Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 23 of 100
Found at i:6566240 original size:9 final size:9
Alignment explanation
Indices: 6566200--6566248 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
6566190 AACCAATTGA
6566200 AAAAATAAAT
1 AAAAAT-AAT
6566210 AAAAA-AAT
1 AAAAATAAT
*
6566218 AAATATTCAAT
1 AAA-AAT-AAT
6566229 AAAAATAAT
1 AAAAATAAT
6566238 AAAAATAAT
1 AAAAATAAT
6566247 AA
1 AA
6566249 TGATTATCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 6 0.18
9 15 0.44
10 7 0.21
11 6 0.18
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATAAT
Found at i:6566249 original size:12 final size:13
Alignment explanation
Indices: 6566200--6566249 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
6566190 AACCAATTGA
6566200 AAAAATAAATAA-
1 AAAAATAAATAAT
*
6566212 AAAAATAAATATT
1 AAAAATAAATAAT
*
6566225 CAATAA-AAATAAT
1 -AAAAATAAATAAT
6566238 AAAAAT-AATAAT
1 AAAAATAAATAAT
6566250 GATTATCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 21 0.68
13 6 0.19
14 4 0.13
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAAATAAT
Found at i:6568734 original size:67 final size:66
Alignment explanation
Indices: 6568524--6568730 Score: 183
Period size: 67 Copynumber: 3.2 Consensus size: 66
6568514 ATTATAAAAA
* * * * * *
6568524 AAATAAAAAAAAATGATCAATTAAGACGTTCATAA-ACACAAAAGCCTTAATTAATC-TGTTTTA
1 AAATAAAAAAAAAAGATCAATTAAGGCATTCATAATAGACAAATGCCTTAATTGATCATGTTTTA
6568587 T
66 T
* * * * *
6568588 AAATTATAAAAAAA-ATCAATTAAAGCATTCATAAT-GAGAAATGCTTTAATTGAT-ATGGTATT
1 AAATAAAAAAAAAAGATCAATTAAGGCATTCATAATAGACAAATGCCTTAATTGATCAT-GT-TT
6568650 TAT
64 TAT
* *** ** *
6568653 ATATGAATTGATTAAGATCAATTAAGGCATTCATAATAGA-AAATGCCTTAATTGATCATATTTT
1 AAAT-AAAAAAAAAAGATCAATTAAGGCATTCATAATAGACAAATGCCTTAATTGATCATGTTTT
6568717 AT
65 AT
6568719 AAATAAAAAAAA
1 AAATAAAAAAAA
6568731 TTAACTAAGG
Statistics
Matches: 109, Mismatches: 26, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
63 32 0.29
64 13 0.12
65 11 0.10
66 13 0.12
67 36 0.33
68 4 0.04
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.33
Consensus pattern (66 bp):
AAATAAAAAAAAAAGATCAATTAAGGCATTCATAATAGACAAATGCCTTAATTGATCATGTTTTA
T
Found at i:6568926 original size:63 final size:64
Alignment explanation
Indices: 6568857--6568991 Score: 152
Period size: 63 Copynumber: 2.1 Consensus size: 64
6568847 TATAAGATTG
* * ** * * *
6568857 TCAATTAAGGC-ATTCATGTTAATAAATTCCTTATTTGATGATGT-TATATAAATTATAAA-ACT
1 TCAATTAAGGCAATT-ATATTAACAAACACCTTAATTGATGATATGT-TATAAATTA-AAATAAT
6568919 AA
63 AA
6568921 T-AATTAAGGCAATTATATTAACAAACACCTTAATTGATGATATGTTATAAATTAAAATAATAA
1 TCAATTAAGGCAATTATATTAACAAACACCTTAATTGATGATATGTTATAAATTAAAATAATAA
6568984 TCAATTAA
1 TCAATTAA
6568992 AATATTAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
62 3 0.05
63 46 0.77
64 11 0.18
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (64 bp):
TCAATTAAGGCAATTATATTAACAAACACCTTAATTGATGATATGTTATAAATTAAAATAATAA
Found at i:6568991 original size:16 final size:16
Alignment explanation
Indices: 6568970--6569000 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6568960 ATATGTTATA
6568970 AATTAAAATAATAATC
1 AATTAAAATAATAATC
*
6568986 AATTAAAATATTAAT
1 AATTAAAATAATAAT
6569001 TTATTTTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAAATAATAATC
Found at i:6576188 original size:22 final size:22
Alignment explanation
Indices: 6576162--6576203 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6576152 AATTCAATAC
6576162 TTAAATATTTAAAAATTAAAAA
1 TTAAATATTTAAAAATTAAAAA
* * *
6576184 TTAAATTTTTTAATATTAAA
1 TTAAATATTTAAAAATTAAA
6576204 TTTGTTCAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAATATTTAAAAATTAAAAA
Found at i:6576358 original size:7 final size:7
Alignment explanation
Indices: 6576312--6576343 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
6576302 TGGTCAAATT
6576312 TTTTAAA
1 TTTTAAA
6576319 TTTTAAA
1 TTTTAAA
6576326 TTTTAAA
1 TTTTAAA
6576333 TTTTAAA
1 TTTTAAA
6576340 TTTT
1 TTTT
6576344 TATTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:6576607 original size:3 final size:3
Alignment explanation
Indices: 6576599--6576635 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6576589 AAAACATTCT
6576599 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6576636 AAAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6580021 original size:2 final size:2
Alignment explanation
Indices: 6580014--6580058 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
6580004 ATCTTAACAA
* *
6580014 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6580055 AT AT
1 AT AT
6580059 TTGCGCCCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6592508 original size:17 final size:17
Alignment explanation
Indices: 6592486--6592520 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6592476 TAATAAGCTA
*
6592486 AAATAATATAAAATTAT
1 AAATAAGATAAAATTAT
*
6592503 AAATAAGATTAAATTAT
1 AAATAAGATAAAATTAT
6592520 A
1 A
6592521 TTATATTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAATAAGATAAAATTAT
Found at i:6592529 original size:27 final size:26
Alignment explanation
Indices: 6592465--6592521 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
6592455 TATGCTCAGT
* *
6592465 ATATAACATTATAATAAGCTAAAATA
1 ATATAAAATTATAATAAGATAAAATA
* *
6592491 ATATAAAATTATAAATAAGATTAAATT
1 ATATAAAATTAT-AATAAGATAAAATA
6592518 ATAT
1 ATAT
6592522 TATATTATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATAAAATTATAATAAGATAAAATA
Found at i:6598686 original size:27 final size:31
Alignment explanation
Indices: 6598654--6598718 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
6598644 GATAACTTTA
6598654 ATGTTTT-AG-AA-TTTG-AAACTTTGGATG
1 ATGTTTTAAGTAATTTTGCAAACTTTGGATG
*
6598681 ATGTTTTAAGTAATTTTGCTTAACTTTGGATG
1 ATGTTTTAAGTAATTTTGC-AAACTTTGGATG
6598713 ATGTTT
1 ATGTTT
6598719 GTGTTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.22
28 2 0.06
29 2 0.06
30 4 0.12
32 17 0.53
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.49
Consensus pattern (31 bp):
ATGTTTTAAGTAATTTTGCAAACTTTGGATG
Found at i:6598779 original size:45 final size:45
Alignment explanation
Indices: 6598714--6598816 Score: 161
Period size: 45 Copynumber: 2.3 Consensus size: 45
6598704 CTTTGGATGA
*
6598714 TGTTTGTGTTAAAAATATTGTTAGCAATGATTTATTGTGTTATATC
1 TGTTTGTG-TCAAAATATTGTTAGCAATGATTTATTGTGTTATATC
*
6598760 TGTTTGTGTCAAAATATTGTTAGCAATTATTTATTGTGTTATATC
1 TGTTTGTGTCAAAATATTGTTAGCAATGATTTATTGTGTTATATC
* *
6598805 TGGTTGAGTCAA
1 TGTTTGTGTCAA
6598817 GACCTTTGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 45 0.85
46 8 0.15
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.49
Consensus pattern (45 bp):
TGTTTGTGTCAAAATATTGTTAGCAATGATTTATTGTGTTATATC
Found at i:6598940 original size:48 final size:48
Alignment explanation
Indices: 6598857--6598948 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
6598847 TTGAATGATG
* *
6598857 TTTTAAGAATATTGCATTATGTGTTTGCAAAGATTTAATATTATATTA
1 TTTTAAGAATATTGCATTATGTATTTACAAAGATTTAATATTATATTA
*
6598905 TTTTAAGAATATTGCATTATGTATTTACAAGGATTTAATATTAT
1 TTTTAAGAATATTGCATTATGTATTTACAAAGATTTAATATTAT
6598949 TGTGTCAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (48 bp):
TTTTAAGAATATTGCATTATGTATTTACAAAGATTTAATATTATATTA
Found at i:6603489 original size:14 final size:14
Alignment explanation
Indices: 6603470--6603497 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6603460 GTTTTCACTT
6603470 TTCTTGAACCAAAA
1 TTCTTGAACCAAAA
6603484 TTCTTGAACCAAAA
1 TTCTTGAACCAAAA
6603498 CGCAGCGTTC
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:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
