Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 42 of 160
Found at i:9580032 original size:22 final size:22
Alignment explanation
Indices: 9580007--9580176 Score: 76
Period size: 22 Copynumber: 7.7 Consensus size: 22
9579997 TTTACATGTA
9580007 AGCTAAACTAGGCTTATGTGCT
1 AGCTAAACTAGGCTTATGTGCT
* * *
9580029 AGCTAACCTGGGCTTATGTGGT
1 AGCTAAACTAGGCTTATGTGCT
* * *
9580051 AG-TAAATCTAGGCCTATGTACC
1 AGCTAAA-CTAGGCTTATGTGCT
* ** * *
9580073 AACTAATTTGGGCTTATGTGTT
1 AGCTAAACTAGGCTTATGTGCT
* * * *
9580095 TGCTAAATTAGACTTATGTGCC
1 AGCTAAACTAGGCTTATGTGCT
* * * *
9580117 AG-TAAATTTGAGCTTATGTACC
1 AGCTAAACTAG-GCTTATGTGCT
* * *
9580139 AACTAATA-TGGGCTTATATGCT
1 AGCTAA-ACTAGGCTTATGTGCT
* *
9580161 TGCTATACTAGGCTTA
1 AGCTAAACTAGGCTTA
9580177 AATTTTGATT
Statistics
Matches: 105, Mismatches: 37, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
21 11 0.10
22 85 0.81
23 8 0.08
24 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (22 bp):
AGCTAAACTAGGCTTATGTGCT
Found at i:9580069 original size:44 final size:43
Alignment explanation
Indices: 9580010--9580092 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 43
9580000 ACATGTAAGC
* * * *
9580010 TAAACTAGGCTTATGTGCTAGCTAACCTGGGCTTATGTGGTAG
1 TAAACTAGGCCTATGTACCAACTAACCTGGGCTTATGTGGTAG
**
9580053 TAAATCTAGGCCTATGTACCAACTAATTTGGGCTTATGTG
1 TAAA-CTAGGCCTATGTACCAACTAACCTGGGCTTATGTG
9580093 TTTGCTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.12
44 29 0.88
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TAAACTAGGCCTATGTACCAACTAACCTGGGCTTATGTGGTAG
Found at i:9580100 original size:66 final size:66
Alignment explanation
Indices: 9580017--9580176 Score: 178
Period size: 66 Copynumber: 2.4 Consensus size: 66
9580007 AGCTAAACTA
* * * * ** *
9580017 GGCTTATGTGCTAGCTAACCTGGGCTTATGTGGTAGTAAATCTAG-GCCTATGTACCAACTAATT
1 GGCTTATGTGCTTGCTAAACTAGACTTATGTGCCAGTAAAT-TAGAGCCTATGTACCAACTAATA
9580081 TG
65 TG
* * * *
9580083 GGCTTATGTGTTTGCTAAATTAGACTTATGTGCCAGTAAATTTGAGCTTATGTACCAACTAATAT
1 GGCTTATGTGCTTGCTAAACTAGACTTATGTGCCAGTAAATTAGAGCCTATGTACCAACTAATAT
9580148 G
66 G
* * *
9580149 GGCTTATATGCTTGCTATACTAGGCTTA
1 GGCTTATGTGCTTGCTAAACTAGACTTA
9580177 AATTTTGATT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
65 2 0.03
66 75 0.97
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (66 bp):
GGCTTATGTGCTTGCTAAACTAGACTTATGTGCCAGTAAATTAGAGCCTATGTACCAACTAATAT
G
Found at i:9580113 original size:44 final size:44
Alignment explanation
Indices: 9580037--9580135 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
9580027 CTAGCTAACC
*
9580037 TGGGCTTATGTGGTAGTAAATCTAGGCCTATGTACCAACT-AATT
1 TGGGCTTATGTGGTAGTAAATCTAGACCTATGTACC-ACTAAATT
* * * * *
9580081 TGGGCTTATGTGTTTGCTAAAT-TAGACTTATGTGCCAGTAAATT
1 TGGGCTTATGTGGTAG-TAAATCTAGACCTATGTACCACTAAATT
*
9580125 TGAGCTTATGT
1 TGGGCTTATGT
9580136 ACCAACTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.04
44 39 0.85
45 5 0.11
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (44 bp):
TGGGCTTATGTGGTAGTAAATCTAGACCTATGTACCACTAAATT
Found at i:9581675 original size:24 final size:24
Alignment explanation
Indices: 9581648--9581695 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9581638 CTTTTATCCT
* * *
9581648 TTTTTCTCTTTTTTTTTTTTTGAC
1 TTTTTCACTTCTTTTGTTTTTGAC
*
9581672 TTTTTGACTTCTTTTGTTTTTGAC
1 TTTTTCACTTCTTTTGTTTTTGAC
9581696 ATCCCCCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTTTCACTTCTTTTGTTTTTGAC
Found at i:9584266 original size:17 final size:17
Alignment explanation
Indices: 9584234--9584266 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9584224 TATTAACATT
9584234 AAAAAAATTTGACAAAC
1 AAAAAAATTTGACAAAC
9584251 AAAAGAAATTTG-CAAA
1 AAAA-AAATTTGACAAA
9584267 GCATTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (17 bp):
AAAAAAATTTGACAAAC
Found at i:9587297 original size:17 final size:17
Alignment explanation
Indices: 9587263--9587300 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9587253 AATCTTATTC
*
9587263 TTTTTTTATTCTTTTTA
1 TTTTTTTATTCTTGTTA
9587280 TTTTTTTATAT-TTGTTA
1 TTTTTTTAT-TCTTGTTA
9587297 TTTT
1 TTTT
9587301 AACAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTATTCTTGTTA
Found at i:9587609 original size:13 final size:13
Alignment explanation
Indices: 9587593--9587651 Score: 70
Period size: 13 Copynumber: 4.6 Consensus size: 13
9587583 TCAGGATTTC
9587593 AATTTAGGGTTTT
1 AATTTAGGGTTTT
9587606 AATTTAGGG--TT
1 AATTTAGGGTTTT
9587617 AATCTTA-GGTTTT
1 AAT-TTAGGGTTTT
*
9587630 GATTTAAGGGTTTT
1 AATTT-AGGGTTTT
9587644 AATTTAGG
1 AATTTAGG
9587652 AATTTATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 7 0.18
12 5 0.13
13 17 0.44
14 10 0.26
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (13 bp):
AATTTAGGGTTTT
Found at i:9589415 original size:19 final size:19
Alignment explanation
Indices: 9589391--9589436 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
9589381 TTAATATATT
9589391 AATTAACAAGATACTTATC
1 AATTAACAAGATACTTATC
*
9589410 AATTAACAAGATACTTCTC
1 AATTAACAAGATACTTATC
9589429 AATCTAAC
1 AAT-TAAC
9589437 TTAAATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTAACAAGATACTTATC
Found at i:9590977 original size:9 final size:9
Alignment explanation
Indices: 9590963--9590993 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
9590953 TTATGTTATT
9590963 ATTTTTAAA
1 ATTTTTAAA
9590972 ATTTTTAAA
1 ATTTTTAAA
9590981 ATTTTTAAA
1 ATTTTTAAA
9590990 ATTT
1 ATTT
9590994 AATATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:9591004 original size:3 final size:3
Alignment explanation
Indices: 9590996--9591029 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9590986 TAAAATTTAA
9590996 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9591030 TGTTTAGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9592467 original size:3 final size:3
Alignment explanation
Indices: 9592451--9592516 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
9592441 TTAGAAAAGA
* *
9592451 GAT GAT AAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
9592499 GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT
9592517 AATAATAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:9592521 original size:3 final size:3
Alignment explanation
Indices: 9592515--9592560 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
9592505 GATGATGATG
9592515 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9592561 GATTAAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9592855 original size:7 final size:8
Alignment explanation
Indices: 9592786--9592893 Score: 80
Period size: 8 Copynumber: 14.0 Consensus size: 8
9592776 CTCTAAAATT
9592786 TTGAAACC
1 TTGAAACC
*
9592794 CT-AAACC
1 TTGAAACC
** *
9592801 TAAAAATC
1 TTGAAACC
*
9592809 TTGAAACA
1 TTGAAACC
*
9592817 TT-AAAGC
1 TTGAAACC
*
9592824 TTGGAACC
1 TTGAAACC
*
9592832 ATGAAACC
1 TTGAAACC
9592840 TTGAAACC
1 TTGAAACC
9592848 TT-AAACC
1 TTGAAACC
*
9592855 TTG-AATC
1 TTGAAACC
*
9592862 TTGAAACA
1 TTGAAACC
*
9592870 TTAAAACC
1 TTGAAACC
*
9592878 TCGAAACC
1 TTGAAACC
9592886 TTGAAACC
1 TTGAAACC
9592894 CTAAGTTCAA
Statistics
Matches: 73, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
7 23 0.32
8 50 0.68
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.24
Consensus pattern (8 bp):
TTGAAACC
Found at i:9592950 original size:26 final size:26
Alignment explanation
Indices: 9592902--9592951 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9592892 CCCTAAGTTC
* *
9592902 AAACCCTAAAATGAAACCTAAACCTT
1 AAACCCTAAAATCAAACCAAAACCTT
* *
9592928 AAACCCTAAAATCTAGCCAAAACC
1 AAACCCTAAAATCAAACCAAAACC
9592952 CTATATTGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.30, G:0.04, T:0.16
Consensus pattern (26 bp):
AAACCCTAAAATCAAACCAAAACCTT
Found at i:9599286 original size:21 final size:22
Alignment explanation
Indices: 9599274--9599320 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
9599264 TAAAAAATAT
9599274 AAAT-ATAGATATAAAAATGATAA
1 AAATAATA-ATATAAAAA-GATAA
9599297 AAATAATAATAT-AAAA-ATAA
1 AAATAATAATATAAAAAGATAA
9599317 AAAT
1 AAAT
9599321 CTCTTAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 8 0.35
22 4 0.17
23 8 0.35
24 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (22 bp):
AAATAATAATATAAAAAGATAA
Found at i:9599308 original size:23 final size:22
Alignment explanation
Indices: 9599262--9599319 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
9599252 GAAATATGTG
*
9599262 TATAAAAA-ATATAAATATAGA
1 TATAAAAATATAAAAATATAGA
9599283 TATAAAAATGATAAAAATAATA-A
1 TATAAAAAT-ATAAAAAT-ATAGA
9599306 TATAAAAATA-AAAA
1 TATAAAAATATAAAA
9599320 TCTCTTAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.36
