Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 52 of 125
Found at i:10425521 original size:103 final size:101
Alignment explanation
Indices: 10425322--10425522 Score: 217
Period size: 103 Copynumber: 2.0 Consensus size: 101
10425312 AGAGGAGCCA
* * *
10425322 TTTTCAAGATGAGATTTTAAAATTATTGAGTCTCTACTGAGATGAGCTTTTTTCAAGATGAGAAT
1 TTTTCAAGATGAAATTTTAAAATTATTGAGCCTCTACTGAGAGGAGCTTTTTT-AAGATGAGAAT
* * ** *
10425387 TTTTAAAAATTGTTAAGCCTTTACTGGGAGGAGTTTT
65 TTCTAAAAATTGTCAAGCCTCAACTGAGAGGAGTTTT
* * * *
10425424 TTTTTAAGATGAAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTTT-AGATTTTA-
1 TTTTCAAGATG-AAATTTTAAAATTATTGAGCCTCTACTGAGAGGAG-CTTTTTTAAGA--TGAG
* *
10425487 AATTTCTAAAAATTGTCGAGCCTCAAGTGAGAGGAG
62 AATTTCTAAAAATTGTCAAGCCTCAACTGAGAGGAG
10425523 CATTTTTGAA
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
102 13 0.16
103 59 0.73
104 9 0.11
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (101 bp):
TTTTCAAGATGAAATTTTAAAATTATTGAGCCTCTACTGAGAGGAGCTTTTTTAAGATGAGAATT
TCTAAAAATTGTCAAGCCTCAACTGAGAGGAGTTTT
Found at i:10425529 original size:103 final size:97
Alignment explanation
Indices: 10424941--10425529 Score: 380
Period size: 97 Copynumber: 6.0 Consensus size: 97
10424931 GTTTTGAGAA
* * * * * * *
10424941 AAGATGAGATTTTAAAGTTGTTGAGCTTTTACTGAGAGGAGCCTTTTTCAAGATG--ATTTTTAA
1 AAGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTT-TAGATGAAATTTTAAA
* * *
10425004 AGTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTCC
65 AATTGTTGAGCCTCAG-TGAGAGGAGCCATTTT-T
* ** *
10425037 AA-AAGAGATTTTAAAGTTATTGAGCCTCTG-TGAGAGGA-TCCCTTTTCCA-AAGAAAATTTT-
1 AAGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGT--CTTTTTTAGATG-AAATTTTA
* * ** * *
10425097 AAAGTTGTTGAGTCTTTGCTGAGAGGAGCCCTTTTCC
63 AAAATTGTTGAGCCTCAG-TGAGAGGAGCCATTTT-T
* * * * * * *
10425134 AA-ATGAGAGTTTAAAGTTGTTTAGCCTCTGCTGAGATGAGCCCTTTTTAATATG-AATTTT-AA
1 AAGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAG-TCTTTTTTAGATGAAATTTTAAA
* * *
10425196 AGTTGTTGAGCTTCTGCTGAGAGGAGCCATTTTT
65 AATTGTTGAGCCTCAG-TGAGAGGAGCCATTTTT
** * ** * * *
10425230 AAGATGAGATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGA-TATTTTCCAAATGAGATTTTTAAA
1 AAGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTTTAGATGAAATTTTAAAA
* * *
10425294 GTTGTTGAGCCTCTGCTGAGAGGAGCCATTTTC
66 ATTGTTGAGCCTCAG-TGAGAGGAGCCATTTTT
* * * *
10425327 AAGATGAGATTTTAAAATTATTGAGTCTCTACTGAGATGAG-CTTTTTTCAAGATGAGAATTTTT
1 AAGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTTT--AGATGA-AA-TTTT
* * * * ***
10425391 AAAAATTGTTAAGCCTTTACTGGGAGGAGTTTTTTTTT
62 AAAAATTGTTGAGCC-TCAGTGAGAGGAG-CCATTTTT
* *
10425429 AAGATGAAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTTTAGATTTTAAATTTCT
1 AAGATG-AGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTTTAGA--TGAAATTT-T
*
10425494 AAAAATTGTCGAGCCTCAAGTGAGAGGAG-CATTTTT
62 AAAAATTGTTGAGCCTC-AGTGAGAGGAGCCATTTTT
10425530 GAAAAAAAAA
Statistics
Matches: 394, Mismatches: 72, Indels: 49
0.77 0.14 0.10
Matches are distributed among these distances:
93 2 0.01
94 9 0.02
95 62 0.16
96 15 0.04
97 174 0.44
98 13 0.03
99 7 0.02
100 1 0.00
101 29 0.07
102 18 0.05
103 55 0.14
104 9 0.02
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (97 bp):
AAGATGAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTTTAGATGAAATTTTAAAA
ATTGTTGAGCCTCAGTGAGAGGAGCCATTTTT
Found at i:10425665 original size:20 final size:19
Alignment explanation
Indices: 10425640--10425691 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
10425630 ATTTGTCCAC
10425640 AAATACAAAATATGAAATA
1 AAATACAAAATATGAAATA
*
10425659 TAAATACAAAATACGAAATA
1 -AAATACAAAATATGAAATA
* *
10425679 CAATAAAAAATAT
1 AAATACAAAATAT
10425692 ACCAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (19 bp):
AAATACAAAATATGAAATA
Found at i:10426137 original size:20 final size:20
Alignment explanation
Indices: 10426092--10426143 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
10426082 CTGTACAAAG
**
10426092 AAAAAAAAAAGGGTCAGTTT
1 AAAAAAAAAAGGGTCAGAAT
*
10426112 AAAAAAAAAAGGGTTAGAAT
1 AAAAAAAAAAGGGTCAGAAT
10426132 ACAAAAAAAAAG
1 A-AAAAAAAAAG
10426144 TCTCACCGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.65, C:0.04, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAAAAAAAAGGGTCAGAAT
Found at i:10427251 original size:210 final size:209
Alignment explanation
Indices: 10426874--10427252 Score: 493
Period size: 210 Copynumber: 1.8 Consensus size: 209
10426864 AATACTAAAC
* * *
10426874 TAATAAAAAATGTAGAAAAAGAAAATTTTTATCCGATGATGAGATTCAAAGGTATTTCGAGTAGT
1 TAATAAAAAATGTAGAAAAAGAAAATTTTTATCCGATGATGAGATTCAAAAGTATTCCGAGTAGA
* * * *
10426939 GATGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAGTGTATTGGAGTATTTA
66 GATGCCTAAGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAATGTATTGAAATATTTA
* * *
10427004 TAAAAAAATTTTCAATATAGTAAATAGTTTTTTTTTTTTAAGTAATAAATAAAAATTGATTAATA
131 TAAAAAAATCTTCAATATAATAAATA-TTTATTTTTTTTAAGTAATAAATAAAAATTGATTAATA
10427069 TATTAAAAATATAAG
195 TATTAAAAATATAAG
*
10427084 TAAT-AAAAATG-AGAAGAAA-AGAAA-TTTTATCCGATGATGAGATTTTAAAAGTATTCCGAGT
1 TAATAAAAAATGTAGAA-AAAGA-AAATTTTTATCCGATGATGAGA-TTCAAAAGTATTCCGAGT
* * *
10427145 AGAGATGCTTTAAGAAATC-CTCAGGTGAGAAGATTTTTTGTAAAATATTACTAATGTATTGAAA
63 AGAGATGC-CTAAGAAATCTCT-AGGTGAGAAGATTTTTT-TAAAATACTACCAATGTATTGAAA
*
10427209 TATTTAT-AGAAAATCTTCAATATAATGAAAT-TTTCATTTTTTTT
125 TATTTATAAAAAAATCTTCAATATAAT-AAATATTT-ATTTTTTTT
10427253 TCAAAATTTT
Statistics
Matches: 146, Mismatches: 15, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
208 23 0.16
209 40 0.27
210 53 0.36
211 30 0.21
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (209 bp):
TAATAAAAAATGTAGAAAAAGAAAATTTTTATCCGATGATGAGATTCAAAAGTATTCCGAGTAGA
GATGCCTAAGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAATGTATTGAAATATTTA
TAAAAAAATCTTCAATATAATAAATATTTATTTTTTTTAAGTAATAAATAAAAATTGATTAATAT
ATTAAAAATATAAG
Found at i:10429163 original size:16 final size:15
Alignment explanation
Indices: 10429127--10429173 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
10429117 TTAAATATTT
*
10429127 AAGAACAAA-AAAAA
1 AAGAAAAAATAAAAA
10429141 AAG-AAAAATAAAGAA
1 AAGAAAAAATAAA-AA
10429156 AAGAAAAAATAACAAA
1 AAGAAAAAATAA-AAA
10429172 AA
1 AA
10429174 TAATTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 5 0.18
16 12 0.43
17 1 0.04
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (15 bp):
AAGAAAAAATAAAAA
Found at i:10435783 original size:17 final size:17
Alignment explanation
Indices: 10435761--10435793 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10435751 ACATATTATC
*
10435761 TTTTAAAGGTGTCTATT
1 TTTTAAAGATGTCTATT
10435778 TTTTAAAGATGTCTAT
1 TTTTAAAGATGTCTAT
10435794 GAACCAGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (17 bp):
TTTTAAAGATGTCTATT
Found at i:10437873 original size:16 final size:16
Alignment explanation
Indices: 10437852--10437890 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
10437842 TTTTATAGTG
10437852 TAATTTTTTTAATT-T
1 TAATTTTTTTAATTAT
10437867 TACATTTTTTTAATTAT
1 TA-ATTTTTTTAATTAT
10437884 TAATTTT
1 TAATTTT
10437891 AATAGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TAATTTTTTTAATTAT
Found at i:10438588 original size:5 final size:5
Alignment explanation
Indices: 10438578--10438629 Score: 56
Period size: 5 Copynumber: 11.0 Consensus size: 5
10438568 CATTAATTTC
* **
10438578 AAATT AAATT -AATT AAATT AAATT AAATT -ATTT TTATT AAA-T AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
10438625 AAATT
1 AAATT
10438630 TATTAATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
4 11 0.28
5 28 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
AAATT
Found at i:10438597 original size:14 final size:14
Alignment explanation
Indices: 10438578--10438641 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
10438568 CATTAATTTC
10438578 AAATTAAATTAATT
1 AAATTAAATTAATT
10438592 AAATTAAATTAAATT
1 AAATTAAATT-AATT
* ** *
10438607 -ATTTTTATTAAAT
1 AAATTAAATTAATT
*
10438620 AAATTAAATTTATT
1 AAATTAAATTAATT
*
10438634 AATTTAAA
1 AAATTAAA
10438642 AAATTAACCA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
13 3 0.08
14 31 0.82
15 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTAAATTAATT
Found at i:10438624 original size:18 final size:19
Alignment explanation
Indices: 10438578--10438641 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
10438568 CATTAATTTC
*
10438578 AAATTAAATT-AATTAAATT
1 AAATTAAATTAAATT-TATT
**
10438597 AAATTAAATTATTTTTATT
1 AAATTAAATTAAATTTATT
10438616 AAA-TAAATTAAATTTATT
1 AAATTAAATTAAATTTATT
*
10438634 AATTTAAA
1 AAATTAAA
10438642 AAATTAACCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 15 0.41
19 20 0.54
20 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATTAAATTAAATTTATT
Found at i:10438726 original size:16 final size:17
Alignment explanation
Indices: 10438702--10438735 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10438692 AATCGAATAA
10438702 TAAAATATATT-TAAAT
1 TAAAATATATTGTAAAT
*
10438718 TAAATTATATTGTAAAT
1 TAAAATATATTGTAAAT
10438735 T
1 T
10438736 CTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAAATATATTGTAAAT
Found at i:10440921 original size:2 final size:2
Alignment explanation
Indices: 10440914--10440984 Score: 70
Period size: 2 Copynumber: 35.5 Consensus size: 2
10440904 TCTTGAGTTT
* * * * * *
10440914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA CA CA CA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
10440956 TG TA TA TA GA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10440985 TTGGGGTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:10447468 original size:23 final size:23
Alignment explanation
Indices: 10447442--10447485 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10447432 TTTAGAAGTA
**
10447442 ATTATATAAATTAATTAAAATTT
1 ATTATATAAAACAATTAAAATTT
10447465 ATTATATAAAACAATTAAAAT
1 ATTATATAAAACAATTAAAAT
10447486 AAATTTAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATATAAAACAATTAAAATTT
Found at i:10452280 original size:19 final size:19
Alignment explanation
Indices: 10452258--10452295 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10452248 TATATAATTT
10452258 ATTTTA-AATAATATTATAA
1 ATTTTACAA-AATATTATAA
10452277 ATTTTACAAAATATTATAA
1 ATTTTACAAAATATTATAA
10452296 GTAACATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTACAAAATATTATAA
Found at i:10452398 original size:24 final size:22
Alignment explanation
Indices: 10452370--10452418 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
10452360 ATATGTTATC
*
10452370 ATTTGAGTTATATTAATTATTTTT
1 ATTTGAGCTATA-T-ATTATTTTT
*
10452394 ATTTGTGCTATATATTATTTTT
1 ATTTGAGCTATATATTATTTTT
10452416 ATT
1 ATT
10452419 AAATTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 1 0.04
24 10 0.43
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (22 bp):
ATTTGAGCTATATATTATTTTT
Found at i:10456807 original size:24 final size:24
Alignment explanation
Indices: 10456758--10456808 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10456748 GGCCAAAAAA
* **
10456758 CTCGGACTCAGCTCAGTTAAGGAG
1 CTCGGACTCAGCTCAGCTAACAAG
*
10456782 CTCGGACTCAGCTTAGCTAACAAG
1 CTCGGACTCAGCTCAGCTAACAAG
10456806 CTC
1 CTC
10456809 AGATCTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (24 bp):
CTCGGACTCAGCTCAGCTAACAAG
Found at i:10457121 original size:85 final size:84
Alignment explanation
