAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 22 0.61
29 5 0.14
30 1 0.03
31 8 0.22
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (29 bp):
TTAAATTATAAAAATATTTACTATATTAG
Found at i:10250922 original size:21 final size:22
Alignment explanation
Indices: 10250876--10250923 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10250866 AAATTTATAA
*
10250876 TTTAAATATTATACTAAAAATT
1 TTTAAATATCATACTAAAAATT
* *
10250898 TTTAAATATCATA-TTAAATTT
1 TTTAAATATCATACTAAAAATT
10250919 TTTAA
1 TTTAA
10250924 TATAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAATATCATACTAAAAATT
Found at i:10252990 original size:20 final size:20
Alignment explanation
Indices: 10252962--10253000 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10252952 AAGAAATATT
*
10252962 GAATCTTGGTGAATCTTGAA
1 GAATCTTGGAGAATCTTGAA
* *
10252982 GAATTTTGGAGATTCTTGA
1 GAATCTTGGAGAATCTTGA
10253001 TCACTCTTGG
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:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (20 bp):
GAATCTTGGAGAATCTTGAA
Found at i:10253030 original size:20 final size:19
Alignment explanation
Indices: 10252986--10253032 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
10252976 CTTGAAGAAT
*
10252986 TTTGGAGATTCTTGATCAC
1 TTTGGAGATTCTTAATCAC
10253005 TCTTGGATGATTCTTAAT-AC
1 T-TTGGA-GATTCTTAATCAC
10253025 ATTTGGAG
1 -TTTGGAG
10253033 TAATCTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (19 bp):
TTTGGAGATTCTTAATCAC
Found at i:10258031 original size:33 final size:33
Alignment explanation
Indices: 10257955--10258076 Score: 84
Period size: 33 Copynumber: 3.7 Consensus size: 33
10257945 AGTCCTGCAT
* * * * *
10257955 TAAACCAAGTTTGAAAATGAAATGGACTTAGAC
1 TAAACCAAGGTCGAAAATGAAAAGGACCTAAAC
* * *
10257988 TGAACTAAGGTCGAAACTGAAAAGGACCTAAAC
1 TAAACCAAGGTCGAAAATGAAAAGGACCTAAAC
** ** **
10258021 TAAACCAAGGTAAAAAATGCAAAA-GATTTAGGC
1 TAAACCAAGGTCGAAAATG-AAAAGGACCTAAAC
* *
10258054 TAAACCAAGGTTGAAAATAAAAA
1 TAAACCAAGGTCGAAAATGAAAA
10258077 AAGACTTGGA
Statistics
Matches: 68, Mismatches: 20, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
32 4 0.06
33 60 0.88
34 4 0.06
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (33 bp):
TAAACCAAGGTCGAAAATGAAAAGGACCTAAAC
Found at i:10258135 original size:33 final size:34
Alignment explanation
Indices: 10258053--10258138 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 34
10258043 AAGATTTAGG
*
10258053 CTAAACCAAGGTTGAAAATAAAAAAAGACTTGGA
1 CTAAACCAAGGTTGAAAATAAAAAAAGACATGGA
* * * *
10258087 TTGAACCAAGGTTGAAAA-CAAAATAGACATGGA
1 CTAAACCAAGGTTGAAAATAAAAAAAGACATGGA
*
10258120 CTAAACCAAGTTTGAAAAT
1 CTAAACCAAGGTTGAAAAT
10258139 GAAATCAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 27 0.63
34 16 0.37
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (34 bp):
CTAAACCAAGGTTGAAAATAAAAAAAGACATGGA
Found at i:10259240 original size:19 final size:19
Alignment explanation
Indices: 10259216--10259254 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10259206 TCCTTTTCCT
10259216 TTATTTTTATTTTTTCATC
1 TTATTTTTATTTTTTCATC
*
10259235 TTATTTTTATTTTTTTATC
1 TTATTTTTATTTTTTCATC
10259254 T
1 T
10259255 CTCTTTTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATTTTTATTTTTTCATC
Found at i:10260361 original size:23 final size:21
Alignment explanation
Indices: 10260334--10260387 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
10260324 ATCACTATTC
*
10260334 TTAAAATATTATTATTATTAATA