22 1 0.03
23 17 0.52
24 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (22 bp):
TATAAAAATATAAAAATATAGA
Found at i:9599604 original size:10 final size:9
Alignment explanation
Indices: 9599583--9599619 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
9599573 TAGTAATAAT
*
9599583 AAATAATAA
1 AAATATTAA
9599592 AAATATTAA
1 AAATATTAA
9599601 AAA-ATTAA
1 AAATATTAA
9599609 AAA-ATTAA
1 AAATATTAA
9599617 AAA
1 AAA
9599620 CAAAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 16 0.59
9 11 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATATTAA
Found at i:9599611 original size:9 final size:8
Alignment explanation
Indices: 9599589--9599619 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
9599579 TAATAAATAA
9599589 TAAAAATAT
1 TAAAAA-AT
9599598 TAAAAAAT
1 TAAAAAAT
9599606 TAAAAAAT
1 TAAAAAAT
9599614 TAAAAA
1 TAAAAA
9599620 CAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAAAAT
Found at i:9601099 original size:3 final size:3
Alignment explanation
Indices: 9601093--9601126 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9601083 TTTTTCAAAC
9601093 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9601127 GCGGTACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9607890 original size:23 final size:23
Alignment explanation
Indices: 9607864--9607914 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
9607854 AAGAACAAAC
* *
9607864 AAAAGCAAACA-AAAAAAGAGAAG
1 AAAAACAAACATAAAAAA-AAAAG
*
9607887 AAAAATAAACATAAAAAAAAAAG
1 AAAAACAAACATAAAAAAAAAAG
9607910 AAAAA
1 AAAAA
9607915 TCAAGTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.80, C:0.06, G:0.10, T:0.04
Consensus pattern (23 bp):
AAAAACAAACATAAAAAAAAAAG
Found at i:9607915 original size:23 final size:23
Alignment explanation
Indices: 9607870--9607915 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9607860 AAACAAAAGC
*
9607870 AAACAAAAAAAGAGAAGAAAAAT
1 AAACAAAAAAAGAAAAGAAAAAT
9607893 AAACATAAAAAA-AAAAGAAAAAT
1 AAACA-AAAAAAGAAAAGAAAAAT
9607916 CAAGTAAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.80, C:0.04, G:0.09, T:0.07
Consensus pattern (23 bp):
AAACAAAAAAAGAAAAGAAAAAT
Found at i:9608918 original size:48 final size:48
Alignment explanation
Indices: 9608866--9609140 Score: 235
Period size: 48 Copynumber: 5.7 Consensus size: 48
9608856 ATCATTTCCA
* * *
9608866 ACAAGGTTTTAAAAGTTCCAAAGCCTTTATTTAT-GAGAGCTATTTCAG
1 ACAAGATTTT-AAAGTTCCAAAGCCTTTGTTTATGGAGAGCTATTTAAG
* * * *
9608914 ACAAGATTTTTAAGTTCCAAA-ACTTCTGTTTATGGGGAGCTATTTTAG
1 ACAAGATTTTAAAGTTCCAAAGCCTT-TGTTTATGGAGAGCTATTTAAG
** *
9608962 ACAAGATTTTAAAG-TCCAAAGCCTCTT-TACATGGAGAGCCATATTAAG
1 ACAAGATTTTAAAGTTCCAAAGCCT-TTGTTTATGGAGAGCTAT-TTAAG
* * *
9609010 -CAAGATTTTTAAAGTTTCAAAGCCTCTGTTTAT-GAGGAG-TCATTTAAA
1 ACAAGA-TTTTAAAGTTCCAAAGCCTTTGTTTATGGA-GAGCT-ATTTAAG
* * *
9609058 ACAAGATTTTAAAGTTGCAAAACCTTTGTTTATAGG-GAGCAATTTCAA-
1 ACAAGATTTTAAAGTTCCAAAGCCTTTGTTTAT-GGAGAGCTATTT-AAG
* *
9609106 ACAAGATTTTTAAAGTTCCAAAGCCTCTATTTATG
1 ACAAGA-TTTTAAAGTTCCAAAGCCTTTGTTTATG
9609141 AAGTACCAAT
Statistics
Matches: 184, Mismatches: 27, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
46 3 0.02
47 38 0.21
48 94 0.51
49 48 0.26
50 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (48 bp):
ACAAGATTTTAAAGTTCCAAAGCCTTTGTTTATGGAGAGCTATTTAAG
Found at i:9608990 original size:96 final size:97
Alignment explanation
Indices: 9608865--9609141 Score: 296
Period size: 96 Copynumber: 2.9 Consensus size: 97
9608855 AATCATTTCC
* *
9608865 AACAAGGTTTTAAAAGTTCCAAAGCCTTTATTTAT-GAGAGCTATTTCAGACAAGATTTTT-AAG
1 AACAAGATTTT-AAAGTTCCAAAGCCTTTATTTATAGAGAGCAATTTCAGACAAGATTTTTAAAG
* * *
9608928 TTCCAAAACTTCTGTTTATGGGGAG-CTATTTTA
65 TTCCAAAACCTCTGTTTATGAGGAGTC-ATTTAA
* ** * * *
9608961 GACAAGATTTTAAAG-TCCAAAGCCTCTT-TACATGGAGAGCCATATTAAG-CAAGATTTTTAAA
1 AACAAGATTTTAAAGTTCCAAAGCCT-TTATTTATAGAGAGCAAT-TTCAGACAAGATTTTTAAA
* *
9609023 GTTTCAAAGCCTCTGTTTATGAGGAGTCATTTAA
64 GTTCCAAAACCTCTGTTTATGAGGAGTCATTTAA
* * * * *
9609057 AACAAGATTTTAAAGTTGCAAAACCTTTGTTTATAGGGAGCAATTTCAAACAAGATTTTTAAAGT
1 AACAAGATTTTAAAGTTCCAAAGCCTTTATTTATAGAGAGCAATTTCAGACAAGATTTTTAAAGT
* *
9609122 TCCAAAGCCTCTATTTATGA
66 TCCAAAACCTCTGTTTATGA
9609142 AGTACCAATT
Statistics
Matches: 150, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
94 13 0.09
95 24 0.16
96 61 0.41
97 52 0.35
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (97 bp):
AACAAGATTTTAAAGTTCCAAAGCCTTTATTTATAGAGAGCAATTTCAGACAAGATTTTTAAAGT
TCCAAAACCTCTGTTTATGAGGAGTCATTTAA
Found at i:9609080 original size:144 final size:145
Alignment explanation
Indices: 9608867--9609133 Score: 362
Period size: 144 Copynumber: 1.8 Consensus size: 145
9608857 TCATTTCCAA
* * * * *
9608867 CAAGGTTTTAAAAGTTCCAAAGCCTTTATTTATGAGAGCTATTTCAGACAAGATTTTTAAGTTCC
1 CAAGATTTTAAAAGTTCCAAAGCCTCTATTTATGAGAGCTATTTAAAACAAGATTTTAAAGTTCC
* * * *
9608932 AAAA-CTTCTGTTTATGGGGAGCTATTTTAGACAAGA-TTTTAAAG-TCCAAAGCCTCTTTACAT
66 AAAACCTT-TGTTTATAGGGAGCAATTTCAAACAAGATTTTTAAAGTTCCAAAGCCTCTTTACAT
9608994 GGAGAGCCATATTAAG
130 GGAGAGCCATATTAAG
* * *
9609010 CAAGATTTTTAAAGTTTCAAAGCCTCTGTTTATGAGGAG-TCATTTAAAACAAGATTTTAAAGTT
1 CAAGATTTTAAAAGTTCCAAAGCCTCTATTTATGA-GAGCT-ATTTAAAACAAGATTTTAAAGTT
*
9609074 GCAAAACCTTTGTTTATAGGGAGCAATTTCAAACAAGATTTTTAAAGTTCCAAAGCCTCT
64 CCAAAACCTTTGTTTATAGGGAGCAATTTCAAACAAGATTTTTAAAGTTCCAAAGCCTCT
9609134 ATTTATGAAG
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
143 31 0.29
144 52 0.49
145 11 0.10
146 12 0.11
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (145 bp):
CAAGATTTTAAAAGTTCCAAAGCCTCTATTTATGAGAGCTATTTAAAACAAGATTTTAAAGTTCC
AAAACCTTTGTTTATAGGGAGCAATTTCAAACAAGATTTTTAAAGTTCCAAAGCCTCTTTACATG
GAGAGCCATATTAAG
Found at i:9609348 original size:25 final size:25
Alignment explanation
Indices: 9609308--9609356 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
9609298 TTTCACATTA
9609308 AAAAAAAAAACAAAATTGAACAAAAC
1 AAAAAAAAAACAAAATTGAA-AAAAC
*
9609334 AAAAAAAAAA-GAAATTGAAAAAA
1 AAAAAAAAAACAAAATTGAAAAAA
9609357 TAAAGTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 8 0.36
26 10 0.45
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (25 bp):
AAAAAAAAAACAAAATTGAAAAAAC
Found at i:9609632 original size:19 final size:19
Alignment explanation
Indices: 9609608--9609644 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9609598 GGGCTAACTG
*
9609608 TTAAAGCCCAAGTTTTGTA
1 TTAAAGCCCAAATTTTGTA
9609627 TTAAAGCCCAAATTTTGT
1 TTAAAGCCCAAATTTTGT
9609645 CCAAATTTTG
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:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
TTAAAGCCCAAATTTTGTA
Found at i:9610245 original size:18 final size:18
Alignment explanation
Indices: 9610219--9610276 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
9610209 CTTTACTTAT
9610219 ACCATCACCTAGCATCGTA
1 ACCA-CACCTAGCATCGTA
* *
9610238 ACCACACCTCG-A-CCT-
1 ACCACACCTAGCATCGTA
9610253 ACCA-A-CTAGCATCGTA
1 ACCACACCTAGCATCGTA
9610269 ACCACACC
1 ACCACACC
9610277 CCGACCTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
13 3 0.10
14 2 0.07
15 6 0.20
16 6 0.20
17 2 0.07
18 7 0.23
19 4 0.13
ACGTcount: A:0.33, C:0.43, G:0.09, T:0.16
Consensus pattern (18 bp):
ACCACACCTAGCATCGTA
Found at i:9611148 original size:9 final size:8
Alignment explanation
Indices: 9611134--9611186 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
9611124 TTTTGGTGTA
9611134 ATTTTTTGT
1 ATTTTTT-T
9611143 ATTTTTTT
1 ATTTTTTT
9611151 ATTTTTTAT
1 ATTTTTT-T
* *
9611160 AATTTTTA
1 ATTTTTTT
*
9611168 ATTTATTT
1 ATTTTTTT
9611176 ATTTTATTT
1 ATTTT-TTT
9611185 AT
1 AT
9611187 GAGTACATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 17 0.47
9 19 0.53
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:9611156 original size:17 final size:16
Alignment explanation
Indices: 9611134--9611186 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
9611124 TTTTGGTGTA
9611134 ATTTTTTGTATTTTTTT
1 ATTTTTT-TATTTTTTT
* *
9611151 ATTTTTTATAATTTTTA
1 ATTTTTT-TATTTTTTT
*
9611168 ATTTATTTATTTTATTT
1 ATTTTTTTATTTT-TTT
9611185 AT
1 AT
9611187 GAGTACATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
ATTTTTTTATTTTTTT
Found at i:9611176 original size:18 final size:17
Alignment explanation
Indices: 9611132--9611177 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
9611122 ATTTTTGGTG
* *
9611132 TAATTTTTTGTATTTTT
1 TAATTTTTTATAATTTT
*
9611149 TTATTTTTTATAATTTT
1 TAATTTTTTATAATTTT
9611166 TAATTTATTTAT
1 TAATTT-TTTAT
9611178 TTTATTTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TAATTTTTTATAATTTT
Found at i:9611321 original size:22 final size:22
Alignment explanation
