Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 30 of 402
Found at i:6573012 original size:19 final size:19
Alignment explanation
Indices: 6572906--6573015 Score: 57
Period size: 19 Copynumber: 5.5 Consensus size: 19
6572896 AGGTTTTTTT
* *
6572906 TTTTA-TTTCATCTTATTTT
1 TTTTATTTTCATCTT-TATA
* *
6572925 TTTTATTTT-ATTTTTCTA
1 TTTTATTTTCATCTTTATA
6572943 TTTTATTTTCAT-TTTAT-
1 TTTTATTTTCATCTTTATA
*
6572960 TTTTAGATTTTTTATCTTTACTTGTTA
1 TTTT--A-TTTTCATCTTTA-----TA
6572987 TTATTATTTTCATCTTTATA
1 TT-TTATTTTCATCTTTATA
6573007 TTTTATTTT
1 TTTTATTTT
6573016 TGTTGATTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
17 4 0.06
18 15 0.21
19 19 0.26
20 13 0.18
21 4 0.06
25 11 0.15
26 2 0.03
27 2 0.03
28 2 0.03
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATTTTCATCTTTATA
Found at i:6573012 original size:25 final size:23
Alignment explanation
Indices: 6572918--6573013 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 23
6572908 TTATTTCATC
* *
6572918 TTATTTTTTTTATTTTATTTTTCTA
1 TTATTATTTTCATTTTA-TTTT-TA
6572943 TT-TTATTTTCATTTTATTTTTA
1 TTATTATTTTCATTTTATTTTTA
* *
6572965 -GATT-TTTT-ATCTTTACTTGTTA
1 TTATTATTTTCAT-TTTA-TTTTTA
6572987 TTATTATTTTCATCTTTATATTTTA
1 TTATTATTTTCAT-TTTAT-TTTTA
6573012 TT
1 TT
6573014 TTTGTTGATT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
20 2 0.03
21 8 0.14
22 9 0.16
23 7 0.12
24 17 0.29
25 15 0.26
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (23 bp):
TTATTATTTTCATTTTATTTTTA
Found at i:6573015 original size:5 final size:5
Alignment explanation
Indices: 6572901--6572962 Score: 58
Period size: 5 Copynumber: 12.8 Consensus size: 5
6572891 ATCGTAGGTT
* * * *
6572901 TTTTT TTTTA TTTCA TCTTA TTTT- TTTTA TTTTA -TTT- TTCTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
6572948 TTTTCA TTTTA TTTT
1 TTTT-A TTTTA TTTT
6572963 TAGATTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
4 9 0.20
5 32 0.70
6 5 0.11
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:6574049 original size:36 final size:36
Alignment explanation
Indices: 6573998--6574070 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
6573988 ATACATACAT
*
6573998 ACCTTGTGACCGTAAGCCCAATATCCTCCAATTGCG
1 ACCTTGTGACAGTAAGCCCAATATCCTCCAATTGCG
6574034 ACCTTGTGACAGTAAGCCCAATATCCTCCAATTGCG
1 ACCTTGTGACAGTAAGCCCAATATCCTCCAATTGCG
6574070 A
1 A
6574071 GGGGAAACAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (36 bp):
ACCTTGTGACAGTAAGCCCAATATCCTCCAATTGCG
Found at i:6574348 original size:50 final size:48
Alignment explanation
Indices: 6574288--6574387 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 48
6574278 ACGATGTCTG
* * *
6574288 AATTATTTTTATTTTTTAAAATTTAAATAAATATATAAATTAATATTATTA
1 AATTATTTTTA-TGTTTAAAATATAAATAAA-ATATAAA-TAATATAATTA
**
6574339 AATT-TTTTTATGTTTAAAATATATGTAAAATATAAATAATATAATTA
1 AATTATTTTTATGTTTAAAATATAAATAAAATATAAATAATATAATTA
6574386 AA
1 AA
6574388 ATATCAAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
47 12 0.27
48 7 0.16
49 15 0.34
50 6 0.14
51 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (48 bp):
AATTATTTTTATGTTTAAAATATAAATAAAATATAAATAATATAATTA
Found at i:6574381 original size:20 final size:21
Alignment explanation
Indices: 6574356--6574396 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6574346 TTATGTTTAA
6574356 AATAT-ATGTAAAATAT-AAAT
1 AATATAAT-TAAAATATCAAAT
6574376 AATATAATTAAAATATCAAAT
1 AATATAATTAAAATATCAAAT
6574397 CTTAGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AATATAATTAAAATATCAAAT
Found at i:6575169 original size:2 final size:2
Alignment explanation
Indices: 6575162--6575210 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6575152 AATAAACCTA
6575162 AT AT AT AT AT 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 AT AT AT AT AT
6575204 AT AT AT A
1 AT AT AT A
6575211 CACACACACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6576114 original size:23 final size:24
Alignment explanation
Indices: 6576074--6576119 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
6576064 ATGTCTACGA
*
6576074 TAAATATTGATTTAAATTTAAATT
1 TAAATATTGATTTAAATTCAAATT
* *
6576098 TAAAT-TTTATTTTAATTCAAAT
1 TAAATATTGATTTAAATTCAAAT
6576120 ATATCTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TAAATATTGATTTAAATTCAAATT
Found at i:6592698 original size:108 final size:108
Alignment explanation
Indices: 6592558--6592758 Score: 384
Period size: 108 Copynumber: 1.9 Consensus size: 108
6592548 AGAATAATGA
6592558 ACACCCCAAAAAATAACTAATACATATTAACCGCTCTAATATAAGATGGCAAACTAGCTAATCGA
1 ACACCCCAAAAAATAACTAATACATATTAACCGCTCTAATATAAGATGGCAAACTAGCTAATCGA
6592623 CTGTAGGAGGAACAACAACAAAAAGAGACAATCTAGTTCGTTG
66 CTGTAGGAGGAACAACAACAAAAAGAGACAATCTAGTTCGTTG
* *
6592666 ACACCCCAAAATATAACTAATACATATTAACCGCTCTAATATAAGATGGCAAACTAGCTAATTGA
1 ACACCCCAAAAAATAACTAATACATATTAACCGCTCTAATATAAGATGGCAAACTAGCTAATCGA
6592731 CTGTAGGAGGAACAACAACAAAAAGAGA
66 CTGTAGGAGGAACAACAACAAAAAGAGA
6592759 AGAAAAAGAA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 91 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (108 bp):
ACACCCCAAAAAATAACTAATACATATTAACCGCTCTAATATAAGATGGCAAACTAGCTAATCGA
CTGTAGGAGGAACAACAACAAAAAGAGACAATCTAGTTCGTTG
Found at i:6593568 original size:15 final size:15
Alignment explanation
Indices: 6593548--6593579 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6593538 GAGTAACTGC
*
6593548 TGCTGCTGCTGTTGT
1 TGCTGCTGCTGCTGT
6593563 TGCTGCTGCTGCTGT
1 TGCTGCTGCTGCTGT
6593578 TG
1 TG
6593580 TTGATGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.34, T:0.44
Consensus pattern (15 bp):
TGCTGCTGCTGCTGT
Found at i:6593568 original size:18 final size:18
Alignment explanation
Indices: 6593545--6593582 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6593535 GTGGAGTAAC
6593545 TGCTGCTGCTGCTGTTGT
1 TGCTGCTGCTGCTGTTGT
6593563 TGCTGCTGCTGCTGTTGT
1 TGCTGCTGCTGCTGTTGT
6593581 TG
1 TG
6593583 ATGCAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.34, T:0.45
Consensus pattern (18 bp):
TGCTGCTGCTGCTGTTGT
Found at i:6597177 original size:11 final size:12
Alignment explanation
Indices: 6597156--6597189 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
6597146 AATACGACAT
6597156 AAAAATAATATG
1 AAAAATAATATG
6597168 AAAAAT-ATAT-
1 AAAAATAATATG
6597178 AAAAATAATATG
1 AAAAATAATATG
6597190 GTTTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.30
11 8 0.40
12 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (12 bp):
AAAAATAATATG
Found at i:6602634 original size:41 final size:43
Alignment explanation
Indices: 6602583--6602675 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 43
6602573 AACCTTTTAT
*
6602583 ATAATCATGACC-TTTA-CAAATAATAACATATTTATATTC-AA
1 ATAATTATGACCATTTATCAAATAATAA-ATATTTATATTCAAA
* * * *
6602624 ATAATTATGACCATTTATCATATGATAATTATTTCTATTCAAAA
1 ATAATTATGACCATTTATCAAATAATAAATATTTATATTC-AAA
6602668 ATAATTAT
1 ATAATTAT
6602676 TTAAAATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
41 11 0.26
42 14 0.33
43 8 0.19
44 10 0.23
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (43 bp):
ATAATTATGACCATTTATCAAATAATAAATATTTATATTCAAA
Found at i:6605673 original size:19 final size:20
Alignment explanation
Indices: 6605639--6605679 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6605629 ACACATCAAC
6605639 AACCAAAAAATACAAA-AAA
1 AACCAAAAAATACAAACAAA
6605658 AACCATAAAAAT-CAAACAAA
1 AACCA-AAAAATACAAACAAA
6605678 AA
1 AA
6605680 TGAAAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.76, C:0.17, G:0.00, T:0.07
Consensus pattern (20 bp):
AACCAAAAAATACAAACAAA
Found at i:6606563 original size:9 final size:9
Alignment explanation
Indices: 6606549--6606590 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
6606539 ATTATCATCA
6606549 TCTCTCTAT
1 TCTCTCTAT
6606558 TCTCTCTAT
1 TCTCTCTAT
* *
6606567 TCTCAACT-C
1 TCTC-TCTAT
6606576 TCTCTCTAT
1 TCTCTCTAT
6606585 TCTCTC
1 TCTCTC
6606591 GATTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 2 0.07
9 23 0.85
10 2 0.07
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (9 bp):
TCTCTCTAT
Found at i:6606925 original size:2 final size:2
Alignment explanation
Indices: 6606918--6606946 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6606908 TTAATAAATC
6606918 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6606947 AGTGAACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6608440 original size:62 final size:59
Alignment explanation
Indices: 6608383--6608499 Score: 189
Period size: 59 Copynumber: 1.9 Consensus size: 59
6608373 AATATTGTTT
* *
6608383 ATTTAATATGTGAATTAAAAATTTTTTTTTTTTTAAAAATTTATAATTATTTTATATTATCC
1 ATTTAATATGTGAATTAAAAA---TTTATTTTTTAAAAAATTATAATTATTTTATATTATCC
6608445 ATTTAATATGTGAATTAAAAATTTATTTTTTAAAAAATTATAATTATTTTATATT
1 ATTTAATATGTGAATTAAAAATTTATTTTTTAAAAAATTATAATTATTTTATATT
6608500 TTCAAATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
59 32 0.60
62 21 0.40
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (59 bp):
ATTTAATATGTGAATTAAAAATTTATTTTTTAAAAAATTATAATTATTTTATATTATCC
Found at i:6608510 original size:59 final size:60
Alignment explanation
Indices: 6608385--6608512 Score: 186
Period size: 59 Copynumber: 2.1 Consensus size: 60
6608375 TATTGTTTAT
* * * *
6608385 TTAATATGTGAATTAAAAATTTTTTTTTTTTTAAAAATTTATAATTATTTTATATTATCCAT
1 TTAATATGTGAATTAAAAA--TTTTATTTTTTAAAAAATTATAATTATTTTATATTATCAAA
*
6608447 TTAATATGTGAATTAAAAA-TTTATTTTTTAAAAAATTATAATTATTTTATATTTTCAAA
1 TTAATATGTGAATTAAAAATTTTATTTTTTAAAAAATTATAATTATTTTATATTATCAAA
6608506 TTAATAT
1 TTAATAT
6608513 TTGTAATAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
59 42 0.69
62 19 0.31
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (60 bp):
TTAATATGTGAATTAAAAATTTTATTTTTTAAAAAATTATAATTATTTTATATTATCAAA
Found at i:6612096 original size:13 final size:13
Alignment explanation
Indices: 6612078--6612102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6612068 TATATGTATA
6612078 AATATATTTATTC
1 AATATATTTATTC
6612091 AATATATTTATT
1 AATATATTTATT
6612103 GTTTATTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATATTTATTC
Found at i:6612929 original size:19 final size:21
Alignment explanation
Indices: 6612891--6612931 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
6612881 AATTTTAAAT
6612891 TTAATATAAAATAAATAAAAA
1 TTAATATAAAATAAATAAAAA
*
6612912 TTAAT-TAAAA-AGATAAAAA