1 TTAAAATATTAATA-T-TTAATA
* *
10260357 TTAAAATAGTAATATTTATTA
1 TTAAAATATTAATATTTAATA
10260378 TTAAAATATT
1 TTAAAATATT
10260388 TATACTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 14 0.52
22 1 0.04
23 12 0.44
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAAAATATTAATATTTAATA
Found at i:10260387 original size:15 final size:16
Alignment explanation
Indices: 10260367--10260401 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10260357 TTAAAATAGT
10260367 AATATTTAT-TATTAA
1 AATATTTATATATTAA
10260382 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
10260399 AAT
1 AAT
10260402 TTATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
17 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:10260672 original size:37 final size:37
Alignment explanation
Indices: 10260588--10260672 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
10260578 ATTATTTAAA
* *
10260588 ATTAATTATTAAAATAATAAAAATATTATATGTTATT
1 ATTAAATATTAAAATAATAAAAATAATATATGTTATT
* * *
10260625 ATTTATTATTAAAATAAT-AATATAATAGTAT-TTATT
1 ATTAAATATTAAAATAATAAAAATAATA-TATGTTATT
10260661 ATTGAAATATTA
1 ATT-AAATATTA
10260673 TGAATATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 15 0.37
37 26 0.63
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (37 bp):
ATTAAATATTAAAATAATAAAAATAATATATGTTATT
Found at i:10265117 original size:22 final size:22
Alignment explanation
Indices: 10265078--10265119 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10265068 TTCTAATTTT
*
10265078 TTTGTTTTATTTTATTTATTCA
1 TTTGTTTCATTTTATTTATTCA
10265100 TTTGATTTCATTTT-TTTATT
1 TTTG-TTTCATTTTATTTATT
10265120 TTTATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTGTTTCATTTTATTTATTCA
Found at i:10265120 original size:18 final size:18
Alignment explanation
Indices: 10265073--10265120 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
10265063 TCAATTTCTA
* * *
10265073 ATTTTTTTGTTTTATTTT
1 ATTTTTTTATTTGATTTC
* *
10265091 ATTTATTCATTTGATTTC
1 ATTTTTTTATTTGATTTC
10265109 ATTTTTTTATTT
1 ATTTTTTTATTT
10265121 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (18 bp):
ATTTTTTTATTTGATTTC
Found at i:10267888 original size:3 final size:3
Alignment explanation
Indices: 10267880--10267905 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10267870 AAAGTAAAAT
10267880 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10267906 TCAATTAAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10269054 original size:56 final size:56
Alignment explanation
Indices: 10268944--10269054 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
10268934 TTACTATTAC
* *
10268944 AATTTATTTTTCTATTTATAACTTTCTTTTTCCAATATATATTCTATTAGTATTGT
1 AATTTATTTTTCTATTTATAACTTTCTTTTTCCAATATATATTCTATAACTATTGT
* * * *
10269000 AATTTATTTTTCTGTTTGTCACTTTCTTTTTCGAA-AGTATATTCTATAACTATTG
1 AATTTATTTTTCTATTTATAACTTTCTTTTTCCAATA-TATATTCTATAACTATTG
10269055 CATGAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 47 0.98
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.57
Consensus pattern (56 bp):
AATTTATTTTTCTATTTATAACTTTCTTTTTCCAATATATATTCTATAACTATTGT
Found at i:10269349 original size:3 final size:3
Alignment explanation
Indices: 10269341--10269389 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
10269331 ATGTGAATGT
10269341 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10269389 T
1 T
10269390 TATTATTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10269394 original size:3 final size:3