Indices: 10456884--10457191 Score: 278
Period size: 85 Copynumber: 3.6 Consensus size: 84
10456874 TCAGTTTGAC
* * * * *
10456884 CAAAAGAGCTTGGATCTATAAAATGCCTTCATAAAGGCCTAATTTCACAAAATAACTTGGCCTAA
1 CAAAAGAGCTTGGATCTACAAAATACTTTCATAAAGGCCTAATTTGACAAAAT-ACTTGACCTAA
* * *
10456949 GAACTCAGATTTAGCTCGGT
65 GAGCTCAGACTTAGCTCGAT
* * * * * * * *
10456969 CAAAAGAGCTTGGATCTAC-AATTATCTTT-AAAAATGTCTAACTTGACAAAACAACTTGTCCAA
1 CAAAAGAGCTTGGATCTACAAAATA-CTTTCATAAAGGCCTAATTTGACAAAA-TACTTGACCTA
* * *
10457032 AGAGCTCAAACTCAACTCGAT
64 AGAGCTCAGACTTAGCTCGAT
* * * * *
10457053 CAAAAGAGCTCGGATCTACAAAATACTTTTATAAAGGTCTAATTTGACAAAATAGTTCAACCTAA
1 CAAAAGAGCTTGGATCTACAAAATACTTTCATAAAGGCCTAATTTGACAAAATACTT-GACCTAA
* * *
10457118 GAGCTTAGACTTAGCTTGAC
65 GAGCTCAGACTTAGCTCGAT
* * * * *
10457138 CAAAAAAGCTTGGATCTATAAAATACTTTCCTAAAAGCCCAATTTGACAAAATA
1 CAAAAGAGCTTGGATCTACAAAATACTTTCATAAAGGCCTAATTTGACAAAATA
10457192 ACTAGGTCAA
Statistics
Matches: 176, Mismatches: 42, Indels: 10
0.77 0.18 0.04
Matches are distributed among these distances:
84 68 0.39
85 108 0.61
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (84 bp):
CAAAAGAGCTTGGATCTACAAAATACTTTCATAAAGGCCTAATTTGACAAAATACTTGACCTAAG
AGCTCAGACTTAGCTCGAT
Found at i:10457471 original size:86 final size:84
Alignment explanation
Indices: 10457310--10457573 Score: 226
Period size: 85 Copynumber: 3.1 Consensus size: 84
10457300 ACAAAATACC
* * * * * *
10457310 TTTATAAAGGTCTAATTCGACAAAACAATTTGACTAAAGAGCTCAGACT-GAGTTCAACCAAAAG
1 TTTATAAAGG-CTAATTTGACAAAATAACTTGACTAAAGAGCTTAGACTCAACTT-AACCAAAAG
** * * *
10457374 AGCACGAATCTATAGAATGCT
64 AGCTTGGATCTATAAAATGCA
*
10457395 TTTCATAAAGGCCTAATTTGACAAAATAACTTGACTAAAGAGCTTAGACTCAACTTTACCAAAAG
1 TTT-ATAAAGG-CTAATTTGACAAAATAACTTGACTAAAGAGCTTAGACTCAACTTAACCAAAAG
* * *
10457460 AGCTTGGATCTACAAAATACC
64 AGCTTGGATCTATAAAATGCA
* * * * * * * * **
10457481 TTTATAAAGGTTCAGTTTGATAAAATAACTTGGCTAAAAAGC-TCGAATTCAGCTCGACCAAAAG
1 TTTATAAAGGCT-AATTTGACAAAATAACTTGACTAAAGAGCTTAG-ACTCAACTTAACCAAAAG
*
10457545 AGTTTGGATCTATAAAATGCA
64 AGCTTGGATCTATAAAATGCA
10457566 TTTATAAA
1 TTTATAAA
10457574 AGTTTAGCTT
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
84 3 0.02
85 74 0.51
86 66 0.45
87 3 0.02
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (84 bp):
TTTATAAAGGCTAATTTGACAAAATAACTTGACTAAAGAGCTTAGACTCAACTTAACCAAAAGAG
CTTGGATCTATAAAATGCA
Found at i:10457488 original size:231 final size:230
Alignment explanation
Indices: 10457069--10457488 Score: 506
Period size: 231 Copynumber: 1.8 Consensus size: 230
10457059 AGCTCGGATC
* * * * * *
10457069 TACAAAATACTTTTATAAAGGTCTAATTTGACAAAATAGTTCAACCTAAGAGCTTAGACTTAGCT
1 TACAAAATACCTTTATAAAGGTCTAATTCGACAAAACAATTCAACCTAAGAGCTCAGACTGAGCT
* ** * * *
10457134 TGACCAAAAAAGCTTGGATCTATAAAATACTTTCCTAAAAGCCCAATTTGACAAAATAACTAGGT
66 TAACCAAAAAAGCACGAATCTATAAAATACTTTCATAAAAGCCCAATTTGACAAAATAACTAGCT
* * *** * *
10457199 CAAAGAGCTTGAATTCAGCTTGGTTAAAAGAGTTTAGATCTACAAAATGCCTTTATAAAAGCCTA
131 CAAAGAGCTTGAACTCAACTTGACCAAAAGAGCTTAGATCTACAAAATACCTTTATAAAAGCCTA
10457264 ATTCAACAAAACAGCTCGTCTTAAAAGCTTGAATT
196 ATTCAACAAAACAGCTCGTCTTAAAAGCTTGAATT
**
10457299 TACAAAATACCTTTATAAAGGTCTAATTCGACAAAACAATTTGA-CTAAAGAGCTCAGACTGAG-
1 TACAAAATACCTTTATAAAGGTCTAATTCGACAAAACAATTCAACCT-AAGAGCTCAGACTGAGC
* * * * * *
10457362 TTCAACCAAAAGAGCACGAATCTATAGAATGCTTTTCATAAAGGCCTAATTTGACAAAATAACTT
65 TT-AACCAAAAAAGCACGAATCTATAAAATAC-TTTCATAAAAGCCCAATTTGACAAAATAACTA
* *
10457427 GACT-AAAGAGCTT-AGACTCAACTTTACCAAAAGAGCTTGGATCTACAAAATACCTTTATAAA
128 G-CTCAAAGAGCTTGA-ACTCAACTTGACCAAAAGAGCTTAGATCTACAAAATACCTTTATAAA
10457489 GGTTCAGTTT
Statistics
Matches: 156, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
229 4 0.03
230 75 0.48
231 76 0.49
232 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (230 bp):
TACAAAATACCTTTATAAAGGTCTAATTCGACAAAACAATTCAACCTAAGAGCTCAGACTGAGCT
TAACCAAAAAAGCACGAATCTATAAAATACTTTCATAAAAGCCCAATTTGACAAAATAACTAGCT
CAAAGAGCTTGAACTCAACTTGACCAAAAGAGCTTAGATCTACAAAATACCTTTATAAAAGCCTA
ATTCAACAAAACAGCTCGTCTTAAAAGCTTGAATT
Found at i:10457711 original size:38 final size:38
Alignment explanation
Indices: 10457660--10457764 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 38
10457650 GCCAAAGTGA
*
10457660 TTAGCTTGGCTAAAAGAGCTCAGCTCGACTAAAAGAGC
1 TTAGCTTGGCTAAAAGAGCTCACCTCGACTAAAAGAGC
* * * * *
10457698 TTAGCTTGGCTAAAAGGGCTTACCTCCATTTAAAGAGC
1 TTAGCTTGGCTAAAAGAGCTCACCTCGACTAAAAGAGC
* * * * *
10457736 TAACCTCGGTTAAAAGAGCTCATCTCGAC
1 TTAGCTTGGCTAAAAGAGCTCACCTCGAC
10457765 GACCTCTGTA
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (38 bp):
TTAGCTTGGCTAAAAGAGCTCACCTCGACTAAAAGAGC
Found at i:10457718 original size:19 final size:19
Alignment explanation
Indices: 10457660--10457719 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
10457650 GCCAAAGTGA
10457660 TTAGCTTGGCTAAAAGAGC
1 TTAGCTTGGCTAAAAGAGC
* * *
10457679 TCAGCTCGACTAAAAGAGC
1 TTAGCTTGGCTAAAAGAGC
*
10457698 TTAGCTTGGCTAAAAGGGC
1 TTAGCTTGGCTAAAAGAGC
10457717 TTA
1 TTA
10457720 CCTCCATTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (19 bp):
TTAGCTTGGCTAAAAGAGC
Found at i:10457762 original size:19 final size:19
Alignment explanation
Indices: 10457669--10457764 Score: 66
Period size: 19 Copynumber: 5.1 Consensus size: 19
10457659 ATTAGCTTGG
*
10457669 CTAAAAGAGCTCAGCTCGA
1 CTAAAAGAGCTCACCTCGA
* * * *
10457688 CTAAAAGAGCTTAGCTTGG
1 CTAAAAGAGCTCACCTCGA
* * *
10457707 CTAAAAGGGCTTACCTCCA
1 CTAAAAGAGCTCACCTCGA
* * * *
10457726 TTTAAAGAGCTAACCTCGG
1 CTAAAAGAGCTCACCTCGA
* *
10457745 TTAAAAGAGCTCATCTCGA
1 CTAAAAGAGCTCACCTCGA
10457764 C
1 C
10457765 GACCTCTGTA
Statistics
Matches: 58, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 58 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (19 bp):
CTAAAAGAGCTCACCTCGA
Found at i:10457871 original size:19 final size:18
Alignment explanation
Indices: 10457832--10457876 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10457822 ACATTGGTCA
* * *
10457832 AAAAAGCTTAGCTTAGCC
1 AAAAAGCTTACCTCAGTC
10457850 AAAAGAGCTTACCTCAGTC
1 AAAA-AGCTTACCTCAGTC
10457869 AAAAAGCT
1 AAAAAGCT
10457877 CATCACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (18 bp):
AAAAAGCTTACCTCAGTC
Found at i:10457975 original size:56 final size:57
Alignment explanation
Indices: 10457868--10457990 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 57
10457858 TTACCTCAGT
** * *
10457868 CAAAA-AGCTCATCACGATAAATTACTTTCATGAAAGCTTAGCTCGGTCACCTT-GG
1 CAAAAGAGCTCATCACGATAAATTACTTTCATGAAAGCTTAGCTAAGCCACCTTAGC
* ** * *
10457923 CTAAAGAGCTCATCTTGATAAATTGCTTTCAT-AAAGACTTAGTTAAGCCACCTTAGC
1 CAAAAGAGCTCATCACGATAAATTACTTTCATGAAAG-CTTAGCTAAGCCACCTTAGC
10457980 CAAAAGAGCTC
1 CAAAAGAGCTC
10457991 GTCTCGACCA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
55 8 0.15
56 36 0.65
57 11 0.20
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (57 bp):
CAAAAGAGCTCATCACGATAAATTACTTTCATGAAAGCTTAGCTAAGCCACCTTAGC
Found at i:10458003 original size:19 final size:18
Alignment explanation
Indices: 10457979--10458038 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
10457969 GCCACCTTAG
10457979 CCAAAAGAGCTCGTCTCGA
1 CCAAAAGAGCTC-TCTCGA
*
10457998 CCAAAAGAGCTCACTTCGA
1 CCAAAAGAGCTCTC-TCGA
* *
10458017 TCAAAAGAGTTCATCTCGA
1 CCAAAAGAGCTC-TCTCGA
10458036 CCA
1 CCA
10458039 CCTTGATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.03
19 32 0.94
20 1 0.03
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (18 bp):
CCAAAAGAGCTCTCTCGA
Found at i:10458419 original size:19 final size:19
Alignment explanation
Indices: 10458380--10458419 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10458370 CTCTACTCAA
* *
10458380 CTCAACTAAAAGAGATTAG
1 CTCAACTAAAAGAAATCAG
*
10458399 CTCAGCTAAAAGAAATCAG
1 CTCAACTAAAAGAAATCAG
10458418 CT
1 CT
10458420 TGACCAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (19 bp):
CTCAACTAAAAGAAATCAG
Found at i:10460607 original size:14 final size:16
Alignment explanation
Indices: 10460568--10460611 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
10460558 AGATTAAGCC
10460568 TTAAATTTTATTTATAT
1 TTAAATTTT-TTTATAT
*
10460585 TTTAATTTTTTTA-A-
1 TTAAATTTTTTTATAT
10460599 TTAAATTTTTTTA
1 TTAAATTTTTTTA
10460612 GTAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.48
15 1 0.04
16 4 0.16
17 8 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTAAATTTTTTTATAT
Found at i:10461327 original size:20 final size:20
Alignment explanation
Indices: 10461302--10461374 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
10461292 TTGTGTGATT
* *
10461302 TATTAATATAGTTGCATGAC
1 TATTAATTTATTTGCATGAC
*
10461322 TATTAATTTATTTGCATGAT
1 TATTAATTTATTTGCATGAC
* *
10461342 TATCAATTTATTTGCATGAT
1 TATTAATTTATTTGCATGAC
*
10461362 TATCAATTTATTT
1 TATTAATTTATTT
10461375 ATTTGTGTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (20 bp):
TATTAATTTATTTGCATGAC
Found at i:10461379 original size:24 final size:20
Alignment explanation
Indices: 10461313--10461374 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
10461303 ATTAATATAG
* *
10461313 TTGCATGACTATTAATTTAT
1 TTGCATGATTATCAATTTAT
10461333 TTGCATGATTATCAATTTAT
1 TTGCATGATTATCAATTTAT
10461353 TTGCATGATTATCAATTTAT
1 TTGCATGATTATCAATTTAT
10461373 TT
1 TT
10461375 ATTTGTGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (20 bp):
TTGCATGATTATCAATTTAT
Found at i:10461425 original size:21 final size:21
Alignment explanation
Indices: 10461384--10461654 Score: 180
Period size: 20 Copynumber: 13.4 Consensus size: 21
10461374 TATTTGTGTG
*
10461384 ATTGCATG-ATTATATAT-TTA
1 ATTGCATGTTTTATAT-TGTTA
10461404 A-TGACATGTTTTATATTGTTA
1 ATTG-CATGTTTTATATTGTTA
* *
10461425 ATTGCTTG-ATTATATATG-TA
1 ATTGCATGTTTTATAT-TGTTA
*
10461445 GTTGCATGTTTTATATTGTTA
1 ATTGCATGTTTTATATTGTTA
**
10461466 ATTGCAT-AATTATATAT-TTA
1 ATTGCATGTTTTATAT-TGTTA
* *
10461486 GTTGCCTGTTTTATATTGTTA
1 ATTGCATGTTTTATATTGTTA
*
10461507 ATTGCATG-ATTATA-TGCTTA
1 ATTGCATGTTTTATATTG-TTA
10461527 ATTGCATGTTTTATATTGTTA
1 ATTGCATGTTTTATATTGTTA
* * **
10461548 ATTGCATG-ATAATA-T-ACA
1 ATTGCATGTTTTATATTGTTA
* *
10461566 TTTACATGTTTTATATTGTTA
1 ATTGCATGTTTTATATTGTTA
* * *
10461587 ATTGAATG-ATTATA-T-ATA
1 ATTGCATGTTTTATATTGTTA
* *
10461605 TTTGCATGATTTATATTGTTA
1 ATTGCATGTTTTATATTGTTA
*
10461626 ATTGCATG-ATTATATAT-TTA
1 ATTGCATGTTTTATAT-TGTTA
10461646 ATTGCATGT
1 ATTGCATGT
10461655 CTATTTGCAT
Statistics
Matches: 192, Mismatches: 38, Indels: 41
0.71 0.14 0.15
Matches are distributed among these distances:
18 15 0.08
19 15 0.08
20 81 0.42
21 77 0.40
22 4 0.02
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (21 bp):
ATTGCATGTTTTATATTGTTA
Found at i:10461429 original size:41 final size:40
Alignment explanation
Indices: 10461384--10461654 Score: 336
Period size: 41 Copynumber: 6.7 Consensus size: 40
10461374 TATTTGTGTG
10461384 ATTGCATGATTATATATTTAATGACATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATG-CATGTTTTATATTGTTA
* * *
10461425 ATTGCTTGATTATATATGTAGTTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTA-ATGCATGTTTTATATTGTTA
* * *
10461466 ATTGCATAATTATATATTTAGTTGCCTGTTTTATATTGTTA
1 ATTGCATGATTATATATTTA-ATGCATGTTTTATATTGTTA
**
10461507 ATTGCATGATTATATGCTTAATTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAA-TGCATGTTTTATATTGTTA
*
10461548 ATTGCATGATAATATACATTT-A--CATGTTTTATATTGTTA
1 ATTGCATGAT--TATATATTTAATGCATGTTTTATATTGTTA
* *