1 TTAATATAAAATAAATAAAAA
6612931 T
1 T
6612932 GATTTGAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 5 0.26
21 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TTAATATAAAATAAATAAAAA
Found at i:6613026 original size:2 final size:2
Alignment explanation
Indices: 6613014--6613074 Score: 60
Period size: 2 Copynumber: 32.5 Consensus size: 2
6613004 TCCACTAGTC
* *
6613014 AT AT AT CAT AT AT -T AT AA AT A- AT AT -T AT AT -T AC A- AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6613052 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
6613075 AATTTGATCA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
1 5 0.10
2 43 0.86
3 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6613319 original size:50 final size:50
Alignment explanation
Indices: 6613217--6613315 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
6613207 GAACGAGATT
* * *
6613217 TTTATATTTATAATAATATTTATTTTTATTCATTAAAAATTTACATAGAA
1 TTTATATTTATAATAATATTTAATTTTATTCATTAAAAATCTACACAGAA
6613267 TTTATATTTATAATAATATTTAATTTTATT-ATTAAAAATCTACACAGAA
1 TTTATATTTATAATAATATTTAATTTTATTCATTAAAAATCTACACAGAA
6613316 ATTTTGTAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 17 0.37
50 29 0.63
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.49
Consensus pattern (50 bp):
TTTATATTTATAATAATATTTAATTTTATTCATTAAAAATCTACACAGAA
Found at i:6615919 original size:20 final size:20
Alignment explanation
Indices: 6615864--6615919 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
6615854 TTTTACAACA
* * *
6615864 AAATTTTTAAATAATTATTT
1 AAATTTTAAAATTATTACTT
* *
6615884 AACA-TTTAATACTATTACTT
1 AA-ATTTTAAAATTATTACTT
6615904 AAATTTTAAAATTATT
1 AAATTTTAAAATTATT
6615920 TTACTTCAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTTTAAAATTATTACTT
Found at i:6616659 original size:16 final size:17
Alignment explanation
Indices: 6616638--6616672 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6616628 AAATTGTATA
*
6616638 AATTTTGAGAAA-AAAT
1 AATTTTGACAAATAAAT
6616654 AATTTTGACAAATAAAT
1 AATTTTGACAAATAAAT
6616671 AA
1 AA
6616673 ATTATCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (17 bp):
AATTTTGACAAATAAAT
Found at i:6618683 original size:83 final size:83
Alignment explanation
Indices: 6618544--6618707 Score: 319
Period size: 83 Copynumber: 2.0 Consensus size: 83
6618534 AATGATAGAA
6618544 AGAGGGCTTAGAACACCTTTAAATGATGTAAACTATATAAGGCAAGTGGTGGATGATGCAAAGGT
1 AGAGGGCTTAGAACACCTTTAAATGATGTAAACTATATAAGGCAAGTGGTGGATGATGCAAAGGT
6618609 CAAGTGCATTCTCTATGG
66 CAAGTGCATTCTCTATGG
6618627 AGAGGGCTTAGAACACCTTTAAATGATGTAAACTATATAAGGCAAGTGGTGGATGATGCAAAGGT
1 AGAGGGCTTAGAACACCTTTAAATGATGTAAACTATATAAGGCAAGTGGTGGATGATGCAAAGGT
*
6618692 CAAGTGTATTCTCTAT
66 CAAGTGCATTCTCTAT
6618708 AGAGCATTAG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (83 bp):
AGAGGGCTTAGAACACCTTTAAATGATGTAAACTATATAAGGCAAGTGGTGGATGATGCAAAGGT
CAAGTGCATTCTCTATGG
Found at i:6620311 original size:13 final size:13
Alignment explanation
Indices: 6620293--6620317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6620283 TACTTTTTTA
6620293 ATTTGTGAAATAT
1 ATTTGTGAAATAT
6620306 ATTTGTGAAATA
1 ATTTGTGAAATA
6620318 AGCTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTTGTGAAATAT
Found at i:6625451 original size:20 final size:19
Alignment explanation
Indices: 6625428--6625490 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
6625418 AAATTTGATG
6625428 AAATAAAAAATAAT-TATAA
1 AAATAAAAAATAATAT-TAA
*
6625447 TAAATAAATAATAATATTAA
1 -AAATAAAAAATAATATTAA
*
6625467 AAATAAAAAGTAAAATATTAA
1 AAATAAAAA--ATAATATTAA
6625488 AAA
1 AAA
6625491 AAATATACGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.22
20 16 0.43
21 13 0.35
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAATAAAAAATAATATTAA
Found at i:6625467 original size:17 final size:16
Alignment explanation
Indices: 6625429--6625469 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
6625419 AATTTGATGA
*
6625429 AATAAAAAATAATTAT
1 AATAAAAAATAATAAT
6625445 AATAAATAAATAATAAT
1 AATAAA-AAATAATAAT
*
6625462 ATTAAAAA
1 AATAAAAA
6625470 TAAAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAAAATAATAAT
Found at i:6625485 original size:21 final size:23
Alignment explanation
Indices: 6625445--6625495 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
6625435 AAATAATTAT
6625445 AATAAATAAATAATAATATTAAA
1 AATAAATAAATAATAATATTAAA
*
6625468 AATAAA-AAGTAA-AATATTAAA
1 AATAAATAAATAATAATATTAAA
6625489 AA-AAATA
1 AATAAATA
6625496 TACGTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 12 0.46
22 5 0.19
23 6 0.23
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AATAAATAAATAATAATATTAAA
Found at i:6625698 original size:17 final size:15
Alignment explanation
Indices: 6625680--6625709 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
6625670 AAATCGTTAT
6625680 TTTTTTCATTTTTTTA
1 TTTTTT-ATTTTTTTA
6625696 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
6625710 TATCTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:6625709 original size:8 final size:8
Alignment explanation
Indices: 6625676--6625709 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
6625666 CCTAAAATCG
6625676 TTATTTTT
1 TTATTTTT
6625684 TTCATTTTT
1 TT-ATTTTT
6625693 TTA-TTTT
1 TTATTTTT
6625700 TTATTTTT
1 TTATTTTT
6625708 TT
1 TT
6625710 TATCTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
8 9 0.38
9 8 0.33
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (8 bp):
TTATTTTT
Found at i:6626498 original size:19 final size:21
Alignment explanation
Indices: 6626447--6626526 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
6626437 TTGGTTTGGG
** *
6626447 TTTAGAGAGAGAATTTATTAAT
1 TTTAGAGAGAGAAGATA-AAAT
* *
6626469 TTTAAAGAGAGAAAATAAAAT
1 TTTAGAGAGAGAAGATAAAAT
*
6626490 TTTAGAGAGAGAAGATAAATT
1 TTTAGAGAGAGAAGATAAAAT
*
6626511 TTTGGAGAGAGAAGAT
1 TTTAGAGAGAGAAGAT
6626527 GAATTGAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
21 36 0.72
22 14 0.28
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (21 bp):
TTTAGAGAGAGAAGATAAAAT
Found at i:6626551 original size:9 final size:9
Alignment explanation
Indices: 6626537--6626570 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
6626527 GAATTGAGAT
6626537 AAAAAAATA
1 AAAAAAATA
6626546 AAAAAAATA
1 AAAAAAATA
*
6626555 AAAAAAGACA
1 AAAAAA-ATA
6626565 AAAAAA
1 AAAAAA
6626571 GAAATGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.88, C:0.03, G:0.03, T:0.06
Consensus pattern (9 bp):
AAAAAAATA
Found at i:6626557 original size:17 final size:18
Alignment explanation
Indices: 6626535--6626570 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
6626525 ATGAATTGAG
*
6626535 ATAAAAAAATA-AAAAAA
1 ATAAAAAAAGACAAAAAA
6626552 ATAAAAAAAGACAAAAAA
1 ATAAAAAAAGACAAAAAA
6626570 A
1 A
6626571 GAAATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.08
Consensus pattern (18 bp):
ATAAAAAAAGACAAAAAA
Found at i:6626857 original size:9 final size:9
Alignment explanation
Indices: 6626843--6626877 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6626833 TTCTCATTTA
6626843 AATTTTAAG
1 AATTTTAAG
6626852 AATTTTAAG
1 AATTTTAAG
* *
6626861 AATTTTGAT
1 AATTTTAAG
6626870 AATTTTAA
1 AATTTTAA
6626878 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (9 bp):
AATTTTAAG
Found at i:6628853 original size:36 final size:36
Alignment explanation
Indices: 6628792--6628864 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
6628782 AAATATTATT
*
6628792 AAATTAATAGTTAATATTATAAATATTGAATAAAATA
1 AAATAAATAGTTAATATTATAAATATT-AATAAAATA
* * *
6628829 AAATAAATATTTAATTTTA-AAATATTATTAAAATA
1 AAATAAATAGTTAATATTATAAATATTAATAAAATA
6628864 A
1 A
6628865 TATACTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 9 0.28
36 7 0.22
37 16 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (36 bp):
AAATAAATAGTTAATATTATAAATATTAATAAAATA
Found at i:6628867 original size:29 final size:29
Alignment explanation
Indices: 6628827--6629040 Score: 94
Period size: 29 Copynumber: 7.1 Consensus size: 29
6628817 TTGAATAAAA
6628827 TAAAATAAATATTTAATTTTAAAATATTAT
1 TAAAAT-AATATTTAATTTTAAAATATTAT
* * *
6628857 TAAAATAATATACT-ATATTAAAATCTTAT
1 TAAAATAATAT-TTAATTTTAAAATATTAT
* * * *
6628886 GAAATTAATTATTTAATGTTAAAAATAATATTT
1 TAAAATAA-TATTTAAT-TTTAAAAT-AT-TAT
* * *
6628919 TGAAA-AATCATATAATATATTAAATTATTAT
1 TAAAATAAT-ATTTAAT-T-TTAAAATATTAT
* * * *
6628950 CT-AATTAATCTTTAATATTAAAATAGTAT
1 -TAAAATAATATTTAATTTTAAAATATTAT
* * * *
6628979 TAAAATAGTATTAAATATTAAAATATCAT
1 TAAAATAATATTTAATTTTAAAATATTAT
* * * *
6629008 CAAATTAATAATTAATATTATTAAATATT-T
1 TAAAATAATATTTAAT-TT-TAAAATATTAT
6629038 TAA
1 TAA
6629041 TTTGTTAAAT
Statistics
Matches: 132, Mismatches: 39, Indels: 26
0.67 0.20 0.13
Matches are distributed among these distances:
28 1 0.01
29 67 0.51
30 16 0.12
31 23 0.17
32 16 0.12
33 9 0.07
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
TAAAATAATATTTAATTTTAAAATATTAT
Found at i:6628979 original size:11 final size:11
Alignment explanation
Indices: 6628965--6628993 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6628955 TAATCTTTAA
6628965 TATTAAAATAG
1 TATTAAAATAG
6628976 TATTAAAATAG
1 TATTAAAATAG
6628987 TATTAAA
1 TATTAAA
6628994 TATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (11 bp):
TATTAAAATAG
Found at i:6628999 original size:18 final size:18
Alignment explanation
Indices: 6628976--6629086 Score: 98
Period size: 18 Copynumber: 6.1 Consensus size: 18
6628966 ATTAAAATAG
*
6628976 TATTAAAATAGTATTAAA
1 TATTAAAATATTATTAAA
* *
6628994 TATTAAAATATCATCAAA
1 TATTAAAATATTATTAAA
*
6629012 TTAATAATTAATATTATTAAA
1 -TATTAA--AATATTATTAAA
** *
6629033 TATTTTAAT-TTGTTAAA
1 TATTAAAATATTATTAAA
*
6629050 TATTAAAATATTATTCAA
1 TATTAAAATATTATTAAA
* *
6629068 TATTTAAATACTATTAAA
1 TATTAAAATATTATTAAA
6629086 T
1 T
6629087 TAATAGTTAA
Statistics
Matches: 72, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
17 14 0.19
18 40 0.56
19 5 0.07
20 3 0.04
21 10 0.14
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
TATTAAAATATTATTAAA
Found at i:6629031 original size:74 final size:74
Alignment explanation
Indices: 6628959--6629101 Score: 164
Period size: 74 Copynumber: 1.9 Consensus size: 74
6628949 TCTAATTAAT
6628959 CTTTAATATT-AAAATAGTATTAAAATAGTATTAAATATTAAAATA-TCATCAAATTAATAATTA
1 CTTTAAT-TTGAAAA-A-TATTAAAATAGTATTAAATATTAAAATACT-ATCAAATTAATAATTA