Indices: 9611293--9611350 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
9611283 TATAAAAAAT
9611293 ATAAAAAT-TAAAATAAGATAAA
1 ATAAAAATATAAAA-AAGATAAA
9611315 ATAAAAATATAAAAAAGATAAA
1 ATAAAAATATAAAAAAGATAAA
**
9611337 A-ATTAATATAAAAA
1 ATAAAAATATAAAAA
9611351 TGAAAATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 11 0.33
22 17 0.52
23 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (22 bp):
ATAAAAATATAAAAAAGATAAA
Found at i:9611346 original size:21 final size:20
Alignment explanation
Indices: 9611283--9611350 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 20
9611273 GAAATATGGG
9611283 TATAAAAAATATAAAAATTAA
1 TATAAAAAA-ATAAAAATTAA
*
9611304 AATAAGATAAAATAAAAA-T-A
1 TATAA-A-AAAATAAAAATTAA
*
9611324 TA-AAAAAGATAAAAATTAA
1 TATAAAAAAATAAAAATTAA
9611343 TATAAAAA
1 TATAAAAA
9611351 TGAAAATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
17 9 0.23
18 2 0.05
19 5 0.13
20 7 0.18
21 5 0.13
22 8 0.21
23 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
TATAAAAAAATAAAAATTAA
Found at i:9611628 original size:3 final size:3
Alignment explanation
Indices: 9611622--9611665 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
9611612 CAACAACAAC
9611622 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9611666 AACTATTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9611719 original size:4 final size:5
Alignment explanation
Indices: 9611625--9611749 Score: 58
Period size: 6 Copynumber: 22.6 Consensus size: 5
9611615 CAACAACAAT
9611625 AATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA AACTATTA
1 AATAA -AATAA -AATAA -AATAA -AATAA -AATAA -AATAA AA-TA--A
* *
9611674 AA-AA ATTAA AAGTAA AATTAA AGTTAA AATAA AATAA AAT-A AATAA
1 AATAA AATAA AA-TAA AA-TAA A-ATAA AATAA AATAA AATAA AATAA
* *
9611720 CAATAA AA-AA GGATGA AATAA AATGAA AAT
1 -AATAA AATAA -AATAA AATAA AAT-AA AAT
9611750 CTTTGAGGAT
Statistics
Matches: 99, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
4 8 0.08
5 26 0.26
6 62 0.63
8 3 0.03
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (5 bp):
AATAA
Found at i:9612723 original size:3 final size:3
Alignment explanation
Indices: 9612711--9612770 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
9612701 TGGCCCAACC
9612711 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9612758 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
9612771 CTACTACTAC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9612775 original size:3 final size:3
Alignment explanation
Indices: 9612769--9612806 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9612759 TTATTATTAT
9612769 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
9612807 AGGAGAGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:9613029 original size:20 final size:21
Alignment explanation
Indices: 9612988--9613029 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9612978 ATTTGAATTG
*
9612988 TTGGGCTTTTGGAATTCATGT
1 TTGGGCTTTTGGAAATCATGT
*
9613009 TTGGGTTTTTGGAAATC-TGT
1 TTGGGCTTTTGGAAATCATGT
9613029 T
1 T
9613030 GGAATTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (21 bp):
TTGGGCTTTTGGAAATCATGT
Found at i:9613128 original size:20 final size:20
Alignment explanation
Indices: 9613083--9613128 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9613073 TTTTTTTTTA
* *
9613083 AATTTATGGGTTGAAGTTTG
1 AATTTTTGGGTTGAAGATTG
*
9613103 AATTTTTGGGTTGGAGATTG
1 AATTTTTGGGTTGAAGATTG
9613123 AATTTT
1 AATTTT
9613129 CTAAGGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (20 bp):
AATTTTTGGGTTGAAGATTG
Found at i:9613533 original size:22 final size:22
Alignment explanation
Indices: 9613508--9613553 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9613498 CTGCATACCT
9613508 TTAGACCTGACCTTATCATAGG
1 TTAGACCTGACCTTATCATAGG
9613530 TTAGACCTGACCTTATCATAGG
1 TTAGACCTGACCTTATCATAGG
9613552 TT
1 TT
9613554 TTCTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (22 bp):
TTAGACCTGACCTTATCATAGG
Found at i:9613644 original size:3 final size:3
Alignment explanation
Indices: 9613638--9613684 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
9613628 ATTATTATTA
*
9613638 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
9613685 ATTTATTACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:9623403 original size:14 final size:15
Alignment explanation
Indices: 9623348--9623400 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 15
9623338 GCATAATATT
*
9623348 TTAAATTTATAAAAA
1 TTAAATTTATATAAA
9623363 TT-AATTTATATATCAA
1 TTAAATTTATATA--AA
*
9623379 TT-AATTTTTATAAA
1 TTAAATTTATATAAA
9623393 TTAAATTT
1 TTAAATTT
9623401 TATTGGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 13 0.39
15 7 0.21
16 13 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAATTTATATAAA
Found at i:9623676 original size:8 final size:9
Alignment explanation
Indices: 9623657--9623681 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9623647 TCAAATCGAA
9623657 TTTTTAATT
1 TTTTTAATT
9623666 TTTTTAATT
1 TTTTTAATT
9623675 TTTTTAA
1 TTTTTAA
9623682 CCTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:9624979 original size:16 final size:17
Alignment explanation
Indices: 9624946--9624979 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9624936 TTTTTGGTGG
*
9624946 ATTTAAATAAGAAATAT
1 ATTTAAACAAGAAATAT
9624963 ATTTAAACAAG-AATAT
1 ATTTAAACAAGAAATAT
9624979 A
1 A
9624980 ATGATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (17 bp):
ATTTAAACAAGAAATAT
Found at i:9625231 original size:84 final size:87
Alignment explanation
Indices: 9625133--9625307 Score: 234
Period size: 86 Copynumber: 2.0 Consensus size: 87
9625123 AAATCTTACC
* * *
9625133 AAATTATTGAAAAGTTTTATTAATTT-TAAAAATAAATTTT-AAATTAATGCTACCACATTATTA
1 AAATTATTGAAAAGTTTTATAAATTTCTAAAAATAAATTTTAAAATTAATCCTACCAAATTATTA
*
9625196 GAGAA-TTTCA-CTTAAAAAATA
66 -AAAATTTTCATCTTAAAAAATA
*
9625217 AAATTATT-AGAAAGTTTTATAAATTTCTAAAAATAAGTTTTAAAATTAATCCTACCAAATTATT
1 AAATTATTGA-AAAGTTTTATAAATTTCTAAAAATAAATTTTAAAATTAATCCTACCAAATTATT
* *
9625281 AAAAATTTTTATTTTAAAAAATA
65 AAAAATTTTCATCTTAAAAAATA
9625304 AAAT
1 AAAT
9625308 CTTACCATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
83 1 0.01
84 23 0.29
85 16 0.20
86 25 0.32
87 14 0.18
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (87 bp):
AAATTATTGAAAAGTTTTATAAATTTCTAAAAATAAATTTTAAAATTAATCCTACCAAATTATTA
AAAATTTTCATCTTAAAAAATA
Found at i:9625493 original size:42 final size:42
Alignment explanation
Indices: 9625430--9625515 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
9625420 GAAGGTTTTA
**
9625430 TAAATTTTACAAAATTGATATTTAAAATTAATTCTACTAAAC
1 TAAATTTTACAAAATAAATATTTAAAATTAATTCTACTAAAC
*
9625472 TAAATTTTACAAAATAAATATTTAAAATTAATTGTACTAAAC
1 TAAATTTTACAAAATAAATATTTAAAATTAATTCTACTAAAC
9625514 TA
1 TA
9625516 CCACAGGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (42 bp):
TAAATTTTACAAAATAAATATTTAAAATTAATTCTACTAAAC
Found at i:9629634 original size:29 final size:29
Alignment explanation
Indices: 9629580--9629639 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
9629570 GAATTATAGT
* * *
9629580 AAAATATTTAATGTGATATCTAAACTTTA
1 AAAATATTTAATATGATATATAAACTATA
* *
9629609 AAAATTTTTAATATGATATATGAACTATA
1 AAAATATTTAATATGATATATAAACTATA
9629638 AA
1 AA
9629640 TTTGTTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (29 bp):
AAAATATTTAATATGATATATAAACTATA
Found at i:9629959 original size:10 final size:10
Alignment explanation
Indices: 9629946--9629991 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
9629936 TTGGTACCTT
9629946 TTGATGAATC
1 TTGATGAATC
*
9629956 TTGATGAATT
1 TTGATGAATC
*
9629966 TTGATCAATC
1 TTGATGAATC
*
9629976 TTGATAAATTC
1 TTGATGAA-TC
9629987 TTGAT
1 TTGAT
9629992 ACATTTGGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (10 bp):
TTGATGAATC
Found at i:9629967 original size:20 final size:20
Alignment explanation
Indices: 9629944--9629991 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9629934 TTTTGGTACC
* *
9629944 TTTTGATGAATCTTGATGAA
1 TTTTGATCAATCTTGATAAA
9629964 TTTTGATCAATCTTGATAAA
1 TTTTGATCAATCTTGATAAA
9629984 TTCTTGAT
1 TT-TTGAT
9629992 ACATTTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTTGATCAATCTTGATAAA
Found at i:9630463 original size:23 final size:23
Alignment explanation
Indices: 9630420--9630463 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
9630410 TTCAATTAAG
*
9630420 TTAAATGAATTTATTCGTGAAAA
1 TTAAATGAATTTATTCATGAAAA
*
9630443 TTAAAT-AATTATGTTCATGAA
1 TTAAATGAATT-TATTCATGAA
9630464 CATATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (23 bp):
TTAAATGAATTTATTCATGAAAA
Found at i:9630596 original size:3 final size:3
Alignment explanation
