Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 14 of 345
Found at i:4478640 original size:34 final size:34
Alignment explanation
Indices: 4478597--4478665 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
4478587 ATTTTTACTT
*
4478597 TTATTACTATTACTATTTA-TTATTATTACTATTA
1 TTATCACTATTA-TATTTATTTATTATTACTATTA
* *
4478631 TTATCACTATTATTTTTATTTTTTATTACTATTA
1 TTATCACTATTATATTTATTTATTATTACTATTA
4478665 T
1 T
4478666 CATTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 5 0.16
34 26 0.84
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (34 bp):
TTATCACTATTATATTTATTTATTATTACTATTA
Found at i:4479056 original size:14 final size:14
Alignment explanation
Indices: 4479037--4479070 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4479027 ATATTATTTT
4479037 TATTTTTATTCTAA
1 TATTTTTATTCTAA
*
4479051 TA-TTTTATTTTAA
1 TATTTTTATTCTAA
4479064 TATTTTT
1 TATTTTT
4479071 CGTTAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTTTATTCTAA
Found at i:4491378 original size:77 final size:77
Alignment explanation
Indices: 4490990--4491376 Score: 578
Period size: 77 Copynumber: 5.0 Consensus size: 77
4490980 ATATTTCTAC
* **
4490990 TTCTGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTGGAGCCTTGGGTCACACGCTGA
1 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGTCACACGCTGA
4491055 GGTATTTTCAAT
66 GGTATTTTCAAT
* * *
4491067 TTCTGTTTTTCAAAAAAATCAACTAATATTACGAGAGGTGAGTGGAGCCTCACGTCACACGCTGA
1 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGTCACACGCTGA
4491132 GGTATTTTCAAT
66 GGTATTTTCAAT
* * *
4491144 TTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
1 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGTCACACGCTGA
4491209 GGTA-TTTCAAT
66 GGTATTTTCAAT
* * * **
4491220 TTCTATTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCGGGTCACATACTG
1 TTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGTCACACGCTG
4491285 AGGTATTTTCAAT
65 AGGTATTTTCAAT
* * * * *
4491298 TTTTGTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGTCACACACTGA
1 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGTCACACGCTGA
*
4491363 GGTATTTTCTAT
66 GGTATTTTCAAT
4491375 TT
1 TT
4491377 TTTACTTTTT
Statistics
Matches: 279, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
76 11 0.04
77 258 0.92
78 10 0.04
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (77 bp):
TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGTCACACGCTGA
GGTATTTTCAAT
Found at i:4493130 original size:25 final size:25
Alignment explanation
Indices: 4493102--4493155 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
4493092 TTGTATTTCA
4493102 ATATTATTATTATTAT-TAT-TAGTGT
1 ATATTATT-TTATTATATATGTAG-GT
4493127 ATATTATTTTATTATATATGTAGGT
1 ATATTATTTTATTATATATGTAGGT
4493152 ATAT
1 ATAT
4493156 GTATACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 7 0.26
25 17 0.63
26 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.57
Consensus pattern (25 bp):
ATATTATTTTATTATATATGTAGGT
Found at i:4493131 original size:127 final size:133
Alignment explanation
Indices: 4492982--4493246 Score: 375
Period size: 127 Copynumber: 2.0 Consensus size: 133
4492972 CTTTATTAAA
* * *
4492982 TATTATTATTATTAGTGTATATTTTTTTATTGTATA-T-GTATATGTATATATATTTATATATAA
1 TATTATTATTATTAGTGTATATTATTTTATTATATAGTAGTATATGTATACATATTTATATATAA
*
4493045 TATTA-TTTTAATTGCTTTATTTT-ATTATTTTTAT-TA-TAT-T-TGCTTTTTTGTATTTCAAT
66 TATTATTTTTAATTACTTTATTTTGA-TATTTTTATATATTATATATGC-TTTTTGTATTTCAAT
4493104 ATTAT
129 ATTAT
4493109 TATTATTATTATTAGTGTATATTATTTTATTATATATGTAGGTATATGTATACATATTTATATAT
1 TATTATTATTATTAGTGTATATTATTTTATTATATA-GTA-GTATATGTATACATATTTATATAT
* *
4493174 AGTATTATTTTTTATTACTTTATTTTGATATTTTTATCATATTATATATGCTTTTTGTATTTCAA
64 AATATTATTTTTAATTACTTTATTTTGATATTTTTAT-ATATTATATATGCTTTTTGTATTTCAA
4493239 TATTAT
128 TATTAT
4493245 TA
1 TA
4493247 CTATCACCAT
Statistics
Matches: 121, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
127 34 0.28
129 1 0.01
131 29 0.24
132 25 0.21
133 1 0.01
134 2 0.02
135 3 0.02
136 23 0.19
137 3 0.02
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (133 bp):
TATTATTATTATTAGTGTATATTATTTTATTATATAGTAGTATATGTATACATATTTATATATAA
TATTATTTTTAATTACTTTATTTTGATATTTTTATATATTATATATGCTTTTTGTATTTCAATAT
TAT
Found at i:4493273 original size:3 final size:3
Alignment explanation
Indices: 4493267--4493363 Score: 92
Period size: 3 Copynumber: 31.7 Consensus size: 3
4493257 CATCATCATC
4493267 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACCTT -TT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT
* * **
4493312 ACT ATCT AATGT ATT ATT ATT ATT ATT ATT -GT ATT ATT GCT ATT ATT
1 ATT AT-T -AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4493359 ATT AT
1 ATT AT
4493364 ATTTTCCATT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
2 5 0.06
3 66 0.84
4 3 0.04