TTCTTGAACCAAAA
Found at i:6605328 original size:2 final size:2
Alignment explanation
Indices: 6605321--6605352 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6605311 ATGTGTTGCC
6605321 AT 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 AT
6605353 GTATCTTTAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6610453 original size:13 final size:14
Alignment explanation
Indices: 6610417--6610447 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6610407 TGCAAGAAGT
*
6610417 AAAAAGTAAAAAGC
1 AAAAAGGAAAAAGC
6610431 AAAAAGGAAAAAGC
1 AAAAAGGAAAAAGC
6610445 AAA
1 AAA
6610448 GAGAAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.16, T:0.03
Consensus pattern (14 bp):
AAAAAGGAAAAAGC
Found at i:6612401 original size:80 final size:76
Alignment explanation
Indices: 6612273--6612429 Score: 269
Period size: 80 Copynumber: 2.0 Consensus size: 76
6612263 TCTAAATTTA
*
6612273 AATACTAAAAATAACAATAATTAAAAAGGAAAGACATAATGTTGAATAAGGAAAAATGATACTTA
1 AATACTAAAAATAACAATAATAAAAAAGGAAAGACATAATGTTGAATAAGGAAAAATGATACTTA
6612338 TAGTCAAAACT
66 TAGTCAAAACT
6612349 AATACTAAAAATAACAATAATAAAAAAGGAAAGAAAGACATAATGTTGAATAAGGAAAAATGATA
1 AATACTAAAAATAACAATAATAAAAAA-G---GAAAGACATAATGTTGAATAAGGAAAAATGATA
6612414 CTTATAGTCAAAACT
62 CTTATAGTCAAAACT
6612429 A
1 A
6612430 GGTGCCGAGG
Statistics
Matches: 76, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
76 26 0.34
77 1 0.01
80 49 0.64
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.22
Consensus pattern (76 bp):
AATACTAAAAATAACAATAATAAAAAAGGAAAGACATAATGTTGAATAAGGAAAAATGATACTTA
TAGTCAAAACT
Found at i:6613365 original size:75 final size:75
Alignment explanation
Indices: 6613238--6613388 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 75
6613228 CTGCGGATGT
6613238 ATAATCCATAATTGCAGATGGGTCAGCAACTAATGCTTCAATATCTCACGTTCCAGCTTAGAAAC
1 ATAATCCATAATTGCAGATGGGTCAGCAACTAATGCTTCAATATCTCACGTTCCAGCTTAGAAAC
6613303 TTTAATGTAG
66 TTTAATGTAG
* *
6613313 ATAATCCGTAATTGCAGATGGGTCAGCAACTAATGCTTCAATATCTCCCGTTCCAGCTTAGAAAC
1 ATAATCCATAATTGCAGATGGGTCAGCAACTAATGCTTCAATATCTCACGTTCCAGCTTAGAAAC
6613378 TTTAATGTAG
66 TTTAATGTAG
6613388 A
1 A
6613389 GAATACAAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (75 bp):
ATAATCCATAATTGCAGATGGGTCAGCAACTAATGCTTCAATATCTCACGTTCCAGCTTAGAAAC
TTTAATGTAG
Found at i:6615947 original size:25 final size:25
Alignment explanation
Indices: 6615919--6615987 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 25
6615909 TTTAAGCTCG
*
6615919 AATTTATATATAAAAATAAAATAAT
1 AATTTATATATAAAAATAAAAAAAT
* *
6615944 AATTTTTA-ATTAAAATAATAAAAAT
1 AATTTATATATAAAAATAA-AAAAAT
*
6615969 -ATTTAT-TA-AAATATAAAAA
1 AATTTATATATAAAAATAAAAA
6615988 TTGATTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
22 3 0.08
23 6 0.17
24 15 0.42
25 12 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATTTATATATAAAAATAAAAAAAT
Found at i:6615978 original size:21 final size:22
Alignment explanation
Indices: 6615938--6615988 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
6615928 ATAAAAATAA
* *
6615938 AATAATAATTTTTAATTAAAAT
1 AATAAAAATATTTAATTAAAAT
6615960 AATAAAAATATTT-ATTAAAAT
1 AATAAAAATATTTAATTAAAAT
6615981 -ATAAAAAT
1 AATAAAAAT
6615989 TGATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 8 0.30
21 8 0.30
22 11 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAAAAATATTTAATTAAAAT
Found at i:6615994 original size:18 final size:21
Alignment explanation
Indices: 6615952--6615996 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
6615942 ATAATTTTTA
*
6615952 ATTAAAATAATAAAAATATTT
1 ATTAAAATAATAAAAATATTG
6615973 ATTAAAAT-AT-AAAA-ATTG
1 ATTAAAATAATAAAAATATTG
6615991 ATTAAA
1 ATTAAA
6615997 TTTGTGAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 2 0.09
21 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
ATTAAAATAATAAAAATATTG
Found at i:6616405 original size:2 final size:2
Alignment explanation
Indices: 6616398--6616436 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
6616388 AAGAATTTCA
*
6616398 AT AT AT AT A- AT AT AT AT -T AT AT AT TT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6616437 AACTCATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6618099 original size:2 final size:2
Alignment explanation
Indices: 6618080--6618119 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
6618070 TTTGTTTATG
6618080 TA TA T- TA T- TA TA -A 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 TA
6618119 T
1 T
6618120 TAGATTAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6621074 original size:25 final size:24
Alignment explanation
Indices: 6621038--6621109 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
6621028 ATTTTTTTCA
*
6621038 TTTTTTTGAATATTTTAAAATTAT
1 TTTTTTTTAATATTTTAAAATTAT
*
6621062 GTTTTTTTTAATA-TTTAAAATTCT
1 -TTTTTTTTAATATTTTAAAATTAT
* *
6621086 TACTTATTT-ATATTTTAAAATTAT
1 T-TTTTTTTAATATTTTAAAATTAT
6621110 ATTTGAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 25 0.62
25 11 0.28
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
TTTTTTTTAATATTTTAAAATTAT
Found at i:6632951 original size:14 final size:14
Alignment explanation
Indices: 6632932--6632961 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6632922 TTAACTTTTA
*
6632932 TTTTTATTTTTATT
1 TTTTTATTTGTATT
6632946 TTTTTATTTGTATT
1 TTTTTATTTGTATT
6632960 TT
1 TT
6632962 GTTCTATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (14 bp):
TTTTTATTTGTATT
Found at i:6652192 original size:28 final size:28
Alignment explanation
Indices: 6652161--6652225 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
6652151 ATATTAAAAT
6652161 TAAAATTTTTTATAAAATTAAAAAAT-TA
1 TAAAATTTTTTA-AAAATTAAAAAATATA
** * *
6652189 TAAAAAATTTTAAATATTTAAAAATATA
1 TAAAATTTTTTAAAAATTAAAAAATATA
*
6652217 TATAATTTT
1 TAAAATTTT
6652226 GGGAGAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATTTTTTAAAAATTAAAAAATATA
Found at i:6652778 original size:23 final size:24
Alignment explanation
Indices: 6652720--6652778 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
6652710 AGATTTATAC
*
6652720 TTAATTTATAAAATATTATTTATT
1 TTAATTTATAAAATATTATTAATT
*
6652744 TTAATTTA-AAAATTTTA-TAATT
1 TTAATTTATAAAATATTATTAATT
6652766 TT-ATCTTATAAAA
1 TTAAT-TTATAAAA
6652779 AAATTTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.06
22 9 0.29
23 12 0.39
24 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTAATTTATAAAATATTATTAATT
Found at i:6653464 original size:82 final size:82
Alignment explanation
Indices: 6653307--6653466 Score: 196
Period size: 82 Copynumber: 2.0 Consensus size: 82
6653297 GGTAGCTCTC
* * * * * * *
6653307 ATCGTGTAGCACTTAACTTCGGATGTAACTCTTATCGTGTAGCACTTAATTTTTGTCTGATTGAT
1 ATCGTGTAACACTTAACTTCGGATGTAACTCTCATCGTGTAACACTTAACTTTCGTCCGATAGAT
* *
6653372 AACTGTTCTGATACCAT
66 AACCGCTCTGATACCAT
* * *
6653389 ATCGTGTAACACTTAGCTTTGGATGTAACTCTCATCGTGTAACACTTAGCTTTCGTCCGACTAG-
1 ATCGTGTAACACTTAACTTCGGATGTAACTCTCATCGTGTAACACTTAACTTTCGTCCGA-TAGA
6653453 TAACCGCTCTGATA
65 TAACCGCTCTGATA
6653467 TAATTTGTGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
82 63 0.97
83 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (82 bp):
ATCGTGTAACACTTAACTTCGGATGTAACTCTCATCGTGTAACACTTAACTTTCGTCCGATAGAT
AACCGCTCTGATACCAT
Found at i:6663334 original size:31 final size:30
Alignment explanation
Indices: 6663265--6663334 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
6663255 TTAATAAATG
*
6663265 TATAATTCAAATATCATATATTAAAAATTTT
1 TATAATTTAAATAT-ATATATTAAAAATTTT
* *
6663296 TAAAATTTAAATAT-TATATTAAATATTTTAT
1 TATAATTTAAATATATATATTAAA-AATTT-T
6663327 TATAATTT
1 TATAATTT