Indices: 9630588--9630620 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
9630578 GGATAAAAAT
9630588 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA AT
9630621 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9630609 original size:16 final size:16
Alignment explanation
Indices: 9630580--9630620 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
9630570 ATGGTAAAGG
9630580 ATAA-AAAT-ATAATA
1 ATAATAAATAATAATA
9630594 ATAATAAATAATAATA
1 ATAATAAATAATAATA
9630610 ATAAT-AATAAT
1 ATAATAAATAAT
9630621 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATAAATAATAATA
Found at i:9630625 original size:3 final size:3
Alignment explanation
Indices: 9630619--9630664 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
9630609 AATAATAATA
9630619 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9630665 ATAAATAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9631834 original size:17 final size:17
Alignment explanation
Indices: 9631801--9631834 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9631791 ATTTTTCAAG
*
9631801 CAATTTAAATTATGTTT
1 CAATTTAAATTAAGTTT
*
9631818 CAATTTAATTTAAGTTT
1 CAATTTAAATTAAGTTT
9631835 AAAAGCTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
CAATTTAAATTAAGTTT
Found at i:9641773 original size:2 final size:2
Alignment explanation
Indices: 9641766--9641794 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9641756 GGTAAAGTTC
9641766 CT CT CT CT CT CT CT CT CT CT CT CT -T CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9641795 GTTTGTTTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:9650308 original size:2 final size:2
Alignment explanation
Indices: 9650301--9650329 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9650291 TCTATTCCAA
9650301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9650330 AGGAATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9650612 original size:2 final size:2
Alignment explanation
Indices: 9650599--9650630 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9650589 TTTTATATGC
*
9650599 AT AT AA 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
9650631 TTAGGGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9666220 original size:23 final size:26
Alignment explanation
Indices: 9666168--9666220 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
9666158 GATCGTTATG
9666168 ATTATTTTCAAAAGTTTATTAAAGTT
1 ATTATTTTCAAAAGTTTATTAAAGTT
*
9666194 -TTATTTTC-ACA-TTTATTAAA-TT
1 ATTATTTTCAAAAGTTTATTAAAGTT
9666216 ATTAT
1 ATTAT
9666221 AACTTAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 13 0.52
24 2 0.08
25 8 0.32
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (26 bp):
ATTATTTTCAAAAGTTTATTAAAGTT
Found at i:9672857 original size:11 final size:11
Alignment explanation
Indices: 9672841--9672886 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
9672831 AAAAATAAAT
9672841 ATATATATCAA
1 ATATATATCAA
*
9672852 ATATATATTC-T
1 ATATATA-TCAA
*
9672863 ATATTTATCAA
1 ATATATATCAA
9672874 ATATATATCAA
1 ATATATATCAA
9672885 AT
1 AT
9672887 GAAGGACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 25 0.86
12 2 0.07
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (11 bp):
ATATATATCAA
Found at i:9672871 original size:22 final size:22
Alignment explanation
Indices: 9672840--9672881 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9672830 AAAAAATAAA
9672840 TATATATATCAAATATATATTC
1 TATATATATCAAATATATATTC
*
9672862 TATATTTATCAAATATATAT
1 TATATATATCAAATATATAT
9672882 CAAATGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATATATCAAATATATATTC
Found at i:9680211 original size:19 final size:19
Alignment explanation
Indices: 9680184--9680245 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
9680174 AAAATTCTAA
* *
9680184 AAAACTTTTTAAAAATTTT
1 AAAATTTTTTAAAAATTAT
*
9680203 AAAATTTTTTTAAAAAATAT
1 AAAA-TTTTTTAAAAATTAT
* * *
9680223 GAAATATTTTAAAAATAAT
1 AAAATTTTTTAAAAATTAT
9680242 AAAA
1 AAAA
9680246 AATTAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAATTTTTTAAAAATTAT
Found at i:9680232 original size:21 final size:20
Alignment explanation
Indices: 9680189--9680249 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
9680179 TCTAAAAAAC
* *
9680189 TTTTTAAAAATTTTAAAATT
1 TTTTTAAAAAATATAAAATT
* *
9680209 TTTTTAAAAAATATGAAATA
1 TTTTTAAAAAATATAAAATT
* *
9680229 TTTTAAAAATAATAAAAAATT
1 TTTTTAAAA-AATATAAAATT
9680250 AAAAAATGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 24 0.75
21 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTTTAAAAAATATAAAATT
Found at i:9680263 original size:34 final size:35
Alignment explanation
Indices: 9680215--9680287 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
9680205 AATTTTTTTA
9680215 AAAAATATGAAATA-TTTTAAAAATAATAAAAAATT
1 AAAAATATGAAATATTTTTAAAAATAAT-AAAAATT
* *
9680250 AAAAA-ATGAAATATTTTTAGAAATTATAAAAATT
1 AAAAATATGAAATATTTTTAAAAATAATAAAAATT
9680284 AAAA
1 AAAA
9680288 GGAATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 19 0.54
35 16 0.46
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (35 bp):
AAAAATATGAAATATTTTTAAAAATAATAAAAATT
Found at i:9680433 original size:23 final size:23
Alignment explanation
Indices: 9680399--9680448 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
9680389 AAAAAGATTC
9680399 AAAAAAACTTAAAATTTTGAAAA
1 AAAAAAACTTAAAATTTTGAAAA
*
9680422 TAAAAAAA-TTAAAATTTTTAAAA
1 -AAAAAAACTTAAAATTTTGAAAA
9680445 AAAA
1 AAAA
9680449 TTTAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.16
23 14 0.56
24 7 0.28
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAAAACTTAAAATTTTGAAAA
Found at i:9680530 original size:18 final size:18
Alignment explanation
Indices: 9680499--9680537 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9680489 AAGAATTTTT
* * *
9680499 AAAAATTCTCAAAATTAA
1 AAAAAATCTAAAAACTAA
9680517 AAAAAATCTAAAAACTAA
1 AAAAAATCTAAAAACTAA
9680535 AAA
1 AAA
9680538 TTTTCATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATCTAAAAACTAA
Found at i:9680676 original size:20 final size:20
Alignment explanation
Indices: 9680651--9680688 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9680641 TTTACAATTA
9680651 AAAAAAGTTTAGATTTTTTC
1 AAAAAAGTTTAGATTTTTTC
*
9680671 AAAAAATTTTAGATTTTT
1 AAAAAAGTTTAGATTTTT
9680689 ATTATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (20 bp):
AAAAAAGTTTAGATTTTTTC
Found at i:9680837 original size:18 final size:19
Alignment explanation
Indices: 9680797--9680837 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9680787 TTTTTCGATT
* *
9680797 TTTTTTTAAAATTTTGAGA
1 TTTTTTGAAAATTTTAAGA
9680816 TTTTTTGAAAATTTTAAG-
1 TTTTTTGAAAATTTTAAGA
9680834 TTTT
1 TTTT
9680838 CATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTTTTGAAAATTTTAAGA
Found at i:9680855 original size:36 final size:36
Alignment explanation
Indices: 9680815--9680902 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 36
9680805 AAATTTTGAG
* *
9680815 ATTTTTTGAAAATTTTAAGTTTTCA-TATATTTTACA
1 ATTTTTTAAAAATTTT-AGTTTTCACTATATTTTAAA
* * * * *
9680851 ATTTTTTTAATATTTTATTTTTTACTATTTTTTAAA
1 ATTTTTTAAAAATTTTAGTTTTCACTATATTTTAAA
*
9680887 ATATTTTAAAAATTTT
1 ATTTTTTAAAAATTTT
9680903 TTAAAATTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 6 0.14
36 36 0.86
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (36 bp):
ATTTTTTAAAAATTTTAGTTTTCACTATATTTTAAA
Found at i:9680873 original size:26 final size:27
Alignment explanation
Indices: 9680844--9680894 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
9680834 TTTTCATATA
*
9680844 TTTTACAATTTTTT-TAATATTTTATT
1 TTTTACAATTTTTTAAAATATTTTATT
*
9680870 TTTTACTATTTTTTAAAATATTTTA
1 TTTTACAATTTTTTAAAATATTTTA
9680895 AAAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTACAATTTTTTAAAATATTTTATT
Found at i:9680882 original size:27 final size:26
Alignment explanation
Indices: 9680844--9680894 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
9680834 TTTTCATATA
**
9680844 TTTTACAATTTTTTTAATATTTTATT
1 TTTTACAATTTTTAAAATATTTTATT
*
9680870 TTTTACTATTTTTTAAAATATTTTA
1 TTTTAC-AATTTTTAAAATATTTTA
9680895 AAAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTACAATTTTTAAAATATTTTATT
Found at i:9680893 original size:11 final size:10
Alignment explanation
Indices: 9680867--9680935 Score: 68
Period size: 10 Copynumber: 6.7 Consensus size: 10
9680857 TTAATATTTT
**
9680867 ATTTTTTACT
1 ATTTTTTAAA
9680877 ATTTTTTAAA
1 ATTTTTTAAA
*
9680887 ATATTTTAAAA
1 AT-TTTTTAAA
9680898 ATTTTTTAAA
1 ATTTTTTAAA
9680908 ATTTTTGT-AA
1 ATTTTT-TAAA
*
9680918 ATTATTTAAAA
1 ATT-TTTTAAA
9680929 ATTTTTT
1 ATTTTTT
9680936 TTCATGCTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