10461587 ATTGAATGATTATATATATT--TGCATGATTTATATTGTTA
1 ATTGCATGATTATATAT-TTAATGCATGTTTTATATTGTTA
10461626 ATTGCATGATTATATATTTAATTGCATGT
1 ATTGCATGATTATATATTTAA-TGCATGT
10461655 CTATTTGCAT
Statistics
Matches: 200, Mismatches: 20, Indels: 20
0.83 0.08 0.08
Matches are distributed among these distances:
37 6 0.03
38 4 0.02
39 58 0.29
41 123 0.62
42 3 0.01
43 6 0.03
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (40 bp):
ATTGCATGATTATATATTTAATGCATGTTTTATATTGTTA
Found at i:10461724 original size:32 final size:32
Alignment explanation
Indices: 10461663--10461724 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
10461653 GTCTATTTGC
**
10461663 ATGATTATTAATTAATTTATTTGTGTGATTGT
1 ATGATTATTAATTAATTTATTTGCATGATTGT
10461695 ATGATTATTAA-TATATTTATTTGCATGATT
1 ATGATTATTAATTA-ATTTATTTGCATGATT
10461725 ATTATTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.55
Consensus pattern (32 bp):
ATGATTATTAATTAATTTATTTGCATGATTGT
Found at i:10461766 original size:19 final size:18
Alignment explanation
Indices: 10461707--10461767 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
10461697 GATTATTAAT
10461707 ATATTTATTTGCATGATTA
1 ATATTTA-TTGCATGATTA
* *
10461726 TTA-TTATTGCATGATTTT
1 ATATTTATTGCATGA-TTA
*
10461744 ATATTTATTGTATGATATA
1 ATATTTATTGCATGAT-TA
10461763 ATATT
1 ATATT
10461768 ATAATAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 8 0.24
18 8 0.24
19 18 0.53
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (18 bp):
ATATTTATTGCATGATTA
Found at i:10469689 original size:117 final size:113
Alignment explanation
Indices: 10469587--10470250 Score: 793
Period size: 117 Copynumber: 5.6 Consensus size: 113
10469577 CAAAAACCCT
* *
10469587 TTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTT
1 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTT
*
10469652 TGGAAATTTATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTA
65 TGGAAATTTA--TTTC--TTAAGGAAAATTGA-A--TT-AACTTTTCCC-CAAAA-A-TA
*
10469712 TTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTT
1 ---TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
* *
10469775 TTTGGAAATTTATTTC-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTT
63 TTTGGAAATTTATTTCTTAAGGAAAATTGA-A--TT-AACTTTTCCCCAAAAA---TA
* *
10469832 TTTTTTTGAAATTTATTTCTGAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTT
1 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
10469895 GGAAATTTA-TTCTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
66 GGAAATTTATTTCTTAAGGAAAATTGA-A--TT-AACTTTTCCCCAAAAATA
10469946 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTT
** * *
10470011 TTAAAATTTATTTC-TGAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATA
65 TGGAAATTTATTTCTTAAGGAAAATTGA-A--TT-AACTTTTCCCCAAAAATA
*
10470063 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTTAAAATATTTTATTT
1 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTT-TTT
10470128 TGGAAATTTATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA
65 TGGAAATTTA--TTTC--TTAAGGAAAATTGA-A--TT-AACTTTTCCCCAAAAATA
10470185 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTT
1 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTT
10470250 T
65 T
10470251 AGAATTTTTT
Statistics
Matches: 502, Mismatches: 20, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
114 56 0.11
116 7 0.01
117 220 0.44
118 4 0.01
119 8 0.02
120 32 0.06
122 97 0.19
123 7 0.01
125 15 0.03
128 56 0.11
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (113 bp):
TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
GGAAATTTATTTCTTAAGGAAAATTGAATTAACTTTTCCCCAAAAATA
Found at i:10469781 original size:57 final size:57
Alignment explanation
Indices: 10469549--10470248 Score: 945
Period size: 57 Copynumber: 11.7 Consensus size: 57
10469539 AATTCGATTC
* *
10469549 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTCTA
10469608 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTA--TTTC---TA
*
10469673 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTATTTTTTTTTGGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCC-CAAAA-A-TA---TTTTTTGGAAATTTATTTCTA
10469736 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
* * * *
10469793 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTTTTGAAATTTATTTCTG
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTCTA
*
10469853 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTC-TA
10469910 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
* ** *
10469967 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTAAAATTTATTTCTG
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTCTA
*
10470027 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
* *
10470084 AGGAAAATTGATACTTTCAACTTTTCCCTTAAAATATTTTATTTTGGAAATTTATTTTTCTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATATT-TTTTGGAAATTTA--TTTC---TA
10470149 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
*
10470206 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTT
10470249 TTAGAATTTT
Statistics
Matches: 584, Mismatches: 28, Indels: 59
0.87 0.04 0.09
Matches are distributed among these distances:
56 4 0.01
57 240 0.41
58 12 0.02
59 37 0.06
60 139 0.24
61 1 0.00
62 25 0.04
63 34 0.06
64 4 0.01
65 60 0.10
66 8 0.01
67 1 0.00
68 19 0.03
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
Found at i:10469969 original size:174 final size:174
Alignment explanation
Indices: 10469549--10470248 Score: 1014
Period size: 174 Copynumber: 3.9 Consensus size: 174
10469539 AATTCGATTC
* *
10469549 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAAGGAA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTCTAAGGAA
*
10469613 AATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTTAAGGAA
63 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTA--TTTC---TAAGGAA
10469678 AATTGATACTTTCAACTTTTCCCTAAAAATATTATTTTTTTTTGGAAATTTATTTCTA
123 AATTGATACTTTCAACTTTTCCCT-AAAA-A-TA---TTTTTTGGAAATTTATTTCTA
10469736 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAAT
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAAT
* * * *
10469801 TGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTTTTGAAATTTATTTCTGAGGAAAATTGATA
66 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
10469866 CTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTA
131 CTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TA
10469910 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAAT
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAAT
* ** * *
10469975 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTAAAATTTATTTCTGAGAAAAATTGATA
66 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
*
10470040 CTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTA
131 CTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTA
* *
10470084 AGGAAAATTGATACTTTCAACTTTTCCCTTAAAATATTTTATTTTGGAAATTTATTTTTCTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATATT-TTTTGGAAATTTA--TTTC---TA
10470149 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTCTAAGGAA
58 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAA
10470211 AATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
123 AATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTT
10470249 TTAGAATTTT
Statistics
Matches: 482, Mismatches: 19, Indels: 31
0.91 0.04 0.06
Matches are distributed among these distances:
173 3 0.01
174 211 0.44
175 7 0.01
176 4 0.01
177 15 0.03
178 1 0.00
179 61 0.13
180 35 0.07
182 37 0.08
183 4 0.01
184 1 0.00
185 70 0.15
187 33 0.07
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (174 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
CTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTA
Found at i:10470360 original size:8 final size:7
Alignment explanation
Indices: 10470330--10470387 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 7
10470320 CTAATCTAAT
10470330 AAATAAA
1 AAATAAA
10470337 AAATAAA
1 AAATAAA
10470344 AAAT--A
1 AAATAAA
10470349 AAATAAA
1 AAATAAA
10470356 CAAATAAA
1 -AAATAAA
*
10470364 CAAAGAAA
1 -AAATAAA
10470372 TAAA-AAA
1 -AAATAAA
10470379 AAA-AAA
1 AAATAAA
10470385 AAA
1 AAA
10470388 ACCTGGAGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
5 5 0.11
6 9 0.20
7 15 0.33
8 17 0.37
ACGTcount: A:0.84, C:0.03, G:0.02, T:0.10
Consensus pattern (7 bp):
AAATAAA
Found at i:10470755 original size:19 final size:20
Alignment explanation
Indices: 10470711--10470756 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
10470701 GAACACCGGT
*
10470711 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
**
10470731 ATCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
10470750 GCCGGAA
1 GCCGGAA
10470757 GTTGGCCGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:10470922 original size:25 final size:25
Alignment explanation
Indices: 10470876--10470923 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10470866 AATCTGGAAA
*
10470876 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAGAAATTTCCAAAAAAATT
*
10470901 TTTCGCCA-AAATTTCTAAAAAAA
1 TTTC-CCAGAAATTTCCAAAAAAA
10470924 ATTCTCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAAAAAAATT
Found at i:10471659 original size:8 final size:7
Alignment explanation
Indices: 10471643--10471731 Score: 51
Period size: 7 Copynumber: 12.7 Consensus size: 7
10471633 AACTCAAACA
10471643 TTTTTAT
1 TTTTTAT
10471650 TTTTTGAT
1 TTTTT-AT
10471658 TTTTT-T
1 TTTTTAT
** *
10471664 TTTAAAA
1 TTTTTAT
*
10471671 TTTTTGT
1 TTTTTAT
*
10471678 TTTTTTT
1 TTTTTAT
*
10471685 TTTTTGT
1 TTTTTAT
*
10471692 TTTTTTT
1 TTTTTAT
10471699 GTTTTTAT
1 -TTTTTAT
10471707 GTTTTT-T
1 -TTTTTAT
10471714 TTTGTT-T
1 TTT-TTAT
10471721 TTTTT-T
1 TTTTTAT
10471727 TTTTT
1 TTTTT
10471732 GCCGAAGTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
6 15 0.22
7 33 0.49
8 19 0.28
ACGTcount: A:0.08, C:0.00, G:0.07, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:10471675 original size:1 final size:1
Alignment explanation
Indices: 10471671--10471731 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
10471661 TTTTTTAAAA
* * * * * *
10471671 TTTTTGTTTTTTTTTTTTTGTTTTTTTTGTTTTTATGTTTTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10471732 GCCGAAGTTC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:10471682 original size:28 final size:24
Alignment explanation
Indices: 10471642--10471732 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 24
10471632 CAACTCAAAC
*
10471642 ATTTTTATTTTTTGATTTTTTTTTT
1 ATTTTTGTTTTTTG-TTTTTTTTTT
10471667 AAAATTTTTGTTTTTT-TTTTTTTGTTT
1 ---ATTTTTGTTTTTTGTTTTTTT-TTT
10471694 -TTTTTGTTTTTATGTTTTTTTTTGT
1 ATTTTTGTTTTT-TGTTTTTTTTT-T
* *
10471719 TTTTTTTTTTTTTG
1 ATTTTTGTTTTTTG
10471733 CCGAAGTTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
23 11 0.20
24 3 0.05
25 10 0.18
26 17 0.30
27 3 0.05
28 12 0.21
ACGTcount: A:0.09, C:0.00, G:0.08, T:0.84
Consensus pattern (24 bp):
ATTTTTGTTTTTTGTTTTTTTTTT
Found at i:10471695 original size:31 final size:32
Alignment explanation
Indices: 10471649--10471729 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
10471639 AACATTTTTA
*
10471649 TTTTTTGATTTT-TTTTTTAAAATTTT-TGTTT
1 TTTTTTG-TTTTGTTTTTTTAAATTTTATGTTT
***
10471680 TTTTTT-TTTTGTTTTTTTTGTTTTTATGTTT
1 TTTTTTGTTTTGTTTTTTTAAATTTTATGTTT
*
10471711 TTTTTTGTTTTTTTTTTTT
1 TTTTTTGTTTTGTTTTTTT
10471730 TTGCCGAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 4 0.10
30 10 0.24