6629022 ATATTATTAAATA
62 ATATTATTAAATA
* ** * * * * *
6629035 TTTTAATTTGTTAAATATTAAAATATTATTCAATATTTAAATACTATTAAATTAATAGTTAATAT
1 CTTTAATTTGAAAAATATTAAAATAGTATTAAATATTAAAATACTATCAAATTAATAATTAATAT
6629100 TA
66 TA
6629102 AAATAATATG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
74 45 0.79
75 4 0.07
76 8 0.14
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (74 bp):
CTTTAATTTGAAAAATATTAAAATAGTATTAAATATTAAAATACTATCAAATTAATAATTAATAT
TATTAAATA
Found at i:6629098 original size:29 final size:29
Alignment explanation
Indices: 6629048--6629157 Score: 91
Period size: 29 Copynumber: 3.8 Consensus size: 29
6629038 TAATTTGTTA
* * *
6629048 AATATTAAAAT-ATTATTCAATATTTAAAT
1 AATATTAAATTAATAATT-AATATTAAAAT
* *
6629077 ACTATTAAATTAATAGTTAATATTAAAAT
1 AATATTAAATTAATAATTAATATTAAAAT
* *
6629106 AATATGAAA--AATAATATAACATTAAAAT
1 AATATTAAATTAATAAT-TAATATTAAAAT
* * *
6629134 ATTGTTAAATTAATATTTAATATT
1 AATATTAAATTAATAATTAATATT
6629158 TAATATTAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
27 5 0.08
28 17 0.27
29 32 0.51
30 9 0.14
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
AATATTAAATTAATAATTAATATTAAAAT
Found at i:6629166 original size:36 final size:35
Alignment explanation
Indices: 6629120--6629204 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
6629110 TGAAAAATAA
* * *
6629120 TATAACATTAAAATATTGTTAAATTAATATTTAATAT
1 TATAATATTAAAATATTCTTAAAATAATA-TT-ATAT
*
6629157 T-TAATATTAAAATATTCTTAAAATATTATTATAT
1 TATAATATTAAAATATTCTTAAAATAATATTATAT
*
6629191 TATTATATTAAAAT
1 TATAATATTAAAAT
6629205 TTAATATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 5 0.12
35 13 0.31
36 23 0.55
37 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (35 bp):
TATAATATTAAAATATTCTTAAAATAATATTATAT
Found at i:6629437 original size:31 final size:31
Alignment explanation
Indices: 6629396--6629506 Score: 88
Period size: 31 Copynumber: 3.7 Consensus size: 31
6629386 ATAGAAAATA
*
6629396 ATATTCAAATATTATGAAAATAATATTATAT
1 ATATTAAAATATTATGAAAATAATATTATAT
* *
6629427 ATATTAAAATATTACT-AAATTCATATT-TA-
1 ATATTAAAATATTA-TGAAAATAATATTATAT
* * * *
6629456 ATGTTAAAAAATTA-GAAAATATTATTAAAT
1 ATATTAAAATATTATGAAAATAATATTATAT
* *
6629486 AATATT-TAATATTATTAAAAT
1 -ATATTAAAATATTATGAAAAT
6629507 TTTAATATTT
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
28 8 0.13
29 13 0.21
30 8 0.13
31 31 0.51
32 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
ATATTAAAATATTATGAAAATAATATTATAT
Found at i:6629485 original size:10 final size:10
Alignment explanation
Indices: 6629472--6629542 Score: 67
Period size: 10 Copynumber: 7.4 Consensus size: 10
6629462 AAAAATTAGA
6629472 AAATATTATT
1 AAATATTATT
*
6629482 AAATAATATT
1 AAATATTATT
*
6629492 TAATATTATT
1 AAATATTATT
6629502 AAA-ATT-TT
1 AAATATTATT
*
6629510 -AATATTTTT
1 AAATATTATT
*
6629519 AAATAATATT
1 AAATATTATT
* *
6629529 GAATTTTATT
1 AAATATTATT
6629539 AAAT
1 AAAT
6629543 TAAAATTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
7 2 0.04
8 5 0.10
9 5 0.10
10 36 0.75
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (10 bp):
AAATATTATT
Found at i:6629559 original size:21 final size:21
Alignment explanation
Indices: 6629499--6629559 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
6629489 ATTTAATATT
*
6629499 ATTAAAATTTTAATATTTTTAA
1 ATTAAAA-TTTAATATTATTAA
* * *
6629521 A-TAATATTGAATTTTATTAA
1 ATTAAAATTTAATATTATTAA
6629541 ATTAAAATTTAATATTATT
1 ATTAAAATTTAATATTATT
6629560 GGATTAATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 12 0.39
21 18 0.58
22 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTAAAATTTAATATTATTAA
Found at i:6630430 original size:124 final size:124
Alignment explanation
Indices: 6630282--6630535 Score: 339
Period size: 124 Copynumber: 2.0 Consensus size: 124
6630272 AGAAAGCTAC
* * * ** *
6630282 TAATTTTTAGCAAATCAAAACAATATACAAACAATTTAGCACACCTGAATCAAAATCCT-CTACA
1 TAATTTTCAACAAATCAAAACAATACACAAACAATTTAGCACACCCCAACCAAAATCCTGC-ACA
* * * * *
6630346 TAACCAAGAAACCCATACACAATACCTAGTAAATCCAAACCTAAAAATTGAACCTACAAA
65 CAACAAAAAAACCCATACACAATACCTAGTAAATCCAAACCCAAAAATTGAAACTACAAA
* * * *
6630406 TAATTTTCAACAAATCAAAGCAATACATAAACAATTTAGCACACCCCAACCCAAATCTTGCACAC
1 TAATTTTCAACAAATCAAAACAATACACAAACAATTTAGCACACCCCAACCAAAATCCTGCACAC
* *
6630471 AACAAAAAAACTCATACATAATACCTAGTAAATCCAAACCCAAAAATTGAAACTACAAA
66 AACAAAAAAACCCATACACAATACCTAGTAAATCCAAACCCAAAAATTGAAACTACAAA
6630530 TAATTT
1 TAATTT
6630536 AATTCCCAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
124 111 0.99
125 1 0.01
ACGTcount: A:0.50, C:0.24, G:0.04, T:0.22
Consensus pattern (124 bp):
TAATTTTCAACAAATCAAAACAATACACAAACAATTTAGCACACCCCAACCAAAATCCTGCACAC
AACAAAAAAACCCATACACAATACCTAGTAAATCCAAACCCAAAAATTGAAACTACAAA
Found at i:6631428 original size:4 final size:4
Alignment explanation
Indices: 6631419--6631447 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6631409 TGAATGGCTC
6631419 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
6631448 TATATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:6632148 original size:20 final size:20
Alignment explanation
Indices: 6632110--6632151 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6632100 AATTAAAAAA
* **
6632110 TTAAAATTTTTTTTGAATAT
1 TTAAAAATTTTTTAAAATAT
6632130 TTAAAAATTTTTTAAAATAT
1 TTAAAAATTTTTTAAAATAT
6632150 TT
1 TT
6632152 TTTATTGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTAAAAATTTTTTAAAATAT
Found at i:6635349 original size:21 final size:21
Alignment explanation
Indices: 6635307--6635370 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
6635297 AATTATTTGG
* *
6635307 TTTTAGAGAAAGCAA-ATAAAT
1 TTTTAGAGAGAG-AAGATGAAT
6635328 TTTTAGAGAGAGAAGATGAAT
1 TTTTAGAGAGAGAAGATGAAT
*
6635349 TTTTGGAGAGAGAAGATGAAT
1 TTTTAGAGAGAGAAGATGAAT
6635370 T
1 T
6635371 AAGATAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.30
Consensus pattern (21 bp):
TTTTAGAGAGAGAAGATGAAT
Found at i:6635620 original size:5 final size:5
Alignment explanation
Indices: 6635606--6635728 Score: 71
Period size: 5 Copynumber: 24.6 Consensus size: 5
6635596 GTTACCATAC
* *
6635606 TATAC TATAT TATAT T-TTT TCATA- T-TAT TATAT TATAT TATTAT TATTAT
1 TATAT TATAT TATAT TATAT T-ATAT TATAT TATAT TATAT TA-TAT TA-TAT
* * * * *
6635656 TATAT TATAG TATAG TATAT TATA- T-TAG TATAT TACAT TACTAC TACTA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TA-TAT
6635705 T-TAT TATAT TATTAT TATTAT TAT
1 TATAT TATAT TA-TAT TA-TAT TAT
6635729 TATTTTATTG
Statistics
Matches: 98, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
3 6 0.06
4 7 0.07
5 56 0.57
6 29 0.30
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:6635636 original size:3 final size:3
Alignment explanation
Indices: 6635628--6635750 Score: 88
Period size: 3 Copynumber: 44.3 Consensus size: 3
6635618 TATTTTTTCA
* *
6635628 TAT TAT TA- TAT TA- TAT TAT TAT TAT TAT TA- TAT TA- TAG TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
6635671 TA- TAT TA- TAT TAG TA- TAT TA- CAT TAC TAC TAC TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6635714 TAT TAT TAT TAT TAT TAT T-T TAT TGT TATT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T
6635751 GTTTTTCTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
2 21 0.21
3 77 0.76
4 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:6635676 original size:15 final size:13
Alignment explanation
Indices: 6635631--6635695 Score: 69
Period size: 13 Copynumber: 4.8 Consensus size: 13
6635621 TTTTTCATAT
6635631 TATTATATTA-TA
1 TATTATATTAGTA
*
6635643 TTATTATTATTATTA
1 -TATTA-TATTAGTA
6635658 TATTATAGTATAGTA
1 TATTATA-T-TAGTA
6635673 TATTATATTAGTA
1 TATTATATTAGTA
*
6635686 TATTACATTA
1 TATTATATTA
6635696 CTACTACTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
13 21 0.46
14 12 0.26
15 13 0.28
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (13 bp):
TATTATATTAGTA
Found at i:6635736 original size:20 final size:20
Alignment explanation
Indices: 6635628--6635750 Score: 105
Period size: 20 Copynumber: 6.3 Consensus size: 20
6635618 TATTTTTTCA
6635628 TATTATTATATTA-TATTAT
1 TATTATTATATTATTATTAT
*
6635647 TATTATTAT-TATATTA-TAG
1 TATTATTATAT-TATTATTAT
* *
6635666 TA-TAGTATATTA-TATTAG
1 TATTATTATATTATTATTAT
* * * *
6635684 TA-TATTACATTACTACTAC
1 TATTATTATATTATTATTAT
6635703 TATTATTATATTATTATTAT
1 TATTATTATATTATTATTAT
* *
6635723 TATTATTATTTTATTGTTATT
1 TATTATTATATTATTATTA-T
6635744 TATTATT
1 TATTATT
6635751 GTTTTTCTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.02
18 21 0.25
19 22 0.26
20 32 0.38
21 8 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTATTATATTATTATTAT
Found at i:6636293 original size:19 final size:19
Alignment explanation
Indices: 6636269--6636305 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6636259 TTTTCAGTTG
*
6636269 AATTTTTCGATGAGATTTA
1 AATTTTTCAATGAGATTTA
6636288 AATTTTTCAATGAGATTT
1 AATTTTTCAATGAGATTT
6636306 CAATGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (19 bp):
AATTTTTCAATGAGATTTA
Found at i:6636642 original size:8 final size:8
Alignment explanation
Indices: 6636631--6636668 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
6636621 ATTTTCATTT
6636631 TTTTAAAA
1 TTTTAAAA
*
6636639 TTTTTAAA
1 TTTTAAAA
*
6636647 TTTTTAAA
1 TTTTAAAA
6636655 TTTT-AAA
1 TTTTAAAA
6636662 TTTTAAA
1 TTTTAAA
6636669 TTTATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTTTAAAA
Found at i:6636642 original size:9 final size:8
Alignment explanation
Indices: 6636630--6636671 Score: 61
Period size: 7 Copynumber: 5.4 Consensus size: 8
6636620 CATTTTCATT
6636630 TTTTTAAAA
1 TTTTT-AAA
6636639 TTTTTAAA
1 TTTTTAAA
6636647 TTTTTAAA
1 TTTTTAAA
6636655 -TTTTAAA
1 TTTTTAAA
6636662 -TTTTAAA
1 TTTTTAAA
6636669 TTT
1 TTT
6636672 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 14 0.44
8 13 0.41
9 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:6636703 original size:22 final size:23
Alignment explanation
Indices: 6636627--6636702 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
6636617 TTTCATTTTC
*
6636627 ATTTT-TTTAAAATTTTTAAATTT
1 ATTTTATTTTAAA-TTTTAAATTT
**
6636650 -TTAAATTTTAAATTTTAAATTT
1 ATTTTATTTTAAATTTTAAATTT
* *
6636672 ATTTTATTTTCAATTTTCAA-TT
1 ATTTTATTTTAAATTTTAAATTT
6636694 A-TTTATTTT
1 ATTTTATTTT
6636703 TATTGAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 8 0.18
22 15 0.34
23 21 0.48