10 31 0.63
11 18 0.37
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:9682211 original size:28 final size:28
Alignment explanation
Indices: 9682169--9682233 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
9682159 TTGAACATAT
9682169 ATTTCTATTAGTTCTATAAATGCAACCA
1 ATTTCTATTAGTTCTATAAATGCAACCA
* *
9682197 TTTTCTATT-GCTTCTATAAATTCAACCA
1 ATTTCTATTAG-TTCTATAAATGCAACCA
9682225 ATTTC-ATTA
1 ATTTCTATTA
9682234 TCAAATTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (28 bp):
ATTTCTATTAGTTCTATAAATGCAACCA
Found at i:9683557 original size:31 final size:31
Alignment explanation
Indices: 9683519--9683599 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
9683509 GTATAAATTA
*
9683519 AAATATTTAATCCTAAATTGAGTAACTACCC
1 AAATATTTAATCCTAAATTGAGTAACCACCC
*
9683550 AAATATTTAATCATAAATTGAGTAACCACCC
1 AAATATTTAATCCTAAATTGAGTAACCACCC
* *
9683581 AAACATTTAATCCCAAATT
1 AAATATTTAATCCTAAATT
9683600 TAGCATTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (31 bp):
AAATATTTAATCCTAAATTGAGTAACCACCC
Found at i:9688099 original size:16 final size:17
Alignment explanation
Indices: 9688078--9688112 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9688068 GTCATTTCAG
9688078 TTCGGTT-TAATCGATT
1 TTCGGTTGTAATCGATT
*
9688094 TTCGGTTGTAATCGGTT
1 TTCGGTTGTAATCGATT
9688111 TT
1 TT
9688113 AAGATCGGTT
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:0.14, C:0.11, G:0.23, T:0.51
Consensus pattern (17 bp):
TTCGGTTGTAATCGATT
Found at i:9689818 original size:29 final size:29
Alignment explanation
Indices: 9689752--9689840 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
9689742 AATAATTGTG
* *
9689752 TGAATATTACTTTATTATTT-TTTCATTATT
1 TGAATATAATTTTATT-TTTATTT-ATTATT
9689782 TGAATATAATTTTATTTTTATTTATTATT
1 TGAATATAATTTTATTTTTATTTATTATT
* * *
9689811 TTAATATAATTTAATTTTTTATTTTTTATT
1 TGAATATAATTTTA-TTTTTATTTATTATT
9689841 CTTTGGATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 21 0.40
30 31 0.60
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (29 bp):
TGAATATAATTTTATTTTTATTTATTATT
Found at i:9689851 original size:33 final size:31
Alignment explanation
Indices: 9689766--9689855 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 31
9689756 TATTACTTTA
*
9689766 TTATTTTTTCATTATTTGAATATAATTTTATTT
1 TTATTTTTT-ATT-TTTGAATATAATTTAATTT
*
9689799 TTATTTATTA-TTTT-AATATAATTTAATTTT
1 TTATTTTTTATTTTTGAATATAATTTAA-TTT
*
9689829 TTATTTTTTATTCTTTGGATATAATTT
1 TTATTTTTTATT-TTTGAATATAATTT
9689856 GATCACTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 11 0.22
30 15 0.31
31 2 0.04
32 4 0.08
33 17 0.35
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (31 bp):
TTATTTTTTATTTTTGAATATAATTTAATTT
Found at i:9693158 original size:18 final size:19
Alignment explanation
Indices: 9693113--9693152 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
9693103 TTTTATATTT
9693113 ATATTTATATTAAAAAATA
1 ATATTTATATTAAAAAATA
9693132 ATAATTTATATTTAAAAAATA
1 AT-ATTTATA-TTAAAAAATA
9693153 TTTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 7 0.37
21 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATTTATATTAAAAAATA
Found at i:9693166 original size:21 final size:21
Alignment explanation
Indices: 9693107--9693166 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
9693097 ATTTAATTTT
*
9693107 ATATTTATATTTATATTAAAAA
1 ATATTT-TATTTATTTTAAAAA
* *
9693129 ATA-ATAATTTATATTTAAAAA
1 ATATTTTATTTAT-TTTAAAAA
*
9693150 ATATTTTATTAATTTTA
1 ATATTTTATTTATTTTA
9693167 GATCAGATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 6 0.20
21 15 0.50
22 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTTTATTTATTTTAAAAA
Found at i:9693736 original size:15 final size:14
Alignment explanation
Indices: 9693696--9693739 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9693686 ATAATTTTGT
*
9693696 TAATAAATATTTGAA
1 TAATAAATA-TTAAA
9693711 -AATAAATATTAAA
1 TAATAAATATTAAA
9693724 TAATAATATATTAAA
1 TAATAA-ATATTAAA
9693739 T
1 T
9693740 GATTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.15
14 13 0.50
15 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TAATAAATATTAAA
Found at i:9695479 original size:65 final size:64
Alignment explanation
Indices: 9695323--9695524 Score: 234
Period size: 65 Copynumber: 3.1 Consensus size: 64
9695313 CATTTTAAGG
* * *
9695323 TTTTATTTTTCAAGAAAAACTTATACTTTCAACTTTTTTCTCAAAA-A--TATTT-TTTTTGAAA
1 TTTTATTTTT-AAGGAAAACTTATACTTTCAAC-TTTTCCTCAAAATATTTTTTTATTTTTGAAA
9695384 A
64 A
* * * *
9695385 TTTTATTTTCAA-GAAAAATTAATATTTTCAACTTTTCCTCAAAATATTTTTTGTATTTTTCAAA
1 TTTTATTTTTAAGGAAAACTT-ATACTTTCAACTTTTCCTCAAAATATTTTTT-TATTTTTGAAA
9695449 A
64 A
* *
9695450 TTTTATTTTTAAGGAAAACTTATACTTTCAACTTTTCTTTAAAAATATTTTTTTTATTTTTGAAA
1 TTTTATTTTTAAGGAAAACTTATACTTTCAACTTTTC-CTCAAAATA-TTTTTTTATTTTTGAAA
9695515 A
64 A
9695516 TTTTATTTT
1 TTTTATTTT
9695525 ATATTATTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
60 17 0.14
61 13 0.11
62 9 0.08
63 3 0.03
64 1 0.01
65 35 0.30
66 34 0.29
67 6 0.05
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.53
Consensus pattern (64 bp):
TTTTATTTTTAAGGAAAACTTATACTTTCAACTTTTCCTCAAAATATTTTTTTATTTTTGAAAA
Found at i:9695525 original size:65 final size:67
Alignment explanation
Indices: 9695323--9695524 Score: 237
Period size: 66 Copynumber: 3.1 Consensus size: 67
9695313 CATTTTAAGG
*
9695323 TTTTATTTTTCAAGAAAAACTTATACTTTCAACTTTT-TTCTCAAAAATA-----TTT-TTTTTG
1 TTTTATTTTTCAAGGAAAACTTATACTTTCAACTTTTCTT-T-AAAAATATTTTTTTTATTTTTG
9695381 AAAA
64 AAAA
* * * * * *
9695385 TTTTA-TTTTCAA-GAAAAATTAATATTTTCAACTTTTC-CTCAAAATATTTTTTGTATTTTTCA
1 TTTTATTTTTCAAGGAAAACTT-ATACTTTCAACTTTTCTTTAAAAATATTTTTTTTATTTTTGA
9695447 AAA
65 AAA
9695450 TTTTATTTTT-AAGGAAAACTTATACTTTCAACTTTTCTTTAAAAATATTTTTTTTATTTTTGAA
1 TTTTATTTTTCAAGGAAAACTTATACTTTCAACTTTTCTTTAAAAATATTTTTTTTATTTTTGAA
9695514 AA
66 AA
9695516 TTTTATTTT
1 TTTTATTTT
9695525 ATATTATTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
59 6 0.05
60 7 0.06
61 21 0.18
62 5 0.04
64 2 0.02
65 31 0.27
66 44 0.38
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.53
Consensus pattern (67 bp):
TTTTATTTTTCAAGGAAAACTTATACTTTCAACTTTTCTTTAAAAATATTTTTTTTATTTTTGAA
AA
Found at i:9697304 original size:46 final size:46
Alignment explanation
Indices: 9697237--9697416 Score: 231
Period size: 46 Copynumber: 3.9 Consensus size: 46
9697227 GGTTTTACAT
* *
9697237 CTCAAAGATACTCATTTGAAAATGTCTTAAA-AGTTTTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGA-TTTTCATTTAAGA
* * *
9697283 CTCAAATATGCTCATTTGAAAACGTCTTAAAGATTCTCATTTGAA-A
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTTTCATTT-AAGA
* *
9697329 CTCAAAGATTCTTATTTGAAAATGTCTTAAAGATTCTT-ATTTAAGA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATT-TTCATTTAAGA
* *
9697375 TTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTTTTATTT
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTTTCATTT
9697417 GGAAATGTCT
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
45 4 0.03
46 109 0.93
47 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTTTCATTTAAGA
Found at i:9697417 original size:92 final size:92
Alignment explanation
Indices: 9697237--9697409 Score: 269
Period size: 92 Copynumber: 1.9 Consensus size: 92
9697227 GGTTTTACAT
*
9697237 CTCAAAGATACTCATTTGAAAATGTCTTAAAAGTTTTCATTTAAGACTCAAATATGCTCATTTGA
1 CTCAAAGATACTCATTTGAAAATGTCTTAAAAGTTTTCATTTAAGACTCAAAGATGCTCATTTGA
9697302 AAACGTCTTAAAGATTCTCATTTGAAA
66 AAACGTCTTAAAGATTCTCATTTGAAA
* * * *
9697329 CTCAAAGATTCTTATTTGAAAATGTCTT-AAAGATTCTT-ATTTAAGATTCAAAGATTCTCATTT
1 CTCAAAGATACTCATTTGAAAATGTCTTAAAAG-TT-TTCATTTAAGACTCAAAGATGCTCATTT
9697392 GAAAACGTCTTAAAGATT
64 GAAAACGTCTTAAAGATT
9697410 TTTATTTGGA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
91 4 0.05
92 68 0.92
93 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (92 bp):
CTCAAAGATACTCATTTGAAAATGTCTTAAAAGTTTTCATTTAAGACTCAAAGATGCTCATTTGA
AAACGTCTTAAAGATTCTCATTTGAAA
Found at i:9697453 original size:46 final size:46
Alignment explanation
Indices: 9697378--9697741 Score: 453
Period size: 46 Copynumber: 7.8 Consensus size: 46
9697368 TTTAAGATTC
* * *
9697378 AAAGATTCTCATTTGAAAACGTCTTAAAGATTTTTATTTGGAAATGTCTT
1 AAAGATTCTCATTT-AAAAC-TC--AAAGATTCTCATTTGAAAATGTCTT
* *
9697428 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
* * **
9697474 AAAGATTTTCATTTGAAACTCAAAGATTCTCATTTGAAAACATCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
* *
9697520 AAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAA-GTTTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
9697565 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTT-AAGAATGTCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAA-AATGTCTT