6663335 CAAGATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.27
30 4 0.12
31 20 0.61
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
TATAATTTAAATATATATATTAAAAATTTT
Found at i:6672009 original size:15 final size:15
Alignment explanation
Indices: 6671985--6672014 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6671975 CTGACTACTT
*
6671985 CAACTTTACAAAATG
1 CAACTCTACAAAATG
6672000 CAACTCTACAAAATG
1 CAACTCTACAAAATG
6672015 TCCTAACTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (15 bp):
CAACTCTACAAAATG
Found at i:6701109 original size:17 final size:17
Alignment explanation
Indices: 6701087--6701121 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6701077 AAATGGCTTA
6701087 ACTGTAAAAAGGTTTTG
1 ACTGTAAAAAGGTTTTG
**
6701104 ACTGTAAAGGGGTTTTG
1 ACTGTAAAAAGGTTTTG
6701121 A
1 A
6701122 GTTGGTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (17 bp):
ACTGTAAAAAGGTTTTG
Found at i:6707015 original size:22 final size:22
Alignment explanation
Indices: 6706989--6707032 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6706979 TGTATATTTA
6706989 TATTTGTACCTCTAGAATTAAG
1 TATTTGTACCTCTAGAATTAAG
*
6707011 TATTTGTATCTCTAGAATTAAG
1 TATTTGTACCTCTAGAATTAAG
6707033 GACAAAAAAT
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:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTACCTCTAGAATTAAG
Found at i:6709415 original size:10 final size:10
Alignment explanation
Indices: 6709400--6709424 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6709390 GGCCAGTGGG
6709400 CTTCTCATCT
1 CTTCTCATCT
6709410 CTTCTCATCT
1 CTTCTCATCT
6709420 CTTCT
1 CTTCT
6709425 GTTCGGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.40, G:0.00, T:0.52
Consensus pattern (10 bp):
CTTCTCATCT
Found at i:6717179 original size:14 final size:15
Alignment explanation
Indices: 6717160--6717188 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6717150 AGTACTTACC
6717160 AAATTTAGT-ATTAA
1 AAATTTAGTAATTAA
6717174 AAATTTAGTAATTAA
1 AAATTTAGTAATTAA
6717189 TTTTGCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
AAATTTAGTAATTAA
Found at i:6726058 original size:27 final size:29
Alignment explanation
Indices: 6726012--6726084 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
6726002 AAATATAAAT
*
6726012 TTTA-TGTTATTAATTT-AAAA-TTTATAA
1 TTTATTGTTA-TATTTTAAAAATTTTATAA
6726039 TTT-TT-TTAGTATTTTAAAAATTTTATAA
1 TTTATTGTTA-TATTTTAAAAATTTTATAA
6726067 TTTATTGTTATATTTTAA
1 TTTATTGTTATATTTTAA
6726085 CTTTTTTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 8 0.21
27 8 0.21
28 10 0.26
29 10 0.26
30 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTATTGTTATATTTTAAAAATTTTATAA
Found at i:6733935 original size:290 final size:290
Alignment explanation
Indices: 6733408--6733987 Score: 1045
Period size: 290 Copynumber: 2.0 Consensus size: 290
6733398 ATTCTTGGAA
* *
6733408 GCATTGGGTGGAATCTAACCTGTAAAAACTCCATTAGAATTTATACATGGGAGATATATAATTCT
1 GCATTGGGTAGAATCTAACCTGTAAAAACTCCATTAGAATTTATACATGGGAGATATAAAATTCT
* *
6733473 TGTGCTTCTACTAACATATAATAACTTGCATAAACTACATACTAAACTAACGTTGCTTTATTGGC
66 TGTGCTTCTACTAACATATAATAACTTGCATAAACTACATACCAAACTAACATTGCTTTATTGGC
6733538 CAAAGAAAACTAACATTGCTTTAAATTTACCTATATACCATGAGCAAGAGTAGGGAGACCTAAGC
131 CAAAGAAAACTAACATTGCTTTAAATTTACCTATATACCATGAGCAAGAGTAGGGAGACCTAAGC
* *
6733603 TCACATCTAGCTTCCAGCTCTAAATCAAGCTAAGTAGTTTTCAAGTACAAACTTAAACACTTAAT
196 TCACATCTAGCCTCCAGCTCTAAATCAAGCTAAGTAGTTTTCAAGTACAAACTTAAACACTTAAA
6733668 CCTTAGACCTAACAGCACACCAGATGTCAT
261 CCTTAGACCTAACAGCACACCAGATGTCAT
6733698 GCATTGGGTAGAATCTAACCTGTAAAAACTCCATTAGAATTTATACATGGGAGATATAAAATTCT
1 GCATTGGGTAGAATCTAACCTGTAAAAACTCCATTAGAATTTATACATGGGAGATATAAAATTCT
* *
6733763 TGTGTTTCTATTAACATATAATAACTTGCATAAACTACATACCAAACTAACATTGCTTTATTGGC
66 TGTGCTTCTACTAACATATAATAACTTGCATAAACTACATACCAAACTAACATTGCTTTATTGGC
6733828 CAGAA-AAAACTAACATTGCTTTAAATTTACCTATATACCATGAGCAAGAGTAGGGAGACCTAAG
131 CA-AAGAAAACTAACATTGCTTTAAATTTACCTATATACCATGAGCAAGAGTAGGGAGACCTAAG
* *
6733892 CTTACATCTAGCCTCCAGCTCTAAATCAAGCTAAGTGGTTTTCAAGTACAAACTTAAACACTTAA
195 CTCACATCTAGCCTCCAGCTCTAAATCAAGCTAAGTAGTTTTCAAGTACAAACTTAAACACTTAA
*
6733957 ACCTTAGACCTAATAGCACACCAGATGTCAT
260 ACCTTAGACCTAACAGCACACCAGATGTCAT
6733988 CAGGAATAAA
Statistics
Matches: 278, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
290 276 0.99
291 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (290 bp):
GCATTGGGTAGAATCTAACCTGTAAAAACTCCATTAGAATTTATACATGGGAGATATAAAATTCT
TGTGCTTCTACTAACATATAATAACTTGCATAAACTACATACCAAACTAACATTGCTTTATTGGC
CAAAGAAAACTAACATTGCTTTAAATTTACCTATATACCATGAGCAAGAGTAGGGAGACCTAAGC
TCACATCTAGCCTCCAGCTCTAAATCAAGCTAAGTAGTTTTCAAGTACAAACTTAAACACTTAAA
CCTTAGACCTAACAGCACACCAGATGTCAT
Found at i:6735612 original size:7 final size:7
Alignment explanation
Indices: 6735602--6735642 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
6735592 ATGAAAAGAT
6735602 AAAATTC
1 AAAATTC
6735609 AAAATTC
1 AAAATTC
6735616 AAAATTC
1 AAAATTC
*
6735623 AAAAATC
1 AAAATTC
*
6735630 TAAATTC
1 AAAATTC
*
6735637 TAAATT
1 AAAATT
6735643 ATAAATTCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (7 bp):
AAAATTC
Found at i:6735626 original size:21 final size:20
Alignment explanation
Indices: 6735601--6735650 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
6735591 TATGAAAAGA
6735601 TAAAATTCAAAATTCAAAAT
1 TAAAATTCAAAATTCAAAAT
* * *
6735621 TCAAAAATCTAAATTCTAAAT
1 T-AAAATTCAAAATTCAAAAT
6735642 TATAAATTC
1 TA-AAATTC
6735651 GGTTTCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAATTCAAAATTCAAAAT
Found at i:6735647 original size:14 final size:14
Alignment explanation
Indices: 6735603--6735650 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
6735593 TGAAAAGATA
6735603 AAATTCAAAATTCA-
1 AAATTCAAAATT-AT
* *
6735617 AAATTCAAAAATCT
1 AAATTCAAAATTAT
*
6735631 AAATTCTAAATTAT
1 AAATTCAAAATTAT
6735645 AAATTC
1 AAATTC
6735651 GGTTTCAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTCAAAATTAT
Found at i:6737069 original size:21 final size:20
Alignment explanation
Indices: 6737041--6737080 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6737031 AATTCTTTTA
*
6737041 AATGTTATCACAATTATATG
1 AATGTTATCAAAATTATATG
*
6737061 AATGATTATTAAAATTATAT
1 AATG-TTATCAAAATTATAT
6737081 CATAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (20 bp):
AATGTTATCAAAATTATATG
Found at i:6737075 original size:63 final size:63
Alignment explanation
Indices: 6737008--6737139 Score: 151
Period size: 63 Copynumber: 2.1 Consensus size: 63
6736998 AAAGTTTGCC
* * * * *
6737008 AAAATTATAT-TTAAATTTTCTAAAATTCTTTTAAATGTTA-TCACAATTATATGAATGATTATT
1 AAAATTATATCATAAATTTT-TAAAATTCTATTAAAGGTTATTCA-AATTATATCAATAATTATT
* * *
6737071 AAAATTATATCATAAATTTTTTAAATTGTATTAAAGGTTATTGAAATTATATCAATAATTATT
1 AAAATTATATCATAAATTTTTAAAATTCTATTAAAGGTTATTCAAATTATATCAATAATTATT
*
6737134 GAAATT
1 AAAATT
6737140 TTTGTCAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
63 48 0.83
64 10 0.17
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (63 bp):
AAAATTATATCATAAATTTTTAAAATTCTATTAAAGGTTATTCAAATTATATCAATAATTATT
Found at i:6737112 original size:42 final size:44
Alignment explanation
Indices: 6737066--6737168 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 44
6737056 ATATGAATGA
* * *
6737066 TTATTAAAATTATATCATA-AATTTTTTAAATTGTAT-T-AAAGG
1 TTATTAAAATTATATCATATAATTATTGAAATT-TATGTCAAAAG
* *
6737108 TTATTGAAATTATATCA-ATAATTATTGAAATTTTTGTCAAAAG
1 TTATTAAAATTATATCATATAATTATTGAAATTTATGTCAAAAG
6737151 TTATTAAAATTATATCAT
1 TTATTAAAATTATATCAT
6737169 TATGGTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 28 0.55
43 20 0.39