5 5 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:4493552 original size:12 final size:12
Alignment explanation
Indices: 4493537--4493656 Score: 94
Period size: 12 Copynumber: 10.5 Consensus size: 12
4493527 TTATTTGTCT
*
4493537 TATTGTTATTAC
1 TATTATTATTAC
4493549 TATT-TGTATTTAC
1 TATTAT-TA-TTAC
**
4493562 CGTTATTATTAC
1 TATTATTATTAC
*
4493574 TATTATTTTTAC
1 TATTATTATTAC
4493586 --TT-TTATTAC
1 TATTATTATTAC
*
4493595 TATTACTATT--
1 TATTATTATTAC
4493605 TATTATTATTAC
1 TATTATTATTAC
*
4493617 TATTATTATCAC
1 TATTATTATTAC
*
4493629 TATTATTTTTA-
1 TATTATTATTAC
*
4493640 T-TTTTTATTAC
1 TATTATTATTAC
4493651 TATTAT
1 TATTAT
4493657 CATTTTAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
9 6 0.07
10 18 0.21
11 5 0.06
12 46 0.55
13 8 0.10
14 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.62
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:4493572 original size:3 final size:3
Alignment explanation
Indices: 4493564--4493656 Score: 66
Period size: 3 Copynumber: 31.3 Consensus size: 3
4493554 GTATTTACCG
* * * *
4493564 TTA TTA TTA CTA TTA TTT TTA CTT- TTA TTA CTA TTA CTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * *
4493610 TTA TTA CTA TTA TTA TCA CTA TTA TTT TTA TT- TT- TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4493656 T
1 T
4493657 CATTTTAAAA
Statistics
Matches: 68, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
2 6 0.09
3 58 0.85
4 4 0.06
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4493617 original size:31 final size:30
Alignment explanation
Indices: 4493565--4493655 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 30
4493555 TATTTACCGT
* * *
4493565 TATTATTACTATTATTTTTACTTTTATTAC
1 TATTACTATTATTATTATTACTTTTATTAC
*
4493595 TATTACTATTTATTATTATTAC---TATTAT
1 TATTACTA-TTATTATTATTACTTTTATTAC
* *
4493623 TATCACTATTATTTTTATT--TTTTATTAC
1 TATTACTATTATTATTATTACTTTTATTAC
4493651 TATTA
1 TATTA
4493656 TCATTTTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
27 10 0.20
28 21 0.43
30 7 0.14
31 11 0.22
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (30 bp):
TATTACTATTATTATTATTACTTTTATTAC
Found at i:4493631 original size:34 final size:34
Alignment explanation
Indices: 4493588--4493656 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
4493578 ATTTTTACTT
*
4493588 TTATTACTATTACTATTTA-TTATTATTACTATTA
1 TTATCACTATTA-TATTTATTTATTATTACTATTA
* *
4493622 TTATCACTATTATTTTTATTTTTTATTACTATTA
1 TTATCACTATTATATTTATTTATTATTACTATTA
4493656 T
1 T
4493657 CATTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 5 0.16
34 26 0.84
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (34 bp):
TTATCACTATTATATTTATTTATTATTACTATTA
Found at i:4496508 original size:23 final size:23
Alignment explanation
Indices: 4496478--4496530 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
4496468 TCCAAATAAT
*
4496478 ATTAAAAGCGGCAGCGAAACAAC
1 ATTAAAAGCAGCAGCGAAACAAC
* *
4496501 ATTAAAAGCAGCAGTGGAACAAC
1 ATTAAAAGCAGCAGCGAAACAAC
4496524 ATTAAAA
1 ATTAAAA
4496531 ACGATAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.51, C:0.17, G:0.19, T:0.13
Consensus pattern (23 bp):
ATTAAAAGCAGCAGCGAAACAAC
Found at i:4497741 original size:118 final size:117
Alignment explanation
Indices: 4497533--4497769 Score: 429
Period size: 118 Copynumber: 2.0 Consensus size: 117
4497523 TCTCCATGTA
*
4497533 TTATATCCTGTGTTGCAGTTTACCAATACATTAGCATAGGAGATCCTTACGGACATTCATACCAG
1 TTATATCCTGTGTTGCAGTTTACCAATACAATAGCATAGGAGATCCTTACGGACATTCATACCAG
*
4497598 TTCAAAGCAAGATTGTTGCAATCTTATGCTAATACTACTAAAGCAGAATAATC
66 TTCAAAGCAAGATTGCTGCAATCTTATGCTAATACTACTAAAGCAGAAT-ATC
* *
4497651 TTATATCCTGTGTTGCCGTTTACCAATACAATAGCATAGGAGATCCTTACGGACATTCATACTAG
1 TTATATCCTGTGTTGCAGTTTACCAATACAATAGCATAGGAGATCCTTACGGACATTCATACCAG
4497716 TTCAAAGCAAGATTGCTGCAATCTTATGCTAATACTACTAAAGCAGAATATC
66 TTCAAAGCAAGATTGCTGCAATCTTATGCTAATACTACTAAAGCAGAATATC
4497768 TT
1 TT
4497770 GTAAAAAAAA
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
117 5 0.04
118 110 0.96
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (117 bp):
TTATATCCTGTGTTGCAGTTTACCAATACAATAGCATAGGAGATCCTTACGGACATTCATACCAG
TTCAAAGCAAGATTGCTGCAATCTTATGCTAATACTACTAAAGCAGAATATC
Found at i:4498273 original size:112 final size:112
Alignment explanation
Indices: 4498076--4498287 Score: 343
Period size: 112 Copynumber: 1.9 Consensus size: 112
4498066 GGGCTGTGAT
* * * * * *
4498076 AACATAAGATTCAATCATTATGATGCTCAGCTAGATATTTATTCATCTCCAAAGCTGCCCTTTTG
1 AACATAAGATCCAATCATCATGATGCTCAGCTAGATATCTATACATCTCCAAAGCTACCATTTTG
*
4498141 TTTTTATAAGGCAGGAAAGTCGAGCTAATTTTTATAAAGATGATGAC
66 TCTTTATAAGGCAGGAAAGTCGAGCTAATTTTTATAAAGATGATGAC
*
4498188 AACATAAGATCCAATCATCATGATGCTCAGCTAGATATCTGTACATCTCCAAAGCTACCATTTTG
1 AACATAAGATCCAATCATCATGATGCTCAGCTAGATATCTATACATCTCCAAAGCTACCATTTTG
*
4498253 TCTTTGTAAGGCAGGAAAGTCGAGCTAATTTTTAT
66 TCTTTATAAGGCAGGAAAGTCGAGCTAATTTTTAT