31 17 0.40
32 11 0.26
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (32 bp):
TTTTTTGTTTTGTTTTTTTAAATTTTATGTTT
Found at i:10471797 original size:41 final size:41
Alignment explanation
Indices: 10471740--10472148 Score: 505
Period size: 41 Copynumber: 9.9 Consensus size: 41
10471730 TTGCCGAAGT
10471740 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTG-
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGC
* *
10471781 -CCTCTTCAACAGAGGCACCACG-CTTTTGAAAAGTAAATTGC
1 TCCTC-TAAACAGAGGCACCACGAC-TTTGAAAAATAAATTGC
10471822 TCCTCTAAACAGAGGCCACCACGACTTTGAAAAAGTAAATTGGC
1 TCCTCTAAACAGAGG-CACCACGACTTTGAAAAA-TAAATT-GC
* * * * *
10471866 TACTCT-CACAGAGGTACCACGACTTTGGAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
* * *
10471906 TCCTCTCAACAGAGGTACCATGACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
* *
10471947 TCCTCTAAACAGAGGCACCACGACTTTGTAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
* *
10471988 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAATAAATTGC
10472030 TCCTCTAAACAGAGGCA--ACGAAACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACG--ACTTTGAAAAATAAATTGC
10472071 TCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAATAAATTGC
*
10472112 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAATAAAT
10472149 ACTCCTAGAC
Statistics
Matches: 329, Mismatches: 26, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
40 44 0.13
41 197 0.60
42 67 0.20
43 14 0.04
44 7 0.02
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
Found at i:10472056 original size:124 final size:123
Alignment explanation
Indices: 10471740--10472142 Score: 507
Period size: 124 Copynumber: 3.3 Consensus size: 123
10471730 TTGCCGAAGT
* * **
10471740 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTG--CCTCTTCAACAGAGGCACCACG
1 TCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTC-TCAACAGAGGCACCAAA
*
10471803 CTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCCACCACGACTTTGAAAAAGTAAATTGGC
65 C-TTTGAAAAATAAATTGCTCCTCTAAACAGAGG-CACCACGACTTTG-AAAAGTAAATT-GC
* * * * * *
10471866 TACTCT-CACAGAGGTACCACGACTTTG-GAAAGTAAATTGCTCCTCTCAACAGAGGTACCATGA
1 TCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTCAACAGAGGCACCA-AA
*
10471929 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGTAAAGTAAATTGC
65 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
* * *
10471988 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAAA
1 TCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTCAACAGAGGC-ACCAAA
*
10472053 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGC
65 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATTGC
*
10472112 TCCTCTAAACAGAGG--CAACGAACTTTGAAAA
1 TCCTCTAAACAGAGGTACCACG-ACTTTGAAAA
10472143 GTAAATACTC
Statistics
Matches: 246, Mismatches: 22, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
122 13 0.05
123 41 0.17
124 115 0.47
125 67 0.27
126 10 0.04
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (123 bp):
TCCTCTAAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTCAACAGAGGCACCAAAC
TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
Found at i:10473185 original size:8 final size:8
Alignment explanation
Indices: 10473167--10473247 Score: 103
Period size: 8 Copynumber: 10.2 Consensus size: 8
10473157 GTCCTCCTTA
*
10473167 TTCACTTT
1 TTCATTTT
*
10473175 TTCTTTTT
1 TTCATTTT
10473183 TTCCATTTT
1 TT-CATTTT
10473192 TTC-TTTT
1 TTCATTTT
*
10473199 TTTATTTT
1 TTCATTTT
10473207 TTCATTTT
1 TTCATTTT
10473215 TTCA-TTT
1 TTCATTTT
10473222 TTCATTTT
1 TTCATTTT
*
10473230 TCCATTTT
1 TTCATTTT
10473238 TTCATTTT
1 TTCATTTT
10473246 TT
1 TT
10473248 TCATGCATAG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
7 13 0.21
8 43 0.68
9 7 0.11
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (8 bp):
TTCATTTT
Found at i:10473198 original size:15 final size:16
Alignment explanation
Indices: 10473180--10473246 Score: 93
Period size: 15 Copynumber: 4.3 Consensus size: 16
10473170 ACTTTTTCTT
10473180 TTTTTCCATTTTTTC-
1 TTTTTCCATTTTTTCA
**
10473195 TTTTTTTATTTTTTCA
1 TTTTTCCATTTTTTCA
*
10473211 TTTTTTCA-TTTTTCA
1 TTTTTCCATTTTTTCA
10473226 TTTTTCCATTTTTTCA
1 TTTTTCCATTTTTTCA
10473242 TTTTT
1 TTTTT
10473247 TTCATGCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
15 27 0.59
16 19 0.41
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCCATTTTTTCA
Found at i:10473206 original size:23 final size:23
Alignment explanation
Indices: 10473171--10473248 Score: 104
Period size: 23 Copynumber: 3.3 Consensus size: 23
10473161 TCCTTATTCA
10473171 CTTTTTCTT-TTTTTCCATTTTTT
1 CTTTTT-TTATTTTTCCATTTTTT
*
10473194 CTTTTTTTATTTTTTCATTTTTT
1 CTTTTTTTATTTTTCCATTTTTT
* *
10473217 CATTTTTCATTTTTCCATTTTTT
1 CTTTTTTTATTTTTCCATTTTTT
10473240 CATTTTTTT
1 C-TTTTTTT
10473249 CATGCATAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.04
23 40 0.85
24 5 0.11
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (23 bp):
CTTTTTTTATTTTTCCATTTTTT
Found at i:10473245 original size:6 final size:7
Alignment explanation
Indices: 10473189--10473246 Score: 62
Period size: 7 Copynumber: 7.7 Consensus size: 7
10473179 TTTTTTCCAT
*
10473189 TTTTTCT
1 TTTTTCA
*
10473196 TTTTTTA
1 TTTTTCA
10473203 TTTTTTCA
1 -TTTTTCA
10473211 TTTTTTCA
1 -TTTTTCA
10473219 TTTTTCA
1 TTTTTCA
10473226 TTTTTCCA
1 TTTTT-CA
10473234 TTTTTTCA
1 -TTTTTCA
10473242 TTTTT
1 TTTTT
10473247 TTCATGCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
7 22 0.49
8 18 0.40
9 5 0.11
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:10475934 original size:60 final size:57
Alignment explanation
Indices: 10475805--10476522 Score: 726
Period size: 57 Copynumber: 11.7 Consensus size: 57
10475795 TTTTTTTTAG
*
10475805 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATTTTTTTTGGAAATTT--ATTTCT-AA
* * ***
10475864 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTAAAAACTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA--TTTTTTTTGGAAATTT-ATTTCTAA
*
10475924 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAA-A--TTTTTTTTGGAAATTTA--TTTC---TA
10475989 A
57 A
10475990 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTATTTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT--AAA-A--A-TTTTTTTTGGAAATTTATTTCTAA
* * *
10476053 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTT-CCCTAAAA-A-TTTTTTTTGGAAATTTATTTCTAA
*
10476113 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTGGAAATTTATTTC-TAA
10476170 GGAAAATTGATACTTTCAACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTA
1 GGAAAATTG--A---T--ACTTTCAACTTTTCCCT-AAAA-ATTTTTTTTGGAAATTTATTTCTA
10476235 A
57 A
* *
10476236 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTGGAAATTTATTTCT-AA
** * *
10476294 GG-AAATTAGATACTTTCAACTTTTCCCCTAAAAATGATTTTTTTTTAAAATTAATTTCTGA
1 GGAAAATT-GATACTTTCAACTTTT-CCCT-AAAA--ATTTTTTTTGGAAATTTATTTCTAA
*
10476355 GGAAGAATTGATACGGTTCAACTTTCTCCCTAAAATATTTTTATTTTGGAAATTTATTTTTCTTT
1 GGAA-AATTGATAC-TTTCAACTTT-TCCCTAAAA-A-TTTT-TTTTGGAAATTTA--TTTC---
10476420 TAA
55 TAA
* *
10476423 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTGGAAATTTATTTCTAA
10476480 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAT-T-TTTTTT
10476523 TAGAATTTTT
Statistics
Matches: 569, Mismatches: 42, Indels: 96
0.80 0.06 0.14
Matches are distributed among these distances:
56 3 0.01
57 91 0.16
58 29 0.05
59 58 0.10
60 80 0.14
61 29 0.05
62 68 0.12
63 58 0.10
64 23 0.04
65 23 0.04
66 65 0.11
67 15 0.03
68 25 0.04
69 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTGGAAATTTATTTCTAA
Found at i:10476216 original size:123 final size:123
Alignment explanation
Indices: 10475816--10476522 Score: 640
Period size: 123 Copynumber: 5.7 Consensus size: 123
10475806 GAAAATTGAT
10475816 ACTTTCAACTTTTTCCCAAAAATA--TTTTTTGGAAATTTCGATTT-TCAAGGAAAATTGATACT
1 ACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGGAAATTT--ATTTCT-AAGGAAAATTGATACT
* **
10475878 TTCAACTTTT-CCTCAAAAACCCT-TTTTTTGAAAATTTAAAAAC-TAAGGAAAATTGATACTTT
62 TTCAACTTTTCCCT-AAAAA--CTATTTTTTGGAAATTT--ATTCTTAAGGAAAATTGATACTTT
10475940 CA
122 CA
10475942 AC--T----TTTTCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAAGGAAAATTGAT
1 ACTTTCAACTTTTCCCAAAAATA--TTTTTTTTGGAAATTTA--TTTC---TAAGGAAAATTGAT
*
10476001 ACTTTCAACTTTTCCCTAAAAATATTATTTTTTTTTGGAAATTTATT-TCTAAGGAAAATTGATA
59 ACTTTCAACTTTTCCCT-AAAA-ACTA---TTTTTTGGAAATTTATTCT-TAAGGAAAATTGATA
10476065 CTTTCA
118 CTTTCA
* * *
10476071 AC--T----TTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTCTGAGGAAAATTGATACTTTC
1 ACTTTCAACTTTTCCCAAAAATA-TTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTC
10476130 AACTTTTCCCTAAAAA-TATTTTTTGGAAATTTATTCTTAAGGAAAATTGATACTTTCA
65 AACTTTTCCCTAAAAACTATTTTTTGGAAATTTATTCTTAAGGAAAATTGATACTTTCA
10476188 ACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTC
1 ACTTTCAACTTTTCCC-AAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTC
* *
10476253 AACTTTTCCCCAAAAA-TATTTTTTGGAAATTTATTTCTGAAGG-AAATTAGATACTTTCA
65 AACTTTTCCCTAAAAACTATTTTTTGGAAATTTA-TTCTTAAGGAAAATT-GATACTTTCA
* ** * * *
10476312 ACTTTTC--C----CCTAAAAATGATTTTTTTTTAAAATTAATTTCTGAGGAAGAATTGATACGG
1 AC-TTTCAACTTTTCCCAAAAAT-ATTTTTTTTGGAAATTTATTTCTAAGGAA-AATTGATAC-T
* *
10476371 TTCAACTTTCTCCCTAAAATATTTTTATTTTGGAAATTTATTTTTCTTTTAAGGAAAATTGATAC
62 TTCAACTTT-TCCCTAAAA-ACTATT-TTTTGGAAATTTA---TTC--TTAAGGAAAATTGATAC
10476436 TTTCA
119 TTTCA
*
10476441 AC--T----TTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCA
1 ACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCA
*
10476498 ACTTTTCCCTAAAAATATATTTTTT
66 ACTTTTCCCTAAAAA-CTATTTTTT
10476523 TAGAATTTTT
Statistics
Matches: 505, Mismatches: 30, Indels: 97
0.80 0.05 0.15
Matches are distributed among these distances:
117 40 0.08
118 7 0.01
119 42 0.08
120 11 0.02
121 16 0.03
122 24 0.05
123 140 0.28
124 40 0.08
125 39 0.08
126 34 0.07
127 13 0.03
128 27 0.05
129 54 0.11
130 18 0.04
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (123 bp):
ACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCA
ACTTTTCCCTAAAAACTATTTTTTGGAAATTTATTCTTAAGGAAAATTGATACTTTCA
Found at i:10476459 original size:187 final size:178
Alignment explanation
Indices: 10475805--10476529 Score: 850
Period size: 187 Copynumber: 3.9 Consensus size: 178
10475795 TTTTTTTTAG
*
10475805 GGAAAATTGATACTTTCAACTTTTTCCC-AAAA-ATA--TTTTTTGGAAATTTCGATTT-TCAAG
1 GGAAAATTGATACTTTCAACTTTCTCCCTAAAATATATTTTTTTTGGAAATTT--ATTTCT-AAG
* * ***
10475865 GAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTAAAAACTAAGGAAA
63 GAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTT-ATTTCTAAGGAAA
* *
10475929 ATTGATACTTTCAACTTTTTCCC-AAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAA
124 ATTGATACTTTCAAC-TTTTCCCTAAAAATA-TTTTTTTTT--AAAATTA-ATTTC--TTAA
10475990 GGAAAATTGATACTTTCAACTTT-TCCCTAAAAATATTATTTTTTTTTGGAAATTTATTTCTAAG
1 GGAAAATTGATACTTTCAACTTTCTCCCT-AAAATA-TA-TTTTTTTTGGAAATTTATTTCTAAG
* *
10476054 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTCTGAGGAAAA
63 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTCTAAGGAAAA
** *
10476119 TTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTA-TTCTTAA
125 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTAAAATTAATTTCTTAA
10476170 GGAAAATTGATACTTTCAACTTTCAACTTTTCCCTAAAA-ATATTTTTTTTGGAAATTTATTTCT
1 GGAAAATTGATACTTTCAACTTT---C---TCCCTAAAATATATTTTTTTTGGAAATTTATTTCT