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (44 bp):
TTATTAAAATTATATCATATAATTATTGAAATTTATGTCAAAAG
Found at i:6737132 original size:21 final size:21
Alignment explanation
Indices: 6737052--6737167 Score: 76
Period size: 21 Copynumber: 5.5 Consensus size: 21
6737042 ATGTTATCAC
* *
6737052 AATTATATGAATGATTATTAA
1 AATTATATCAATAATTATTAA
* *
6737073 AATTATATC-ATAAATTTTTTA
1 AATTATATCAAT-AATTATTAA
* * * *
6737094 AATTGTATTAA-AGGTTATTGA
1 AATTATATCAATA-ATTATTAA
6737115 AATTATATCAATAATTATTGAA
1 AATTATATCAATAATTATT-AA
* * *
6737137 ATTTTTGTCAA-AAGTTATTAA
1 AATTATATCAATAA-TTATTAA
6737158 AATTATATCA
1 AATTATATCA
6737168 TTATGGTTAT
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
20 3 0.04
21 51 0.73
22 16 0.23
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (21 bp):
AATTATATCAATAATTATTAA
Found at i:6737166 original size:43 final size:43
Alignment explanation
Indices: 6737066--6737212 Score: 120
Period size: 42 Copynumber: 3.4 Consensus size: 43
6737056 ATATGAATGA
* * *
6737066 TTATTAAAATTATATC-ATAAATTTTTTAAATTGTATTAAAGG
1 TTATTAAAATTATATCAATAAATTATTGAAATTGTATTAAAAG
* *
6737108 TTATTGAAATTATATCAAT-AATTATTGAAATT-TTTGTCAAAAG
1 TTATTAAAATTATATCAATAAATTATTGAAATTGTAT-T-AAAAG
* ** ** **
6737151 TTATTAAAATTATATCATTATGGTTATCAAAATAATATTAAAAG
1 TTATTAAAATTATATCAATA-AATTATTGAAATTGTATTAAAAG
* *
6737195 TTATCAAAATTTTATCAA
1 TTATTAAAATTATATCAA
6737213 ATGTTATCGA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 27 0.33
43 23 0.28
44 20 0.24
45 9 0.11
46 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (43 bp):
TTATTAAAATTATATCAATAAATTATTGAAATTGTATTAAAAG
Found at i:6737218 original size:21 final size:21
Alignment explanation
Indices: 6737139--6737244 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
6737129 TTATTGAAAT
* * *
6737139 TTTTGTCAAAAGTTATTAAAA
1 TTTTATCAAATGTTATCAAAA
* *
6737160 TTATATCATTATGGTTATCAAAA
1 TTTTATCA-AAT-GTTATCAAAA
** * *
6737183 TAATATTAAAAGTTATCAAAA
1 TTTTATCAAATGTTATCAAAA
6737204 TTTTATCAAATGTTATCGAAAA
1 TTTTATCAAATGTTATC-AAAA
* *
6737226 -TTTAACAAATGTTTTCAAA
1 TTTTATCAAATGTTATCAAA
6737245 TTATAAGAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
20 3 0.04
21 43 0.64
22 6 0.09
23 15 0.22
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (21 bp):
TTTTATCAAATGTTATCAAAA
Found at i:6737346 original size:21 final size:21
Alignment explanation
Indices: 6737322--6737376 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
6737312 TATTAAAAGG
*
6737322 TTATCAAAATTATATAATAAA
1 TTATCAAAATTATATAACAAA
* * * *
6737343 TTATCATAATTGTATTACATA
1 TTATCAAAATTATATAACAAA
*
6737364 TTACCAAAATTAT
1 TTATCAAAATTAT
6737377 GTCAATTTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (21 bp):
TTATCAAAATTATATAACAAA
Found at i:6737579 original size:20 final size:20
Alignment explanation
Indices: 6737554--6737596 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6737544 AGTTACTAAA
*
6737554 ATATCAAAGGTTATT-AAAAT
1 ATATCAAAAGTT-TTGAAAAT
6737574 ATATCAAAAGTTTTGAAAAT
1 ATATCAAAAGTTTTGAAAAT
6737594 ATA
1 ATA
6737597 AATTATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (20 bp):
ATATCAAAAGTTTTGAAAAT
Found at i:6737855 original size:20 final size:19
Alignment explanation
Indices: 6737830--6737873 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
6737820 TATCATGAAG
*
6737830 GATAAATAAATAGAGTTTT
1 GATAAACAAATAGAGTTTT
6737849 CGATAAACAAATAGAGTTTT
1 -GATAAACAAATAGAGTTTT
6737869 GATAA
1 GATAA
6737874 CTGTTTGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
GATAAACAAATAGAGTTTT
Found at i:6738053 original size:15 final size:15
Alignment explanation
Indices: 6738035--6738069 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6738025 TCGTTTAAAT
6738035 TTTGTTTATTTATT-A
1 TTTGTTTA-TTATTCA
6738050 TTTGTTTATTATTCA
1 TTTGTTTATTATTCA
6738065 TTTGT
1 TTTGT
6738070 AATATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (15 bp):
TTTGTTTATTATTCA
Found at i:6738283 original size:22 final size:21
Alignment explanation
Indices: 6738258--6738318 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
6738248 ATATATTTAA
6738258 TTATTTATATTCGTAAATAAAT
1 TTATTTATATTCGTAAA-AAAT
* **
6738280 TTATTTAAAATTCGTTTAAAAT
1 TTATTT-ATATTCGTAAAAAAT
*
6738302 TTATTTATTATTTGTAA
1 TTATTTA-TATTCGTAA
6738319 TACTAATAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 1 0.03
22 21 0.70
23 8 0.27
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (21 bp):
TTATTTATATTCGTAAAAAAT
Found at i:6738806 original size:21 final size:21
Alignment explanation
Indices: 6738738--6738832 Score: 79
Period size: 21 Copynumber: 4.5 Consensus size: 21
6738728 TATCAAAATT
*
6738738 AAAATTATA-TGAAAGATTATA
1 AAAATTATATTGAAA-ATTATC
* * *
6738759 AGAAAATATATCGAAAGTT-TC
1 A-AAATTATATTGAAAATTATC
6738780 TAAAATTATATT-ATAAATTATC
1 -AAAATTATATTGA-AAATTATC
* *
6738802 CAAATTCTATTGAAAATTATC
1 AAAATTATATTGAAAATTATC
6738823 AAAATTATAT
1 AAAATTATAT
6738833 AAAGGTTGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
20 1 0.02
21 39 0.68
22 13 0.23
23 4 0.07
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (21 bp):
AAAATTATATTGAAAATTATC
Found at i:6738926 original size:46 final size:47
Alignment explanation
Indices: 6738863--6738951 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 47
6738853 CAAAGGTTGC
* * *
6738863 TAAATGTGTATAAATAATTTCAAAAATTTTATTGTAAGTTACCGGAA
1 TAAATGTGTATAAATAATTACAAAAAATTTATTATAAGTTACCGGAA
*
6738910 TAAA-GTGTGTAAATAATTACAAAAAATTTATTATAAGTTACC
1 TAAATGTGTATAAATAATTACAAAAAATTTATTATAAGTTACC
6738952 AAAATAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 34 0.89
47 4 0.11
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (47 bp):
TAAATGTGTATAAATAATTACAAAAAATTTATTATAAGTTACCGGAA
Found at i:6739173 original size:11 final size:11
Alignment explanation
Indices: 6739159--6739223 Score: 73
Period size: 11 Copynumber: 6.1 Consensus size: 11
6739149 AATTTATAAA
6739159 TATATCAAAAT
1 TATATCAAAAT
6739170 TATATCATAAAT
1 TATATCA-AAAT
*
6739182 TA-GT-AAAAT
1 TATATCAAAAT
6739191 TATATC-AAAT
1 TATATCAAAAT
*
6739201 TTTATCAAAAT
1 TATATCAAAAT
*
6739212 TGTATCAAAAT
1 TATATCAAAAT
6739223 T
1 T
6739224 TACCGATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.13
10 11 0.24
11 23 0.50
12 6 0.13
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (11 bp):
TATATCAAAAT
Found at i:6739210 original size:21 final size:21
Alignment explanation
Indices: 6739029--6739259 Score: 97
Period size: 21 Copynumber: 11.4 Consensus size: 21
6739019 GTTATTAGAA
* *
6739029 TATATCAAATATTA-AAAAAT
1 TATATCAAAAATTATCAAAAT
* *
6739049 TACAT-AACAAATTATTAAAAT
1 TATATCAA-AAATTATCAAAAT
* * **
6739070 TATTTCATAGCTTATCAAAAT
1 TATATCAAAAATTATCAAAAT
* * * *
6739091 TGTATTAATAATTATCCAAA-
1 TATATCAAAAATTATCAAAAT
* ** *
6739111 T-TATCTAAGGTTATCAACAT
1 TATATCAAAAATTATCAAAAT
* * *
6739131 TCTAT-AAAATTTATAAAAAAT
1 TATATCAAAAATTAT-CAAAAT
*
6739152 T-TAT-AAATA-TATCAAAAT
1 TATATCAAAAATTATCAAAAT
*
6739170 TATATCATAAATTAGT-AAAAT
1 TATATCAAAAATTA-TCAAAAT
**
6739191 TATATCAAATTTTATCAAAAT
1 TATATCAAAAATTATCAAAAT
* * **
6739212 TGTATCAAAATTTA-C-CGAT
1 TATATCAAAAATTATCAAAAT
*
6739231 TATATTAAAAATTATCAAAAT
1 TATATCAAAAATTATCAAAAT
*
6739252 TTTATCAA
1 TATATCAA
6739260 GTGTTATAAA
Statistics
Matches: 150, Mismatches: 48, Indels: 25
0.67 0.22 0.11
Matches are distributed among these distances:
18 6 0.04
19 32 0.21
20 29 0.19
21 81 0.54
22 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (21 bp):
TATATCAAAAATTATCAAAAT
Found at i:6739351 original size:21 final size:21
Alignment explanation
Indices: 6739312--6739414 Score: 97
Period size: 21 Copynumber: 5.0 Consensus size: 21