4498288 CTCATCCCTT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 91 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (112 bp):
AACATAAGATCCAATCATCATGATGCTCAGCTAGATATCTATACATCTCCAAAGCTACCATTTTG
TCTTTATAAGGCAGGAAAGTCGAGCTAATTTTTATAAAGATGATGAC
Found at i:4500961 original size:20 final size:21
Alignment explanation
Indices: 4500936--4500983 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4500926 CTGGACAAAA
*
4500936 AAAAAAT-AAAAAAGAGATTC
1 AAAAAATAAAAAAAAAGATTC
4500956 AAAAAATAAAAAAAAAGATTC
1 AAAAAATAAAAAAAAAGATTC
4500977 AAGAAAA
1 AA-AAAA
4500984 CAGGAGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (21 bp):
AAAAAATAAAAAAAAAGATTC
Found at i:4501340 original size:31 final size:27
Alignment explanation
Indices: 4501294--4501360 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 27
4501284 ACCTGCAGAG
4501294 AAAAAAAAAGTGAAAGCTGAGTTTTTTT
1 AAAAAAAAAGTGAAAG-TGAGTTTTTTT
*
4501322 AAAAAAAAAGATGAGAAAGTGATTTTTTTT
1 AAAAAAAAAG-T--GAAAGTGAGTTTTTTT
**
4501352 TTAAAAAAA
1 AAAAAAAAA
4501361 TTTGGCCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 10 0.30
29 1 0.03
30 17 0.52
31 5 0.15
ACGTcount: A:0.52, C:0.01, G:0.15, T:0.31
Consensus pattern (27 bp):
AAAAAAAAAGTGAAAGTGAGTTTTTTT
Found at i:4501816 original size:22 final size:20
Alignment explanation
Indices: 4501791--4501839 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
4501781 TTAATTTTAA
4501791 TATTATATATACTATTATATTT
1 TATTATAT-TACTATTATA-TT
*
4501813 TATTACTATTATTATTATATT
1 TATTA-TATTACTATTATATT
4501834 TATTAT
1 TATTAT
4501840 TTATTAGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 7 0.28
22 14 0.56
23 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATATTACTATTATATT
Found at i:4501821 original size:16 final size:17
Alignment explanation
Indices: 4501790--4501845 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
4501780 TTTAATTTTA
4501790 ATATTATATATACTATT
1 ATATTATATATACTATT
*
4501807 ATATTTTAT-TACTATT
1 ATATTATATATACTATT
* *
4501823 ATTATTATATTTATTATT
1 A-TATTATATATACTATT
4501841 -TATTA
1 ATATTA
4501846 GCATTAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 13 0.38
17 15 0.44
18 6 0.18
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTATATATACTATT
Found at i:4501827 original size:3 final size:3
Alignment explanation
Indices: 4501770--4501927 Score: 59
Period size: 3 Copynumber: 53.0 Consensus size: 3
4501760 ACTTTTTCTC
* *
4501770 ATT ATT -TT ATT -TT AATT -TT AAT ATT A-T ATAT ACT ATT A-T ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* ** *
4501812 -TT ATT ACT ATT ATT ATT A-T ATTT ATT ATTT ATT AGC ATT AGT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT ATT ATT ATT
* *
4501857 ATT -TT CACTT AAT ACTT A-T ATGT A-T ATAT ATT ATAT AGT ATT ATT
1 ATT ATT -A-TT ATT A-TT ATT AT-T ATT AT-T ATT AT-T ATT ATT ATT
* *
4501902 AAT AGT -TT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4501928 TTTAACCTTA
Statistics
Matches: 115, Mismatches: 19, Indels: 42
0.65 0.11 0.24
Matches are distributed among these distances:
2 21 0.18
3 73 0.63
4 19 0.17
5 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:4501836 original size:28 final size:30
Alignment explanation
Indices: 4501791--4501858 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 30
4501781 TTAATTTTAA
4501791 TATTATATATACTATTA-TATTTTATTA-CTAT
1 TATTAT-TATACTATTATTA-TTTATTAGC-AT
4501822 TATTATTATA-T-TTATTATTTATTAGCAT
1 TATTATTATACTATTATTATTTATTAGCAT
*
4501850 TAGTATTAT
1 TATTATTAT
4501859 TTTCACTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 20 0.59
29 4 0.12
30 4 0.12
31 6 0.18
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTATTATACTATTATTATTTATTAGCAT
Found at i:4501844 original size:22 final size:22
Alignment explanation
Indices: 4501803--4501845 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
4501793 TTATATATAC
4501803 TATTATATTTTATTACTATTAT
1 TATTATATTTTATTACTATTAT
4501825 TATTATA-TTTATTA-T-TTAT
1 TATTATATTTTATTACTATTAT
4501844 TA
1 TA
4501846 GCATTAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 7 0.33
22 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTATATTTTATTACTATTAT
Found at i:4501851 original size:22 final size:21
Alignment explanation
Indices: 4501804--4501856 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
4501794 TATATATACT
**
4501804 ATTATATTTTATTACTATTATT
1 ATTATA-TTTATTACTATTAGC
*
4501826 ATTATATTTATTATTTATTAGC
1 ATTATATTTATTA-CTATTAGC
4501848 ATTAGTATT
1 ATTA-TATT
4501857 ATTTTCACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTATATTTATTACTATTAGC
Found at i:4501975 original size:47 final size:49
Alignment explanation
Indices: 4501927--4502021 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 49
4501917 TTATTATTAT
*
4501927 TTTTAACCT-TATATTATGTATATAT-TCTTTTA-A-TATATTAGGTATA
1 TTTTAAACTCTATATTATGTATATATAT-TTTTATACTATATTAGGTATA