10476234 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTGAAGG-AA
60 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCT-AAGGAAA
*
10476298 ATTAGATACTTTCAACTTTTCCCCTAAAAATGATTTTTTTTTAAAATTAATTTC-TGA
124 ATT-GATACTTTCAACTTTT-CCCTAAAAAT-ATTTTTTTTTAAAATTAATTTCTTAA
*
10476355 GGAAGAATTGATACGGTTCAACTTTCTCCCTAAAATAT-TTTTATTTTGGAAATTTATTTTTCTT
1 GGAA-AATTGATAC-TTTCAACTTTCTCCCTAAAATATATTTT-TTTTGGAAATTTA--TTTC--
10476419 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAA
59 -TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAA
* *
10476484 AATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTAGAATT
123 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTAAAATT
10476530 TTTTTATTTT
Statistics
Matches: 482, Mismatches: 21, Indels: 75
0.83 0.04 0.13
Matches are distributed among these distances:
180 51 0.11
181 32 0.07
182 28 0.06
183 60 0.12
184 29 0.06
185 52 0.11
186 47 0.10
187 78 0.16
188 9 0.02
189 69 0.14
190 13 0.03
191 14 0.03
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (178 bp):
GGAAAATTGATACTTTCAACTTTCTCCCTAAAATATATTTTTTTTGGAAATTTATTTCTAAGGAA
AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
CTTTCAACTTTTCCCTAAAAATATTTTTTTTTAAAATTAATTTCTTAA
Found at i:10476633 original size:19 final size:18
Alignment explanation
Indices: 10476609--10476657 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
10476599 TAATAAATAA
10476609 AAATAAAAATAAAATAAAC
1 AAATAAAAA-AAAATAAAC
* *
10476628 AAATAACAAAGAAATAAAT
1 AAATAA-AAAAAAATAAAC
10476647 AAA-AAAAAAAA
1 AAATAAAAAAAA
10476658 CCTGGAGCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 2 0.08
19 16 0.62
20 3 0.12
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (18 bp):
AAATAAAAAAAAATAAAC
Found at i:10477014 original size:19 final size:20
Alignment explanation
Indices: 10476974--10477019 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
10476964 GAACACCGGT
*
10476974 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
10476994 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
10477013 GCCGGAA
1 GCCGGAA
10477020 GTTGGCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:10477142 original size:31 final size:32
Alignment explanation
Indices: 10477071--10477142 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
10477061 AACTGGACTG
*
10477071 GTCGTC-GAAAACTTCAAAGTTGGCCGGAATT
1 GTCGTCGGAAAACTTCAAAGTTCGCCGGAATT
* *
10477102 GTAGCCGGAAAA-TTC-AAGTTTCGCCGGAATT
1 GTCGTCGGAAAACTTCAAAG-TTCGCCGGAATT
*
10477133 TTCGTCGGAA
1 GTCGTCGGAA
10477143 TCTGGAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 3 0.09
31 25 0.76
32 5 0.15
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (32 bp):
GTCGTCGGAAAACTTCAAAGTTCGCCGGAATT
Found at i:10477197 original size:25 final size:25
Alignment explanation
Indices: 10477151--10477198 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10477141 AATCTGGAAA
*
10477151 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAGAAATTTCCAAAAAAATT
*
10477176 TTTCGCCA-AAATTTCTAAAAAAA
1 TTTC-CCAGAAATTTCCAAAAAAA
10477199 ATTCTCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAAAAAAATT
Found at i:10478614 original size:13 final size:13
Alignment explanation
Indices: 10478596--10478620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10478586 AGAATCTTTT
10478596 CATTCATTGCATG
1 CATTCATTGCATG
10478609 CATTCATTGCAT
1 CATTCATTGCAT
10478621 ATGTTTAGAA
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:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (13 bp):
CATTCATTGCATG
Found at i:10478844 original size:43 final size:43
Alignment explanation
Indices: 10478793--10479190 Score: 360
Period size: 42 Copynumber: 9.4 Consensus size: 43
10478783 AGAATGATCT
*
10478793 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * *
10478836 TATTTTATTTTT-TAAAGTTTCAAAGCCTTAGTTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * ** * *
10478878 CATTTTATTTTT-TAAAGTCTCAAAGTCTTAACTATGGAGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * *
10478920 CATTTTATTTTTTAAAAGCTTCAAAGCCTTAGTTGTGAGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * * *
10478963 TATTTTA-TTTTCTAAAGTTCCAAAGCCTCAGTTGTGGAGAAA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * *
10479005 TATTTTATTTTTCAAAA-TTTCAAAG-TTCAATTGTGGGGGAA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * ** * * *
10479046 CATTTTA-TTTTAAAAAATTCCAATGTTTCAATTGTAGGGAAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
** **
10479088 CATTTTATTTTT-AAAAGTTTCAAAATCTCAGTTGTGAAGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
*
10479130 CATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTAGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGT-GGGGGAG
* *
10479174 CATTTTTTTTTTAAAAA
1 CATTTTATTTTTCAAAA
10479191 AAAGAAGTTT
Statistics
Matches: 288, Mismatches: 60, Indels: 13
0.80 0.17 0.04
Matches are distributed among these distances:
40 8 0.03
41 24 0.08
42 166 0.58
43 70 0.24
44 20 0.07
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
Found at i:10478947 original size:85 final size:85
Alignment explanation
Indices: 10478793--10479189 Score: 346
Period size: 85 Copynumber: 4.7 Consensus size: 85
10478783 AGAATGATCT
* * * * **
10478793 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAATATTTTATTTTTT-AAAGTTTC
1 CATTTTATTTTT-AAAAGTTCCAAAGCCTTAATTGTGGAGGAGCATTTTATTTTTTAAAAGTTTC
*
10478857 AAAGCCTTAGTTGTGGGGGAG
65 AAAGCCTTAGTTGTGAGGGAG
* * * * *
10478878 CATTTTATTTTTTAAAG-TCTCAAAGTCTTAACTATGGAGGAGCATTTTATTTTTTAAAAGCTTC
1 CATTTTATTTTTAAAAGTTC-CAAAGCCTTAATTGTGGAGGAGCATTTTATTTTTTAAAAGTTTC
10478942 AAAGCCTTAGTTGTGAGGGAG
65 AAAGCCTTAGTTGTGAGGGAG
* * * * ** *
10478963 TATTTTATTTTCT-AAAGTTCCAAAGCCTCAGTTGTGGAGAAATATTTTATTTTTCAAAA-TTTC
1 CATTTTATTTT-TAAAAGTTCCAAAGCCTTAATTGTGGAGGAGCATTTTATTTTTTAAAAGTTTC
* * *
10479026 AAAG--TTCAATTGTGGGGGAA
65 AAAGCCTT-AGTTGTGAGGGAG
* * * * *
10479046 CATTTTATTTTAAAAAATTCCAATG-TTTCAATTGTAGG-GAAGCATTTTA-TTTTTAAAAGTTT
1 CATTTTATTTTTAAAAGTTCCAAAGCCTT-AATTGT-GGAGGAGCATTTTATTTTTTAAAAGTTT
** * *
10479108 CAAAATCTCAGTTGTGAAGGAG
64 CAAAGCCTTAGTTGTGAGGGAG
* * *
10479130 CATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTAGGGGGAGCATTTT-TTTTTTAAAA
1 CATTTTATTTTT-AAAAGTTCCAAAGCCTTAATTGT-GGAGGAGCATTTTATTTTTTAAAA
10479190 AAAAGAAGTT
Statistics
Matches: 248, Mismatches: 49, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
82 11 0.04
83 52 0.21
84 60 0.24
85 102 0.41
86 23 0.09
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (85 bp):
CATTTTATTTTTAAAAGTTCCAAAGCCTTAATTGTGGAGGAGCATTTTATTTTTTAAAAGTTTCA
AAGCCTTAGTTGTGAGGGAG
Found at i:10480162 original size:32 final size:33
Alignment explanation
Indices: 10480126--10480188 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
10480116 TTTGCCTAAC
*
10480126 TAATATTATATTTGAATGA-TAATTTATTTGCT
1 TAATATTATATTTGAATGATTAATATATTTGCT
* *
10480158 TAATATTTTATTTGTATGATTAATATATTTG
1 TAATATTATATTTGAATGATTAATATATTTG
10480189 TGTGGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.56
Consensus pattern (33 bp):
TAATATTATATTTGAATGATTAATATATTTGCT
Found at i:10480295 original size:21 final size:21
Alignment explanation
Indices: 10480279--10480544 Score: 163
Period size: 20 Copynumber: 13.2 Consensus size: 21
10480269 ATTTAATGGA
10480279 ATGTTTTATATTGTTAATTGC
1 ATGTTTTATATTGTTAATTGC
* *
10480300 ATG-ATTATATAT-TTAGTTGC
1 ATGTTTTATAT-TGTTAATTGC
10480320 ATGTTTTATATTGTTAATTGC
1 ATGTTTTATATTGTTAATTGC
* *
10480341 ATG-ATAATATAT-TTAATTGC
1 ATGTTTTATAT-TGTTAATTGC
*
10480361 ATGTTTTATATTATTAATTGC
1 ATGTTTTATATTGTTAATTGC
*
10480382 ATG----ATAAT-TTACATTTGC
1 ATGTTTTATATTGTTA-A-TTGC
10480400 ATGTTTTATATTGTTAATTGC
1 ATGTTTTATATTGTTAATTGC
** * *
10480421 AT-AATTATA-T-ATATTTGC
1 ATGTTTTATATTGTTAATTGC
* *
10480439 ATG-ATTATATAT-TTATTTGC
1 ATGTTTTATAT-TGTTAATTGC
*
10480459 ATGTTTTACATTGTTAATTGC
1 ATGTTTTATATTGTTAATTGC
* * * *
10480480 GTG-ATTAGATAT-TTAATTAC
1 ATGTTTTATAT-TGTTAATTGC
* *
10480500 ATGTTTTACATTGTTAATTGT
1 ATGTTTTATATTGTTAATTGC
*
10480521 ATG-ATTATATAT-TTAATTGC
1 ATGTTTTATAT-TGTTAATTGC
10480541 ATGT
1 ATGT
10480545 CTATTTGCAT
Statistics
Matches: 192, Mismatches: 30, Indels: 46
0.72 0.11 0.17
Matches are distributed among these distances:
16 3 0.02
17 5 0.03
18 21 0.11
19 1 0.01
20 81 0.42
21 73 0.38
22 5 0.03
23 3 0.02
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (21 bp):
ATGTTTTATATTGTTAATTGC
Found at i:10480299 original size:41 final size:41
Alignment explanation
Indices: 10480254--10480432 Score: 249
Period size: 41 Copynumber: 4.4 Consensus size: 41
10480244 TATTTGTGTG
* * *
10480254 ATTGCATGATTATTTATTTAATGGAATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
*
10480295 ATTGCATGATTATATATTTAGTTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
* *
10480336 ATTGCATGATAATATATTTAATTGCATGTTTTATATTATTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
10480377 ATTGCATG---ATA-ATTTACATTTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTA-A-TTGCATGTTTTATATTGTTA
*
10480416 ATTGCATAATTATATAT
1 ATTGCATGATTATATAT
10480433 ATTTGCATGA
Statistics
Matches: 123, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
37 5 0.04
38 4 0.03
39 26 0.21
41 83 0.67
42 3 0.02
43 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (41 bp):
ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
Found at i:10480411 original size:39 final size:40
Alignment explanation
Indices: 10480279--10480451 Score: 217
Period size: 41 Copynumber: 4.3 Consensus size: 40
10480269 ATTTAATGGA
*
10480279 ATGTTTTATATTGTTAATTGCATGATTATATATT-TAGTTGC
1 ATGTTTTATATTGTTAATTGCATGA-TA-ATATTATATTTGC
* *
10480320 ATGTTTTATATTGTTAATTGCATGATAATATATTTAATTGC
1 ATGTTTTATATTGTTAATTGCATGATAATAT-TATATTTGC
* *
10480361 ATGTTTTATATTATTAATTGCATGATAAT-TTACATTTGC
1 ATGTTTTATATTGTTAATTGCATGATAATATTATATTTGC
* *
10480400 ATGTTTTATATTGTTAATTGCATAATTATA-TATATTTGC
1 ATGTTTTATATTGTTAATTGCATGATAATATTATATTTGC
*
10480439 ATGATTATATATT
1 ATG-TTTTATATT
10480452 TATTTGCATG
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
39 47 0.40
40 12 0.10
41 59 0.50
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.53
Consensus pattern (40 bp):
ATGTTTTATATTGTTAATTGCATGATAATATTATATTTGC
Found at i:10480440 original size:18 final size:19
Alignment explanation
Indices: 10480417--10480460 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
10480407 ATATTGTTAA
10480417 TTGCATAATTATATA-TAT
1 TTGCATAATTATATATTAT
*
10480435 TTGCATGATTATATATTTAT
1 TTGCATAATTATATA-TTAT
10480455 TTGCAT
1 TTGCAT
10480461 GTTTTACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.61
20 9 0.39
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (19 bp):
TTGCATAATTATATATTAT
Found at i:10480449 original size:98 final size:99
Alignment explanation
Indices: 10480337--10480532 Score: 263
Period size: 98 Copynumber: 2.0 Consensus size: 99
10480327 ATATTGTTAA
* *
10480337 TTGCATGATAATATATTTAATTGCATGTTTTATATTATTAATTGCATGA-T-A-ATTTACATTTG
1 TTGCATGATAATATATTTAATTGCATGTTTTACATTATTAATTGCATGATTAATATTTA-A-TTA
*
10480399 CATGTTTTATATTGTTAATTGCATAATTATATATAT
64 CATGTTTTACATTGTTAATTGCATAATTATATATAT
* * * *
10480435 TTGCATGATTATATATTTATTTGCATGTTTTACATTGTTAATTGCGTGATTAGATATTTAATTAC
1 TTGCATGATAATATATTTAATTGCATGTTTTACATTATTAATTGCATGATTA-ATATTTAATTAC
* *
10480500 ATGTTTTACATTGTTAATTGTATGATTATATAT
65 ATGTTTTACATTGTTAATTGCATAATTATATAT
10480533 TTAATTGCAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