* * *
9697611 AAAGATTCTCATTTAAAACTCAAAGGTTCTCATTTGAAAGTGTTTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
* * *
9697657 AAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAACGTCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
* * *
9697703 AAAGATTTTTATTTGAAAACATCTTAAATATTCTCATTT
1 AAAGATTCTCATTT-AAAAC-TC--AAAGATTCTCATTT
9697742 AAGACTCAAA
Statistics
Matches: 279, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.01
45 39 0.14
46 198 0.71
47 6 0.02
48 4 0.01
49 4 0.01
50 26 0.09
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (46 bp):
AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
Found at i:9697453 original size:92 final size:89
Alignment explanation
Indices: 9697273--9697756 Score: 394
Period size: 92 Copynumber: 5.2 Consensus size: 89
9697263 TTAAAAGTTT
* * * * *
9697273 TCATTT-AAGACTCAAATATGCTCATTTGAAAACGTCTTAAAGATTCTCATTTGAAA---CTCAA
1 TCATTTAAAGATTCAAAGATTCTCATTTGAAAAC-TC--AAAGATTCTCATTTAAAATGTCTTAA
* *
9697334 AGATTCTTATTTGAAAATGTCTTAAAGATTC
63 AGATTCTCATTT-AAAA---CTCAAAGATTC
* * * *
9697365 TTATTT-AAGATTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTTTTATTTGGAAATGTCTTA
1 TCATTTAAAGATTCAAAGATTCTCATTTGAAAAC-TC--AAAGATTCTCATTT-AAAATGTCTTA
*
9697429 AAGATTCTCATTTAAGACTCAAAGATTC
62 AAGATTCTCATTTAAAACTCAAAGATTC
* **
9697457 TCATTTGAAA-ATATCTTAAAGATTTTCATTTG-AAACTCAAAGATTCTCATTTGAAAACATCTT
1 TCATTT-AAAGAT-TC--AAAGATTCTCATTTGAAAACTCAAAGATTCTCATTT-AAAATGTCTT
*
9697520 AAAAATTCTCATTTAAAACTCAAAGATTC
61 AAAGATTCTCATTTAAAACTCAAAGATTC
* *
9697549 TCATTTGAAAAGTTTTAAAGATTCTCATTT-AAAACTCAAAGATTCTCATTTAAGAATGTCTTAA
1 TCATTT--AAAGATTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTAA-AATGTCTTAA
*
9697613 AGATTCTCATTTAAAACTCAAAGGTTC
63 AGATTCTCATTTAAAACTCAAAGATTC
* * * * *
9697640 TCATTTGAAAGTGTTTTAAAGATTCTCATTT-AAGACTCAAAGGTTCTCATTTGAAAACGTCTTA
1 TCATTT-AAA--GATTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTT-AAAATGTCTTA
* * *
9697704 AAGATTTTTATTTGAAAACATCTTAAATATTC
62 AAGATTCTCATTT-AAAAC-TC--AAAGATTC
* *
9697736 TCATTT-AAGACTCAAAAATTC
1 TCATTTAAAGATTCAAAGATTC
9697757 ATCAAAATAC
Statistics
Matches: 333, Mismatches: 39, Indels: 40
0.81 0.09 0.10
Matches are distributed among these distances:
90 5 0.02
91 72 0.22
92 180 0.54
93 17 0.05
94 11 0.03
95 7 0.02
96 41 0.12
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (89 bp):
TCATTTAAAGATTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTAAAATGTCTTAAAGA
TTCTCATTTAAAACTCAAAGATTC
Found at i:9697545 original size:163 final size:161
Alignment explanation
Indices: 9697240--9697649 Score: 494
Period size: 163 Copynumber: 2.5 Consensus size: 161
9697230 TTTACATCTC
* * *
9697240 AAAGATACTCATTTGAAAATGTCTTAAA-AGTTTTCATTTAAGACTCAAATATGCTCATTTGAAA
1 AAAGATTCTCATTTG-AAATGTCTTAAAGA-TTCTCATTTAAGACTCAAAGATGCTCATTTGAAA
* * ** * *
9697304 ACGTCTTAAAGATTCTCATTTGAAACTCAAAGATTCTTATTTGAAAATGTCTTAAAGATTCTTAT
64 ACATCTTAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAACATCTTAAAAATTCTCAT
* *
9697369 TTAAGATTCAAAGATTCTCATTTGAAAACGTCTT
129 TTAAAACTCAAAGATTCTCATTTGAAAA-GTCTT
* * *
9697403 AAAGATTTTTATTTGGAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
1 AAAGATTCTCATTT-GAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATGCTCATTTGAAAA
* *
9697468 TATCTTAAAGATTTTCATTTGAAACTCAAAGATTCTCATTTGAAAACATCTTAAAAATTCTCATT
65 CATCTTAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAACATCTTAAAAATTCTCATT
*
9697533 TAAAACTCAAAGATTCTCATTTGAAAAGTTTT
130 TAAAACTCAAAGATTCTCATTTGAAAAGTCTT
* * * *
9697565 AAAGATTCTCATTT-AAA--ACTCAAAGATTCTCATTTAAGAATGTCTTAAAGATTCTCATTT-A
1 AAAGATTCTCATTTGAAATGTCTTAAAGATTCTCATTTAAG-A---CTCAAAGATGCTCATTTGA
*
9697626 AAAC-TC--AAAGGTTCTCATTTGAAA
62 AAACATCTTAAAGATTCTCATTTGAAA
9697650 GTGTTTTAAA
Statistics
Matches: 216, Mismatches: 25, Indels: 17
0.84 0.10 0.07
Matches are distributed among these distances:
158 35 0.16
159 1 0.00
160 5 0.02
161 4 0.02
162 32 0.15
163 137 0.63
164 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (161 bp):
AAAGATTCTCATTTGAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATGCTCATTTGAAAAC
ATCTTAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAACATCTTAAAAATTCTCATTT
AAAACTCAAAGATTCTCATTTGAAAAGTCTT
Found at i:9697611 original size:137 final size:137
Alignment explanation
Indices: 9697382--9697745 Score: 451
Period size: 137 Copynumber: 2.6 Consensus size: 137
9697372 AGATTCAAAG
* * * *
9697382 ATTCTCATTTGAAAACGTCTTAAAGATTTTTATTTGGAAATGTCTTAAAGATTCTCATTTAAGAC
1 ATTCTCATTT-AAAAC-TC--AAAGATTCTCATTT-GAAAAGTCTTAAAGATTCTCATTTAAAAC
* *
9697447 TCAAAGATTCTCATTTGAA-AATATCTTAAAGATTTTCATTTGAAACTCAAAGATTCTCATTTGA
61 TCAAAGATTCTCATTT-AAGAATATCTTAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGA
9697511 AAACATCTTAAAA
125 AAACATCTTAAAA
*
9697524 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAAGTTTTAAAGATTCTCATTTAAAACTCAAA
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAAGTCTTAAAGATTCTCATTTAAAACTCAAA
* * ***
9697589 GATTCTCATTTAAGAATGTCTTAAAGATTCTCATTTAAAACTCAAAGGTTCTCATTTGAAAGTGT
66 GATTCTCATTTAAGAATATCTTAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACAT
* *
9697654 TTTAAAG
131 CTTAAAA
* * * *
9697661 ATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAACGTCTTAAAGATTTTTATTTGAAAACATC
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAA-GTCTTAAAGATTCTCATTT-AAAAC-TC
*
9697726 TTAAATATTCTCATTTAAGA
63 --AAAGATTCTCATTTAAGA
9697746 CTCAAAAATT
Statistics
Matches: 196, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
136 2 0.01
137 125 0.64
138 28 0.14
139 5 0.03
140 4 0.02
141 5 0.03
142 27 0.14
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (137 bp):
ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAAGTCTTAAAGATTCTCATTTAAAACTCAAA
GATTCTCATTTAAGAATATCTTAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAACAT
CTTAAAA
Found at i:9697717 original size:71 final size:68
Alignment explanation
Indices: 9697308--9697756 Score: 350
Period size: 71 Copynumber: 6.5 Consensus size: 68
9697298 TTGAAAACGT
* * *
9697308 CTTAAAGATTCTCATTTGAA-ACTCAAAGATTCTTATTTGAAAATGTCTTAAAGATTCTTATTT-
1 CTTAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTA
9697371 AAGA
65 AAGA
* * * * *
9697375 -TTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTTTTATTTGGAAATGTCTTAAAGATTCTCA
1 CTT-AAAGATTCTCATTT-AAGAC-TC--AAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCA
9697439 TTT-AAGA
61 TTTAAAGA
* * * *
9697446 CTCAAAGATTCTCATTTGAAAATATCTTAAAGATTTTCATTTG-AAAC-TC--AAAGATTCTCAT
1 CTTAAAGATTCTCATTT---AAGA-CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCAT
*
9697507 TTGAAAACA
62 TT--AAAGA
* * *
9697516 TCTTAAAAATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAA-GTTTTAAAGATTCTCATTTA
1 -CTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTA
9697580 AA-A
65 AAGA
* * *
9697583 CTCAAAGATTCTCATTTAAGAATGTCTTAAAGATTCTCATTT-AAAAC-TC--AAAGGTTCTCAT
1 CTTAAAGATTCTCATTTAAG-A---CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCAT
*
9697644 TTGAAAGTGT
62 TT-AAA--GA
* * * *
9697654 TTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAACGTCTTAAAGATTTTTATTTGA
1 CTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTT--
*
9697719 AAACA
64 AAAGA
* *
9697724 TCTTAAATATTCTCATTTAAGACTCAAAAATTC
1 -CTTAAAGATTCTCATTTAAGACTCAAAGATTC
9697757 ATCAAAATAC
Statistics
Matches: 313, Mismatches: 37, Indels: 60
0.76 0.09 0.15
Matches are distributed among these distances:
66 19 0.06
67 77 0.25
68 20 0.06
69 11 0.04
70 37 0.12
71 140 0.45
72 4 0.01
73 4 0.01
74 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (68 bp):
CTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAA
AGA
Found at i:9698809 original size:10 final size:10
Alignment explanation
Indices: 9698794--9698896 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 10
9698784 TCGAGTCTTC
9698794 CTTTTCTTTT
1 CTTTTCTTTT
*
9698804 CTTTTCATCTT
1 CTTTTC-TTTT
**
9698815 -TTTTCCATT
1 CTTTTCTTTT
*
9698824 CGTTCATCTTTT
1 C-TT-TTCTTTT
*
9698836 CATTTTTTTTT
1 C-TTTTCTTTT
*
9698847 CTTTT-TTCT
1 CTTTTCTTTT
*
9698856 CTTTTTTTTT
1 CTTTTCTTTT
9698866 CTTTT-TTTT
1 CTTTTCTTTT
*
9698875 CTCTTTTTTTT
1 CT-TTTCTTTT
9698886 CTCTTTCTTTT
1 CT-TTTCTTTT
9698897 TTCTTTTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
9 16 0.22
10 26 0.35
11 25 0.34
12 7 0.09
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (10 bp):
CTTTTCTTTT
Found at i:9698864 original size:21 final size:22
Alignment explanation
Indices: 9698838--9698949 Score: 131
Period size: 21 Copynumber: 5.0 Consensus size: 22
9698828 CATCTTTTCA