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTATTTTAAATTTTAAATTT
Found at i:6641363 original size:13 final size:12
Alignment explanation
Indices: 6641322--6641370 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
6641312 GAAAAAAGAG
6641322 AAAAG-AAAAAA
1 AAAAGCAAAAAA
*
6641333 AAAA-CATAAAA
1 AAAAGCAAAAAA
*
6641344 AATAGCAAAAATA
1 AAAAGCAAAAA-A
6641357 AAAAGCAAAAAA
1 AAAAGCAAAAAA
6641369 AA
1 AA
6641371 GGAAGGAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 12 0.39
12 8 0.26
13 11 0.35
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAGCAAAAAA
Found at i:6643177 original size:21 final size:20
Alignment explanation
Indices: 6643151--6643211 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
6643141 TAGATTTTAA
6643151 GGTTTTGGATTTTAGGGTTTC
1 GGTTTTGG-TTTTAGGGTTTC
* * *
6643172 GGTTTTGGGGTTTAAGGTTTG
1 GGTTTT-GGTTTTAGGGTTTC
*
6643193 GGTTTTAGTTTTAGGGTTT
1 GGTTTTGGTTTTAGGGTTT
6643212 TGAGGGTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.30
21 21 0.64
22 2 0.06
ACGTcount: A:0.10, C:0.02, G:0.36, T:0.52
Consensus pattern (20 bp):
GGTTTTGGTTTTAGGGTTTC
Found at i:6643219 original size:36 final size:35
Alignment explanation
Indices: 6643146--6643227 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
6643136 AATTTTAGAT
6643146 TTTAAGGTTTTGGATTTTAGGGTTTCGGTTTTGGGG
1 TTTAAGG-TTTGGATTTTAGGGTTTCGGTTTTGGGG
* * *
6643182 TTTAAGGTTTGGGTTTTA-GTTTTAGGGTTTTGAGGG
1 TTTAAGGTTTGGATTTTAGGGTTT-CGGTTTTG-GGG
*
6643218 TTTAGGGTTT
1 TTTAAGGTTT
6643228 CAATTTCGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 4 0.10
35 17 0.43
36 19 0.47
ACGTcount: A:0.12, C:0.01, G:0.35, T:0.51
Consensus pattern (35 bp):
TTTAAGGTTTGGATTTTAGGGTTTCGGTTTTGGGG
Found at i:6643309 original size:15 final size:15
Alignment explanation
Indices: 6643277--6643397 Score: 121
Period size: 14 Copynumber: 8.3 Consensus size: 15
6643267 GTCCGGAAGA
*
6643277 TTTAGGGTTTCA-AT
1 TTTAGGGTTTGAGAT
6643291 TTTAGGGTTTGAGAT
1 TTTAGGGTTTGAGAT
*
6643306 TTTA-GGTTT-TGAT
1 TTTAGGGTTTGAGAT
6643319 TTTAGGGTTTGATG-T
1 TTTAGGGTTTGA-GAT
*
6643334 TTTAGGGCTTGA-AT
1 TTTAGGGTTTGAGAT
*
6643348 GTTAGGGTTTGGAAGA-
1 TTTAGGGTTT-G-AGAT
*
6643364 TTTAGGGTTTTA-AT
1 TTTAGGGTTTGAGAT
6643378 TTTAGGGTTTGAGAT
1 TTTAGGGTTTGAGAT
6643393 TTTAG
1 TTTAG
6643398 ATTTTTGGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
13 8 0.09
14 42 0.48
15 26 0.30
16 11 0.12
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTGAGAT
Found at i:6643321 original size:13 final size:13
Alignment explanation
Indices: 6643289--6643331 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
6643279 TAGGGTTTCA
*
6643289 ATTTTAGGGTTTGAG
1 ATTTTA-GGTTT-TG
6643304 ATTTTAGGTTTTG
1 ATTTTAGGTTTTG
*
6643317 ATTTTAGGGTTTG
1 ATTTTAGGTTTTG
6643330 AT
1 AT
6643332 GTTTTAGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 15 0.58
14 5 0.19
15 6 0.23
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (13 bp):
ATTTTAGGTTTTG
Found at i:6643328 original size:87 final size:87
Alignment explanation
Indices: 6643236--6643402 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 87
6643226 TTCAATTTCG
* *
6643236 GGGTTTACAAGTTTTAGAG-TTTAGT-TTCAAGGTCCGGAAGATTTAGGGTTTCAATTTTAGGGT
1 GGGTTT-CAAGTTTTAGAGCTTGAATGTT-AAGGTCCGGAAGATTTAGGGTTTCAATTTTAGGGT
*
6643299 TTGAGATTTTAGGTTTTGATTTTA
64 TTGAGATTTTAGATTTTGATTTTA
* * * * ** *
6643323 GGGTTTGATGTTTTAGGGCTTGAATGTTAGGGTTTGGAAGATTTAGGGTTTTAATTTTAGGGTTT
1 GGGTTTCAAGTTTTAGAGCTTGAATGTTAAGGTCCGGAAGATTTAGGGTTTCAATTTTAGGGTTT
6643388 GAGATTTTAGATTTT
66 GAGATTTTAGATTTT
6643403 TGGTTTAAGG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 9 0.13
87 57 0.84
88 2 0.03
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.46
Consensus pattern (87 bp):
GGGTTTCAAGTTTTAGAGCTTGAATGTTAAGGTCCGGAAGATTTAGGGTTTCAATTTTAGGGTTT
GAGATTTTAGATTTTGATTTTA
Found at i:6643368 original size:116 final size:116
Alignment explanation
Indices: 6643161--6643373 Score: 243
Period size: 116 Copynumber: 1.8 Consensus size: 116
6643151 GGTTTTGGAT
** * * *
6643161 TTTAGGGTTTCGGTTTTGGGGTTTAAGGTTTGGGTTTTAGTTTTAGGGTTTTGAGGGTTTAGGGT
1 TTTAGGGTTTCAATTTTAGGGTTTAAGGTTTAGGTTTTAGTTTTAGGGTTTTGAGGGTTTAGGGC
* *
6643226 TTCAATTTCGGGGTTTACAAGTTTTAGAGTTTAGTTTCAAGGTCCGGAAGA
66 TTCAATTTCAGGGTTTACAAGATTTAGAGTTTAGTTTCAAGGTCCGGAAGA
* * * *
6643277 TTTAGGGTTTCAATTTTAGGGTTTGAGATTTTAGGTTTT-GATTTTAGGG-TTTGATGTTTTAGG
1 TTTAGGGTTTCAATTTTAGGGTTTAAG-GTTTAGGTTTTAG-TTTTAGGGTTTTGAGGGTTTAGG
* ** *
6643340 GCTTGAATGTT-AGGGTTTGGAAGATTTAGGGTTT
64 GCTTCAAT-TTCAGGGTTTACAAGATTTAGAGTTT
6643374 TAATTTTAGG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
116 60 0.76
117 19 0.24
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (116 bp):
TTTAGGGTTTCAATTTTAGGGTTTAAGGTTTAGGTTTTAGTTTTAGGGTTTTGAGGGTTTAGGGC
TTCAATTTCAGGGTTTACAAGATTTAGAGTTTAGTTTCAAGGTCCGGAAGA
Found at i:6643423 original size:87 final size:87
Alignment explanation
Indices: 6643271--6643430 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 87
6643261 TTCAAGGTCC
* * *
6643271 GGAAGATTTAGGGTTTCAATTTTAGGGTTTGAGATTTTAGGTTTTGATTTTAGGGTTTGATGTTT
1 GGAAGATTTAGGGTTTCAATTTTAGGGTTTGAGATTTTAGGTTTTGATTTAAGGGTTTAAGGTTT
6643336 TAGGGCTTGAATGTTAGGGTTT
66 TAGGGCTTGAATGTTAGGGTTT
* * *
6643358 GGAAGATTTAGGGTTTTAATTTTAGGGTTTGAGATTTTAGATTTTTGGTTTAAGGG-TTAAGGTT
1 GGAAGATTTAGGGTTTCAATTTTAGGGTTTGAGATTTTAG-GTTTTGATTTAAGGGTTTAAGGTT
6643422 TTAGGGCTT
65 TTAGGGCTT
6643431 AGATTTTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 54 0.82
88 12 0.18
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.47
Consensus pattern (87 bp):
GGAAGATTTAGGGTTTCAATTTTAGGGTTTGAGATTTTAGGTTTTGATTTAAGGGTTTAAGGTTT
TAGGGCTTGAATGTTAGGGTTT
Found at i:6643575 original size:3 final size:3
Alignment explanation
Indices: 6643567--6643595 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6643557 TTATGAAAAT
6643567 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6643596 TATAATTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6643692 original size:3 final size:3
Alignment explanation
Indices: 6643686--6643723 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
6643676 AAAAAAATTC
6643686 TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6643724 AAGCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6643710 original size:17 final size:17
Alignment explanation
Indices: 6643688--6643721 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6643678 AAAAATTCTA
6643688 TTATTATTATTATTATT
1 TTATTATTATTATTATT
6643705 TTATTATTATTATTATT
1 TTATTATTATTATTATT
6643722 ATAAGCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTATTATTATTATT
Found at i:6643711 original size:20 final size:20
Alignment explanation
Indices: 6643686--6643723 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6643676 AAAAAAATTC
6643686 TATTATTATTATTATTATTT
1 TATTATTATTATTATTATTT
6643706 TATTATTATTATTATTAT
1 TATTATTATTATTATTAT
6643724 AAGCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTATTATTATTATTATTT
Found at i:6643883 original size:18 final size:17
Alignment explanation
Indices: 6643855--6643898 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
6643845 AAAACTCCAA
*
6643855 ATAACAAAAATAATAATAT
1 ATAA-AAAAATAA-AAAAT
6643874 ATAAAAAAATAAAAAAT
1 ATAAAAAAATAAAAAAT
6643891 -TAAAAAAA
1 ATAAAAAAA
6643899 AATTGAACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 4 0.17
18 8 0.33
19 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
ATAAAAAAATAAAAAAT
Found at i:6645292 original size:37 final size:37
Alignment explanation
Indices: 6645191--6645491 Score: 196
Period size: 37 Copynumber: 8.2 Consensus size: 37
6645181 TGACACCACG
* * *
6645191 AGTCAAAAAATAAAGAA-TGATCGGGACAATACTGCA
1 AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
* * *** **
6645227 AGTTAAGAAATAAAGAAACAACTAGGACAACACCGCA
1 AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
* * * *
6645264 TGTCGAGAAATAAAGAATTGACCGGGACAACACTGCA
1 AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
* * * * **
6645301 AGTC-AAAATTAAAG-ATTCGATCGAGACAATATTGCA
1 AGTCAAAAAATAAAGAATT-GACCGGGACAACACCGCA
* *** *
6645337 AGTCAAAAAATAAAGAATCGATTAGGACAACACCACA
1 AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
* * *
6645374 AGTTAAAAAATAAAGAATCGACCGGGACAACACCACA
1 AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
* * * ** *
6645411 AGTC-GAAATTAAAAAATTGACCAAGACAACATCGCA
1 AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
* ** * * * *
6645447 AGTCTAAAAATAAAGAATCAATCGAGACAACATCGTA
1 AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
6645484 AGTCAAAA
1 AGTCAAAA
6645492 TTATGTCCGG
Statistics
Matches: 204, Mismatches: 56, Indels: 9
0.76 0.21 0.03
Matches are distributed among these distances:
35 3 0.01
36 69 0.34
37 130 0.64
38 2 0.01
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.16
Consensus pattern (37 bp):
AGTCAAAAAATAAAGAATTGACCGGGACAACACCGCA
Found at i:6645329 original size:73 final size:72
Alignment explanation
Indices: 6645197--6645492 Score: 231
Period size: 73 Copynumber: 4.1 Consensus size: 72
6645187 CACGAGTCAA
* * * * * * *
6645197 AAAATAAAGAA-TGATCGGGACAATACTGCAAGTTAAGAAATAAAGAAAC-AACTAGGACAACAC
1 AAAATAAAGAATTGACCAGGACAACACTGCAAGTCAA-AAATAAAGAATCGATCGA-GACAACAC
*
6645260 CGCATGTCG
64 CGCAAGTCG
* * * * **
6645269 AGAAATAAAGAATTGACCGGGACAACACTGCAAGTCAAAATTAAAGATTCGATCGAGACAATATT
1 A-AAATAAAGAATTGACCAGGACAACACTGCAAGTCAAAAATAAAGAATCGATCGAGACAACACC
*
6645334 GCAAGTCAA
65 GCAAGTC-G
* ** ** * * *
6645343 AAAATAAAGAATCGATTAGGACAACACCACAAGTTAAAAAATAAAGAATCGACCGGGACAACACC
1 AAAATAAAGAATTGACCAGGACAACACTGCAAG-TCAAAAATAAAGAATCGATCGAGACAACACC
*
6645408 ACAAGTCG
65 GCAAGTCG
* * * * *
6645416 AAATTAAAAAATTGACCAAGACAACA-TCGCAAGTCTAAAAATAAAGAATCAATCGAGACAACAT
1 AAAATAAAGAATTGACCAGGACAACACT-GCAAGTC-AAAAATAAAGAATCGATCGAGACAACAC
*
6645480 CGTAAGTC-
64 CGCAAGTCG
6645488 AAAAT
1 AAAAT
6645493 TATGTCCGGA
Statistics
Matches: 172, Mismatches: 45, Indels: 14
0.74 0.19 0.06
Matches are distributed among these distances:
72 6 0.03
73 111 0.65
74 55 0.32
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.16
Consensus pattern (72 bp):
AAAATAAAGAATTGACCAGGACAACACTGCAAGTCAAAAATAAAGAATCGATCGAGACAACACCG
CAAGTCG
Found at i:6645369 original size:110 final size:109
Alignment explanation
Indices: 6645183--6645467 Score: 318
Period size: 110 Copynumber: 2.6 Consensus size: 109