98 44 0.52
99 1 0.01
100 33 0.39
101 2 0.02
102 5 0.06
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (99 bp):
TTGCATGATAATATATTTAATTGCATGTTTTACATTATTAATTGCATGATTAATATTTAATTACA
TGTTTTACATTGTTAATTGCATAATTATATATAT
Found at i:10480486 original size:41 final size:41
Alignment explanation
Indices: 10480435--10480544 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
10480425 TTATATATAT
*
10480435 TTGCATGATTATATATTTATTTGCATGTTTTACATTGTTAA
1 TTGCATGATTATATATTTAATTGCATGTTTTACATTGTTAA
* * *
10480476 TTGCGTGATTAGATATTTAATTACATGTTTTACATTGTTAA
1 TTGCATGATTATATATTTAATTGCATGTTTTACATTGTTAA
*
10480517 TTGTATGATTATATATTTAATTGCATGT
1 TTGCATGATTATATATTTAATTGCATGT
10480545 CTATTTGCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (41 bp):
TTGCATGATTATATATTTAATTGCATGTTTTACATTGTTAA
Found at i:10480602 original size:32 final size:31
Alignment explanation
Indices: 10480510--10480607 Score: 99
Period size: 32 Copynumber: 3.1 Consensus size: 31
10480500 ATGTTTTACA
* *
10480510 TTGTTAATTGTATGATTA-TATATTTAATTGC
1 TTGTTAATTGTATGATTATTA-ATTTATTTGT
* * *
10480541 ATGTCTATTTGCATGATTATTAATTTATTTGT
1 TTGT-TAATTGTATGATTATTAATTTATTTGT
* *
10480573 TTGTGTAATTGTATGATTATTAATATATTTAT
1 TTGT-TAATTGTATGATTATTAATTTATTTGT
10480605 TTG
1 TTG
10480608 CATGATTATT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
31 3 0.06
32 49 0.91
33 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (31 bp):
TTGTTAATTGTATGATTATTAATTTATTTGT
Found at i:10480641 original size:19 final size:19
Alignment explanation
Indices: 10480595--10480646 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
10480585 ATGATTATTA
*
10480595 ATATATTTATTTGCATGATT
1 ATATATTTA-TTGCATAATT
10480615 AT-TA-TTATTGCATAATT
1 ATATATTTATTGCATAATT
* *
10480632 TTATATTTATCGCAT
1 ATATATTTATTGCAT
10480647 GATATGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 10 0.37
20 2 0.07
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (19 bp):
ATATATTTATTGCATAATT
Found at i:10480830 original size:27 final size:28
Alignment explanation
Indices: 10480777--10480831 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
10480767 GCATGATTGT
10480777 TATTATTACATGATAATATATTTGCATGA
1 TATTATTACATGA-AATATATTTGCATGA
*
10480806 TATTCTTACATG-AATAT-TTTAGCATG
1 TATTATTACATGAAATATATTT-GCATG
10480832 GTCTAGGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.12
27 10 0.42
29 11 0.46
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (28 bp):
TATTATTACATGAAATATATTTGCATGA
Found at i:10491326 original size:72 final size:72
Alignment explanation
Indices: 10491250--10491383 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 72
10491240 AAAAGGACTA
** *
10491250 GTAGAAAATA-TAAAATCTAAGTAATATCTGAAGTATAATGAAACTAATTAGGTCAAGGGCTTAA
1 GTAGAAAATATTAAAA-CTAAGTAATATCAAAAGTATAATGAAACTAATAAGGTCAAGGGCTTAA
10491314 AAGGAAGG
65 AAGGAAGG
* * *
10491322 GTAGAAAATATTGAAACTAAGTAATATCAAAAGTATAATGAAACTAGTAAGTTCAAGGGCTT
1 GTAGAAAATATTAAAACTAAGTAATATCAAAAGTATAATGAAACTAATAAGGTCAAGGGCTT
10491384 TAGGTGATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 51 0.93
73 4 0.07
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (72 bp):
GTAGAAAATATTAAAACTAAGTAATATCAAAAGTATAATGAAACTAATAAGGTCAAGGGCTTAAA
AGGAAGG
Found at i:10498870 original size:128 final size:127
Alignment explanation
Indices: 10498636--10498884 Score: 401
Period size: 128 Copynumber: 2.0 Consensus size: 127
10498626 TATGAATTTC
* * *
10498636 ATATGGAATAAAGCCTTTGAGATTGCAACATTTAGTCTAAACCAAGATACAAGCAATTCCTAAAG
1 ATATGGAATAAAGCCTTTGAGACTACAACATTCAGTCTAAACCAAGATACAAGCAATTCCTAAAG
* * *
10498701 TTCTTATAATCATGGTTAGACAAGAAGTTGATTTTGAGCCATTTTTGGAGGTTAGGGTTGTA
66 TTCTTATAATCATGGTTAGACAAAAAGTTGATTTTGAGCCATTTTTGAAGCTTAGGGTTGTA
*
10498763 ATATGGAATGAAGCCTTTGAGACTACAACATTCAGTCTAAACCAAGAT-CTAAGCAAGTTCCTAA
1 ATATGGAATAAAGCCTTTGAGACTACAACATTCAGTCTAAACCAAGATAC-AAGCAA-TTCCTAA
*
10498827 AGTTGTTATAATCATGGTTAGACAAAAAGTTGATTTTGAGCCATTTTTGAAGCTTAGG
64 AGTTCTTATAATCATGGTTAGACAAAAAGTTGATTTTGAGCCATTTTTGAAGCTTAGG
10498885 TTTTAGTAAC
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
126 1 0.01
127 50 0.45
128 61 0.54
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (127 bp):
ATATGGAATAAAGCCTTTGAGACTACAACATTCAGTCTAAACCAAGATACAAGCAATTCCTAAAG
TTCTTATAATCATGGTTAGACAAAAAGTTGATTTTGAGCCATTTTTGAAGCTTAGGGTTGTA
Found at i:10502095 original size:14 final size:12
Alignment explanation
Indices: 10502051--10502086 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10502041 GATTCAAAAA
*
10502051 ATATTAAAAAAT
1 ATATTAAAATAT
*
10502063 ATTTTAAAATAT
1 ATATTAAAATAT
10502075 ATATTAAAATAT
1 ATATTAAAATAT
10502087 TAATATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTAAAATAT
Found at i:10503242 original size:21 final size:22
Alignment explanation
Indices: 10503202--10503242 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10503192 CTTGAAAAAA
*
10503202 TTTAAAATTAAATTAATTTATT
1 TTTAAAATTAAATCAATTTATT
*
10503224 TTTAAAATTTAA-CAATTTA
1 TTTAAAATTAAATCAATTTA
10503243 AACTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTAAAATTAAATCAATTTATT
Found at i:10503711 original size:17 final size:17
Alignment explanation
Indices: 10503686--10503734 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 17
10503676 ATTAATGTAA
*
10503686 AAATATTTTTTAATATT
1 AAATTTTTTTTAATATT
*
10503703 AAA-TTTTTTGAA-A-T
1 AAATTTTTTTTAATATT
*
10503717 AATTTTTTTTTAATATT
1 AAATTTTTTTTAATATT
10503734 A
1 A
10503735 TACAGATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 8 0.32
17 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
AAATTTTTTTTAATATT
Found at i:10517596 original size:54 final size:52
Alignment explanation
Indices: 10517538--10517695 Score: 142
Period size: 51 Copynumber: 3.0 Consensus size: 52
10517528 TATTATGCCT
* *
10517538 TCATATTATAACTATGAAAATACCCATTCTTTTATAATTATGTACTATAATACA
1 TCATATTATAATTATGAAAATACCC-TTCTCTTATAATTAT-TACTATAATACA
* * * * * *
10517592 TCATATCATAATTATGGATATACCCCTTCTCTTA-AATTA--ACTATTATGCCC
1 TCATATTATAATTATGAAAATA-CCCTTCTCTTATAATTATTACTATAAT-ACA
* * *
10517643 TTATACTATAATTATAAAAATACCTCTTCTCTTATAATTATTTACTATAATAC
1 TCATATTATAATTATGAAAATACC-CTTCTCTTATAATTA-TTACTATAATAC
10517696 CTTTAAACCA
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
50 9 0.11
51 26 0.32
52 5 0.06
53 5 0.06
54 26 0.32
55 10 0.12
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (52 bp):
TCATATTATAATTATGAAAATACCCTTCTCTTATAATTATTACTATAATACA
Found at i:10519220 original size:16 final size:15
Alignment explanation
Indices: 10519155--10519242 Score: 68
Period size: 16 Copynumber: 5.5 Consensus size: 15
10519145 GATAAATTTT
* *
10519155 TAAAATTAAAAAAAA
1 TAAAAATAAAAATAA
*
10519170 TAAAAATAACCAAAAAA
1 TAAAAATAA--AAATAA
* *
10519187 TTAATTAATAAAATTAA
1 -TAA-AAATAAAAATAA
10519204 TAAAAAGTAAAAATAA
1 TAAAAA-TAAAAATAA
*
10519220 TAATTAATAAAAATAA
1 TAA-AAATAAAAATAA
10519236 TAAAAAT
1 TAAAAAT
10519243 GTAGTAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
15 13 0.22
16 26 0.44
17 12 0.20
18 3 0.05
19 5 0.08
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (15 bp):
TAAAAATAAAAATAA
Found at i:10519238 original size:9 final size:9
Alignment explanation
Indices: 10519161--10519242 Score: 50
Period size: 9 Copynumber: 9.8 Consensus size: 9
10519151 TTTTTAAAAT
*
10519161 TAAAAAAAA
1 TAAAAATAA
10519170 TAAAAATAA
1 TAAAAATAA
**
10519179 CCAAAA-AA
1 TAAAAATAA
* *
10519187 T-TAATTAA
1 TAAAAATAA
*
10519195 TAAAATTAA
1 TAAAAATAA
*
10519204 T-AAAA-AG
1 TAAAAATAA
10519211 TAAAAATAA
1 TAAAAATAA
*
10519220 T--AATTAA
1 TAAAAATAA
10519227 TAAAAATAA
1 TAAAAATAA
10519236 TAAAAAT
1 TAAAAAT
10519243 GTAGTAAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
7 10 0.18
8 12 0.22
9 33 0.60
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.24
Consensus pattern (9 bp):
TAAAAATAA
Found at i:10524823 original size:49 final size:48
Alignment explanation
Indices: 10524694--10524836 Score: 178
Period size: 49 Copynumber: 2.9 Consensus size: 48
10524684 GTTTCAAGAA
* * *
10524694 AAAATGAGATTTTTAAAGTCATTGAGCCTCTACTTAAAAGAGCTTTTCC
1 AAAATGAAATTTTTAAAGTCATTGAGCCTCTGCTTAGAA-AGCTTTTCC
* * *
10524743 AAGATGAAATTTTTAAAGTCATTTAGCCTCTGCTTAGAGAAGCTTTTCT
1 AAAATGAAATTTTTAAAGTCATTGAGCCTCTGCTTAGA-AAGCTTTTCC
* ** *
10524792 AAAATGAAATTTTTAAAATTGTTGAGCCTCTGCATAGAAAGCTTT
1 AAAATGAAATTTTTAAAGTCATTGAGCCTCTGCTTAGAAAGCTTT
10524837 CATTATCATG
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
48 7 0.09
49 73 0.90
50 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (48 bp):
AAAATGAAATTTTTAAAGTCATTGAGCCTCTGCTTAGAAAGCTTTTCC
Found at i:10524945 original size:45 final size:46
Alignment explanation
Indices: 10524871--10525038 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
10524861 CGGCAAAATA
* * * *
10524871 TTTTAAATTGTC--AAAAGTTATCAAGCCTCTA-TTTAGAAGGGTT
1 TTTTAAATTTTCAAAAAAGTTATCAAGCCTCTATTTTAAAAGAGCT
* *
10524914 TTTTAAATTTTCAAAAAAGTTGTTAAGCCTCTATTTTAAAAGAGCT
1 TTTTAAATTTTCAAAAAAGTTATCAAGCCTCTATTTTAAAAGAGCT
* * * *
10524960 TTTTAAAATTTCAAAAAAATCATCAAGCCTTTA-TTTAGAAA-AGC-
1 TTTTAAATTTTCAAAAAAGTTATCAAGCCTCTATTTTA-AAAGAGCT
* * *
10525004 CTTTAAATTTTTCAAAAAAAGTCATCAAACCTCTA
1 TTTTAAA-TTTTC-AAAAAAGTTATCAAGCCTCTA
10525039 CTTTGAGGAG
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
43 11 0.11
44 6 0.06
45 28 0.27
46 57 0.56
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (46 bp):
TTTTAAATTTTCAAAAAAGTTATCAAGCCTCTATTTTAAAAGAGCT
Found at i:10525813 original size:13 final size:13
Alignment explanation
Indices: 10525795--10525819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10525785 AAATAACCAA
10525795 AAAATTAATTAAT
1 AAAATTAATTAAT
10525808 AAAATTAATTAA
1 AAAATTAATTAA
10525820 AATAGTAAAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTAATTAAT
Found at i:10525822 original size:34 final size:34
Alignment explanation
Indices: 10525758--10525855 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 34
10525748 TTATTGGTTT
** *
10525758 AAAAATAATAATTTTTTTAAAA-AATAAAAATAACC
1 AAAAATAATAA-TTAATAAAAATAATAAAAAT-ACC
* * * **
10525793 AAAAA-ATTAATTAATAAAATTAATTAAAATAGT
1 AAAAATAATAATTAATAAAAATAATAAAAATACC
10525826 AAAAATAATAATTAATAAAAATAATAAAAA
1 AAAAATAATAATTAATAAAAATAATAAAAA
10525856 ATTAGTAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
33 12 0.24
34 33 0.66
35 5 0.10
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (34 bp):
AAAAATAATAATTAATAAAAATAATAAAAATACC
Found at i:10525847 original size:25 final size:24
Alignment explanation
Indices: 10525805--10525855 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
10525795 AAAATTAATT
* *
10525805 AATAAAATTAATTAAAATAGTAAA
1 AATAAAATTAATAAAAATAATAAA
10525829 AATAATAATTAATAAAAATAATAAA
1 AATAA-AATTAATAAAAATAATAAA
10525854 AA
1 AA
10525856 ATTAGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (24 bp):
AATAAAATTAATAAAAATAATAAA
Found at i:10525857 original size:10 final size:9
Alignment explanation
Indices: 10525804--10525855 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
10525794 AAAAATTAAT
*
10525804 TAATAAAAT
1 TAATAAAAA
*
10525813 TAATTAAAA
1 TAATAAAAA
*
10525822 TAGTAAAAA
1 TAATAAAAA
*
10525831 TAAT--AAT
1 TAATAAAAA
10525838 TAATAAAAA
1 TAATAAAAA
10525847 TAATAAAAA
1 TAATAAAAA
10525856 ATTAGTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
7 6 0.18
9 28 0.82
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