9698838 TTTTTTT-TTCTTTTTTCTCTT
1 TTTTTTTCTTCTTTTTTCTCTT
9698859 TTTTTTTCTT-TTTTTTCTCTT
1 TTTTTTTCTTCTTTTTTCTCTT
9698880 TTTTTTCTCTTTCTTTTTTCT-TT
1 TTTTTT-TC-TTCTTTTTTCTCTT
* *
9698903 TTTTTTTCATCTTTTTTCATCCT
1 TTTTTTTCTTCTTTTTTC-TCTT
* *
9698926 TTTTTTTCTTGTTTTCTCATCTT
1 TTTTTTTCTTCTTTTTTC-TCTT
9698949 T
1 T
9698950 CACCTATTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
21 33 0.42
22 7 0.09
23 31 0.39
24 8 0.10
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (22 bp):
TTTTTTTCTTCTTTTTTCTCTT
Found at i:9698893 original size:45 final size:47
Alignment explanation
Indices: 9698844--9698934 Score: 143
Period size: 45 Copynumber: 2.0 Consensus size: 47
9698834 TTCATTTTTT
*
9698844 TTTCTTTTTTCTCTTTTTTTTTC-TTTTTTTTC-T-CTTTTTTTTCTC
1 TTTCTTTTTTCT-TTTTTTTTTCATCTTTTTTCATCCTTTTTTTTCTC
9698889 TTTCTTTTTTCTTTTTTTTTTCATCTTTTTTCATCCTTTTTTTTCT
1 TTTCTTTTTTCTTTTTTTTTTCATCTTTTTTCATCCTTTTTTTTCT
9698935 TGTTTTCTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 10 0.24
45 20 0.48
46 1 0.02
47 11 0.26
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (47 bp):
TTTCTTTTTTCTTTTTTTTTTCATCTTTTTTCATCCTTTTTTTTCTC
Found at i:9698908 original size:10 final size:10
Alignment explanation
Indices: 9698832--9698940 Score: 103
Period size: 11 Copynumber: 10.1 Consensus size: 10
9698822 TTCGTTCATC
9698832 TTTTCATTTTT
1 TTTTC-TTTTT
9698843 TTTTC-TTTT
1 TTTTCTTTTT
*
9698852 TTCTCTTTTT
1 TTTTCTTTTT
9698862 TTTTCTTTTT
1 TTTTCTTTTT
9698872 TTTCTCTTTTT
1 TTT-TCTTTTT
9698883 TTTCTCTTTCTT
1 TTT-TCTTT-TT
9698895 TTTTCTTTTTT
1 TTTTC-TTTTT
9698906 TTTTCATCTTTT
1 TTTTC-T-TTTT
* *
9698918 TTCATCCTTTT
1 TT-TTCTTTTT
9698929 TTTTCTTGTTT
1 TTTTCTT-TTT
9698940 T
1 T
9698941 CTCATCTTTC
Statistics
Matches: 84, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.10
10 19 0.23
11 41 0.49
12 14 0.17
13 2 0.02
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.81
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:9698929 original size:1 final size:1
Alignment explanation
Indices: 9698838--9698909 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
9698828 CATCTTTTCA
* * * * * * * * * *
9698838 TTTTTTTTTCTTTTTTCTCTTTTTTTTTCTTTTTTTTCTCTTTTTTTTCTCTTTCTTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9698903 TTTTTTT
1 TTTTTTT
9698910 CATCTTTTTT
Statistics
Matches: 51, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:9698946 original size:33 final size:33
Alignment explanation
Indices: 9698846--9698949 Score: 140
Period size: 33 Copynumber: 3.2 Consensus size: 33
9698836 CATTTTTTTT
9698846 TCTTTTTTCTCTTTTTTTTTCTTTTTTTTCTC-
1 TCTTTTTTCTCTTTTTTTTTCTTTTTTTTCTCA
* *
9698878 TTTTTTTTCTCTTTCTTTTTTCTTTTTTTTTTCA
1 TCTTTTTTCTCTTT-TTTTTTCTTTTTTTTCTCA
* *
9698912 TCTTTTTTCATCCTTTTTTTTC-TTGTTTTCTCA
1 TCTTTTTTC-TCTTTTTTTTTCTTTTTTTTCTCA
9698945 TCTTT
1 TCTTT
9698950 CACCTATTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
32 13 0.21
33 31 0.49
34 15 0.24
35 4 0.06
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (33 bp):
TCTTTTTTCTCTTTTTTTTTCTTTTTTTTCTCA
Found at i:9699316 original size:16 final size:15
Alignment explanation
Indices: 9699295--9699336 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
9699285 ATGTGTGGTA
9699295 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTTC-TTT
*
9699311 TTTTTCTTTTACTTT
1 TTTTTCTTTTTCTTT
9699326 TTTTTCTTTTT
1 TTTTTCTTTTT
9699337 TCGTCTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTCTTT
Found at i:9703085 original size:60 final size:60
Alignment explanation
Indices: 9702958--9703134 Score: 293
Period size: 60 Copynumber: 2.9 Consensus size: 60
9702948 CATTTTAAGG
9702958 TTTTATTTTTCAAGAAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTTTGAAAA
1 TTTTA-TTTTCAAGAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTGAAAA
9703020 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAA
1 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAA
* * *
9703080 TTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCAAT-AAAAATATTTTTTTT
1 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTTTT
9703135 TATTTTTAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
60 78 0.70
61 28 0.25
62 5 0.05
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (60 bp):
TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAA
Found at i:9703164 original size:11 final size:11
Alignment explanation
Indices: 9703125--9703164 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
9703115 TCAATAAAAA
9703125 TATTTTT-TTT
1 TATTTTTATTT
9703135 TATTTTTAATTT
1 TATTTTT-ATTT
*
9703147 TATTTTTATAT
1 TATTTTTATTT
9703158 TATTTTT
1 TATTTTT
9703165 TTCTATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 7 0.26
11 10 0.37
12 10 0.37
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:9704050 original size:20 final size:20
Alignment explanation
Indices: 9704025--9704067 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
9704015 AAAGCTAATT
*
9704025 ATAAATCCAA-TAAAAAATAG
1 ATAAAT-CAACTAAAAAAAAG
9704045 ATAAATCAACTAAAAAAAAG
1 ATAAATCAACTAAAAAAAAG
9704065 ATA
1 ATA
9704068 GATAAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.67, C:0.09, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAAATCAACTAAAAAAAAG
Found at i:9704899 original size:18 final size:18
Alignment explanation
Indices: 9704872--9704906 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9704862 TTATACGAGT
*
9704872 ACACGCTTAATATATTTA
1 ACACGCTTAACATATTTA
*
9704890 ACACGTTTAACATATTT
1 ACACGCTTAACATATTT
9704907 TTTATATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (18 bp):
ACACGCTTAACATATTTA
Found at i:9705201 original size:29 final size:29
Alignment explanation
Indices: 9705150--9705217 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
9705140 TTTTGAACTT
*
9705150 AATATTAAAATTAATATAGTTATGTAATATA
1 AATATTAAATTTAATATAGTTAT-TAA-ATA
*
9705181 AAT-TTAAATTTAA-ATATTTATTAAATA
1 AATATTAAATTTAATATAGTTATTAAATA
*
9705208 CATATTAAAT
1 AATATTAAAT
9705218 GAGTATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 5 0.15
28 9 0.27
29 7 0.21
30 9 0.27
31 3 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (29 bp):
AATATTAAATTTAATATAGTTATTAAATA
Found at i:9705480 original size:21 final size:18
Alignment explanation
Indices: 9705454--9705493 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
9705444 TTAATTATAC
9705454 ATGTGTTAATCATATTATATT
1 ATGTG-TAAT-ATA-TATATT
9705475 ATGTGTAATATATATATT
1 ATGTGTAATATATATATT
9705493 A
1 A
9705494 AACATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 3 0.16
20 4 0.21
21 5 0.26
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (18 bp):
ATGTGTAATATATATATT
Found at i:9706453 original size:15 final size:15
Alignment explanation
Indices: 9706424--9706470 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
9706414 AAAAATTGAG
9706424 TTTTTATAATTT-TT
1 TTTTTATAATTTATT
*
9706438 TATTT-TAATTTATT
1 TTTTTATAATTTATT
*
9706452 TTTTTATATTTTATT
1 TTTTTATAATTTATT
9706467 TTTT
1 TTTT
9706471 CAAACTAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.21
14 10 0.36
15 12 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATAATTTATT
Found at i:9706485 original size:35 final size:35
Alignment explanation
Indices: 9706453--9706522 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
9706443 TAATTTATTT
*
9706453 TTTTATATTTTATTTTTTCAAA-CTAAAGTTTATAA
1 TTTTATATTTTATTTTTTAAAATC-AAAGTTTATAA
9706488 TTTTATATTTTATTTTTTAAAATCAAAGTTTATAA
1 TTTTATATTTTATTTTTTAAAATCAAAGTTTATAA
9706523 GTATTTCAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (35 bp):
TTTTATATTTTATTTTTTAAAATCAAAGTTTATAA
Found at i:9708337 original size:20 final size:22
Alignment explanation
Indices: 9708308--9708350 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
9708298 TCATAATTTT
9708308 AAAATATTAA-AATTT-ATAAA
1 AAAATATTAATAATTTGATAAA
*
9708328 AAAATTTTAATAATTTGATAAA
1 AAAATATTAATAATTTGATAAA
9708350 A
1 A
9708351 TTTATGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 5 0.25
22 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAATATTAATAATTTGATAAA
Found at i:9708963 original size:17 final size:17
Alignment explanation
Indices: 9708941--9708980 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
9708931 TCTATGTTTC
* *
9708941 TCCTCCCCTTTGGATCT
1 TCCTCCCCTTCGAATCT
9708958 TCCTCCCCTTCGAATCT
1 TCCTCCCCTTCGAATCT
9708975 TCCTCC
1 TCCTCC
9708981 TCGCCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.07, C:0.47, G:0.07, T:0.38
Consensus pattern (17 bp):
TCCTCCCCTTCGAATCT
Found at i:9715520 original size:63 final size:63
Alignment explanation
Indices: 9715447--9715566 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