6739302 AGATTATAAA
*
6739312 ATCAAAA-TATATAAAAAAATT
1 ATCAAAATTTTAT-AAAAAATT
* *
6739333 ATTATAATTTTATAAAAAATT
1 ATCAAAATTTTATAAAAAATT
*
6739354 ATCAAAATTATAT-AAAAATT
1 ATCAAAATTTTATAAAAAATT
* * *
6739374 AT-AAAATTGTATATAAAGTT
1 ATCAAAATTTTATAAAAAATT
*
6739394 ATCAAAA-TTTATAAAAGATT
1 ATCAAAATTTTATAAAAAATT
6739414 A
1 A
6739415 ACAGAATTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
19 9 0.14
20 26 0.39
21 27 0.41
22 4 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (21 bp):
ATCAAAATTTTATAAAAAATT
Found at i:6739360 original size:11 final size:10
Alignment explanation
Indices: 6739342--6739379 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
6739332 TATTATAATT
6739342 TTATAAAAAA
1 TTATAAAAAA
*
6739352 TTAT-CAAAA
1 TTATAAAAAA
6739361 TTATATAAAAA
1 TTATA-AAAAA
6739372 TTATAAAA
1 TTATAAAA
6739380 TTGTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
10 7 0.29
11 9 0.38
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:6739372 original size:20 final size:20
Alignment explanation
Indices: 6739312--6739464 Score: 121
Period size: 20 Copynumber: 7.5 Consensus size: 20
6739302 AGATTATAAA
*
6739312 ATCAAAATATATAAAAAAATT
1 ATCAAAAT-TATATAAAAATT
* * *
6739333 ATTATAATTTTATAAAAAATT
1 ATCAAAATTATAT-AAAAATT
6739354 ATCAAAATTATATAAAAATT
1 ATCAAAATTATATAAAAATT
* *
6739374 AT-AAAATTGTATATAAAGTT
1 ATCAAAATTATATA-AAAATT
6739394 ATCAAAATT-TATAAAAGATT
1 ATCAAAATTATATAAAA-ATT
* * * * **
6739414 AACAGAATTGTGTAATGATT
1 ATCAAAATTATATAAAAATT
* * *
6739434 ATTACAATTATATATAAATT
1 ATCAAAATTATATAAAAATT
6739454 ATCAAAATTAT
1 ATCAAAATTAT
6739465 CTTTTAAGTT
Statistics
Matches: 102, Mismatches: 25, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
19 13 0.13
20 56 0.55
21 33 0.32
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (20 bp):
ATCAAAATTATATAAAAATT
Found at i:6739386 original size:10 final size:9
Alignment explanation
Indices: 6739341--6739409 Score: 57
Period size: 10 Copynumber: 7.0 Consensus size: 9
6739331 TTATTATAAT
6739341 TTTATAAAAA
1 TTTAT-AAAA
*
6739351 ATTATCAAAA
1 TTTAT-AAAA
6739361 TTATATAAAA
1 TT-TATAAAA
*
6739371 ATTATAAAA
1 TTTATAAAA
6739380 TTGTATATAAA
1 TT-TATA-AAA
*
6739391 GTTATCAAAA
1 TTTAT-AAAA
6739401 TTTATAAAA
1 TTTATAAAA
6739410 GATTAACAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 12 0.25
10 28 0.58
11 8 0.17
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (9 bp):
TTTATAAAA
Found at i:6757840 original size:34 final size:34
Alignment explanation
Indices: 6757796--6757860 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
6757786 TACAGAATCT
*
6757796 AAGTTTTTGGATTCAAGCCTCAAACTTGATGTAA
1 AAGTTGTTGGATTCAAGCCTCAAACTTGATGTAA
* *
6757830 AAGTTGTTGGATTCCAGCTTCAAACTTGATG
1 AAGTTGTTGGATTCAAGCCTCAAACTTGATG
6757861 CCATAAGTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (34 bp):
AAGTTGTTGGATTCAAGCCTCAAACTTGATGTAA
Found at i:6758145 original size:22 final size:22
Alignment explanation
Indices: 6758120--6758161 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6758110 TTGTCTATCC
* *
6758120 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
6758142 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
6758162 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:6761580 original size:25 final size:23
Alignment explanation
Indices: 6761546--6761608 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 23
6761536 TTTGAAAAGG
6761546 TTCGGCAATGAAGGCCTAAACAAGA
1 TTCGGCAATGAAGGCCTAAA-AA-A
6761571 TTCGGCAATGAAGGCCTAAAAAA
1 TTCGGCAATGAAGGCCTAAAAAA
* *
6761594 GTCAGCAATGAAGGC
1 TTCGGCAATGAAGGC
6761609 TGAAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 14 0.39
24 2 0.06
25 20 0.56
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (23 bp):
TTCGGCAATGAAGGCCTAAAAAA
Found at i:6761845 original size:22 final size:22
Alignment explanation
Indices: 6761820--6761861 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6761810 TTGTTTATCC
* *
6761820 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
6761842 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
6761862 TAGATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:6765173 original size:47 final size:47
Alignment explanation
Indices: 6765104--6765198 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
6765094 ATCAAATGTA
6765104 TGTTATGTATTTGATTGTTAAACTTATTATCATAATTATGTAGTTCC
1 TGTTATGTATTTGATTGTTAAACTTATTATCATAATTATGTAGTTCC
6765151 TGTTATGTATTTGATTGTTAAACTTATTATCATAATTATGTAGTTCC
1 TGTTATGTATTTGATTGTTAAACTTATTATCATAATTATGTAGTTCC
6765198 T
1 T
6765199 ATAACGTGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (47 bp):
TGTTATGTATTTGATTGTTAAACTTATTATCATAATTATGTAGTTCC
Found at i:6769049 original size:2 final size:2
Alignment explanation
Indices: 6769042--6769072 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6769032 TGAAACCTAC
6769042 AT 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 AT A
6769073 GTTAAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6771252 original size:2 final size:2
Alignment explanation
Indices: 6771245--6771270 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6771235 AATTATCCAA
6771245 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
6771271 TCCAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6771490 original size:28 final size:30
Alignment explanation
Indices: 6771455--6771533 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 30
6771445 TAATAAAATA
6771455 TTTAATATAATATTTAAATTA-AAATTT-T
1 TTTAATATAATATTTAAATTATAAATTTAT
*
6771483 TTTAATATAATATCTAAATTATAAATTTAT
1 TTTAATATAATATTTAAATTATAAATTTAT
*
6771513 TAATTAATATGATACTTTAAA
1 T--TTAATATAATA-TTTAAA
6771534 AATTATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 20 0.47
29 6 0.14
30 2 0.05
32 10 0.23
33 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (30 bp):
TTTAATATAATATTTAAATTATAAATTTAT
Found at i:6785673 original size:23 final size:23
Alignment explanation
Indices: 6785643--6785686 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
6785633 TGATAGTGAC
6785643 ACATGAATCATTGAATCTGCTAT
1 ACATGAATCATTGAATCTGCTAT
6785666 ACATGAATCATTGAATCTGCT
1 ACATGAATCATTGAATCTGCT
6785687 CCCTCTACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (23 bp):
ACATGAATCATTGAATCTGCTAT
Found at i:6792402 original size:25 final size:25
Alignment explanation
Indices: 6792374--6792426 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 25
6792364 CTTCTTTTTT
6792374 CACTTTTGGT-TTTTTGATATTTTAC
1 CACTTTTGGTGTTTTT-ATATTTTAC
6792399 CACTTTTGGTGTTTTTATATTTTAC
1 CACTTTTGGTGTTTTTATATTTTAC
6792424 CAC
1 CAC
6792427 ATACCAGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (25 bp):
CACTTTTGGTGTTTTTATATTTTAC
Found at i:6800776 original size:21 final size:20
Alignment explanation
Indices: 6800750--6800789 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6800740 GAAATTCGAT
*
6800750 TAAAATTTATGTGAATAATTA
1 TAAAATATAT-TGAATAATTA
*
6800771 TAAAATATATTTAATAATT
1 TAAAATATATTGAATAATT
6800790 TCTTGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAATATATTGAATAATTA
Found at i:6800822 original size:24 final size:24
Alignment explanation
Indices: 6800770--6800822 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6800760 GTGAATAATT
**
6800770 ATAAAATATATTTAATAATTTCTT
1 ATAAAATATATTTAATAATTTCAA
*
6800794 GTAAAATATATTTAATAAATTT-AA
1 ATAAAATATATTTAAT-AATTTCAA
6800818 ATAAA
1 ATAAA
6800823 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAAAATATATTTAATAATTTCAA
Found at i:6801747 original size:11 final size:12
Alignment explanation
Indices: 6801721--6801749 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6801711 AATTAGAAGT