6645173 AATCGGGATG
* * * * * * * *
6645183 ACACCACGAGTCAAAAAATAAAGAATGATCGGGACAATACTGCAAGTTAAGAAATAAAGAAACAA
1 ACACCACAAGTC-AAAATTAAAGATTGATCGAGACAATATTGCAAGTCAAAAAATAAAGAATCAA
* * * * *
6645248 CTAGGACAACACCGCATGTCGAGAAATAAAGAATTGACCGGGACA
65 CTAGGACAACACCACAAGTCAAAAAATAAAGAATCGACCGGGACA
** *
6645293 ACACTGCAAGTCAAAATTAAAGATTCGATCGAGACAATATTGCAAGTCAAAAAATAAAGAATCGA
1 ACACCACAAGTCAAAATTAAAGATT-GATCGAGACAATATTGCAAGTCAAAAAATAAAGAATCAA
* *
6645358 TTAGGACAACACCACAAGTTAAAAAATAAAGAATCGACCGGGACA
65 CTAGGACAACACCACAAGTCAAAAAATAAAGAATCGACCGGGACA
* * * * * * *
6645403 ACACCACAAGTCGAAATTAAAAAATTGACCAAGACAACATCGCAAGTCTAAAAATAAAGAATCAA
1 ACACCACAAGTCAAAATT-AAAGATTGATCGAGACAATATTGCAAGTCAAAAAATAAAGAATCAA
6645468 TCGAGACAAC
Statistics
Matches: 145, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
109 11 0.08
110 128 0.88
111 6 0.04
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.15
Consensus pattern (109 bp):
ACACCACAAGTCAAAATTAAAGATTGATCGAGACAATATTGCAAGTCAAAAAATAAAGAATCAAC
TAGGACAACACCACAAGTCAAAAAATAAAGAATCGACCGGGACA
Found at i:6645517 original size:22 final size:22
Alignment explanation
Indices: 6645489--6645553 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
6645479 TCGTAAGTCA
*
6645489 AAATTATGTCCGGAGGTCTTAT
1 AAATTATGTCCGGAGGTCTTAG
6645511 AAATTATG-CCTGGAGGTCTTAG
1 AAATTATGTCC-GGAGGTCTTAG
* *
6645533 AAATTATGTTCAGAGGTCTTA
1 AAATTATGTCCGGAGGTCTTA
6645554 CAGAATTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 35 0.92
23 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (22 bp):
AAATTATGTCCGGAGGTCTTAG
Found at i:6645949 original size:22 final size:22
Alignment explanation
Indices: 6645886--6645951 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
6645876 ATCGCGAATT
*
6645886 GAAATTATGTCTGGAGGTCTTA
1 GAAATTATGCCTGGAGGTCTTA
*
6645908 -AAGATTATGCCCT-GATGTCTTA
1 GAA-ATTATG-CCTGGAGGTCTTA
*
6645930 GAAATCATGCCTGGAGGTCTTA
1 GAAATTATGCCTGGAGGTCTTA
6645952 CAGAATTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.14
22 27 0.75
23 4 0.11
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (22 bp):
GAAATTATGCCTGGAGGTCTTA
Found at i:6646437 original size:526 final size:527
Alignment explanation
Indices: 6645438--6646692 Score: 1398
Period size: 526 Copynumber: 2.4 Consensus size: 527
6645428 TGACCAAGAC
* * * * *
6645438 AACATCGCAAGTCTAAAAATAAAGAATCAATCGAGACAACATCGTAAGTCA-AAATTATGTCCGG
1 AACATCGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCG-AAAT-AGAAATTATGCCCGG
* * * * * *
6645502 AGGTCTTATAA-ATTATGCCTGGAGGTCTTAGAAATTATGTTCAGAGGTCTTACAGAATTGACCG
64 AGGTCTTA-AAGATTATGCCTGGAGGTCTTAGAAATCATGCTC-GAAGTTTTATAGAATCGACCG
* * * * * ** *
6645566 GGACAACACCGCAAGTTGAAAAATAAAGAATCGATTAAGACAACATTGCGAATCAAAATTATGCC
127 GAACAATACCGCAAG-TGAAAAATAAGGAATCGATTAGGACAATACCGCAAATCAAAATTATGCC
** * * * ** *
6645631 TGGAGGTTTTAAAGATTATGCTCGGAGGTCTTAGAAATCATGTCCAGAGGTCTTATAGAATTGAC
191 CAGAGGTATTAAAAATTATGCTCGGAGGTATTAGAAATCATACCCAGAGGTCTTACAGAATTGAC
6645696 TAGGACAACACTGCAAGTCAAAAAAATTAAAGAATCGATCGAAACAATACCGTGAATCAAAATTA
256 TAGGACAACACTGCAAGTCAAAAAAATTAAAGAATCGATCGAAACAATACCGTGAATCAAAATTA
* * * * **
6645761 TGCTTGGAGGTTTTAAAGATTATGCATGAAGGTTTTAGAAATCATGCCCGGAGGTCTTACAAAAT
321 TGCCTAGAGGTATTAAAGATTATGCATGAAAGTTTTAGAAATCACACCCGGAGGTCTTACAAAAT
* * * * * *
6645826 CGATCGAGATAACACCATAAGTCAAAAAATAAAGAATCGATCAGAACAACATCGCGAATTGAAAT
386 CGACCGAGACAACACCACAAGTCAAAAAATAAAAAATCGATCAGAACAACACCACGAATTGAAAT
* * * * **
6645891 TATGTCTGGAGGTCTTAAAGATTATGCCCTG-ATGTCTTAGAAATCATGCCTGGAGGTCTTACAG
451 TATGTCTGGAGGTATTAAAGATTATACCC-GAAGGTCTTAAAAATCATGCCCAGAGGTCTTACAG
*
6645955 AATTAA-CTGCGAT
515 AATCAATC-GCGAT
* * *
6645968 AACATCGCAAGTCAAAAAATAAAGAATCGATTGGGACAACACCGCGAATAGAAATTATGCCCGGA
1 AACATCGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCG-AAATAGAAATTATGCCCGGA
* * * * * *
6646033 GGTCTTAAAGATTATGCTTGGAGGTCATGGAAATCATGCCCGAAGATTTTATAGAATCAACCGAA
65 GGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCTCGAAG-TTTTATAGAATCGACCGGA
* * ** *
6646098 ATAATATCGCAAGTGAAAAATAAGGAATCGATCGGGACAATACCGCAAATCAAAATTATGCCCAT
129 ACAATACCGCAAGTGAAAAATAAGGAATCGATTAGGACAATACCGCAAATCAAAATTATGCCCAG
* *
6646163 AGGTATTAAAAATTATGCTTGGAGGTATTAGAAATCATACCCGGAGGTCTTACAGAATTGA-T-G
194 AGGTATTAAAAATTATGCTCGGAGGTATTAGAAATCATACCCAGAGGTCTTACAGAATTGACTAG
* * *
6646226 AGACAACA-TCGTAAGTC-CAAAAA-TAAAGAATCGATCGAGACAATACCGTGAATCAAAATTAT
259 -GACAACACT-GCAAGTCAAAAAAATTAAAGAATCGATCGAAACAATACCGTGAATCAAAATTAT
* * * *
6646288 GCCTAGAGGTATTAAAGATTATGCCTGAAAGTTTTAGAAATCACACCTGGAGGTTTTACATAATC
322 GCCTAGAGGTATTAAAGATTATGCATGAAAGTTTTAGAAATCACACCCGGAGGTCTTACAAAATC
* * * * * * * *
6646353 GACCGGGACAATACCGCAAGTTAAAAAATAAAAAATTGATTAGGATAACACCACGAATTGAAATT
387 GACCGAGACAACACCACAAGTCAAAAAATAAAAAATCGATCAGAACAACACCACGAATTGAAATT
* *
6646418 ATG-CTTGGAGGTATTAAAGATTATACTCGAAGGTCTTAAAAATCATGCCCAGAGGTCTTATAGA
452 ATGTC-TGGAGGTATTAAAGATTATACCCGAAGGTCTTAAAAATCATGCCCAGAGGTCTTACAGA
* *
6646482 ATCGATCGGGAT
516 ATCAATCGCGAT
* * * * * **
6646494 AACA-CTGTAAGTCAAAAAATAAAGAATCGATCAGGATAACATTGTAAATCGAAATTATGCCTAG
1 AACATC-GCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCG-AAATAGAAATTATGCCCGG
* ** * * * *
6646558 AGATCTTAAAGATTATGCCTAAAAGTTTTAGAAATCATGCTTGAAGTTCTTATAGAATCGATCGG
64 AGGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCTCGAAGTT-TTATAGAATCGACCGG
* * * * *
6646623 AACAATACCGCATGTCAAAAATAAGGAATCCATTAGGATAATACCGTAAATCAAAATTATGCCCA
128 AACAATACCGCAAGTGAAAAATAAGGAATCGATTAGGACAATACCGCAAATCAAAATTATGCCCA
6646688 GAGGT
193 GAGGT
6646693 CTTACAGAAT
Statistics
Matches: 599, Mismatches: 116, Indels: 24
0.81 0.16 0.03
Matches are distributed among these distances:
525 5 0.01
526 363 0.61
527 8 0.01
528 14 0.02
529 100 0.17
530 109 0.18
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (527 bp):
AACATCGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCGAAATAGAAATTATGCCCGGAG
GTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCTCGAAGTTTTATAGAATCGACCGGAAC
AATACCGCAAGTGAAAAATAAGGAATCGATTAGGACAATACCGCAAATCAAAATTATGCCCAGAG
GTATTAAAAATTATGCTCGGAGGTATTAGAAATCATACCCAGAGGTCTTACAGAATTGACTAGGA
CAACACTGCAAGTCAAAAAAATTAAAGAATCGATCGAAACAATACCGTGAATCAAAATTATGCCT
AGAGGTATTAAAGATTATGCATGAAAGTTTTAGAAATCACACCCGGAGGTCTTACAAAATCGACC
GAGACAACACCACAAGTCAAAAAATAAAAAATCGATCAGAACAACACCACGAATTGAAATTATGT
CTGGAGGTATTAAAGATTATACCCGAAGGTCTTAAAAATCATGCCCAGAGGTCTTACAGAATCAA
TCGCGAT
Found at i:6646593 original size:132 final size:132
Alignment explanation
Indices: 6645435--6646696 Score: 942
Period size: 132 Copynumber: 9.6 Consensus size: 132
6645425 AATTGACCAA
* * * *
6645435 GACAACA-TCGCAAGTCTAAAAATAAAGAATCAATC-GAGACAACATCG-TAAGTCAAAATTATG
1 GACAACACT-GCAAGTCAAAAAATAAAGAATCGATCAG-GACAACACCGCGAA-TCAAAATTATG
* ** *
6645497 TCC-GGAGGTCTTATAA-ATTATGCCTGGAGGTCTTAGAAATTATGTTCAGAGGTCTTACAGAAT
63 -CCTGGAGGTCTTA-AAGATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAAT
* *
6645560 TGACCGG
126 CGATCGG
* ** * * **
6645567 GACAACACCGCAAGTTGAAAAATAAAGAATCGATTAAGACAACATTGCGAATCAAAATTATGCCT
1 GACAACACTGCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCAAAATTATGCCT
* * * * *
6645632 GGAGGTTTTAAAGATTATG-CTCGGAGGTCTTAGAAATCATGTCCAGAGGTCTTATAGAATTGA-
66 GGAGGTCTTAAAGATTATGCCT-GGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGAT
*
6645695 CTAG
130 C-GG
* * *
6645699 GACAACACTGCAAGTCAAAAAAATTAAAGAATCGATC-GAAACAATACCGTGAATCAAAATTATG
1 GACAACACTGCAAGTC-AAAAAA-TAAAGAATCGATCAG-GACAACACCGCGAATCAAAATTATG
* * * * * *
6645763 CTTGGAGGTTTTAAAGATTATGCATGAAGGTTTTAGAAATCATGCCCGGAGGTCTTACAAAATCG
63 CCTGGAGGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCG
*
6645828 ATCGA
128 ATCGG
* *** * * ** *
6645833 GATAACACCATAAGTCAAAAAATAAAGAATCGATCAGAACAACATCGCGAATTGAAATTATGTCT
1 GACAACACTGCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCAAAATTATGCCT
* * * *
6645898 GGAGGTCTTAAAGATTATGCCCT-GATGTCTTAGAAATCATGCCTGGAGGTCTTACAGAAT-TAA
66 GGAGGTCTTAAAGATTATG-CCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGAT
*
6645961 CTGC
130 C-GG
* **
6645965 GATAACA-TCGCAAGTCAAAAAATAAAGAATCGATTGGGACAACACCGCGAAT-AGAAATTATGC
1 GACAACACT-GCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCA-AAATTATGC
* * * * * * * * *
6646028 CCGGAGGTCTTAAAGATTATGCTTGGAGGTCATGGAAATCATGCCCGAAGATTTTATAGAATCAA
64 CTGGAGGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGA
* *
6646093 CCGA
129 TCGG
* * * * * * * *
6646097 AATAATA-TCGCAAGT-GAAAAATAAGGAATCGATCGGGACAATACCGCAAATCAAAATTATGCC
1 GACAACACT-GCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCAAAATTATGCC
*** * * * * * *
6646160 CATAGGTATTAAAAATTATGCTTGGAGGTATTAGAAATCATACCCGGAGGTCTTACAGAATTGAT
65 TGGAGGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGAT
*
6646225 -GA
130 CGG
* * * *
6646227 GACAACA-TCGTAAGTCCAAAAATAAAGAATCGATC-GAGACAATACCGTGAATCAAAATTATGC
1 GACAACACT-GCAAGTCAAAAAATAAAGAATCGATCAG-GACAACACCGCGAATCAAAATTATGC
* * * * * ** * * *
6646290 CTAGAGGTATTAAAGATTATGCCTGAAAGTTTTAGAAATCACACCTGGAGGTTTTACATAATCGA
64 CTGGAGGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGA
*
6646355 CCGG
129 TCGG
* * * * * * * * ** *
6646359 GACAATACCGCAAGTTAAAAAATAAAAAATTGATTAGGATAACACCACGAATTGAAATTATGCTT
1 GACAACACTGCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCAAAATTATGCCT
* * * * * *
6646424 GGAGGTATTAAAGATTAT-ACTCGAAGGTCTTAAAAATCATGCCCAGAGGTCTTATAGAATCGAT
66 GGAGGTCTTAAAGATTATGCCT-GGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGAT
6646488 CGG
130 CGG
* * * ** ** *
6646491 GATAACACTGTAAGTCAAAAAATAAAGAATCGATCAGGATAACATTGTAAATCGAAATTATGCCT
1 GACAACACTGCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCAAAATTATGCCT
* * ** * * ** * * *
6646556 AGAGATCTTAAAGATTATGCCTAAAAGTTTTAGAAATCATGCTTGAAGTTCTTATAGAATCGATC
66 GGAGGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGATC
6646621 GG
131 GG
* * * * * * * * * ** *
6646623 AACAATACCGCATGTC-AAAAATAAGGAATCCATTAGGATAATACCGTAAATCAAAATTATGCCC
1 GACAACACTGCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCAAAATTATGCCT
*
6646687 AGAGGTCTTA
66 GGAGGTCTTA
6646697 CAGAATCGAC
Statistics
Matches: 911, Mismatches: 192, Indels: 55
0.79 0.17 0.05
Matches are distributed among these distances:
130 14 0.02
131 247 0.27
132 528 0.58
133 21 0.02
134 99 0.11
135 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (132 bp):
GACAACACTGCAAGTCAAAAAATAAAGAATCGATCAGGACAACACCGCGAATCAAAATTATGCCT
GGAGGTCTTAAAGATTATGCCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGATC
GG
Found at i:6647177 original size:41 final size:41
Alignment explanation
Indices: 6647122--6647215 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
6647112 AGTGTAAATA
* ** * *
6647122 CAAGTGATGTAAATGTGAATGTC-TTTCTTATGATGCAGATG
1 CAAGTGATGCAAATGCAAATGTCATTT-TAATGATGCAGAGG
*
6647163 CAAGTGATGCAAATGCAAATGTCATTTTAATGATGCATAGG
1 CAAGTGATGCAAATGCAAATGTCATTTTAATGATGCAGAGG
6647204 CAAGTGATGCAA
1 CAAGTGATGCAA
6647216 CTACGAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 43 0.93
42 3 0.07
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (41 bp):
CAAGTGATGCAAATGCAAATGTCATTTTAATGATGCAGAGG
Found at i:6648692 original size:28 final size:30
Alignment explanation
Indices: 6648652--6648722 Score: 101
Period size: 28 Copynumber: 2.4 Consensus size: 30
6648642 ATTGAAGATG
6648652 TCTTTTTGTTTTTCTTTGACTTTT-TTTA-
1 TCTTTTTGTTTTTCTTTGACTTTTATTTAT
* *
6648680 TCTTTTTGTTTTTTTTTGCCTTTTATTTAT
1 TCTTTTTGTTTTTCTTTGACTTTTATTTAT
*
6648710 TTTTTTTGTTTTT
1 TCTTTTTGTTTTT
6648723 ATTTTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 22 0.58
29 4 0.11
30 12 0.32
ACGTcount: A:0.06, C:0.08, G:0.07, T:0.79
Consensus pattern (30 bp):
TCTTTTTGTTTTTCTTTGACTTTTATTTAT
Found at i:6648712 original size:20 final size:18
Alignment explanation
Indices: 6648688--6648730 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6648678 TATCTTTTTG
6648688 TTTTTTTTTGCCTTTTATT
1 TTTTTTTTTG-CTTTTATT
*
6648707 TATTTTTTTTGTTTTTATT
1 T-TTTTTTTTGCTTTTATT
6648726 TTTTT
1 TTTTT
6648731 ATGCCCCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTGCTTTTATT
Found at i:6655380 original size:7 final size:7
Alignment explanation
Indices: 6655356--6655404 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
6655346 GATTTTTAGA
6655356 ATTTTGG
1 ATTTTGG
*
6655363 ATTTTAAG
1 ATTTT-GG
6655371 ATTTTGG
1 ATTTTGG
6655378 ATTTTAGG
1 ATTTT-GG
* *
6655386 GTTTAGG
1 ATTTTGG
6655393 ATTTTGG
1 ATTTTGG
6655400 ATTTT
1 ATTTT
6655405 AAGGTTTCAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 23 0.68
8 11 0.32
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.55
Consensus pattern (7 bp):
ATTTTGG
Found at i:6655390 original size:22 final size:22
Alignment explanation
Indices: 6655365--6655411 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6655355 AATTTTGGAT
*
6655365 TTTAAGATTTTGGATTTTAGGG
1 TTTAAGATTTTGGATTTTAAGG
*
6655387 TTTAGGATTTTGGATTTTAAGG
1 TTTAAGATTTTGGATTTTAAGG
6655409 TTT
1 TTT
6655412 CAGTTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (22 bp):
TTTAAGATTTTGGATTTTAAGG
Found at i:6655405 original size:15 final size:15
Alignment explanation
Indices: 6655349--6655404 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
6655339 AATTCGAGAT
*
6655349 TTTTAGAATTTTGGA
1 TTTTAGGATTTTGGA
*
6655364 TTTTAAGATTTTGGA
1 TTTTAGGATTTTGGA
* *
6655379 TTTTAGGGTTTAGGA
1 TTTTAGGATTTTGGA
6655394 TTTT-GGATTTT
1 TTTTAGGATTTT
6655405 AAGGTTTCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
14 5 0.15
15 29 0.85
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.55
Consensus pattern (15 bp):
TTTTAGGATTTTGGA
Found at i:6655494 original size:43 final size:43
Alignment explanation
Indices: 6655447--6655570 Score: 142
Period size: 44 Copynumber: 2.9 Consensus size: 43
6655437 TTTATTTTAG
* **
6655447 GGTTTTAAGGGTTTAGGGTTTCAATTTTAGGGTTTAGTTTCAA
1 GGTTTGAAGGGTTTAGGGTTTTGATTTTAGGGTTTAGTTTCAA
* * * * *
6655490 GGTTTGGAGGATTTAGGGTTTTGATTTTAGGGCTTGAATTTTAA
1 GGTTTGAAGGGTTTAGGGTTTTGATTTTAGGG-TTTAGTTTCAA
*
6655534 GGTTTGGAA-AGTTTAGGGTTTTGATTTTAGGGTTTAG
1 GGTTT-GAAGGGTTTAGGGTTTTGATTTTAGGGTTTAG
6655571 GATTTTAGAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
43 30 0.45
44 34 0.52
45 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.46
Consensus pattern (43 bp):
GGTTTGAAGGGTTTAGGGTTTTGATTTTAGGGTTTAGTTTCAA
Found at i:6655618 original size:14 final size:14
Alignment explanation
Indices: 6655399--6655618 Score: 87
Period size: 14 Copynumber: 15.4 Consensus size: 14
6655389 TAGGATTTTG
*
6655399 GATTTTAAGGTTTCA
1 GATTTTAGGGTTT-A
6655414 G-TTTTAGGGTTT-
1 GATTTTAGGGTTTA
*
6655426 GAGGTTT-GGGTTT-
1 GA-TTTTAGGGTTTA
*
6655439 TATTTTAGGGTTTTAA
1 GATTTTAGGG-TTT-A
**
6655455 GGGTTTAGGGTTTCA
1 GATTTTAGGGTTT-A
6655470 -ATTTTAGGGTTTA
1 GATTTTAGGGTTTA
* *
6655483 G-TTTCAAGGTTTGGA
1 GATTTTAGGGTTT--A
*
6655498 GGA-TTTAGGGTTTT
1 -GATTTTAGGGTTTA
*
6655512 GATTTTAGGGCTT-
1 GATTTTAGGGTTTA
*
6655525 GAATTTTAAGGTTTGGA
1 G-ATTTTAGGGTTT--A
* * *
6655542 AAGTTTAGGGTTTT
1 GATTTTAGGGTTTA
6655556 GATTTTAGGGTTTA
1 GATTTTAGGGTTTA
* *
6655570 GGATTTTAGAGTTTT
1 -GATTTTAGGGTTTA
* * * *
6655585 GGTTTAAGGGCTAA
1 GATTTTAGGGTTTA
* *
6655599 GGTTTTAGGGCTTA
1 GATTTTAGGGTTTA
6655613 GATTTT
1 GATTTT
6655619 TAATTTAAAA
Statistics
Matches: 152, Mismatches: 36, Indels: 35
0.68 0.16 0.16
Matches are distributed among these distances:
12 4 0.03
13 23 0.15
14 81 0.53
15 18 0.12
16 26 0.17
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (14 bp):
GATTTTAGGGTTTA
Found at i:6655755 original size:3 final size:3
Alignment explanation
Indices: 6655747--6655799 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
6655737 TTATGAAAAT
6655747 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6655795 TTA TT
1 TTA TT
6655800 TATATTTCTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6657897 original size:121 final size:121
Alignment explanation
Indices: 6657751--6658052 Score: 336
Period size: 121 Copynumber: 2.5 Consensus size: 121
6657741 TGGACTCACG
*
6657751 ATTTCATCTCGGTCATTTATTTTTGACCTTGACTTAGTCCTGGTTATTTTATCTTTTAGACTCAC
1 ATTTCATCTCGGTCATTTATCTTTGACCTTGACTTAGTCCTGGTTATTTTATCTTTTAGACTCAC
* * ** *
6657816 AGCTTCATCCCGGTCATCCAATCTCAGCTCAGTCCAGATCATTTTTTTGACTCGTA
66 AGCTTCATCCCAGTCATCCAATCTCAGCTCAGTCCAAATCATTTTCCTGACTCATA
* * * * ** *
6657872 ATTTCATCTCGATCATTCATCTTTGACCTTGACTTAGTCTTGATTGCTTTATCTTTTAGACTCAT
1 ATTTCATCTCGGTCATTTATCTTTGACCTTGACTTAGTCCTGGTTATTTTATCTTTTAGACTCAC
* * * * * * * *
6657937 GGTTTCATCCCATTCATTCGATCTCGGTTTAGTCCAAATCATTTTCCTGACTCATA
66 AGCTTCATCCCAGTCATCCAATCTCAGCTCAGTCCAAATCATTTTCCTGACTCATA
** * * * * *
6657993 ATTTTGTTTTGGTCATTTATCTTCGACCTTGACTTGGTCCTGGTCATTTTAT-TTTATAGA
1 ATTTCATCTCGGTCATTTATCTTTGACCTTGACTTAGTCCTGGTTATTTTATCTTT-TAGA
6658053 TTTGTGATTT
Statistics
Matches: 146, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
120 3 0.02
121 143 0.98
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.45
Consensus pattern (121 bp):
ATTTCATCTCGGTCATTTATCTTTGACCTTGACTTAGTCCTGGTTATTTTATCTTTTAGACTCAC
AGCTTCATCCCAGTCATCCAATCTCAGCTCAGTCCAAATCATTTTCCTGACTCATA
Found at i:6658734 original size:5 final size:5
Alignment explanation
Indices: 6658720--6658849 Score: 87
Period size: 5 Copynumber: 26.4 Consensus size: 5
6658710 GTTATCATAC
* * *
6658720 TATAC TATAT TATAT TGTAT CATA- T-TAT TATAT TATAT TATTAT TACTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TA-TAT
* *
6658770 TGTA- T-TAT TATAT TATTAT TACTAT TGTA- T-TAT TATAT TATTAT
1 TATAT TATAT TATAT TA-TAT TA-TAT TATAT TATAT TATAT TA-TAT
* *
6658814 TACTAT TGTA- T-TAT TATAT TATAG TATAT TATAT TA
1 TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TA
6658850 GTATATTACA
Statistics
Matches: 101, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
3 8 0.08
4 7 0.07
5 59 0.58
6 27 0.27
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:6658743 original size:36 final size:35
Alignment explanation
Indices: 6658701--6658795 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 35
6658691 ATTTTTATAT
*
6658701 TATCATATTGTTATCATACTATACTA-TATTA-TATTG
1 TATCATATTATTAT-AT--TATACTATTATTACTATTG
*
6658737 TATCATATTATTATATTATATTATTATTACTATTG
1 TATCATATTATTATATTATACTATTATTACTATTG
6658772 TAT--TATTA-TATTATTATTACTATT
1 TATCATATTATTA-TATTA-TACTATT
6658796 GTATTATTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
32 2 0.04
33 16 0.31
34 11 0.21
35 10 0.19
36 13 0.25
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (35 bp):
TATCATATTATTATATTATACTATTATTACTATTG
Found at i:6658750 original size:3 final size:3
Alignment explanation
Indices: 6658742--6658902 Score: 82
Period size: 3 Copynumber: 57.3 Consensus size: 3
6658732 TATTGTATCA
* *
6658742 TAT TAT TA- TAT TA- TAT TAT TAT TAC TAT T-G TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6658786 TAT TAC TAT T-G TAT TAT TA- TAT TAT TAT TAC TAT T-G TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
6658830 TAT TA- TAG TA- TAT TA- TAT TAG TA- TAT TA- CAT TAC TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6658873 TAT CGTAT TA- TAT TATT TATT TAT T-T TAT T
1 TAT --TAT TAT TAT TA-T TA-T TAT TAT TAT T
6658903 TATTTTTCTT
Statistics
Matches: 123, Mismatches: 17, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
2 26 0.21
3 87 0.71
4 7 0.06
5 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:6658754 original size:23 final size:26
Alignment explanation
Indices: 6658705--6658813 Score: 79
Period size: 25 Copynumber: 4.4 Consensus size: 26
6658695 TTATATTATC
6658705 ATATTGTTATCATACTATACTATATT
1 ATATTGTTATCATACTATACTATATT
*
6658731 ATATTG-TATCATA-T-TATTATATT
1 ATATTGTTATCATACTATACTATATT
* **
6658754 ATATTATTAT--TACTATTGTATTATT
1 ATATTGTTATCATACTATACTA-TATT
* **
6658779 ATATTATTAT--TACTATTGTATTATT
1 ATATTGTTATCATACTATACTA-TATT
*
6658804 ATATTATTAT
1 ATATTGTTAT
6658814 TACTATTGTA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
22 2 0.03
23 14 0.19
24 7 0.09
25 46 0.61
26 6 0.08
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
ATATTGTTATCATACTATACTATATT
Found at i:6658761 original size:8 final size:8
Alignment explanation
Indices: 6658675--6658893 Score: 112
Period size: 8 Copynumber: 26.5 Consensus size: 8
6658665 GCTTTACTAT
*
6658675 TATTATTT
1 TATTATTA
*
6658683 TGTTATT-
1 TATTATTA
*
6658690 TATTTTTA
1 TATTATTA
*
6658698 TATTATCA
1 TATTATTA
*
6658706 TATTGTTA
1 TATTATTA
*
6658714 TCA-TACTA
1 T-ATTATTA
6658722 TACTATATTA
1 TA-T-TATTA
*
6658732 TATT-GTA
1 TATTATTA
6658739 TCA-TATTA
1 T-ATTATTA
6658747 T-TATATTA
1 TAT-TATTA
6658755 TATTATTA
1 TATTATTA
* *
6658763 TTACTATTG
1 -TATTATTA
6658772 TATTATTA
1 TATTATTA
6658780 TATTATTA
1 TATTATTA
* *
6658788 TTACTATTG
1 -TATTATTA
6658797 TATTATTA
1 TATTATTA
6658805 TATTATTA
1 TATTATTA
* *