Alignment explanation
Indices: 10269388--10269444 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
10269378 AATAATAATA
10269388 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10269436 ATT CTT ATT
1 ATT ATT ATT
10269445 CTTCTTAACC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10269449 original size:9 final size:9
Alignment explanation
Indices: 10269388--10269451 Score: 74
Period size: 9 Copynumber: 7.1 Consensus size: 9
10269378 AATAATAATA
*
10269388 ATTATTATT
1 ATTATTCTT
*
10269397 ATTATTATT
1 ATTATTCTT
*
10269406 ATTATTATT
1 ATTATTCTT
*
10269415 ATTATTATT
1 ATTATTCTT
*
10269424 ATTATTATT
1 ATTATTCTT
10269433 ATTATTCTT
1 ATTATTCTT
*
10269442 ATTCTTCTT
1 ATTATTCTT
10269451 A
1 A
10269452 ACCATCAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTATTCTT
Found at i:10273852 original size:11 final size:11
Alignment explanation
Indices: 10273832--10273869 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
10273822 TTAAATATTC
10273832 TAAAAA-ATTT
1 TAAAAACATTT
*
10273842 TTAAAACATTT
1 TAAAAACATTT
10273853 TAAAAAC-TTT
1 TAAAAACATTT
10273863 TAAAAAC
1 TAAAAAC
10273870 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAACATTT
Found at i:10273896 original size:9 final size:9
Alignment explanation
Indices: 10273872--10273939 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
10273862 TTAAAAACTA
10273872 AAAAAATT-
1 AAAAAATTC
*
10273880 AAACAATTC
1 AAAAAATTC
10273889 AAAAAATTC
1 AAAAAATTC
* *
10273898 TTAAAAATAC
1 -AAAAAATTC
* *
10273908 TAAAAATTTTG
1 -AAAAA-ATTC
10273919 AAAAAATTC
1 AAAAAATTC
10273928 AAAAAATT-
1 AAAAAATTC
10273936 AAAA
1 AAAA
10273940 GAAAAATTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
8 11 0.23
9 18 0.38
10 17 0.36
11 1 0.02
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.26
Consensus pattern (9 bp):
AAAAAATTC
Found at i:10273901 original size:20 final size:18
Alignment explanation
Indices: 10273810--10274020 Score: 109
Period size: 20 Copynumber: 11.5 Consensus size: 18
10273800 AAAAAGAAAG
* *
10273810 TTCAAAACAAATTTAAATA
1 TTCAAAA-AATTTTAAAAA
10273829 TTCTAAAAAATTTTTAAAACA
1 TTC-AAAAAA-TTTTAAAA-A
* *
10273850 TTTTAAAAACTTTTAAAAA
1 -TTCAAAAAATTTTAAAAA
* *
10273869 CT-AAAAAA-ATTAAACAA
1 TTCAAAAAATTTTAAA-AA
10273886 TTCAAAAAATTCTTAAAAA
1 TTCAAAAAATT-TTAAAAA
* *
10273905 TACTAAAAATTTTGAAAAAA
1 TTCAAAAAATTTT--AAAAA
10273925 TTCAAAAAA--TT-AAAA
1 TTCAAAAAATTTTAAAAA
*
10273940 ---GAAAAA-TTTAAAAA
1 TTCAAAAAATTTTAAAAA
* *
10273954 TTTAAAACACTTTTAAAAAA
1 TTCAAAA-AATTTT-AAAAA
*
10273974 TTCTAAAAAATTTTGCAAAA
1 TTC-AAAAAATTTT-AAAAA
*
10273994 TTCTAAAAAATTTTTAAAA
1 TTC-AAAAAATTTTAAAAA
10274013 TT-AAAAAA
1 TTCAAAAAA
10274021 AATAAAAAAT
Statistics
Matches: 152, Mismatches: 21, Indels: 40
0.71 0.10 0.19
Matches are distributed among these distances:
12 5 0.03
13 2 0.01
14 4 0.03
15 4 0.03
16 5 0.03
17 17 0.11
18 12 0.08
19 26 0.17
20 65 0.43
21 10 0.07
22 2 0.01
ACGTcount: A:0.59, C:0.08, G:0.01, T:0.32
Consensus pattern (18 bp):
TTCAAAAAATTTTAAAAA
Found at i:10273944 original size:21 final size:21
Alignment explanation
Indices: 10273920--10273960 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10273910 AAAATTTTGA
10273920 AAAAATTCAAAAAATTAAAAG
1 AAAAATTCAAAAAATTAAAAG
* *
10273941 AAAAATTTAAAAATTTAAAA
1 AAAAATTCAAAAAATTAAAA
10273961 CACTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAATTCAAAAAATTAAAAG
Found at i:10274238 original size:9 final size:8
Alignment explanation
Indices: 10274211--10274414 Score: 57
Period size: 9 Copynumber: 22.5 Consensus size: 8
10274201 TTCTTTTTGA
10274211 AAAAAATT
1 AAAAAATT
**
10274219 TGAAAATT
1 AAAAAATT
10274227 AAAAAATAT
1 AAAAAAT-T
10274236 AAAAAATTTT
1 AAAAAA--TT
10274246 AAAAAATCT
1 AAAAAAT-T
*
10274255 AAAAATTTTT
1 AAAAA--ATT
**
10274265 AAAATTTTTT
1 AAAA--AATT
* *
10274275 GAAAAATG
1 AAAAAATT
*
10274283 AAACAATTT
1 AAA-AAATT
*
10274292 TAAAAATCT
1 AAAAAAT-T
*
10274301 AAAAATTCT
1 AAAAAAT-T
10274310 AAAAAATT
1 AAAAAATT
10274318 AAAAGAATTTT
1 AAAA-AA--TT
*
10274329 AAAAAAATA
1 -AAAAAATT
10274338 AAAAAACTT
1 AAAAAA-TT
**
10274347 AAAATTTT
1 AAAAAATT
10274355 AATAGAAATT
1 AA-A-AAATT
10274365 CAAAAAAATTTT
1 --AAAAAA--TT
*
10274377 AAAAATTT
1 AAAAAATT
*
10274385 TAAAAATT
1 AAAAAATT
10274393 GAAAAAATAT
1 -AAAAAAT-T
10274403 AAAAAATT
1 AAAAAATT
10274411 AAAA
1 AAAA
10274415 TTGTAGGATT
Statistics
Matches: 145, Mismatches: 28, Indels: 46
0.66 0.13 0.21
Matches are distributed among these distances:
8 46 0.32
9 54 0.37
10 30 0.21
11 7 0.05
12 8 0.06
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (8 bp):
AAAAAATT
Found at i:10274247 original size:19 final size:19
Alignment explanation
Indices: 10274225--10274268 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
10274215 AATTTGAAAA
10274225 TTAAAAAATATAAAAAATT
1 TTAAAAAATATAAAAAATT
* *
10274244 TTAAAAAATCTAAAAATTT
1 TTAAAAAATATAAAAAATT
10274263 TTAAAA
1 TTAAAA
10274269 TTTTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAAATATAAAAAATT
Found at i:10274249 original size:18 final size:17
Alignment explanation
Indices: 10274211--10274414 Score: 81
Period size: 18 Copynumber: 11.2 Consensus size: 17
10274201 TTCTTTTTGA
*
10274211 AAAAAA-TTTGAAAATT
1 AAAAAATTTTAAAAATT
* *
10274227 AAAAAATATAAAAAATTTT
1 AAAAAATTTTAAAAA--TT
*
10274246 AAAAAA-TCTAAAAATTTTT
1 AAAAAATTTTAAAAA---TT
** *
10274265 AAAATTTTTTGAAAAATG
1 AAAAAATTTT-AAAAATT
*
10274283 AAACAATTTTAAAAATCT
1 AAAAAATTTTAAAAAT-T
*
10274301 -AAAAATTCTAAAAAATT
1 AAAAAATT-TTAAAAATT
*
10274318 AAAAGAATTTTAAAAAAAT
1 AAAA-AATTTT-AAAAATT
** *
10274337 AAAAAAACTTAAAATTTT
1 AAAAAATTTTAAAA-ATT
**
10274355 AATAGAAATTCAAAAAAATTT
1 AA-A-AAATT-TTAAAAA-TT
*
10274376 TAAAAATTTTAAAAATT
1 AAAAAATTTTAAAAATT
* *
10274393 GAAAAAATATAAAAAATT
1 -AAAAAATTTTAAAAATT
10274411 AAAA
1 AAAA
10274415 TTGTAGGATT
Statistics
Matches: 138, Mismatches: 33, Indels: 33
0.68 0.16 0.16
Matches are distributed among these distances:
16 6 0.04
17 28 0.20
18 50 0.36
19 36 0.26
20 6 0.04
21 12 0.09
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAAAATTTTAAAAATT
Found at i:10274274 original size:29 final size:29
Alignment explanation
Indices: 10274242--10274298 Score: 55
Period size: 29 Copynumber: 2.0 Consensus size: 29
10274232 ATATAAAAAA
* *
10274242 TTTTAAAAAATCTAAA-AATTTTTAAAA-T
1 TTTTAAAAAAT-GAAACAATTTTAAAAATT
*
10274270 TTTTTGAAAAATGAAACAATTTTAAAAAT
1 TTTT-AAAAAATGAAACAATTTTAAAAAT
10274299 CTAAAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (29 bp):
TTTTAAAAAATGAAACAATTTTAAAAATT
Found at i:10274350 original size:37 final size:36
Alignment explanation
Indices: 10274287--10274373 Score: 84
Period size: 37 Copynumber: 2.4 Consensus size: 36
10274277 AAAATGAAAC
** **
10274287 AATTTTAAAAATCTAAAAATTCTAAAAAATTAAAAG
1 AATTTTAAAAAAATAAAAAAACTAAAAAATTAAAAG
** *
10274323 AATTTTAAAAAAATAAAAAAACTTAAAATTTTAATAG