6801721 CAAAATCAATTA
1 CAAAATCAATTA
6801733 CAAAATCAA-TA
1 CAAAATCAATTA
6801744 CAAAAT
1 CAAAAT
6801750 TTAATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (12 bp):
CAAAATCAATTA
Found at i:6802611 original size:21 final size:21
Alignment explanation
Indices: 6802586--6802625 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6802576 CCTCAAACTT
*
6802586 AAATTTGATTATATATAATTA
1 AAATTTGATTAAATATAATTA
*
6802607 AAATTTTATTAAATATAAT
1 AAATTTGATTAAATATAAT
6802626 AATCGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
AAATTTGATTAAATATAATTA
Found at i:6803289 original size:17 final size:17
Alignment explanation
Indices: 6803267--6803302 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6803257 TTCCATAACG
* *
6803267 AAAAAAAGAAAAAGCCA
1 AAAAAAAAAAAAAACCA
6803284 AAAAAAAAAAAAAACCA
1 AAAAAAAAAAAAAACCA
6803301 AA
1 AA
6803303 TCCTCTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAACCA
Found at i:6803795 original size:3 final size:3
Alignment explanation
Indices: 6803787--6803814 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6803777 TCTCTTTACT
6803787 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6803815 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6809676 original size:28 final size:29
Alignment explanation
Indices: 6809629--6809683 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
6809619 TTTATTTTTT
*
6809629 AAAAAAATGTGAAAAGTAAAATATAAAAA
1 AAAAAAATGTGAAAAGTAAAAAATAAAAA
6809658 AAAAATAAT-TGAAAA-TAAAAAATAAA
1 AAAAA-AATGTGAAAAGTAAAAAATAAA
6809684 TAACATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 10 0.42
29 11 0.46
30 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (29 bp):
AAAAAAATGTGAAAAGTAAAAAATAAAAA
Found at i:6811940 original size:17 final size:15
Alignment explanation
Indices: 6811905--6811943 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
6811895 TATGTGACAT
6811905 ATAAAATATAATAAA
1 ATAAAATATAATAAA
*
6811920 ATAAAATGATACTATAA
1 ATAAAAT-ATAATA-AA
6811937 ATAAAAT
1 ATAAAAT
6811944 TAGATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 5 0.24
17 9 0.43
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
ATAAAATATAATAAA
Found at i:6818019 original size:8 final size:8
Alignment explanation
Indices: 6818008--6818037 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
6817998 TTTCTGTTTT
6818008 TTTTCTGC
1 TTTTCTGC
6818016 TTTTCTGC
1 TTTTCTGC
6818024 TTTTCTGC
1 TTTTCTGC
6818032 TTTTCT
1 TTTTCT
6818038 TTTTCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.67
Consensus pattern (8 bp):
TTTTCTGC
Found at i:6818021 original size:19 final size:19
Alignment explanation
Indices: 6817997--6818048 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 19
6817987 TCCTTAAAAG
6817997 TTTTCTGTTTTTTTTCTGC
1 TTTTCTGTTTTTTTTCTGC
*
6818016 TTTTCTG---CTTTTCTGC
1 TTTTCTGTTTTTTTTCTGC
6818032 TTTTCT-TTTTCTTTTCT
1 TTTTCTGTTTT-TTTTCT
6818049 TTTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
16 14 0.52
19 13 0.48
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTTCTGTTTTTTTTCTGC
Found at i:6818054 original size:27 final size:27
Alignment explanation
Indices: 6817997--6818048 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
6817987 TCCTTAAAAG
6817997 TTTTCTGTTTTTTTTCTGCTTTTCTGC
1 TTTTCTGTTTTTTTTCTGCTTTTCTGC
6818024 TTTTCTGCTTTTCTTTT-T-CTTTTCT
1 TTTTCTG-TTTT-TTTTCTGCTTTTCT
6818049 TTTTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 14 0.61
28 5 0.22
29 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (27 bp):
TTTTCTGTTTTTTTTCTGCTTTTCTGC
Found at i:6819722 original size:17 final size:18
Alignment explanation
Indices: 6819700--6819734 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6819690 AACTTACATC
6819700 TATTAA-TAAAAATAATT
1 TATTAATTAAAAATAATT
6819717 TATTAATTAAAAATAATT
1 TATTAATTAAAAATAATT
6819735 ACAAATATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTAATTAAAAATAATT
Found at i:6823687 original size:2 final size:2
Alignment explanation
Indices: 6823680--6823706 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6823670 GCAAATAATC
6823680 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6823707 TGATATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6823987 original size:21 final size:20
Alignment explanation
Indices: 6823922--6823987 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 20
6823912 AATGTTTACT
*
6823922 AAAATTATATCATAAATTATT
1 AAAATTA-ATCATAAATTATC
*
6823943 AAAA-TAAT-ATTAATAGTTACC
1 AAAATTAATCA-TAA-A-TTATC
6823964 AAAATTGAATCATAAATTATC
1 AAAATT-AATCATAAATTATC
6823985 AAA
1 AAA
6823988 CTTTTATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 3 0.08
21 18 0.50
22 2 0.06
23 6 0.17
24 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTAATCATAAATTATC
Found at i:6823996 original size:21 final size:19
Alignment explanation
Indices: 6823972--6824038 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 19
6823962 CCAAAATTGA
6823972 ATCATAAATTATCAAACTTTT
1 ATCA-AAATTATCAAA-TTTT
*
6823993 ATCAAAAGTATCAAATTTCT
1 ATCAAAATTATCAAATTT-T
* *
6824013 AATAAAAATTATCAAATTAT
1 -ATCAAAATTATCAAATTTT
6824033 ATCAAA
1 ATCAAA
6824039 GTTTAACAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 8 0.21
20 12 0.31
21 19 0.49
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (19 bp):
ATCAAAATTATCAAATTTT
Found at i:6824097 original size:21 final size:21
Alignment explanation
Indices: 6824073--6824128 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
6824063 CAATGTTACC
6824073 AAAATTATATCAATA-ATTATT
1 AAAATTATATCAA-AGATTATT
* * *
6824094 AAAATTATGTTAAAGGTTATT
1 AAAATTATATCAAAGATTATT
*
6824115 AAAATCATATCAAA
1 AAAATTATATCAAA
6824129 CTATAAGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATTATATCAAAGATTATT
Found at i:6824389 original size:15 final size:17
Alignment explanation
Indices: 6824363--6824395 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6824353 ATTAAATTAT
6824363 ATCAAATATTAT-TAAA
1 ATCAAATATTATATAAA
6824379 ATCAAAT-TTATATAAA
1 ATCAAATATTATATAAA
6824395 A
1 A
6824396 ATTTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
ATCAAATATTATATAAA
Found at i:6824411 original size:21 final size:20
Alignment explanation
Indices: 6824386--6824440 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
6824376 AAAATCAAAT
6824386 TTATATAAAAATTTACTAAAA
1 TTATATAAAAATTTA-TAAAA
* * *
6824407 TTATAAACAAAAATTATCAAA
1 TTATATA-AAAATTTATAAAA
6824428 TTATATTAAAAAT
1 TTATA-TAAAAAT
6824441 AATTAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TTATATAAAAATTTATAAAA
Found at i:6824458 original size:28 final size:27
Alignment explanation
Indices: 6824416--6824479 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
6824406 ATTATAAACA
*
6824416 AAAATTATCAAATTATATTAAAAATAATT
1 AAAATTATAAAATTATA-TAAAAAT-ATT
6824445 AAAATT-TAAAATTATATAAAAATATT
1 AAAATTATAAAATTATATAAAAATATT
*
6824471 GAAATTATA
1 AAAATTATA
6824480 TCAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 8 0.25
27 9 0.28
28 9 0.28
29 6 0.19
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
AAAATTATAAAATTATATAAAAATATT
Found at i:6824475 original size:26 final size:28
Alignment explanation
Indices: 6824416--6824476 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6824406 ATTATAAACA
*
6824416 AAAATTATCAAATTATATTAAAAATAATT
1 AAAATT-TAAAATTATATTAAAAATAATT
6824445 AAAATTTAAAATTATA-TAAAAAT-ATT
1 AAAATTTAAAATTATATTAAAAATAATT
*
6824471 GAAATT
1 AAAATT
6824477 ATATCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 8 0.27
27 7 0.23
28 9 0.30