TAATAAAAA
Found at i:10525877 original size:20 final size:20
Alignment explanation
Indices: 10525794--10525867 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 20
10525784 AAAATAACCA
10525794 AAAAATTAATTAATAAAATTAATT
1 AAAAA-TAA-TAA-AAAATTAA-T
*
10525818 AAAATAGTAAAAATAATAATTAAT
1 AAAA-A-TAATAA-AA-AATTAAT
*
10525842 AAAAATAATAAAAAATTAGT
1 AAAAATAATAAAAAATTAAT
10525862 AAAAAT
1 AAAAAT
10525868 GTAAGAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 12 0.27
21 2 0.05
22 5 0.11
23 1 0.02
24 14 0.32
25 10 0.23
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAATAATAAAAAATTAAT
Found at i:10527138 original size:25 final size:27
Alignment explanation
Indices: 10527109--10527172 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 27
10527099 TATTAGTTAA
*
10527109 AATTACTA-TAATACC-TTCCT-ATAAT
1 AATTACTAGAAATACCTTTCCTAAT-AT
10527134 AATTA-TAGAAATACCTTTCCTAATAT
1 AATTACTAGAAATACCTTTCCTAATAT
10527160 AATTTACTA-AAAT
1 AA-TTACTAGAAAT
10527173 TATTACAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 2 0.06
25 11 0.33
26 9 0.27
27 9 0.27
28 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (27 bp):
AATTACTAGAAATACCTTTCCTAATAT
Found at i:10527203 original size:33 final size:34
Alignment explanation
Indices: 10527157--10527221 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
10527147 CCTTTCCTAA
* *
10527157 TATAATTTACT-AAAATTATTACAATACCTTTAT
1 TATAATTGACTAAAAATTACTACAATACCTTTAT
* *
10527190 TATAATTGGCTAAAAATTACTATAATACCTTT
1 TATAATTGACTAAAAATTACTACAATACCTTT
10527222 CATATCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (34 bp):
TATAATTGACTAAAAATTACTACAATACCTTTAT
Found at i:10528177 original size:6 final size:6
Alignment explanation
Indices: 10528142--10528219 Score: 84
Period size: 6 Copynumber: 13.0 Consensus size: 6
10528132 ATCTTAGTTG
* * * *
10528142 ATTTTA ATCTTG ATTTTA ATTTTT AGTTTA ATTTTA ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * * *
10528190 ATTTTG ATTTTG ATTTTG ATTTTA TTTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
10528220 GTATAAGTCA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:10529323 original size:103 final size:103
Alignment explanation
Indices: 10529207--10529395 Score: 297
Period size: 103 Copynumber: 1.8 Consensus size: 103
10529197 TATTTTTTAA
* * * *
10529207 AATCCTACCAACATATTGGAGGGTAATTCTTGACGAAAAATTTTATCAACATATTGAAAAATATT
1 AATCCGACCAACATATTGGAGGATAATTCTTGACAAAAAATTTTATCAACATATTGAAAAATATA
*
10529272 TTTGAAAATAAATTATTTTCATAAATAAATAAAATTTC
66 TCTGAAAATAAATTATTTTCATAAATAAATAAAATTTC
* * * *
10529310 AATCCGACTAACATATTGGAGGATAATTTTTGACAAAAAATTTTATCAACATATTGAAAGATGTA
1 AATCCGACCAACATATTGGAGGATAATTCTTGACAAAAAATTTTATCAACATATTGAAAAATATA
10529375 TCTGAAAATAAATTATTTTCA
66 TCTGAAAATAAATTATTTTCA
10529396 ATATGAGTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 77 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (103 bp):
AATCCGACCAACATATTGGAGGATAATTCTTGACAAAAAATTTTATCAACATATTGAAAAATATA
TCTGAAAATAAATTATTTTCATAAATAAATAAAATTTC
Found at i:10533196 original size:374 final size:373
Alignment explanation
Indices: 10532468--10533201 Score: 1153
Period size: 374 Copynumber: 2.0 Consensus size: 373
10532458 ATGGTTTAAA
* * *
10532468 AAGATCCAGAGGTAACAAAAAGAGAGCTCACATTGATTCTATCTCCATAACATTCACTGAACTAT
1 AAGATCCAGAGGCAACAAAAAAAGAGCTCACATTGATTCTATCTCCATAACATTCACTAAACTAT
* *
10532533 TCCCAGAATTAGTTAAGAATCAGTAGATATCTACTAGTATTTTGGAACCATTGAAGTTACCTATC
66 TCCCAGAATTAGTTAAGAATCAATAGATATCTACTAGTATTTTGGAACCATTGAAGCTACCTATC
* * *
10532598 CAAAATGGTATAATATCAATGACACATATGATTGCCATAATGAGAATATGGATCACTCTATCAAA
131 CAAAATGGTACAATATCAATGACACATATGATTACCATAATGAGAATATAGATCACTCTATCAAA
**
10532663 ACTTATCCTACTTTCAAGCACAAGGTGCAAAGTTTGATTCAAGTAGGTTTGGTGAGCTTCAATGA
196 ACTTATCCTACTTTCAAGCACAAGGTGCAAAGTTTGATTCAAGTAGGTTCAGTGAGCTTCAATGA
* * * * * *
10532728 ATCTAAGGAGTTAAATGTCAATAAAGACCCTTTGCCCAATCAATCAGGGGCATAATTTTAGGAAG
261 ATCAAAGGAGTTAAATGTCAATAAAGACCCTTTGCCCAATCAACCAAGGGCAAAATTTTAAGAAA
*
10532793 GCTGATTAGATATGTTTGTCATTTTAGGATTTTTTAAAAATGTGTAAG
326 GCTGATTAGATATGCTTGTCATTTTAGGATTTTTTAAAAATGTGTAAG
** * * *
10532841 AAGATCCAGAGGCAACAAAAAAAGAGCTCATGTTGATTTTATCTCTATAACATTCATTAAACTAT
1 AAGATCCAGAGGCAACAAAAAAAGAGCTCACATTGATTCTATCTCCATAACATTCACTAAACTAT
* * *
10532906 TCCCAGAATTGGTTAAGAATTAATAGATATCTACTGGTATTTTGGAACCATTGAAGCTACCTATC
66 TCCCAGAATTAGTTAAGAATCAATAGATATCTACTAGTATTTTGGAACCATTGAAGCTACCTATC
* *
10532971 CCAAATGGTACAATATCAATGCCACATATGATTACCATAATGAGAATTATAGATCACTCTATCAA
131 CAAAATGGTACAATATCAATGACACATATGATTACCATAATGAGAA-TATAGATCACTCTATCAA
* * *
10533036 AATTTATCCTACTTTCAAGCACAAGGTGCAAAGTTTGATTCGAGTAGGTTCATTGAGCTTCAATG
195 AACTTATCCTACTTTCAAGCACAAGGTGCAAAGTTTGATTCAAGTAGGTTCAGTGAGCTTCAATG
* * *
10533101 AATCAAATGAGTTAAATGTCAATAAAGACCTTTTGCCCAATCAACCAAGGGTAAAATTTTAAGAA
260 AATCAAAGGAGTTAAATGTCAATAAAGACCCTTTGCCCAATCAACCAAGGGCAAAATTTTAAGAA
*
10533166 AGCTGATTAGATCTGCTTGTCATTTTAGGATTTTTT
325 AGCTGATTAGATATGCTTGTCATTTTAGGATTTTTT
10533202 TTAGAATGTG
Statistics
Matches: 326, Mismatches: 34, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
373 159 0.49
374 167 0.51
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (373 bp):
AAGATCCAGAGGCAACAAAAAAAGAGCTCACATTGATTCTATCTCCATAACATTCACTAAACTAT
TCCCAGAATTAGTTAAGAATCAATAGATATCTACTAGTATTTTGGAACCATTGAAGCTACCTATC
CAAAATGGTACAATATCAATGACACATATGATTACCATAATGAGAATATAGATCACTCTATCAAA
ACTTATCCTACTTTCAAGCACAAGGTGCAAAGTTTGATTCAAGTAGGTTCAGTGAGCTTCAATGA
ATCAAAGGAGTTAAATGTCAATAAAGACCCTTTGCCCAATCAACCAAGGGCAAAATTTTAAGAAA
GCTGATTAGATATGCTTGTCATTTTAGGATTTTTTAAAAATGTGTAAG
Found at i:10533846 original size:18 final size:17
Alignment explanation
Indices: 10533815--10533864 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
10533805 AAAGTGCAAA
*
10533815 AAAAAAAAACAAAAAA-
1 AAAAAAAAAGAAAAAAG
*
10533831 CAAAAAAAAGATAAAAAG
1 AAAAAAAAAGA-AAAAAG
*
10533849 AAAAAAGAAGAAAAAA
1 AAAAAAAAAGAAAAAA
10533865 TTGATGGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.32
17 10 0.36
18 9 0.32
ACGTcount: A:0.86, C:0.04, G:0.08, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:10535416 original size:43 final size:44
Alignment explanation
Indices: 10535266--10535453 Score: 132
Period size: 43 Copynumber: 4.2 Consensus size: 44
10535256 TTCAAATAAG
* *
10535266 AATCTTTGAAACTTT-AGATATGAATCCCTAGAAATTTTT-AATGAA
1 AATCTTTG-AACTTTCGGATGTGAAT-CCT-GAAATTTTTAAATGAA
* * ** * * * * **
10535311 AACCTTTGAAATTTTAGATGTGAAACATTAAAATTTTTTGAATGTG
1 AATCTTTGAACTTTCGGATGTGAATC-CTGAAA-TTTTTAAATGAA
* *
10535357 AATCTTTGAAGTTTCGGATGTGAATCCT-AAGTTTTTCAAATGAA
1 AATCTTTGAACTTTCGGATGTGAATCCTGAAATTTTT-AAATGAA
* * * *
10535401 AATCTTT-AACTTTCGGGTGTGAATTCTGAAATTTTTGAATGAG
1 AATCTTTGAACTTTCGGATGTGAATCCTGAAATTTTTAAATGAA
10535444 AATCTTTGAA
1 AATCTTTGAA
10535454 TTATGACTGT
Statistics
Matches: 112, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
43 34 0.30
44 31 0.28
45 22 0.20
46 25 0.22
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (44 bp):
AATCTTTGAACTTTCGGATGTGAATCCTGAAATTTTTAAATGAA
Found at i:10535674 original size:17 final size:17
Alignment explanation
Indices: 10535647--10535700 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10535637 AATTCTTGCG
*
10535647 AATCTAAAAGTCTTACA
1 AATCTGAAAGTCTTACA
* ** *
10535664 AATTTTTAAGTTCTTACG
1 AATCTGAAAG-TCTTACA
10535682 AATCTGAAAGTCTTACA
1 AATCTGAAAGTCTTACA
10535699 AA
1 AA
10535701 ACTTTGAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (17 bp):
AATCTGAAAGTCTTACA
Found at i:10535684 original size:35 final size:34
Alignment explanation
Indices: 10535625--10535705 Score: 108
Period size: 35 Copynumber: 2.4 Consensus size: 34
10535615 TTTGAAAATT
* *
10535625 TTACGAATCTTTAATTCTTGCGAATCTAAAAGTC
1 TTACAAATCTTTAATTCTTACGAATCTAAAAGTC
* *
10535659 TTACAAATTTTTAAGTTCTTACGAATCTGAAAGTC
1 TTACAAATCTTTAA-TTCTTACGAATCTAAAAGTC
*
10535694 TTACAAAACTTT
1 TTACAAATCTTT
10535706 GAGTTTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 12 0.30
35 28 0.70
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (34 bp):
TTACAAATCTTTAATTCTTACGAATCTAAAAGTC
Found at i:10535813 original size:18 final size:18
Alignment explanation
Indices: 10535741--10535957 Score: 126
Period size: 18 Copynumber: 12.4 Consensus size: 18
10535731 GAGAATCAAT
*
10535741 AATTCTTGCAAAT-TTGAA
1 AATTCTTGCAAATCTT-TA
* *
10535759 AATTTTTGCAAA-CTTGA
1 AATTCTTGCAAATCTTTA
10535776 AATTCTTG-AGAATC---A
1 AATTCTTGCA-AATCTTTA
* *
10535791 AATTCTTACGAATCTTTA
1 AATTCTTGCAAATCTTTA
** *
10535809 AATTCTTTTAAATC-TGA
1 AATTCTTGCAAATCTTTA
** *
10535826 AATTCTTGTGAATTTTTA
1 AATTCTTGCAAATCTTTA
** * *
10535844 TGTTCTTGCAAAAC-TGA
1 AATTCTTGCAAATCTTTA
*
10535861 AATTCTTGCAAATTTTTA
1 AATTCTTGCAAATCTTTA
*** **
10535879 AATTCTTTTTAATCTAAA
1 AATTCTTGCAAATCTTTA
* * *
10535897 AATTCTTGCGAATCCTAA
1 AATTCTTGCAAATCTTTA
*
10535915 AATTTTTGCAAATCTTTA
1 AATTCTTGCAAATCTTTA
*
10535933 AATTCTTGCAAATCTTAA
1 AATTCTTGCAAATCTTTA
10535951 AATTCTT
1 AATTCTT
10535958 TCGAATCTAA
Statistics
Matches: 148, Mismatches: 42, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
15 12 0.08
16 1 0.01
17 35 0.24
18 100 0.68
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (18 bp):
AATTCTTGCAAATCTTTA
Found at i:10535832 original size:35 final size:35
Alignment explanation
Indices: 10535790--10535972 Score: 152
Period size: 35 Copynumber: 5.2 Consensus size: 35
10535780 CTTGAGAATC
* * *
10535790 AAATTCTTACGAATCTTTAAATTCTTTTAAATCTG
1 AAATTCTTGCGAATCTTTAAATTCTTTCAAATCTA
* * ** * * *
10535825 AAATTCTTGTGAATTTTTATGTTCTTGCAAAACTG
1 AAATTCTTGCGAATCTTTAAATTCTTTCAAATCTA
* * **
10535860 AAATTCTTGCAAATTTTTAAATTCTTTTTAATCTAA
1 AAATTCTTGCGAATCTTTAAATTCTTTCAAATCT-A
* * *
10535896 AAATTCTTGCGAATCCTAAAATT-TTTGCAAATCTTT
1 AAATTCTTGCGAATCTTTAAATTCTTT-CAAATC-TA
* * *
10535932 AAATTCTTGCAAATCTTAAAATTCTTTCGAATCTA
1 AAATTCTTGCGAATCTTTAAATTCTTTCAAATCTA
10535967 AAATTC
1 AAATTC
10535973 AGGCAAATTT
Statistics
Matches: 116, Mismatches: 28, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
35 63 0.54
36 49 0.42
37 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.44
Consensus pattern (35 bp):
AAATTCTTGCGAATCTTTAAATTCTTTCAAATCTA
Found at i:10535918 original size:36 final size:36
Alignment explanation
Indices: 10535741--10535998 Score: 124
Period size: 35 Copynumber: 7.4 Consensus size: 36
10535731 GAGAATCAAT
* * * * *
10535741 AATTCTTGCAAATTTGAAAATTTTTGCAAA-CTTGA
1 AATTCTTTCAAATCTAAAAATTCTTGCAAATCTTAA
* * * *
10535776 AATTC-TTGAGAATC---AAATTCTTACGAATCTTTA
1 AATTCTTTCA-AATCTAAAAATTCTTGCAAATCTTAA
* * ** * *
10535809 AATTCTTTTAAATCT-GAAATTCTTGTGAATTTTTA
1 AATTCTTTCAAATCTAAAAATTCTTGCAAATCTTAA
** * * * * *
10535844 TGTTCTTGCAAAACT-GAAATTCTTGCAAATTTTTA
1 AATTCTTTCAAATCTAAAAATTCTTGCAAATCTTAA
** * *
10535879 AATTCTTTTTAATCTAAAAATTCTTGCGAATCCTAA
1 AATTCTTTCAAATCTAAAAATTCTTGCAAATCTTAA
**
10535915 AATT-TTTGCAAATCTTTAAATTCTTGCAAATCTTAA
1 AATTCTTT-CAAATCTAAAAATTCTTGCAAATCTTAA
* **
10535951 AATTCTTTCGAATCT-AAAATTCAGGCAAAT-TT-A
1 AATTCTTTCAAATCTAAAAATTCTTGCAAATCTTAA
* *
10535984 AGTTCTTACAAATCT
1 AATTCTTTCAAATCT
10535999 TCCCTCCTTG
Statistics
Matches: 173, Mismatches: 42, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
32 10 0.06
33 26 0.15
34 7 0.04
35 76 0.44
36 51 0.29
37 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (36 bp):
AATTCTTTCAAATCTAAAAATTCTTGCAAATCTTAA
Found at i:10535933 original size:54 final size:53