* *
4501973 TTTTAAATTCTATATTATGTATATATATTTTTATACTATATTATGTATA
1 TTTTAAACTCTATATTATGTATATATATTTTTATACTATATTAGGTATA
4502022 CATTCTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 7 0.17
47 21 0.50
48 2 0.05
49 12 0.29
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (49 bp):
TTTTAAACTCTATATTATGTATATATATTTTTATACTATATTAGGTATA
Found at i:4502001 original size:13 final size:14
Alignment explanation
Indices: 4501982--4502022 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
4501972 ATTTTAAATT
4501982 CTATATTATGTATA
1 CTATATTATGTATA
*
4501996 -TATATT-TTTATA
1 CTATATTATGTATA
4502008 CTATATTATGTATA
1 CTATATTATGTATA
4502022 C
1 C
4502023 ATTCTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 6 0.26
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (14 bp):
CTATATTATGTATA
Found at i:4502015 original size:26 final size:24
Alignment explanation
Indices: 4501915--4502051 Score: 85
Period size: 24 Copynumber: 5.7 Consensus size: 24
4501905 AGTTTATTAT
4501915 TATTAT-TAT-TA-TTTTTAACCTTA
1 TATTATGTATATATTTTTTAA-C-TA
4501938 TATTATGTATATATTCTTTTAA-TA
1 TATTATGTATATATT-TTTTAACTA
* *
4501962 TATTA-G-GTATA-TTTTAAATTCTA
1 TATTATGTATATATTTTTTAA--CTA
4501985 TATTATGTATATATATTTTTATACTA
1 TATTATGTATATAT-TTTTTA-ACTA
* * *
4502011 TATTATGTATACA-TTCTTAAATA
1 TATTATGTATATATTTTTTAACTA
4502034 TTATTA-GTTATATATTTT
1 -TATTATG-TATATATTTT
4502052 ATGTTATCAT
Statistics
Matches: 90, Mismatches: 9, Indels: 28
0.71 0.07 0.22
Matches are distributed among these distances:
20 5 0.06
21 1 0.01
22 4 0.04
23 18 0.20
24 26 0.29
25 8 0.09
26 16 0.18
27 11 0.12
28 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (24 bp):
TATTATGTATATATTTTTTAACTA
Found at i:4502510 original size:21 final size:22
Alignment explanation
Indices: 4502446--4502515 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 22
4502436 CATTAATATG
*
4502446 TATATACTATGTAAATATTTTAA
1 TATATACTATGTATATATTTT-A
* *
4502469 TATTATATTATGTATACATTTTA
1 TA-TATACTATGTATATATTTTA
* *
4502492 TATATA-TATATATATATTTAA
1 TATATACTATGTATATATTTTA
4502513 TAT
1 TAT
4502516 TGTATTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 15 0.38
22 4 0.10
23 5 0.12
24 16 0.40
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (22 bp):
TATATACTATGTATATATTTTA
Found at i:4502773 original size:3 final size:3
Alignment explanation
Indices: 4502760--4503041 Score: 91
Period size: 3 Copynumber: 91.7 Consensus size: 3
4502750 TGCTATTACC
* * *
4502760 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATC CTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * * * *
4502806 ATA AAT ATT -TT TTT ATT CTT ATT AAT A-T ATT ATT ATT ATT GTT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
4502851 CCACCTT ATT ATT ATT ACT AGT ATT ATC A-T CTT GTT ATT AGGTT AATT
1 --A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT -ATT
* * * *
4502899 AATT -TT ATAT AGGT ATT ATT A-T ATT ATT A-T ACAT ATT CTCT CTGT
1 -ATT ATT AT-T A-TT ATT ATT ATT ATT ATT ATT A-TT ATT AT-T AT-T
* * * *
4502944 ATTT ACTT A-T ATT ATT ACTT A-A ATT ATT ATC ATT ATT ATC ATT ATG
1 A-TT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
4502990 ATTT ATT ACT -TT ATT ATT ATC ATT ATT ACT ACT ATT A-T ATT ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4503034 ATT ATT AT
1 ATT ATT AT
4503042 ATTTTTATCC
Statistics
Matches: 209, Mismatches: 44, Indels: 52
0.69 0.14 0.17
Matches are distributed among these distances:
2 18 0.09
3 155 0.74
4 29 0.14
5 4 0.02
6 1 0.00
7 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:4503030 original size:23 final size:23
Alignment explanation
Indices: 4502996--4503040 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4502986 TATGATTTAT
4502996 TACTTTATTATTATCATTATTAC
1 TACTTTATTATTATCATTATTAC
*
4503019 TACTATTA-TATTATTATTATTA
1 TACT-TTATTATTATCATTATTA
4503041 TATTTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (23 bp):
TACTTTATTATTATCATTATTAC
Found at i:4513717 original size:24 final size:22
Alignment explanation
Indices: 4513664--4513718 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
4513654 ATATTAAAAA
*
4513664 ATAAAAA-ATATTTTTTTATAT
1 ATAAAAATATATTTTTTTATAC
*
4513685 TTAATAAATATAATTATTTTTATAC
1 ATAA-AAATAT-ATT-TTTTTATAC
4513710 ATAAAAATA
1 ATAAAAATA
4513719 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.11
22 3 0.11
23 2 0.07
24 8 0.30
25 11 0.41
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAAAATATATTTTTTTATAC
Found at i:4516077 original size:10 final size:10
Alignment explanation
Indices: 4516062--4516125 Score: 58
Period size: 10 Copynumber: 6.2 Consensus size: 10
4516052 AAAATTATTA
4516062 TTTAAATTTT
1 TTTAAATTTT
**
4516072 TTTAAAAATT
1 TTTAAATTTT
4516082 TTTAAATTTTT
1 TTTAAA-TTTT
* *
4516093 TTTATATATT
1 TTTAAATTTT
4516103 TTTAGAATTTT
1 TTTA-AATTTT
4516114 TTGT-AATTTT