1 AATTTTAAAAAAATAAAAAAAC-TAAAAAATTAAAAG
* *
10274360 AAATTCAAAAAAAT
1 AATTTTAAAAAAAT
10274374 TTTAAAAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 18 0.44
37 23 0.56
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (36 bp):
AATTTTAAAAAAATAAAAAAACTAAAAAATTAAAAG
Found at i:10274465 original size:21 final size:20
Alignment explanation
Indices: 10274441--10274496 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
10274431 ATATGAAAGG
*
10274441 TTTTCAGAATTTTTTTAAAAAT
1 TTTT-AGAA-TTTTTTAAAAAA
* *
10274463 TTTTATAA-TTTTAAAAAAA
1 TTTTAGAATTTTTTAAAAAA
*
10274482 TTTTAGACTTTTTTA
1 TTTTAGAATTTTTTA
10274497 TTTTAACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
19 15 0.56
20 5 0.19
21 3 0.11
22 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTAGAATTTTTTAAAAAA
Found at i:10274529 original size:22 final size:22
Alignment explanation
Indices: 10274504--10274554 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
10274494 TTATTTTAAC
* *
10274504 TATTTTTAAGTTTTTTG-AATTT
1 TATTTTGAA-TTTTATGAAATTT
10274526 TATTTTGAATTTTATGAAAATTT
1 TATTTTGAATTTTATG-AAATTT
10274549 TATTTT
1 TATTTT
10274555 ATTAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.24
22 8 0.32
23 11 0.44
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
TATTTTGAATTTTATGAAATTT
Found at i:10274533 original size:12 final size:12
Alignment explanation
Indices: 10274516--10274540 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10274506 TTTTTAAGTT
10274516 TTTTGAATTTTA
1 TTTTGAATTTTA
10274528 TTTTGAATTTTA
1 TTTTGAATTTTA
10274540 T
1 T
10274541 GAAAATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTGAATTTTA
Found at i:10274617 original size:31 final size:31
Alignment explanation
Indices: 10274583--10274642 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
10274573 TTTTTTGGAT
*
10274583 TTTTTA-AAAATTTTTAAGTTTTTT-TAATTG
1 TTTTTAGAAAA-TTTTAAATTTTTTATAATTG
10274613 TTTTTAGAAAATTTTAAATTTTTTATAATT
1 TTTTTAGAAAATTTTAAATTTTTTATAATT
10274643 TTTAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (31 bp):
TTTTTAGAAAATTTTAAATTTTTTATAATTG
Found at i:10274724 original size:19 final size:20
Alignment explanation
Indices: 10274702--10274747 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
10274692 TTTGAAAAAA
*
10274702 TTTAGAATTTTTTT-TAATT
1 TTTAAAATTTTTTTATAATT
10274721 TTTAAAATTTTTTTATAATT
1 TTTAAAATTTTTTTATAATT
*
10274741 TTGAAAA
1 TTTAAAA
10274748 ATTCTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTAAAATTTTTTTATAATT
Found at i:10274732 original size:20 final size:20
Alignment explanation
Indices: 10274707--10274747 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10274697 AAAAATTTAG
*
10274707 AATTTTTTT-TAATTTTTAA
1 AATTTTTTTATAATTTTGAA
10274726 AATTTTTTTATAATTTTGAA
1 AATTTTTTTATAATTTTGAA
10274746 AA
1 AA
10274748 ATTCTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
AATTTTTTTATAATTTTGAA
Found at i:10275586 original size:41 final size:41
Alignment explanation
Indices: 10275507--10275587 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
10275497 AACAACAAAT
* * *
10275507 CAAACCCTGAGGATGAATTACTAAACCCAATTTAAAAAAAC
1 CAAACCCTAAGAATGAATTACTAAACCCAATTCAAAAAAAC
* *
10275548 CAAACCCTAAGAATGAATTACTTAACCCAATTCCAAAAAA
1 CAAACCCTAAGAATGAATTACTAAACCCAATTCAAAAAAA
10275588 TGTTTGTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.20
Consensus pattern (41 bp):
CAAACCCTAAGAATGAATTACTAAACCCAATTCAAAAAAAC
Done.