6658813 TTACTATTG
1 -TATTATTA
6658822 TATTATTA
1 TATTATTA
6658830 TATTA-TA
1 TATTATTA
6658837 GTA-TATTA
1 -TATTATTA
*
6658845 TATTAGTA
1 TATTATTA
6658853 TATTACATTA
1 TATT--ATTA
*
6658863 CTACTATTA
1 -TATTATTA
6658872 TTATCGTATTA
1 -TAT--TATTA
6658883 TATTATT-
1 TATTATTA
6658890 TATT
1 TATT
6658894 TATTTTATTT
Statistics
Matches: 161, Mismatches: 29, Indels: 43
0.69 0.12 0.18
Matches are distributed among these distances:
7 20 0.12
8 94 0.58
9 27 0.17
10 12 0.07
11 8 0.05
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (8 bp):
TATTATTA
Found at i:6658777 original size:14 final size:13
Alignment explanation
Indices: 6658750--6658857 Score: 104
Period size: 14 Copynumber: 8.4 Consensus size: 13
6658740 CATATTATTA
6658750 TATTATA-T-TAT
1 TATTATATTGTAT
6658761 TATTACTATTGTAT
1 TATTA-TATTGTAT
6658775 TATTATA-T-TAT
1 TATTATATTGTAT
6658786 TATTACTATTGTAT
1 TATTA-TATTGTAT
6658800 TATTATA-T-TAT
1 TATTATATTGTAT
6658811 TATTACTATTGTAT
1 TATTA-TATTGTAT
*
6658825 TATTATATTATAGT
1 TATTATATTGTA-T
6658839 ATATTATATTAGTA-
1 -TATTATATT-GTAT
6658853 TATTA
1 TATTA
6658858 CATTACTACT
Statistics
Matches: 83, Mismatches: 2, Indels: 22
0.78 0.02 0.21
Matches are distributed among these distances:
11 21 0.25
12 8 0.10
13 18 0.22
14 25 0.30
15 9 0.11
16 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (13 bp):
TATTATATTGTAT
Found at i:6658778 original size:25 final size:25
Alignment explanation
Indices: 6658750--6658889 Score: 176
Period size: 25 Copynumber: 5.5 Consensus size: 25
6658740 CATATTATTA
6658750 TATTATATTATTATTACTATTGTAT
1 TATTATATTATTATTACTATTGTAT
6658775 TATTATATTATTATTACTATTGTAT
1 TATTATATTATTATTACTATTGTAT
6658800 TATTATATTATTATTACTATTGTAT
1 TATTATATTATTATTACTATTGTAT
* *
6658825 TATTATATTA-TAGTA-TATTATAT
1 TATTATATTATTATTACTATTGTAT
* * *
6658848 TAGTATATTACATTACTACTATTATTAT
1 TATTATATT--ATTATTACTATT-GTAT
6658876 CGTATTATATTATT
1 --TATTATATTATT
6658890 TATTTATTTT
Statistics
Matches: 102, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.15
24 4 0.04
25 61 0.60
26 4 0.04
27 4 0.04
28 6 0.06
30 8 0.08
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATATTATTATTACTATTGTAT
Found at i:6658906 original size:25 final size:25
Alignment explanation
Indices: 6658744--6658906 Score: 122
Period size: 25 Copynumber: 6.4 Consensus size: 25
6658734 TTGTATCATA
6658744 TTATTATATTATATTATTATTACTATT
1 TTATT-TATTATATTATTATTA-TATT
*
6658771 GTA-TTATTATATTATTATTACTATT
1 TTATTTATTATATTATTATTA-TATT
*
6658796 GTA-TTATTATATTATTATTACTATT
1 TTATTTATTATATTATTATTA-TATT
* *
6658821 GTA-TTATTATATTA-TAGTATATT
1 TTATTTATTATATTATTATTATATT
* * *
6658844 ATA-TTAGTATATTACATTACTACTATT
1 TTATTTATTATATT--ATTATTA-TATT
*
6658871 ATTATCGTATTATATTATTTATT-TATT
1 -TTAT-TTATTATATTA-TTATTATATT
6658898 TTATTTATT
1 TTATTTATT
6658907 TTTCTTTTTT
Statistics
Matches: 118, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
23 15 0.13
24 4 0.03
25 65 0.55
26 9 0.08
27 10 0.08
28 3 0.03
29 4 0.03
30 8 0.07
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (25 bp):
TTATTTATTATATTATTATTATATT
Found at i:6659285 original size:19 final size:21
Alignment explanation
Indices: 6659250--6659293 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
6659240 TGGAATCCTG
*
6659250 GGTTCGATTTGAGGTTTCT-A
1 GGTTAGATTTGAGGTTTCTAA
6659270 GGTTAGATTT-AGGTTTCTAA
1 GGTTAGATTTGAGGTTTCTAA
6659290 GGTT
1 GGTT
6659294 TGTAATAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.18, C:0.07, G:0.30, T:0.45
Consensus pattern (21 bp):
GGTTAGATTTGAGGTTTCTAA
Found at i:6659738 original size:6 final size:6
Alignment explanation
Indices: 6659719--6659830 Score: 67
Period size: 6 Copynumber: 18.8 Consensus size: 6
6659709 GAATCGCAGG
* *
6659719 TTTT-T TTTTA- TTTTCT TTTTAT TTTT-T TATTT-T TTTAATT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTA-T TTTTAT
* * * *
6659765 TGTTAT TTGT-T TTTAAT TTTT-T ATTTA- TTTTAT TTTTAAT TTTTAAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTTT-AT
6659812 TTTTAAGT TTTTAT TTTTA
1 TTTT-A-T TTTTAT TTTTA
6659831 CTGAATATTT
Statistics
Matches: 85, Mismatches: 12, Indels: 19
0.73 0.10 0.16
Matches are distributed among these distances:
5 23 0.27
6 36 0.42
7 21 0.25
8 5 0.06
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:6659739 original size:11 final size:10
Alignment explanation
Indices: 6659719--6659808 Score: 69
Period size: 11 Copynumber: 8.5 Consensus size: 10
6659709 GAATCGCAGG
6659719 TTTTTTTTTA
1 TTTTTTTTTA
6659729 TTTTCTTTTTA
1 TTTT-TTTTTA
6659740 --TTTTTTTA
1 TTTTTTTTTA
6659748 TTTTTTTAATT-
1 TTTTTTT--TTA
*
6659759 TTTTATTGTTA
1 TTTT-TTTTTA
*
6659770 TTTGTTTTTAA
1 TTT-TTTTTTA
6659781 TTTTTTATTTA
1 TTTTTT-TTTA
6659792 TTTTATTTTTAA
1 TTTT-TTTTT-A
6659804 TTTTT
1 TTTTT
6659809 AATTTTTAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 21
0.72 0.04 0.23
Matches are distributed among these distances:
8 6 0.09
9 2 0.03
10 14 0.22
11 31 0.48
12 12 0.18
ACGTcount: A:0.16, C:0.01, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:6659744 original size:7 final size:7
Alignment explanation
Indices: 6659722--6659829 Score: 69
Period size: 7 Copynumber: 14.7 Consensus size: 7
6659712 TCGCAGGTTT
6659722 TTTTTTA
1 TTTTTTA
*
6659729 TTTTCT-
1 TTTTTTA
*
6659735 TTTTAT-
1 TTTTTTA
6659741 TTTTTTA
1 TTTTTTA
6659748 TTTTTTTAA
1 -TTTTTT-A
6659757 TTTTTTA
1 TTTTTTA
6659764 TTGTTATT-
1 TT-TT-TTA
6659772 TGTTTTTAA
1 T-TTTTT-A
6659781 TTTTTTA
1 TTTTTTA
6659788 TTTATTTTA
1 -TT-TTTTA
*
6659797 TTTTTAA
1 TTTTTTA
*
6659804 TTTTTAA
1 TTTTTTA
*
6659811 TTTTTAA
1 TTTTTTA
*
6659818 GTTTTTA
1 TTTTTTA
6659825 TTTTT
1 TTTTT
6659830 ACTGAATATT
Statistics
Matches: 84, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
6 10 0.12
7 38 0.45
8 26 0.31
9 10 0.12
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:6659745 original size:8 final size:8
Alignment explanation
Indices: 6659734--6659801 Score: 75
Period size: 8 Copynumber: 8.4 Consensus size: 8
6659724 TTTTATTTTC
6659734 TTTTTATT
1 TTTTTATT
6659742 TTTTTATT
1 TTTTTATT
*
6659750 TTTTTAAT
1 TTTTTATT
6659758 TTTTTATT
1 TTTTTATT
* *
6659766 GTTATT-TG
1 -TTTTTATT
*
6659774 TTTTTAAT
1 TTTTTATT
6659782 TTTTTATT
1 TTTTTATT
6659790 TATTTTATT
1 T-TTTTATT
6659799 TTT
1 TTT
6659802 AATTTTTAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
7 4 0.08
8 33 0.67
9 12 0.24
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTTTATT
Found at i:6659761 original size:24 final size:23
Alignment explanation
Indices: 6659734--6659815 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 23
6659724 TTTTATTTTC
6659734 TTTTTATTTTTTTATTTTTTTAAT
1 TTTTTATTTTTTTA-TTTTTTAAT
*
6659758 TTTTTATTGTTATTT-GTTTTTAAT
1 TTTTTATT-TT-TTTATTTTTTAAT
6659782 TTTTTATTTATTTTA-TTTTTAAT
1 TTTTTATTT-TTTTATTTTTTAAT
*
6659805 TTTTAATTTTT
1 TTTTTATTTTT
6659816 AAGTTTTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.04
23 20 0.38
24 25 0.48
25 2 0.04
26 3 0.06
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTATTTTTTTATTTTTTAAT
Found at i:6659815 original size:8 final size:8
Alignment explanation
Indices: 6659734--6659829 Score: 64
Period size: 8 Copynumber: 12.5 Consensus size: 8
6659724 TTTTATTTTC
*
6659734 TTTTTATT
1 TTTTTAAT
*
6659742 TTTTTATT
1 TTTTTAAT
6659750 TTTTTAAT
1 TTTTTAAT
6659758 TTTTT-AT
1 TTTTTAAT
6659765 TGTTATT--T
1 T-TT-TTAAT
6659773 GTTTTTAAT
1 -TTTTTAAT
6659782 TTTTT-AT
1 TTTTTAAT
*
6659789 TTATTTTA-
1 TT-TTTAAT
6659797 TTTTTAA-
1 TTTTTAAT
6659804 TTTTTAA-
1 TTTTTAAT
*
6659811 TTTTTAAG
1 TTTTTAAT
6659819 TTTTT-AT
1 TTTTTAAT
6659826 TTTT
1 TTTT
6659830 ACTGAATATT
Statistics
Matches: 77, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
7 32 0.42
8 40 0.52
9 5 0.06
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (8 bp):
TTTTTAAT
Found at i:6662698 original size:29 final size:30
Alignment explanation
Indices: 6662656--6662928 Score: 115
Period size: 29 Copynumber: 9.0 Consensus size: 30
6662646 CTTTAATATA
6662656 ATTAAA-TAAT-ATTAAAT-TTAAAATTTT
1 ATTAAATTAATAATTAAATATTAAAATTTT
**
6662683 ATTAAATTAATAATT-AATATTATAAATGTGG
1 ATTAAATTAATAATTAAATATTA-AAAT-TTT
* * * * *
6662714 AATAAAATAA-ATATTTAATTTTAAAATATT
1 ATTAAATTAATA-ATTAAATATTAAAATTTT
* * *
6662744 ATTAAAATAAT-A-TACTATATTAAAATCTT
1 ATTAAATTAATAATTA-AATATTAAAATTTT
* * * *
6662773 ATGAAATTAATTATTTAATGTTAAAAATAATATT
1 ATTAAATTAATAATTAAATATT-AAAAT--T-TT
*
6662807 -TTGAAA--AATAATATAATATATT-TAATTATT
1 ATT-AAATTAATAAT-TAA-ATATTAAAATT-TT
* *
6662837 ATTAAATTAAT-CTTTAATATTAAAATATTT
1 ATTAAATTAATAATTAAATATTAAAAT-TTT
* * *
6662867 -CTAAAATAAT-ATTAAATATTAAAATTTC
1 ATTAAATTAATAATTAAATATTAAAATTTT
*
6662895 ATCAAATTAATAATTAATATTATTAAATATTTT
1 ATTAAATTAATAATTAA-A-TATTAAA-ATTTT
6662928 A
1 A
6662929 ATTTGTTAAA
Statistics
Matches: 182, Mismatches: 36, Indels: 50
0.68 0.13 0.19
Matches are distributed among these distances:
27 6 0.03
28 10 0.05
29 60 0.33
30 38 0.21
31 27 0.15
32 24 0.13
33 8 0.04
34 9 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
ATTAAATTAATAATTAAATATTAAAATTTT
Found at i:6662827 original size:64 final size:58
Alignment explanation
Indices: 6662725--6662926 Score: 178
Period size: 58 Copynumber: 3.3 Consensus size: 58
6662715 ATAAAATAAA
* * *
6662725 TATTTAATTTTAAAATATTAT-TAAAATAATATACTATATTAAAATCTTATGAAATTAAT
1 TATTTAATATTAAAATATT-TCTAAAATAATATAATATATTAAAAT-TTATCAAATTAAT
* * * * *
6662784 TATTTAATGTTAAAAATAATATTTTGAAAAATAATATAATATATTTAATTATTATTAAATTAA-
1 TATTTAATATT-AAAAT-AT-TTCT--AAAATAATATAATATATTAAAAT-TTATCAAATTAAT
*
6662847 TCTTTAATATTAAAATATTTCTAAAATAATATTAA-ATATTAAAATTTCATCAAATTAA-
1 TATTTAATATTAAAATATTTCTAAAATAATA-TAATATATTAAAATTT-ATCAAATTAAT
*
6662905 TAATTAATATTATTAAATATTT
1 TATTTAATATTA--AAATATTT
6662927 TAATTTGTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 19
0.78 0.09 0.12
Matches are distributed among these distances:
57 2 0.02
58 36 0.30
59 13 0.11
60 16 0.13
61 5 0.04
62 7 0.06
63 9 0.08
64 31 0.26
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (58 bp):
TATTTAATATTAAAATATTTCTAAAATAATATAATATATTAAAATTTATCAAATTAAT
Found at i:6662891 original size:18 final size:18
Alignment explanation
Indices: 6662868--6663070 Score: 93
Period size: 18 Copynumber: 11.3 Consensus size: 18
6662858 AAAATATTTC
6662868 TAAAATAATATTAAATAT
1 TAAAATAATATTAAATAT
* * *
6662886 TAAAAT-TTCATCAAATTAA
1 TAAAATAAT-ATTAAA-TAT
*