1 TT-TAAATTTT
4516124 TT
1 TT
4516126 AAAAATAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
10 29 0.67
11 13 0.30
12 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:4516094 original size:21 final size:21
Alignment explanation
Indices: 4516062--4516115 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4516052 AAAATTATTA
4516062 TTTAAA-TTTTTTTAAAAATT
1 TTTAAATTTTTTTTAAAAATT
* *
4516082 TTTAAATTTTTTTTATATATT
1 TTTAAATTTTTTTTAAAAATT
4516103 TTTAGAATTTTTT
1 TTTA-AATTTTTT
4516116 GTAATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 6 0.20
21 16 0.53
22 8 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTAAATTTTTTTTAAAAATT
Found at i:4516168 original size:19 final size:20
Alignment explanation
Indices: 4516146--4516188 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
4516136 ATTTTGAATT
*
4516146 TTTTTATAAA-TATTATGAA
1 TTTTTAAAAATTATTATGAA
*
4516165 -TTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTATGAA
4516184 TTTTT
1 TTTTT
4516189 GTTGTGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTTAAAAATTATTATGAA
Found at i:4516174 original size:18 final size:19
Alignment explanation
Indices: 4516147--4516187 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4516137 TTTTGAATTT
*
4516147 TTTTATAAA-TATTATGAA
1 TTTTAAAAATTATTATGAA
*
4516165 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTATGAA
4516184 TTTT
1 TTTT
4516188 TGTTGTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTATGAA
Found at i:4519144 original size:17 final size:17
Alignment explanation
Indices: 4519122--4519161 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4519112 ATAATATATA
* *
4519122 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
4519139 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
4519156 AAAATA
1 AAAATA
4519162 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:4522499 original size:14 final size:14
Alignment explanation
Indices: 4522461--4522500 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4522451 ACAAAAAAGT
*
4522461 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
4522475 AAATCATTTTACGG
1 AAAACATTTTACAG
4522489 AAAACATTTTAC
1 AAAACATTTTAC
4522501 TGACAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:4526712 original size:26 final size:26
Alignment explanation
Indices: 4526676--4526733 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
4526666 CATGAAATTC
4526676 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4526702 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4526728 TTATCA
1 TTATCA
4526734 ATTTGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4528170 original size:8 final size:8
Alignment explanation
Indices: 4528143--4528194 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
4528133 TACTTCACCA
*
4528143 AAAAAAAC
1 AAAAAAAG
4528151 AAAAAAA-
1 AAAAAAAG
*
4528158 CAAAAAAG
1 AAAAAAAG
4528166 AAAAAAAG
1 AAAAAAAG
* *
4528174 GAGAAAAG
1 AAAAAAAG
*
4528182 AAAAAAGG
1 AAAAAAAG
4528190 AAAAA
1 AAAAA
4528195 GAAAGAAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 6 0.17
8 30 0.83
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4528185 original size:15 final size:15
Alignment explanation
Indices: 4528161--4528209 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
4528151 AAAAAAACAA
4528161 AAAAGAAAAAAAGGAG
1 AAAAG-AAAAAAGGAG
4528177 AAAAGAAAAAAGGA-
1 AAAAGAAAAAAGGAG
* *
4528191 AAAAGAAAGAAGAAG
1 AAAAGAAAAAAGGAG
4528206 AAAA
1 AAAA
4528210 TGAGAGGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 12 0.40
15 13 0.43
16 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAGGAG
Found at i:4528187 original size:7 final size:7
Alignment explanation
Indices: 4528152--4528209 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
4528142 AAAAAAAACA
*
4528152 AAAAAAC
1 AAAAAAG
4528159 AAAAAAG
1 AAAAAAG
4528166 AAAAAAAGG
1 -AAAAAA-G
*
4528175 AGAAAAG
1 AAAAAAG
4528182 AAAAAAG
1 AAAAAAG
*
4528189 GAAAAAG
1 AAAAAAG
*
4528196 AAAGAAG
1 AAAAAAG
4528203 AAGAAAA
1 AA-AAAA
4528210 TGAGAGGCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
7 26 0.63
8 14 0.34
9 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:4528206 original size:24 final size:22
Alignment explanation
Indices: 4528154--4528209 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
4528144 AAAAAACAAA
*
4528154 AAAACAAAAAAGAAAAAAAGGAG
1 AAAAGAAAAAAGAAAAAAA-GAG
4528177 AAAAGAAAAAAGGAAAAAGAA-AG
1 AAAAGAAAAAA-GAAAAA-AAGAG
4528200 AAGAAGAAAA
1 AA-AAGAAAA
4528210 TGAGAGGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 14 0.48
24 13 0.45
25 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAAGAAAAAAAGAG
Found at i:4529727 original size:44 final size:43
Alignment explanation
Indices: 4529679--4530079 Score: 199
Period size: 44 Copynumber: 9.1 Consensus size: 43
4529669 AGCTTTAACC
*