Alignment explanation
Indices: 10535846--10535998 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 53
10535836 AATTTTTATG
* * * * ***
10535846 TTCTTGCAAAACTGAAATTCTTGCAAATTTTTAAATTCTTTTTAATCTAAAAA
1 TTCTTGCGAATCTAAAATTCTTGCAAATCTTTAAATTCTTGCAAATCTAAAAA
* *
10535899 TTCTTGCGAATCCTAAAATTTTTGCAAATCTTTAAATTCTTGCAAATCTTAAAA
1 TTCTTGCGAAT-CTAAAATTCTTGCAAATCTTTAAATTCTTGCAAATCTAAAAA
* ** * *
10535953 TTCTTTCGAATCTAAAATTCAGGCAAA--TTTAAGTTCTTACAAATCT
1 TTCTTGCGAATCTAAAATTCTTGCAAATCTTTAAATTCTTGCAAATCT
10535999 TCCCTCCTTG
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
51 17 0.20
53 22 0.26
54 45 0.54
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (53 bp):
TTCTTGCGAATCTAAAATTCTTGCAAATCTTTAAATTCTTGCAAATCTAAAAA
Found at i:10535964 original size:18 final size:18
Alignment explanation
Indices: 10535860--10535972 Score: 95
Period size: 18 Copynumber: 6.3 Consensus size: 18
10535850 TGCAAAACTG
* * *
10535860 AAATTCTTGCAAATTTTT
1 AAATTCTTTCAAATCTTA
** *
10535878 AAATTCTTTTTAATCTAA
1 AAATTCTTTCAAATCTTA
* * *
10535896 AAATTCTTGCGAATCCTA
1 AAATTCTTTCAAATCTTA
*
10535914 AAATT-TTTGCAAATCTTT
1 AAATTCTTT-CAAATCTTA
*
10535932 AAATTCTTGCAAATCTTA
1 AAATTCTTTCAAATCTTA
*
10535950 AAATTCTTTCGAATC-TA
1 AAATTCTTTCAAATCTTA
10535967 AAATTC
1 AAATTC
10535973 AGGCAAATTT
Statistics
Matches: 74, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
17 10 0.14
18 62 0.84
19 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.43
Consensus pattern (18 bp):
AAATTCTTTCAAATCTTA
Found at i:10536452 original size:6 final size:6
Alignment explanation
Indices: 10536423--10536494 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
10536413 ATCTTAGTTG
* * *
10536423 ATTTTA ATATTG ATTTTA ATTTTTA GTTTTA ATTTTA A-TTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA A-TTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * * *
10536471 AGTTTG ATTTTG ATTTTA TTTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA
10536495 GTATAAGTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
5 5 0.09
6 43 0.81
7 5 0.09
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:10536466 original size:11 final size:11
Alignment explanation
Indices: 10536450--10536492 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10536440 AATTTTTAGT
10536450 TTTAATTTTAA
1 TTTAATTTTAA
10536461 TTTAATTTTAA
1 TTTAATTTTAA
* *
10536472 GTTTGATTTTGA
1 -TTTAATTTTAA
*
10536484 TTTTATTTT
1 TTTAATTTT
10536493 TAGTATAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:10536469 original size:24 final size:24
Alignment explanation
Indices: 10536437--10536496 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
10536427 TAATATTGAT
10536437 TTTAATTTTTAGTTTTAATTTTAA
1 TTTAATTTTTAGTTTTAATTTTAA
* * *
10536461 TTTAATTTTAAG-TTTGATTTTGA
1 TTTAATTTTTAGTTTTAATTTTAA
*
10536484 TTTTATTTTTAGT
1 TTTAATTTTTAGT
10536497 ATAAGTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (24 bp):
TTTAATTTTTAGTTTTAATTTTAA
Found at i:10537298 original size:45 final size:44
Alignment explanation
Indices: 10537205--10537299 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
10537195 TTTTTATACT
* * * * * *
10537205 AGCCCAAATGTGGAATTGAATTGGCTTGGCCTTGATTTCCCACT
1 AGCCCAAATGTGGAATTGAAATAGCTAGGCCTTGACTTACCACC
* *
10537249 AGCCCAATATGTGGAATTGAAATAGCTAGGCCTTGGCTTATCACC
1 AGCCCAA-ATGTGGAATTGAAATAGCTAGGCCTTGACTTACCACC
10537294 AGCCCA
1 AGCCCA
10537300 GACGTAAAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 7 0.17
45 35 0.83
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
AGCCCAAATGTGGAATTGAAATAGCTAGGCCTTGACTTACCACC
Found at i:10537728 original size:103 final size:102
Alignment explanation
Indices: 10537547--10537744 Score: 281
Period size: 103 Copynumber: 1.9 Consensus size: 102
10537537 ATTTTTTTAA
* * * *
10537547 AATCCTACCAATATGTTGGAGGATAATTCTAGATAAAAAATTTTACCAACATATTGGAAGATATT
1 AATCCTACAAATATATTGGAGGATAATTCTAGACAAAAAATCTTACCAACATATTGGAAGATATT
* *
10537612 TTTAAAAATAAATTGTTTTCATAAATTAAAAAATTTTC
66 TCTAAAAAGAAATTGTTTTCATAAA-TAAAAAATTTTC
* * * *
10537650 AATCCTACAAATATATTGGAGGATAA-TCTTTGACAAAAAGTCTTATCAATATATTGGAAGATAT
1 AATCCTACAAATATATTGGAGGATAATTC-TAGACAAAAAATCTTACCAACATATTGGAAGATAT
10537714 TTCTAAAAAGAAATTGTTTTCATAAATAAAA
65 TTCTAAAAAGAAATTGTTTTCATAAATAAAA
10537745 GTTTTTTTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 7 0.08
103 77 0.92
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (102 bp):
AATCCTACAAATATATTGGAGGATAATTCTAGACAAAAAATCTTACCAACATATTGGAAGATATT
TCTAAAAAGAAATTGTTTTCATAAATAAAAAATTTTC
Found at i:10540655 original size:18 final size:20
Alignment explanation
Indices: 10540611--10540670 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
10540601 CATGTAATTA
*
10540611 ATCATGCAATAATATAAAAT
1 ATCATGCAAAAATATAAAAT
* *
10540631 ATCATGCAACAATAT-AAGT
1 ATCATGCAAAAATATAAAAT
10540650 -TCATGCAAAAATATCAAAAT
1 ATCATGCAAAAATAT-AAAAT
10540670 A
1 A
10540671 AAAGCATGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 13 0.39
19 3 0.09
20 17 0.52
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (20 bp):
ATCATGCAAAAATATAAAAT
Found at i:10541167 original size:10 final size:10
Alignment explanation
Indices: 10541154--10541189 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
10541144 ATTAAATATT
*
10541154 AATTTATTTG
1 AATTGATTTG
*
10541164 AATTGAATTG
1 AATTGATTTG
10541174 AATTGATTTG
1 AATTGATTTG
10541184 AATTGA
1 AATTGA
10541190 ATTTCATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (10 bp):
AATTGATTTG
Found at i:10541171 original size:5 final size:5
Alignment explanation
Indices: 10541161--10541192 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
10541151 ATTAATTTAT
*
10541161 TTGAA TTGAA TTGAA TTGAT TTGAA TTGAA TT
1 TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TT
10541193 TCATTACAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (5 bp):
TTGAA
Found at i:10541846 original size:16 final size:18
Alignment explanation
Indices: 10541815--10541847 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
10541805 TCAAGAAATC
10541815 TAAAAATATGAAGAAAAA
1 TAAAAATATGAAGAAAAA
10541833 TAAAAA-AT-AAGAAAA
1 TAAAAATATGAAGAAAA
10541848 CAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
TAAAAATATGAAGAAAAA
Found at i:10546259 original size:20 final size:20
Alignment explanation
Indices: 10546234--10546271 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10546224 GGATCTTTCA
10546234 TTTTTT-TTTCTTTTTCTCCC
1 TTTTTTATTT-TTTTTCTCCC
10546254 TTTTTTATTTTTTTTCTC
1 TTTTTTATTTTTTTTCTC
10546272 TATTTGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTATTTTTTTTCTCCC
Found at i:10556969 original size:23 final size:23
Alignment explanation
Indices: 10556939--10556985 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10556929 AAGAAAACTC
10556939 TATGATACTTACCATGTAAATAA
1 TATGATACTTACCATGTAAATAA
10556962 TATGATACTTACCATGTAAATAA
1 TATGATACTTACCATGTAAATAA
10556985 T
1 T
10556986 GATCACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (23 bp):
TATGATACTTACCATGTAAATAA
Found at i:10561139 original size:2 final size:2
Alignment explanation
Indices: 10561132--10561165 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10561122 CTTATTCGAT
10561132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10561166 ATTCAGATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10561307 original size:17 final size:17
Alignment explanation
Indices: 10561266--10561298 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10561256 TCTGCTACAA
10561266 TACAACTATAATATAAC
1 TACAACTATAATATAAC
*
10561283 TAAAACTATAATATAA
1 TACAACTATAATATAA
10561299 GTGCAACTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
TACAACTATAATATAAC
Found at i:10564061 original size:13 final size:14
Alignment explanation
Indices: 10564036--10564064 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10564026 ATCAATCAAT
10564036 TTATTTGAAAAAAA
1 TTATTTGAAAAAAA
10564050 TTATTT-AAAAAAA
1 TTATTTGAAAAAAA
10564063 TT
1 TT
10564065 TAAAAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
TTATTTGAAAAAAA
Found at i:10571297 original size:14 final size:15
Alignment explanation
Indices: 10571277--10571310 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10571267 TTCACACCTT
*
10571277 TTTTTTATAAAATTA
1 TTTTTAATAAAATTA
10571292 TTTTTAAATAAAATTA
1 TTTTT-AATAAAATTA
10571308 TTT
1 TTT
10571311 AATTATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTAATAAAATTA
Found at i:10573916 original size:14 final size:15
Alignment explanation
Indices: 10573897--10573925 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10573887 TAATTTTACA
10573897 AATA-TTAAAATATT
1 AATATTTAAAATATT
10573911 AATATTTAAAATATT
1 AATATTTAAAATATT
10573926 TTTTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTAAAATATT
Found at i:10573933 original size:19 final size:19
Alignment explanation
Indices: 10573909--10573946 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10573899 TATTAAAATA
10573909 TTAATATTTAAAATATTTT
1 TTAATATTTAAAATATTTT
*
10573928 TTAATATTTTAAATATTTT
1 TTAATATTTAAAATATTTT
10573947 AATAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAATATTTAAAATATTTT
Found at i:10573946 original size:9 final size:9
Alignment explanation
Indices: 10573877--10573948 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
10573867 TATTTAATTT
10573877 TATTTTAAAA
1 TATTTT-AAA
10573887 TAATTTTACAA
1 T-ATTTTA-AA
*
10573898 -ATATTAAA
1 TATTTTAAA
*
10573906 -ATATT-AA
1 TATTTTAAA
*
10573913 TATTTAAAA
1 TATTTTAAA
*
10573922 TATTTTTTAA
1 TA-TTTTAAA
10573932 TATTTTAAA
1 TATTTTAAA
10573941 TATTTTAA
1 TATTTTAA
10573949 TAATAAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
7 2 0.04
8 10 0.20
9 23 0.45
10 9 0.18
11 7 0.14
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (9 bp):
TATTTTAAA
Found at i:10573952 original size:20 final size:19
Alignment explanation
Indices: 10573910--10573953 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10573900 ATTAAAATAT
*
10573910 TAATATTTAAAATATTTTT
1 TAATATTTAAAATATTTTA
*
10573929 TAATATTTTAAATATTTTAA
1 TAATATTTAAAATATTTT-A
10573949 TAATA
1 TAATA
10573954 AAATGAGCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATTTAAAATATTTTA
Found at i:10575045 original size:34 final size:34
Alignment explanation
Indices: 10574981--10575050 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
10574971 GTTACTTAAA
* *
10574981 TATTAAAAATTCATTTTTGAATATTTTTTTAATG
1 TATTAAAAATTCATTTTTGAATAATATTTTAATG
* *
10575015 TATTAAAAATTTATTTTTGTAA-AATATTTTATTG
1 TATTAAAAATTCATTTTTG-AATAATATTTTAATG
10575049 TA
1 TA
10575051 CCAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (34 bp):
TATTAAAAATTCATTTTTGAATAATATTTTAATG
Found at i:10575118 original size:34 final size:33
Alignment explanation
Indices: 10575077--10575174 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 33
10575067 TAGAAAGTAT
*
10575077 TACAATTATTCAAAAATATATTTTTGAAAAGCAC
1 TACAATTATTCAAAAAT-TATTTTTCAAAAGCAC
** * * * * *
10575111 TGTAATTATTCGAAGATGCATTTTTTAAAAGCAT
1 TACAATTATTCAAAAAT-TATTTTTCAAAAGCAC
* *
10575145 TACAATTATCCAAAAATTAATTTTCAAAAG
1 TACAATTATTCAAAAATTATTTTTCAAAAG
10575175 TAATTCTTAC
Statistics
Matches: 48, Mismatches: 16, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
33 10 0.21
34 38 0.79
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (33 bp):
TACAATTATTCAAAAATTATTTTTCAAAAGCAC
Done.