29 6 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATTTAAAATTATATTAAAAATAATT
Found at i:6824916 original size:18 final size:19
Alignment explanation
Indices: 6824881--6824919 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6824871 AATGACTGAA
* *
6824881 ATTTATATATTTATATTAT
1 ATTTATATATATAAATTAT
6824900 ATTT-TATATATAAATTAT
1 ATTTATATATATAAATTAT
6824918 AT
1 AT
6824920 ATTAAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATATATATAAATTAT
Found at i:6825044 original size:18 final size:17
Alignment explanation
Indices: 6825023--6825063 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
6825013 TTTTATATTT
6825023 TATTTATTATCATACTCA
1 TATTTATTATCATA-TCA
*
6825041 TATTATATTATTATATCA
1 TATT-TATTATCATATCA
6825059 TATTT
1 TATTT
6825064 TAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 11 0.52
19 9 0.43
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTATTATCATATCA
Found at i:6826396 original size:16 final size:17
Alignment explanation
Indices: 6826363--6826397 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6826353 ATTCTTTACC
*
6826363 TTCTTTATTTTAATTTA
1 TTCTTAATTTTAATTTA
6826380 TTCTTAATTTT-ATTTA
1 TTCTTAATTTTAATTTA
6826396 TT
1 TT
6826398 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTAATTTTAATTTA
Found at i:6838295 original size:30 final size:30
Alignment explanation
Indices: 6838261--6838317 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
6838251 TTTTCCAAGT
*
6838261 TTATAACCTTAAACTTCCAATTTGGAAAGA
1 TTATAACCATAAACTTCCAATTTGGAAAGA
6838291 TTATAACCATAAACTTCCAATTTGGAA
1 TTATAACCATAAACTTCCAATTTGGAA
6838318 GTTCAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (30 bp):
TTATAACCATAAACTTCCAATTTGGAAAGA
Found at i:6842798 original size:22 final size:18
Alignment explanation
Indices: 6842762--6842805 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 18
6842752 CTCAATTCTA
6842762 TTATATGTGCAATTAGTTT
1 TTATATGTGCAATTA-TTT
6842781 GTTATATGTACGCAATTATTT
1 -TTATATGT--GCAATTATTT
6842802 TTAT
1 TTAT
6842806 TTATTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (18 bp):
TTATATGTGCAATTATTT
Found at i:6844048 original size:13 final size:13
Alignment explanation
Indices: 6844016--6844055 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6844006 TTAAATTTTT
6844016 TAAAATTTT-ATA
1 TAAAATTTTAATA
**
6844028 TATTATTTTAATA
1 TAAAATTTTAATA
6844041 TAAAATTTTAATA
1 TAAAATTTTAATA
6844054 TA
1 TA
6844056 TTTAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAAAATTTTAATA
Found at i:6844050 original size:33 final size:33
Alignment explanation
Indices: 6844013--6844080 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
6844003 TTTTTAAATT
*
6844013 TTTTAAAAT-TTTATATATTATTTTAATATAAAA
1 TTTTAAAATATTTAAATA-TATTTTAATATAAAA
* *
6844046 TTTTAATATATTTAAATATATTTTGATATAAAA
1 TTTTAAAATATTTAAATATATTTTAATATAAAA
6844079 TT
1 TT
6844081 ATTATTATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (33 bp):
TTTTAAAATATTTAAATATATTTTAATATAAAA
Found at i:6844066 original size:25 final size:25
Alignment explanation
Indices: 6844016--6844065 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
6844006 TTAAATTTTT
*
6844016 TAAAATTTTATATATTATTTTAATA
1 TAAAATTTTATATATTATTTAAATA
6844041 TAAAATTTTA-ATA-TATTTAAATA
1 TAAAATTTTATATATTATTTAAATA
6844064 TA
1 TA
6844066 TTTTGATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.46
24 3 0.12
25 10 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAAATTTTATATATTATTTAAATA
Found at i:6844074 original size:10 final size:10
Alignment explanation
Indices: 6844004--6844075 Score: 51
Period size: 10 Copynumber: 7.0 Consensus size: 10
6843994 GATTTATTAT
*
6844004 TTTTAA-ATT
1 TTTTAATATA
6844013 TTTTAA-A-A
1 TTTTAATATA
6844021 TTTTATATATTA
1 TTTTA-ATA-TA
6844033 TTTTAATATAAAA
1 TTTTAATAT---A
6844046 TTTTAATATA
1 TTTTAATATA
*
6844056 TTTAAATATA
1 TTTTAATATA
*
6844066 TTTTGATATA
1 TTTTAATATA
6844076 AAATTATTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 5 0.10
9 8 0.15
10 20 0.38
11 3 0.06
12 6 0.12
13 10 0.19
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (10 bp):
TTTTAATATA
Found at i:6845587 original size:23 final size:23
Alignment explanation
Indices: 6845539--6845590 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
6845529 TTATGAAATG
* *
6845539 TTTTAACATTATATCTTGTTACT
1 TTTTAACATTATATATTCTTACT
*
6845562 TTTTAACATT-TAATATTCTTATT
1 TTTTAACATTAT-ATATTCTTACT
6845585 TTTTAA
1 TTTTAA
6845591 ACTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAACATTATATATTCTTACT
Found at i:6846499 original size:3 final size:3
Alignment explanation
Indices: 6846480--6846514 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6846470 CTTTTCTATG
* *
6846480 ATT ACT ATT ACT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6846515 GTCTTTATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:6846917 original size:18 final size:16
Alignment explanation
Indices: 6846885--6846915 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6846875 AAAATAGAAT
6846885 AAAATCAATATTATTA
1 AAAATCAATATTATTA
6846901 AAAATCAA-ATTATTA
1 AAAATCAATATTATTA
6846916 TTCATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATCAATATTATTA
Found at i:6850410 original size:6 final size:6
Alignment explanation
Indices: 6850367--6850406 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
6850357 CCCGGTGGCT
*
6850367 CCAGTG CCAGTG CCAGTG CCAGTG CCAGTG CCAGCG CCAG
1 CCAGTG CCAGTG CCAGTG CCAGTG CCAGTG CCAGTG CCAG
6850407 CGCCGAACCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.38, G:0.33, T:0.12
Consensus pattern (6 bp):
CCAGTG
Found at i:6853155 original size:24 final size:24
Alignment explanation
Indices: 6853122--6853172 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
6853112 TTCACCTGCC
*
6853122 TTATTATGAATGTTTATGGAACTG
1 TTATTATGAATGTTTATGAAACTG
*
6853146 TTATTGTGAATGTTTATGAAACTG
1 TTATTATGAATGTTTATGAAACTG
6853170 TTA
1 TTA
6853173 ATGACAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (24 bp):
TTATTATGAATGTTTATGAAACTG
Found at i:6881794 original size:30 final size:30
Alignment explanation
Indices: 6881776--6881835 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
6881766 CAGCTTTACG
*
6881776 TAGTTGTCTACTTGATTTACATCTGTCAGA
1 TAGTTGTCTACTTGATTTACAGCTGTCAGA
*
6881806 TAGTTGTCTACTTGATTTACATCTGTCAGA
1 TAGTTGTCTACTTGATTTACAGCTGTCAGA
6881836 CAATGGCTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (30 bp):
TAGTTGTCTACTTGATTTACAGCTGTCAGA
Found at i:6889317 original size:18 final size:19
Alignment explanation
Indices: 6889277--6889317 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6889267 GAAAAATGAG
*
6889277 TTTTTTTTCATTTTCTTCT
1 TTTTTTTTCATTTTCCTCT
**
6889296 TTTTTTTTTTTTTTCCTCT
1 TTTTTTTTCATTTTCCTCT
6889315 TTT
1 TTT
6889318 CCTTCAATTT
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:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTTTCATTTTCCTCT
Found at i:6894372 original size:19 final size:20
Alignment explanation
Indices: 6894343--6894382 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 20
6894333 ATGTTATTTA
6894343 TAATCATTAT-ATTT-TAAT
1 TAATCATTATAATTTATAAT
6894361 TAATCAATTATAATTTATAAT
1 TAATC-ATTATAATTTATAAT
6894382 T
1 T
6894383 GTGTGAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 4 0.21
21 5 0.26
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATCATTATAATTTATAAT
Found at i:6895544 original size:30 final size:29
Alignment explanation
Indices: 6895465--6895574 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 29
6895455 TTAAAAAAAA
* *
6895465 TTTAAATTTTATCATTT-TATTTAAATAAAC
1 TTTAAATTTTA--ATTTGTATCTAAATAATC
* *