4529679 CCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTGTCT
1 CCCTAAGCAGTAGGG-AACAGGCTGAAAATTATAGATCTTGTCT
* * * ** * * * **
4529723 CCCTAAGCAATAACGGAGCA-AATCAAAGATGAT-GAGCCTTAAC-
1 CCCTAAGCAGT-AGGGAACAGGCTGAAA-ATTATAGA-TCTTGTCT
*
4529766 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCT
1 CCCTAAGCAGTAGGG-AACAGGCTGAAAATTATAGATCTTGTCT
* * * * ** * ** ** *
4529810 CCCTAAGTAGTAGTGGAGCA-GATCGAAGACGAAAGGCCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCT-GAAAATTATAGATCTTGTCT
4529854 CCCTAAGCAGTAGGGCAACAGGCTGAAAATTATAGATCTTGTCT
1 CCCTAAGCAGTAGGG-AACAGGCTGAAAATTATAGATCTTGTCT
* * * ** ** *
4529898 CCCTAAGCAGTAGTGGAGCA-GATCGAAGAA-GA-AGGGCCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCT-GAA-AATTATA-GATCTTGTCT
4529942 CCCTAAGCAGTAGGGCAACAGGCTGAAAATTATAGATCTTGTCT
1 CCCTAAGCAGTAGGG-AACAGGCTGAAAATTATAGATCTTGTCT
* * * * * ** ** *
4529986 CCCTAAGAAGTAGTGGAGCA-GATCGAAGATGA-AGGGCCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCT-GAAAATTATA-GATCTTGTCT
*
4530030 CCCTAAACAGTAGGGTAACAGGCTGAAAATTATAGATCTTGTCT
1 CCCTAAGCAGTAGGG-AACAGGCTGAAAATTATAGATCTTGTCT
4530074 CCCTAA
1 CCCTAA
4530080 CTAGTAGTGG
Statistics
Matches: 250, Mismatches: 82, Indels: 50
0.65 0.21 0.13
Matches are distributed among these distances:
42 3 0.01
43 42 0.17
44 186 0.74
45 19 0.08
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAACAGGCTGAAAATTATAGATCTTGTCT
Found at i:4529759 original size:88 final size:88
Alignment explanation
Indices: 4529443--4530253 Score: 1057
Period size: 88 Copynumber: 9.2 Consensus size: 88
4529433 CAACATCGGT
*
4529443 AAATTCATAGATCTTGTCTCCCTGAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCC
1 AAATT-ATAGATCTTGTCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCC
*
4529508 TCTAAGCAGTAGGGTAACA--C-GA
64 CCTAAGCAGTAGGGTAACAGGCTGA
* * * * *
4529530 CGAATTACAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGGCGGTGAGCCTTAACCCC
1 -AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCCC
* *
4529595 CTAAGGAGTAGGGTAATAGGCT--
65 CTAAGCAGTAGGGTAACAGGCTGA
* * *
4529617 AAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-AGTGAGCTTTAACCCC
1 AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA-TGAGCCTTAACCCC
*
4529681 CTAAGCAGTAGGGTAACAGGCTAA
65 CTAAGCAGTAGGGTAACAGGCTGA
* ** * * *
4529705 AAATTATAGATCTTGTCTCCCTAAGCAATAACGGAGCAAATCAAAGATGATGAGCCTTAA-CCCC
1 AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCCCC
4529769 TAAGCAGTAGGGTAACAGGCTGA
66 TAAGCAGTAGGGTAACAGGCTGA
* * *
4529792 AAATTACAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGA-AAGGCCTTAACCCC
1 AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGA-GCCTTAACCCC
*
4529856 CTAAGCAGTAGGGCAACAGGCTGA
65 CTAAGCAGTAGGGTAACAGGCTGA
* * *
4529880 AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGAAGGGCCTTAACCCCC
1 AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCCCC
*
4529945 TAAGCAGTAGGGCAACAGGCTGA
66 TAAGCAGTAGGGTAACAGGCTGA
* * * *
4529968 AAATTATAGATCTTGTCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGAAGGGCCTTAACCCCC
1 AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCCCC
*
4530033 TAAACAGTAGGGTAACAGGCTGA
66 TAAGCAGTAGGGTAACAGGCTGA
*
4530056 AAATTATAGATCTTGTCTCCCTAA-CTAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACGCC
1 AAATTATAGATCTTGTCTCCCTAAGC-AGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCCC
*
4530120 CTAAGCAATAGGGTAACAGGCTGA
65 CTAAGCAGTAGGGTAACAGGCTGA
* ** * ** * * *
4530144 AGATTGCAGATCTTATAACCCTAAGCAGTAGGGGAACAGATCGAATACGATGAGCCTTAACCCCC
1 AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCCCC
* *
4530209 TAAGAAGTA-GGTAACAGGCTGG
66 TAAGCAGTAGGGTAACAGGCTGA
* * *
4530231 AAATTCACAGATTTTATCTCCCT
1 AAATT-ATAGATCTTGTCTCCCT
4530254 GAAGTTACAG
Statistics
Matches: 641, Mismatches: 69, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
86 133 0.21
87 107 0.17
88 399 0.62
89 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (88 bp):
AAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTAACCCCC
TAAGCAGTAGGGTAACAGGCTGA
Found at i:4530210 original size:44 final size:44
Alignment explanation
Indices: 4529748--4530219 Score: 164
Period size: 44 Copynumber: 10.8 Consensus size: 44
4529738 GAGCAAATCA
* *
4529748 AAGATGATGAGCCTTAA-CCCCTAAGCAGTAGGGTAACAG-GCTG
1 AAGATGATGAGCCTTAACCCCCTAAGCAGTAGGGGAACAGATC-G
* * * * ** * * * *
4529791 AAAATTA-CAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCG
1 AAGATGATGAG-CCTTAACCCCCTAAGCAGTAGGGGAACAGATCG
* * * *
4529835 AAGACGA-AAGGCCTTAACCCCCTAAGCAGTAGGGCAACAG-GCTG
1 AAGATGATGA-GCCTTAACCCCCTAAGCAGTAGGGGAACAGATC-G
* * * ** * * *
4529879 AAAATTAT-AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCG
1 AAGATGATGAG-CCTTAACCCCCTAAGCAGTAGGGGAACAGATCG
* * * * *
4529923 AAGAAGAAGGGCCTTAACCCCCTAAGCAGTAGGGCAACAG-GCTG
1 AAGATGATGAGCCTTAACCCCCTAAGCAGTAGGGGAACAGATC-G
* * * ** * * * *