6662905 TAATTAATATTATTAAATAT
1 TAA--AATAATATTAAATAT
** * *
6662925 TTTAAT-TTGTTAAATAT
1 TAAAATAATATTAAATAT
* *
6662942 TAAAATATTATTTAATAT
1 TAAAATAATATTAAATAT
*
6662960 TAAAATACTATT-AA-AT
1 TAAAATAATATTAAATAT
6662976 T--AAT-AT-TT-AATAT
1 TAAAATAATATTAAATAT
* *
6662989 TAAAATAATATGAAA-AA
1 TAAAATAATATTAAATAT
* *
6663006 TAATATAACATTAAAATATTCT
1 TAAAATAATATT-AAATA---T
* *
6663028 TAAATTAATATTTAATAT
1 TAAAATAATATTAAATAT
*
6663046 TAAAATATTATTAAAATAT
1 TAAAATAATATT-AAATAT
6663065 TAAAAT
1 TAAAAT
6663071 GTGAATATAT
Statistics
Matches: 140, Mismatches: 27, Indels: 35
0.69 0.13 0.17
Matches are distributed among these distances:
12 4 0.03
13 4 0.03
14 3 0.02
15 3 0.02
16 5 0.04
17 28 0.20
18 50 0.36
19 17 0.12
20 3 0.02
21 12 0.09
22 11 0.08
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
TAAAATAATATTAAATAT
Found at i:6662973 original size:29 final size:29
Alignment explanation
Indices: 6662939--6663066 Score: 150
Period size: 29 Copynumber: 4.4 Consensus size: 29
6662929 ATTTGTTAAA
*
6662939 TATTAAAATATTATTTAATATTAAAATAC
1 TATTAAAATATTATTTAATATTAAAATAT
* * *
6662968 TATTAAATTAATATTTAATATTAAAATAA
1 TATTAAAATATTATTTAATATTAAAATAT
* * * *
6662997 TATGAAAA-ATAATATAACATTAAAATAT
1 TATTAAAATATTATTTAATATTAAAATAT
* * *
6663025 TCTTAAATTAATATTTAATATTAAAATAT
1 TATTAAAATATTATTTAATATTAAAATAT
6663054 TATTAAAATATTA
1 TATTAAAATATTA
6663067 AAATGTGAAT
Statistics
Matches: 78, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 20 0.26
29 58 0.74
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (29 bp):
TATTAAAATATTATTTAATATTAAAATAT
Found at i:6662997 original size:11 final size:11
Alignment explanation
Indices: 6662954--6663011 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
6662944 AAATATTATT
6662954 TAATATTAAAA
1 TAATATTAAAA
* *
6662965 TACTATTAAAT
1 TAATATTAAAA
6662976 TAATATT----
1 TAATATTAAAA
6662983 TAATATTAAAA
1 TAATATTAAAA
*
6662994 TAATATGAAAAA
1 TAATAT-TAAAA
6663006 TAATAT
1 TAATAT
6663012 AACATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
7 7 0.18
11 21 0.55
12 10 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:6663020 original size:57 final size:54
Alignment explanation
Indices: 6662953--6663117 Score: 172
Period size: 57 Copynumber: 2.9 Consensus size: 54
6662943 AAAATATTAT
*
6662953 TTAATATTAAAATACTATTAAATTAATATTTAATATTAAAATAATATGAAAAATAA
1 TTAAAATTAAAATA-TATTAAATTAATATTTAATATTAAAATAATATGAAAAAT-A
* * * *
6663009 TATAACATTAAAATATTCTTAAATTAATATTTAATATTAAAATATTAT-TAAAATA
1 T-TAAAATTAAAATA-TATTAAATTAATATTTAATATTAAAATAATATGAAAAATA
* *
6663064 TTAAAATGT-GAATATATTAAAATTTAATATTTTATATAATAAAATAATATGAAA
1 TTAAAAT-TAAAATATATT-AAA-TTAATA-TTTA-ATATTAAAATAATATGAAA
6663118 TTAATATTTA
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
53 3 0.03
54 12 0.13
55 9 0.10
56 10 0.11
57 55 0.60
58 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (54 bp):
TTAAAATTAAAATATATTAAATTAATATTTAATATTAAAATAATATGAAAAATA
Found at i:6663182 original size:29 final size:28
Alignment explanation
Indices: 6663142--6663213 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
6663132 TGATTAATTT
* *
6663142 TAAAATAGTATTAAAATAATATATCATA
1 TAAAATAATATTAAAATAATATATAATA
* * * *
6663170 TAAAATTATTATTAAATTCATATTTAATA
1 TAAAA-TAATATTAAAATAATATATAATA
6663199 TAAAATAATATTAAA
1 TAAAATAATATTAAA
6663214 CTATTATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (28 bp):
TAAAATAATATTAAAATAATATATAATA
Found at i:6663196 original size:68 final size:66
Alignment explanation
Indices: 6663096--6663336 Score: 250
Period size: 68 Copynumber: 3.5 Consensus size: 66
6663086 TTTAATATTT
* * * * * * *
6663096 TATATA-ATAAAATAATATGAAATTAATATTTAATATTGATTAATTTTAAAATAGTATTAAAATA
1 TATATATATAAAATATTATTAAATTAATATTTAATATAGAATAATATTAAAATATTATGAAAATA
6663160 A
66 A
* * *
6663161 TATATCATATAAAATTATTATTAAATTCATATTTAATATAAAATAATATTAAACTATTATGAAAA
1 TATAT-ATATAAAA-TATTATTAAATTAATATTTAATATAGAATAATATTAAAATATTATGAAAA
6663226 TAA
64 TAA
* * *
6663229 TATATTATGTTAGAATATTATTAAATTAAATATTTAAGATAGAAAATAATATTAAAATATTATGA
1 TATA-TAT-ATAAAATATTATTAAATT-AATATTTAATATAG--AATAATATTAAAATATTATGA
6663294 AAATAA
61 AAATAA
* * *
6663300 TACTATATATTACAATATTACTAAATTCATATTTAAT
1 TA-TATATA-TAAAATATTATTAAATTAATATTTAAT
6663337 GTTAAAAATT
Statistics
Matches: 145, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
65 5 0.03
66 1 0.01
67 6 0.04
68 61 0.42
69 16 0.11
70 8 0.06
71 46 0.32
72 2 0.01
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (66 bp):
TATATATATAAAATATTATTAAATTAATATTTAATATAGAATAATATTAAAATATTATGAAAATA
A
Found at i:6663290 original size:71 final size:68
Alignment explanation
Indices: 6663136--6663335 Score: 233
Period size: 71 Copynumber: 2.9 Consensus size: 68
6663126 TAATATTGAT
* * * * * *
6663136 TAATTTTAAAATAGTATTAAAATAATATATCATATAAAATTATTATTAAATTCATATTT-AATAT
1 TAATATTAAAATATTATGAAAATAATATATTATTTAAAA-TATTATTAAATTCATATTTAAATAG
6663200 AAAA
65 AAAA
* * *
6663204 TAATATTAAACTATTATGAAAATAATATATTATGTTAGAATATTATTAAATTAAATATTTAAGAT
1 TAATATTAAAATATTATGAAAATAATATATTAT-TTAAAATATTATTAAATT-CATATTTAA-AT
6663269 AGAAAA
63 AGAAAA
* *
6663275 TAATATTAAAATATTATGAAAATAATACTA-TATATTACAATATTACTAAATTCATATTTAA
1 TAATATTAAAATATTATGAAAATAATA-TATTAT-TTAAAATATTATTAAATTCATATTTAA
6663336 TGTTAAAAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
68 40 0.35
69 10 0.09
70 9 0.08
71 52 0.46
72 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (68 bp):
TAATATTAAAATATTATGAAAATAATATATTATTTAAAATATTATTAAATTCATATTTAAATAGA
AAA
Found at i:6663380 original size:21 final size:20
Alignment explanation
Indices: 6663355--6663442 Score: 90
Period size: 21 Copynumber: 4.3 Consensus size: 20
6663345 TTAGTAAATC
6663355 TTATTAAACTAATATTTAATA
1 TTATTAAA-TAATATTTAATA
** **
6663376 TTATTAGTTTAATATGAAATA
1 TTATTA-AATAATATTTAATA
6663397 TTATTAAATAATATTTAATA
1 TTATTAAATAATATTTAATA
6663417 TTATTTAAA-AA-ATTTAATA
1 TTA-TTAAATAATATTTAATA
*
6663436 TTTTTAA
1 TTATTAA
6663443 TTGAATTTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.07
19 10 0.18
20 15 0.27
21 27 0.48
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (20 bp):
TTATTAAATAATATTTAATA
Found at i:6663422 original size:10 final size:10
Alignment explanation
Indices: 6663393--6663443 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
6663383 TTTAATATGA
*
6663393 AATATTATTA
1 AATATTATTT
*
6663403 AATAATATTT
1 AATATTATTT
6663413 AATATTATTT
1 AATATTATTT
**
6663423 AA-AAAATTT
1 AATATTATTT
6663432 AATATT-TTT
1 AATATTATTT
6663441 AAT
1 AAT
6663444 TGAATTTTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
9 13 0.39
10 20 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
AATATTATTT
Found at i:6663450 original size:19 final size:19
Alignment explanation
Indices: 6663393--6663442 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
6663383 TTTAATATGA
6663393 AATATTA-TTAAATAATATTT
1 AATATTATTTAAA-AA-ATTT
6663413 AATATTATTTAAAAAATTT
1 AATATTATTTAAAAAATTT
6663432 AATATT-TTTAA
1 AATATTATTTAA
6663443 TTGAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 9 0.31
21 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATTATTTAAAAAATTT
Found at i:6666131 original size:18 final size:19
Alignment explanation
Indices: 6666100--6666135 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6666090 AATTGATAAA
6666100 TTCATATTGATAATTTTTC
1 TTCATATTGATAATTTTTC
*
6666119 TTCA-ATTGTTAATTTTT
1 TTCATATTGATAATTTTT
6666136 ATGTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (19 bp):
TTCATATTGATAATTTTTC
Found at i:6666780 original size:50 final size:50
Alignment explanation
Indices: 6666705--6666800 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
6666695 CTCACAAGAT
* * *
6666705 GGAGGTGGTATGAACCCTTTTATACCTCAAGGACCCTTCTATTATGAGGC
1 GGAGGTGATATGAACCCTTTTATACCCCAAGGACCCTCCTATTATGAGGC
* *
6666755 GGAGGTGATATGAACCTTTTTATACCCCAGGGACCCTCCTATTATG
1 GGAGGTGATATGAACCCTTTTATACCCCAAGGACCCTCCTATTATG
6666801 TTCGATGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (50 bp):
GGAGGTGATATGAACCCTTTTATACCCCAAGGACCCTCCTATTATGAGGC
Found at i:6668845 original size:20 final size:20
Alignment explanation
Indices: 6668820--6668860 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6668810 CAAGTTAAAA
6668820 TAACGAATTAATCCATAGTT
1 TAACGAATTAATCCATAGTT
*
6668840 TAACGAATTAATTCATAGTT
1 TAACGAATTAATCCATAGTT
6668860 T
1 T
6668861 TCGGCTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (20 bp):
TAACGAATTAATCCATAGTT
Found at i:6669219 original size:3 final size:3
Alignment explanation
Indices: 6669211--6669235 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6669201 AAACATTAAA
6669211 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
6669236 AAAAATTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6671420 original size:3 final size:3
Alignment explanation
Indices: 6671402--6671537 Score: 141
Period size: 3 Copynumber: 48.3 Consensus size: 3
6671392 TAGTACAGCA
*
6671402 TAT TA- TAT TA- TAT TAT TA- TATT TAT TAT TTT TA- TAT TAAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT TAT
* * *
6671444 TAT TAT TAT TA- TAG TA- TAT GA- TAT TA- TAT TAT TAT TA- TAG TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6671486 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6671534 TAT T
1 TAT T
6671538 TTGTTTTTTT
Statistics
Matches: 116, Mismatches: 4, Indels: 26
0.79 0.03 0.18
Matches are distributed among these distances:
2 21 0.18
3 90 0.78
4 5 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6671443 original size:4 final size:5
Alignment explanation
Indices: 6671358--6671533 Score: 117
Period size: 5 Copynumber: 33.8 Consensus size: 5
6671348 GATCGATTTT
* * * * * * **
6671358 TTATA GTATA GTATG TTATT TTATA TTATTA TTATA GTACA GCATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA
*
6671409 TTATA -T-TA TTATA TT-TA TTATTT TTATA TTA-A TTATA TTATTA TTATA
1 TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTA-TA TTATA
* * *
6671457 GTATA TGATA TTATA TTATTA TTATA GTATA TTATTA TTATTA TTATTA
1 TTATA TTATA TTATA TTA-TA TTATA TTATA TTA-TA TTA-TA TTA-TA
6671506 TTATTA TTATTA TTATTA TTATTA TTAT
1 TTA-TA TTA-TA TTA-TA TTA-TA TTAT
6671534 TATTTTGTTT
Statistics
Matches: 143, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
3 2 0.01
4 10 0.07
5 71 0.50
6 60 0.42
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (5 bp):
TTATA
Done.