9715437 TCTACAGAGG
* * *
9715447 TTCATGATTAATATGTATACATGTTATGCAAATAATCA-AATATGATACTCATTAATTTGGAAT
1 TTCATGATTAATATGTATACATATGATGCAAATAAT-AGAATACGATACTCATTAATTTGGAAT
* *
9715510 TTCATGATTAATATTTATACATATGATGCAAATAATAGAATACGGTACTCATTAATT
1 TTCATGATTAATATGTATACATATGATGCAAATAATAGAATACGATACTCATTAATT
9715567 AATTCATACA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 50 0.98
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (63 bp):
TTCATGATTAATATGTATACATATGATGCAAATAATAGAATACGATACTCATTAATTTGGAAT
Found at i:9718165 original size:5 final size:5
Alignment explanation
Indices: 9718155--9718179 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9718145 ATTAATTAAA
9718155 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
9718180 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:9718341 original size:16 final size:15
Alignment explanation
Indices: 9718320--9718360 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
9718310 ATTATTTTTA
9718320 CAAAATATTTAAATAT
1 CAAAATATTTAAAT-T
9718336 CAAAATA-TTAAATT
1 CAAAATATTTAAATT
*
9718350 GAAAAT-TTTAA
1 CAAAATATTTAA
9718361 TAATTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.43
15 6 0.26
16 7 0.30
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (15 bp):
CAAAATATTTAAATT
Found at i:9718807 original size:35 final size:35
Alignment explanation
Indices: 9718767--9718833 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
9718757 CTTTCCTTTC
* *
9718767 TTTTTTATCTTTTTTATCT-TTTCT-TCATTTTCGA
1 TTTTTTTTCATTTTT-TCTATTTCTATCATTTTCGA
*
9718801 TTTTTTTTCATTTTTTCTATTTTTATCATTTTC
1 TTTTTTTTCATTTTTTCTATTTCTATCATTTTC
9718834 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.11
34 17 0.61
35 8 0.29
ACGTcount: A:0.12, C:0.13, G:0.01, T:0.73
Consensus pattern (35 bp):
TTTTTTTTCATTTTTTCTATTTCTATCATTTTCGA
Found at i:9722785 original size:17 final size:18
Alignment explanation
Indices: 9722762--9722805 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
9722752 TTTACCTACT
*
9722762 TCTCTCTCTTCCTCTCCC
1 TCTCTCTCTTACTCTCCC
**
9722780 -CTCTCTGATACTCTCCC
1 TCTCTCTCTTACTCTCCC
9722797 TCTCTCTCT
1 TCTCTCTCT
9722806 AATCCAGTCG
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.05, C:0.50, G:0.02, T:0.43
Consensus pattern (18 bp):
TCTCTCTCTTACTCTCCC
Found at i:9723580 original size:13 final size:13
Alignment explanation
Indices: 9723564--9723588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9723554 AATTATTACC
9723564 TAAAAATTAAAAT
1 TAAAAATTAAAAT
9723577 TAAAAATTAAAA
1 TAAAAATTAAAA
9723589 GTGATAAATC
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:9723815 original size:12 final size:12
Alignment explanation
Indices: 9723798--9723842 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
9723788 TTATCAATCT
9723798 AAAATTTTATTA
1 AAAATTTTATTA
9723810 AAAATTTTATTA
1 AAAATTTTATTA
9723822 AATTAATTTT-TTA
1 AA--AATTTTATTA
9723835 AAAATTTT
1 AAAATTTT
9723843 TACATACTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.19
12 14 0.45
13 5 0.16
14 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AAAATTTTATTA
Found at i:9723989 original size:54 final size:54
Alignment explanation
Indices: 9723907--9724011 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
9723897 GAAACCTTAC
*
9723907 TACAAAATTTGTCAAAGTTTGGTATTGGTAGGTGACTCGTCATAAATATGGTAG
1 TACAAAATTTGTCAAAGTTTGGTATTGGTAGGTGACTCGTCATAAAAATGGTAG
*
9723961 TACAAAATTTGTCAAAGTTTGGTATTGGTGGGTGACTCGTCATAAAAATGG
1 TACAAAATTTGTCAAAGTTTGGTATTGGTAGGTGACTCGTCATAAAAATGG
9724012 GGTGGAGGCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (54 bp):
TACAAAATTTGTCAAAGTTTGGTATTGGTAGGTGACTCGTCATAAAAATGGTAG
Found at i:9726266 original size:2 final size:2
Alignment explanation
Indices: 9726254--9726289 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9726244 ATAGTTGAGT
* *
9726254 TA TA TA AA TA TA TG 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
9726290 AAGATGTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9729136 original size:3 final size:3
Alignment explanation
Indices: 9729128--9729154 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9729118 AGGTGTTTAC
9729128 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
9729155 TGTAAACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9729212 original size:3 final size:3
Alignment explanation
Indices: 9729198--9729308 Score: 87
Period size: 3 Copynumber: 40.0 Consensus size: 3
9729188 ACCGATTTTC
* *
9729198 ATT ATT ACT ATT ATT TTT A-T ATT A-T ATT A-T ATT ATT ATT -TT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
9729241 ATT -TT ATA AGT ACT A-T AGT A-T AAT ATT -GT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9729285 ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
9729309 CGGTATTATA
Statistics
Matches: 88, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
2 17 0.19
3 71 0.81
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:9730141 original size:18 final size:18
Alignment explanation
Indices: 9730120--9730161 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9730110 TTTGATTTTG
**
9730120 ATTTTTTAATTTTATTGT
1 ATTTTTTAAGCTTATTGT
*
9730138 ATTTTTTAAGCTTATTTT
1 ATTTTTTAAGCTTATTGT
9730156 ATTTTT
1 ATTTTT
9730162 AGTTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTTTTTAAGCTTATTGT
Found at i:9736323 original size:120 final size:120
Alignment explanation
Indices: 9735823--9736382 Score: 387
Period size: 120 Copynumber: 4.7 Consensus size: 120
9735813 TTTTACATCG
* * * * **
9735823 ACTTGATCTTGGTCACTTTATCTCTTAGATTCACGATTTCATCCTAGTCATTTGAT-TTTAGCTC
1 ACTTGATCTTAGTCGCTTTATCTCTTAGACTCA-GATTTCATCCCAGTCATTTGATCTCGA-CTC
* * * * * * **
9735887 AATTCAGATCATTTT-TT-ACCT-CGTAATTTTGTTTCAGTCATTCATTTTTTACCTCA
64 AGTCCAAATCATTTTCTTGACTTAC--AATTTTATCTCAGTCATTCATTTTCAACCTCA
* * * *
9735943 A-TTAATCTTGGTTGCTTTATCTCTTAGACTCATGATTTCATCCC-GATCATTCGATCTCGACTC
1 ACTTGATCTTAGTCGCTTTATCTCTTAGACTCA-GATTTCATCCCAG-TCATTTGATCTCGACTC
* * * * * * * * *
9736006 AATCCATATCATTTTTTTAACTTACAATTTCATCCCAATCATTCATTTTCAATCTCG
64 AGTCCAAATCATTTTCTTGACTTACAATTTTATCTCAGTCATTCATTTTCAACCTCA
* * *
9736063 ACTTGATCTTAGTCGTTTTATCTCTTAGACTCACAGTTGT-GTCCCAGTCATTTGATCTC-AGCT
1 ACTTGATCTTAGTCGCTTTATCTCTTAGACTCAGA-TT-TCATCCCAGTCATTTGATCTCGA-CT
* * * * * ** * * **
9736126 CAGTCTAGATTATTTTCTTGACTCACGATTTTATCTTGGTCATTCATCTTT-GACTTTG
63 CAGTCCAAATCATTTTCTTGACTTACAATTTTATCTCAGTCATTCAT-TTTCAACCTCA
* * * **
9736184 ACTCGGTCTT-GATCACTTTATCT-TTAGACTCATGATTTCAT-CTTGATCATTTGATCTCGACT
1 ACTTGATCTTAG-TCGCTTTATCTCTTAGACTCA-GATTTCATCCCAG-TCATTTGATCTCGACT
* * * * *
9736246 CAGTCCAAATCCTTTTCTTGACTTGCAATTTTGTCTCGGTAATTCATTTTCAACCTCA
63 CAGTCCAAATCATTTTCTTGACTTACAATTTTATCTCAGTCATTCATTTTCAACCTCA
9736304 ACTTGATCCTT-GTCGCTTTATCT-TTAGACT-AGCCA-TTCATCCCAGTCATTTGATCTCGACT
1 ACTTGAT-CTTAGTCGCTTTATCTCTTAGACTCAG--ATTTCATCCCAGTCATTTGATCTCGACT
*
9736365 TAGTCCAAATCACTTTTC
63 CAGTCCAAATCA-TTTTC
9736383 AAATTCGCAG
Statistics
Matches: 344, Mismatches: 74, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
118 2 0.01
119 99 0.29
120 128 0.37
121 109 0.32
122 6 0.02
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.44
Consensus pattern (120 bp):
ACTTGATCTTAGTCGCTTTATCTCTTAGACTCAGATTTCATCCCAGTCATTTGATCTCGACTCAG
TCCAAATCATTTTCTTGACTTACAATTTTATCTCAGTCATTCATTTTCAACCTCA
Found at i:9736406 original size:55 final size:55
Alignment explanation
Indices: 9736347--9736454 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 55
9736337 CATTCATCCC
*
9736347 AGTCATTTGATCTCGACTTAGTCCAAATCACTTTTCAAATTCGCAGTTTCATCTT
1 AGTCACTTGATCTCGACTTAGTCCAAATCACTTTTCAAATTCGCAGTTTCATCTT
* * * * * *
9736402 AGTCACTTGATCTCGATTTAGTCTAGATCATTTTTCAGATTCGTAGTTTCATC
1 AGTCACTTGATCTCGACTTAGTCCAAATCACTTTTCAAATTCGCAGTTTCATC
9736455 CGATCATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (55 bp):
AGTCACTTGATCTCGACTTAGTCCAAATCACTTTTCAAATTCGCAGTTTCATCTT
Found at i:9736623 original size:5 final size:5
Alignment explanation
Indices: 9736602--9736709 Score: 62
Period size: 5 Copynumber: 20.8 Consensus size: 5
9736592 CAATTTTCAT
* * * *
9736602 TATTA GTATTA TTTTA TATTA TATTA TA-T- TATTA TTTTA TATTT TATAA
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* *
9736651 GTACTA TAGTA TA--A TATTA TATTA TATTTTA TATTA TTATTA TTATTCCA
1 -TATTA TATTA TATTA TATTA TATTA TA--TTA TATTA -TATTA -TATT--A
9736701 TATTA TATT
1 TATTA TATT
9736710 TTCTTATTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 21
0.73 0.09 0.19
Matches are distributed among these distances:
3 5 0.06
4 2 0.02
5 47 0.57
6 18 0.22
7 9 0.11
8 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (5 bp):
TATTA
Done.