4529967 AAAATTAT-AGATCTTGTCTCCCTAAGAAGTAGTGGAGCAGATCG
1 AAGATGATGAG-CCTTAACCCCCTAAGCAGTAGGGGAACAGATCG
* * * * *
4530011 AAGATGAAGGGCCTTAACCCCCTAAACAGTAGGGTAACAG-GCTG
1 AAGATGATGAGCCTTAACCCCCTAAGCAGTAGGGGAACAGATC-G
* * * ** * * *
4530055 AAAATTAT-AGATCTTGTCTCCCTAA-CTAGTAGTGGAGCAGATCG
1 AAGATGATGAG-CCTTAACCCCCTAAGC-AGTAGGGGAACAGATCG
* * * * *
4530099 AAGACGATGAGCCTTAACGCCCTAAGCAATAGGGTAACAG-GCTG
1 AAGATGATGAGCCTTAACCCCCTAAGCAGTAGGGGAACAGATC-G
* *
4530143 AAGAT--TGCAGATCTTATA-ACCCTAAGCAGTAGGGGAACAGATCG
1 AAGATGATG-AG-CCTTA-ACCCCCTAAGCAGTAGGGGAACAGATCG
* * *
4530187 AATACGATGAGCCTTAACCCCCTAAGAAGTAGG
1 AAGATGATGAGCCTTAACCCCCTAAGCAGTAGG
4530220 TAACAGGCTG
Statistics
Matches: 290, Mismatches: 112, Indels: 53
0.64 0.25 0.12
Matches are distributed among these distances:
42 4 0.01
43 19 0.07
44 251 0.87
45 14 0.05
46 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (44 bp):
AAGATGATGAGCCTTAACCCCCTAAGCAGTAGGGGAACAGATCG
Found at i:4531203 original size:18 final size:16
Alignment explanation
Indices: 4531172--4531205 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
4531162 GCCACCGTGT
4531172 GCGGTGGCCAGCGACG
1 GCGGTGGCCAGCGACG
4531188 GCGGCTGGCGCAGCGACG
1 GCGG-TGGC-CAGCGACG
4531206 ACTAGTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.12, C:0.32, G:0.50, T:0.06
Consensus pattern (16 bp):
GCGGTGGCCAGCGACG
Found at i:4531723 original size:3 final size:3
Alignment explanation
Indices: 4531693--4532004 Score: 124
Period size: 3 Copynumber: 104.7 Consensus size: 3
4531683 TTACTAAAAA
* * * * *
4531693 ATT AGTT ATT TTT ATT ATT TTT ACT ATT ATT ATT ATA AAT A-T ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
4531738 ATT GTT GTT ATT GTT ATT ATT GTT ATT ATTT ACAT GTT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT A-TT ATT
* * *** *
4531786 TTT CTT -TT ATT ATGGT ATT ATT ATT GCC ATT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
4531832 ATT TTT ATT ATC A-T CTT ATT -TT ATT GTC ATT -TT -TGT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * *
4531874 GTT ATT ATT -TT TTT ATT -TT TTT ACT ATG ATT ATT ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
4531920 ATT ATCT ATT ATC AAT ATT ATT ATT ACT ATT -TT TTT ACT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
4531965 ATT -TC ACAT ACT ATT ATT ACT ATT -TT ATT ATT ATT ATT AT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4532005 CACTTCTTCT
Statistics
Matches: 223, Mismatches: 68, Indels: 36
0.68 0.21 0.11
Matches are distributed among these distances:
2 18 0.08
3 188 0.84
4 14 0.06
5 3 0.01
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4531882 original size:31 final size:28
Alignment explanation
Indices: 4531814--4531910 Score: 81
Period size: 28 Copynumber: 3.3 Consensus size: 28
4531804 TATTATTGCC
* * *
4531814 ATTATTATTATTTTTATTATTTTTATTATC
1 ATTATTATT-TTTTTATT-TTTGTACTATG
*
4531844 A-TCTTATTTTATTGTCATTTTTGTACTATTG
1 ATTATTATTTT-TT-T-ATTTTTGTACTA-TG
*
4531875 -TTATTATTTTTTTATTTTTTTACTATG
1 ATTATTATTTTTTTATTTTTGTACTATG
4531902 ATTATTATT
1 ATTATTATT
4531911 AGTATTATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
27 2 0.04
28 21 0.38
29 9 0.16
30 11 0.20
31 12 0.22
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (28 bp):
ATTATTATTTTTTTATTTTTGTACTATG
Found at i:4531986 original size:38 final size:38
Alignment explanation
Indices: 4531895--4532004 Score: 123
Period size: 38 Copynumber: 2.8 Consensus size: 38
4531885 TTTATTTTTT
* * * *
4531895 TACTATGATTATTATTAGTATTATTATTATCTATTATCAA
1 TACTATTATTACTATT-TTATTACTATTAT-TATTATCAA
* *
4531935 TATTATTATTACTATTTTTTTACTATTATTATT-TCACA
1 TACTATTATTACTATTTTATTACTATTATTATTATCA-A
*
4531973 TACTATTATTACTATTTTATTATTATTATTAT
1 TACTATTATTACTATTTTATTACTATTATTAT
4532005 CACTTCTTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
37 3 0.05
38 34 0.57
39 10 0.17
40 13 0.22
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (38 bp):
TACTATTATTACTATTTTATTACTATTATTATTATCAA
Found at i:4532080 original size:13 final size:13
Alignment explanation
Indices: 4532074--4532102 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4532064 ATTTCTTATT
4532074 TTTATTTATTTTA
1 TTTATTTATTTTA
4532087 TTTATTTA-TTTA
1 TTTATTTATTTTA
4532099 TTTA
1 TTTA
4532103 AACTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:4532087 original size:9 final size:9
Alignment explanation
Indices: 4532073--4532101 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4532063 CATTTCTTAT
4532073 TTTTATTTA
1 TTTTATTTA
4532082 TTTTATTTA
1 TTTTATTTA
4532091 -TTTATTTA
1 TTTTATTTA
4532099 TTT
1 TTT
4532102 AAACTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTTA
Found at i:4533992 original size:15 final size:16
Alignment explanation
Indices: 4533972--4534002 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4533962 TTAAAAAGTT
4533972 TAAAAAAT-AAATAAA
1 TAAAAAATAAAATAAA