6895495 TTTTATATTTTTA-TTGTATCTAAATAAGTC
1 -TTTAAATTTTAATTTGTATCTAAATAA-TC
* *
6895525 TTTAAATTTTAATTTGTATCCAAAGGAATC
1 TTTAAATTTTAATTTGTATCTAAA-TAATC
6895555 TTT-AATATTTAATTTGTATC
1 TTTAAAT-TTTAATTTGTATC
6895575 CAATTTAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
28 2 0.03
29 24 0.36
30 29 0.44
31 11 0.17
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (29 bp):
TTTAAATTTTAATTTGTATCTAAATAATC
Found at i:6895590 original size:30 final size:30
Alignment explanation
Indices: 6895532--6895592 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6895522 GTCTTTAAAT
* *
6895532 TTTAATTTGTATCCAAAGGAATCTTTAATA
1 TTTAATTTGTATCCAAAGGAACCATTAATA
***
6895562 TTTAATTTGTATCCAATTTAACCATTAATA
1 TTTAATTTGTATCCAAAGGAACCATTAATA
6895592 T
1 T
6895593 AAATCAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTAATTTGTATCCAAAGGAACCATTAATA
Found at i:6895668 original size:29 final size:29
Alignment explanation
Indices: 6895628--6895703 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
6895618 GGCTTACTTG
*
6895628 AATATAAATAAAAAAATAAAAATTTATTTG
1 AATA-AAATAAAAAAATAAAAATTTATTTA
* * * *
6895658 GATACAATAAAAATATAAAGATTTATTTA
1 AATAAAATAAAAAAATAAAAATTTATTTA
6895687 AATAAAATGAAAAAAAT
1 AATAAAAT-AAAAAAAT
6895704 TCAAAAACTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.30
Consensus pattern (29 bp):
AATAAAATAAAAAAATAAAAATTTATTTA
Found at i:6898230 original size:2 final size:2
Alignment explanation
Indices: 6898181--6898211 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6898171 ACATAAAATT
6898181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6898212 TTCAAATGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6899300 original size:2 final size:2
Alignment explanation
Indices: 6899295--6899319 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6899285 ATATATATAT
6899295 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
6899320 AATTGCCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6902587 original size:16 final size:16
Alignment explanation
Indices: 6902566--6902598 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6902556 ACGGCATTTC
6902566 TCTTTTCTTTTCTTTT
1 TCTTTTCTTTTCTTTT
*
6902582 TCTTTTTTTTTCTTTT
1 TCTTTTCTTTTCTTTT
6902598 T
1 T
6902599 GTTGGAACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TCTTTTCTTTTCTTTT
Found at i:6902598 original size:10 final size:10
Alignment explanation
Indices: 6902568--6902598 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
6902558 GGCATTTCTC
6902568 TTTTCTTTTCT
1 TTTTCTTTT-T
6902579 TTTTCTTTTT
1 TTTTCTTTTT
6902589 TTTTCTTTTT
1 TTTTCTTTTT
6902599 GTTGGAACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:6907582 original size:42 final size:42
Alignment explanation
Indices: 6907523--6907607 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
6907513 ATCTAATACT
* * *
6907523 TAATATGGGATTAATATGAGTTAATGACACAAGAAAACAAAC
1 TAATAGGGGATTAATATGAATCAATGACACAAGAAAACAAAC
*
6907565 TAATAGGGGATTAATATGAATCAATGACATAAGAAAACAAAC
1 TAATAGGGGATTAATATGAATCAATGACACAAGAAAACAAAC
6907607 T
1 T
6907608 CAAAAACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (42 bp):
TAATAGGGGATTAATATGAATCAATGACACAAGAAAACAAAC
Found at i:6909781 original size:359 final size:359
Alignment explanation
Indices: 6909117--6909839 Score: 1412
Period size: 359 Copynumber: 2.0 Consensus size: 359
6909107 TCTAGTAGGA
6909117 ACTTA-TGTAAACCATTCTAGCCTTTTACAGTTTATAGTTTTTAAATGGAGATAAATGCTCTGTA
1 ACTTATTGTAAACCATTCTAGCCTTTTACAGTTTATAGTTTTTAAATGGAGATAAATGCTCTGTA
6909181 AGCACTACCAATAATTCATAAAACATCACAACTATGCTTAGGCCCTTTACAGCACATATTTTGTG
66 AGCACTACCAATAATTCATAAAACATCACAACTATGCTTAGGCCCTTTACAGCACATATTTTGTG
6909246 GTGAAGTTGTCTGACAACAGGGTGGCCACATTATAGTTATGATTTCGTCAAACTTTCATTACATC
131 GTGAAGTTGTCTGACAACAGGGTGGCCACATTATAGTTATGATTTCGTCAAACTTTCATTACATC
*
6909311 AAACTCTGACACTCGAGGCTAAAAACAGAGTGCTAAAAAGAGTAAATCTAATATATTTTCTTCGA
196 AAACTCTGACACTCGAGGCTAAAAACAGAGTGCTAAAAAGAGTAAATCTAATATATTTTCTTCAA
6909376 TACTGCTGAAATTCCTTTATCTATGCATGAGAAATAAATACAAAGACCAAAGATCCATACTAAGT
261 TACTGCTGAAATTCCTTTATCTATGCATGAGAAATAAATACAAAGACCAAAGATCCATACTAAGT
6909441 TGAAAATGAAACACCAAAATAACCACAATATTTC
326 TGAAAATGAAACACCAAAATAACCACAATATTTC
*
6909475 CCTTATTGTAAACCATTCTAGCCTTTTACAGTTTATAGTTTTTAAATGGAGATAAATGCTCTGTA
1 ACTTATTGTAAACCATTCTAGCCTTTTACAGTTTATAGTTTTTAAATGGAGATAAATGCTCTGTA
6909540 AGCACTACCAATAATTCATAAAACATCACAACTATGCTTAGGCCCTTTACAGCACATATTTTGTG
66 AGCACTACCAATAATTCATAAAACATCACAACTATGCTTAGGCCCTTTACAGCACATATTTTGTG
6909605 GTGAAGTTGTCTGACAACAGGGTGGCCACATTATAGTTATGATTTCGTCAAACTTTCATTACATC
131 GTGAAGTTGTCTGACAACAGGGTGGCCACATTATAGTTATGATTTCGTCAAACTTTCATTACATC
*
6909670 AAACTCTGACACTCGAGGCTAAAAGCAGAGTGCTAAAAAGAGTAAATCTAATATATTTTCTTCAA
196 AAACTCTGACACTCGAGGCTAAAAACAGAGTGCTAAAAAGAGTAAATCTAATATATTTTCTTCAA
6909735 TACTGCTGAAATTCCTTTATCTATGCATGAGAAATAAATACAAAGACCAAAGATCCATACTAAGT
261 TACTGCTGAAATTCCTTTATCTATGCATGAGAAATAAATACAAAGACCAAAGATCCATACTAAGT
6909800 TGAAAATGAAACACCAAAATAACCACAATATTTC
326 TGAAAATGAAACACCAAAATAACCACAATATTTC
6909834 ACTTAT
1 ACTTAT
6909840 ACAGACCCAT
Statistics
Matches: 360, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
358 4 0.01
359 356 0.99
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (359 bp):
ACTTATTGTAAACCATTCTAGCCTTTTACAGTTTATAGTTTTTAAATGGAGATAAATGCTCTGTA
AGCACTACCAATAATTCATAAAACATCACAACTATGCTTAGGCCCTTTACAGCACATATTTTGTG
GTGAAGTTGTCTGACAACAGGGTGGCCACATTATAGTTATGATTTCGTCAAACTTTCATTACATC
AAACTCTGACACTCGAGGCTAAAAACAGAGTGCTAAAAAGAGTAAATCTAATATATTTTCTTCAA
TACTGCTGAAATTCCTTTATCTATGCATGAGAAATAAATACAAAGACCAAAGATCCATACTAAGT
TGAAAATGAAACACCAAAATAACCACAATATTTC
Found at i:6911163 original size:2 final size:2
Alignment explanation
Indices: 6911147--6911183 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
6911137 TTTTATTTTA
*
6911147 AT AT -T AT AT -T AT AT AT AT TT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6911184 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:6916668 original size:2 final size:2
Alignment explanation
Indices: 6916661--6916691 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6916651 AACTAATTTG
6916661 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6916692 TCATATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6919749 original size:26 final size:24
Alignment explanation
Indices: 6919695--6919753 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
6919685 TAATTAAAAT
*
6919695 TAATATATTTTTATTAAAAAATAC
1 TAATATATATTTATTAAAAAATAC
6919719 TAATATATATTTA-TAAAAAATTACC
1 TAATATATATTTATTAAAAAA-TA-C
6919744 TAAATATATA
1 T-AATATATA
6919754 AGATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 7 0.23
24 14 0.45
25 2 0.06
26 8 0.26
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATATATATTTATTAAAAAATAC
Found at i:6922617 original size:14 final size:16
Alignment explanation
Indices: 6922594--6922625 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6922584 ATAGAATAAA
6922594 AAAAATAATTT-TTTT
1 AAAAATAATTTATTTT
6922609 AAAAA-AATTTATTTT
1 AAAAATAATTTATTTT
6922624 AA
1 AA
6922626 TTTTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAAATAATTTATTTT
Found at i:6923469 original size:21 final size:19
Alignment explanation
Indices: 6923442--6923491 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
6923432 TGAATACTCA
6923442 TATTTTATT-ATTTGATATTG
1 TATTTTATTGATTTG-T-TTG
6923462 TGATTTTATTTGATTTGTTTG
1 T-ATTTTA-TTGATTTGTTTG
6923483 TATTTTATT
1 TATTTTATT
6923492 TAATTAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 10 0.37
22 3 0.11
23 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (19 bp):
TATTTTATTGATTTGTTTG
Done.