4533987 TAAAAAATAAAATAAA
1 TAAAAAATAAAATAAA
4534003 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAAAATAAAATAAA
Found at i:4534001 original size:12 final size:11
Alignment explanation
Indices: 4533901--4534004 Score: 52
Period size: 12 Copynumber: 9.0 Consensus size: 11
4533891 AATAAGATAC
4533901 ATAAATAAAAA
1 ATAAATAAAAA
*
4533912 ATAAATAAAAGG
1 ATAAATAAAA-A
* *
4533924 CTAACTAAAAA
1 ATAAATAAAAA
*
4533935 CCATAAGTAAATAA
1 --ATAAATAAA-AA
4533949 ATAAAT-AAAA
1 ATAAATAAAAA
* *
4533959 CT-ATTAAAAA
1 ATAAATAAAAA
*
4533969 GTTTAAA-AAATAA
1 --ATAAATAAA-AA
4533982 ATAAATAAAAA
1 ATAAATAAAAA
4533993 ATAAAATAAAAA
1 AT-AAATAAAAA
4534005 TAAGAAATGA
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
9 2 0.03
10 7 0.10
11 20 0.29
12 29 0.41
13 10 0.14
14 2 0.03
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:4534007 original size:18 final size:16
Alignment explanation
Indices: 4533972--4534018 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
4533962 TTAAAAAGTT
4533972 TAAAAAATAAAT-AAA
1 TAAAAAATAAATAAAA
4533987 TAAAAAATAAAATAAAAA
1 TAAAAAAT-AAAT-AAAA
*
4534005 TAAGAAATGAAATA
1 TAAAAAAT-AAATA
4534019 GGAAAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.30
16 4 0.15
17 1 0.04
18 14 0.52
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (16 bp):
TAAAAAATAAATAAAA
Found at i:4534116 original size:3 final size:3
Alignment explanation
Indices: 4534110--4534432 Score: 113
Period size: 3 Copynumber: 107.0 Consensus size: 3
4534100 TAGTATGTGA
* * * * * *
4534110 AAT AAT AAT AGT AAA AAA AAT AAT AGT AAT AAT AAT ATT GAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * *
4534159 AAT AAT AAT ACT AAT AAT AAT AGT AGT AA- AA- AAT AAA AAG ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * * *
4534203 AGAA AAC AAT AAT AAT AGT ACA- AA- AAT GAC AAT AA- AAT AA- GAT
1 A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
4534246 GAT AAT AAA AAT AAA AAT AAA AAT AAA AAT AAA AAT AAA AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ***
4534294 AAA AAT AAA AAT AGT AAT AAT GGC AAT AAT AAT AAT ACCAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT
* * * * * * *
4534340 AAG AAA AAGA AAT AAT AAC ATGT AAAT AAT AAT AAC AAT AAT AAC AAT
1 AAT AAT AA-T AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
4534388 AAT -AT ATT TAT AAT AAT AAT AGT AAA AAT AAT AAA AAT AACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
4534433 TTTTTAGTAA
Statistics
Matches: 230, Mismatches: 75, Indels: 30
0.69 0.22 0.09
Matches are distributed among these distances:
2 14 0.06
3 198 0.86
4 14 0.06
5 4 0.02
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:4534119 original size:42 final size:43
Alignment explanation
Indices: 4534071--4534166 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 43
4534061 AAGAAAAAGT
*
4534071 GATAATAATAAAAACAAA-AATAGTAATAATAGTATGTGA-AATA
1 GATAATAATAAAAA-AAATAATAGTAATAATAATAT-TGATAATA
*
4534114 -ATAATAGTAAAAAAAATAATAGTAATAATAATATTGATAATA
1 GATAATAATAAAAAAAATAATAGTAATAATAATATTGATAATA
4534156 GATAATAATAA
1 GATAATAATAA
4534167 TACTAATAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 6 0.13
42 32 0.68
43 9 0.19
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (43 bp):
GATAATAATAAAAAAAATAATAGTAATAATAATATTGATAATA
Found at i:4534146 original size:15 final size:15
Alignment explanation
Indices: 4534089--4534183 Score: 81
Period size: 15 Copynumber: 6.5 Consensus size: 15
4534079 TAAAAACAAA
*
4534089 AATAGTAATAATAGT
1 AATAGTAATAATAAT
*
4534104 -AT-GTGA-AATAAT
1 AATAGTAATAATAAT
* *
4534116 AATAGTAAAAAAAAT
1 AATAGTAATAATAAT
4534131 AATAGTAATAATAAT
1 AATAGTAATAATAAT
*
4534146 -ATTGATAATAGATAAT
1 AATAG-TAATA-ATAAT
* *
4534162 AATAATACTAATAAT
1 AATAGTAATAATAAT
4534177 AATAGTA
1 AATAGTA
4534184 GTAAAAAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
12 5 0.08
13 5 0.08
14 8 0.13
15 34 0.54
16 9 0.14
17 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (15 bp):
AATAGTAATAATAAT
Found at i:4539058 original size:21 final size:18
Alignment explanation
Indices: 4539023--4539065 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 18
4539013 ACATATTAAT
4539023 TATTTTAAATATTTTTCATA
1 TATTTTAAATA-TTTT-ATA
4539043 TATTTTAAACTATTTTATA
1 TATTTTAAA-TATTTTATA
4539062 TATT
1 TATT
4539066 ATCTATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 13 0.59
21 2 0.09
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTAAATATTTTATA
Found at i:4539073 original size:26 final size:25
Alignment explanation
Indices: 4538960--4539213 Score: 95
Period size: 26 Copynumber: 10.2 Consensus size: 25
4538950 TAAATTGTCC
* * *
4538960 TATATATTATCTATTTTTAATTTTTT
1 TATATATTAT-TATTTTAAACTATTT
* **
4538986 TATATATTATTTATTTAAAACTGCTT
1 TATATATTA-TTATTTTAAACTATTT
*
4539012 TACATATTAATTATTTTAAA-TATTT
1 TATATATT-ATTATTTTAAACTATTT
*
4539037 T-T-CA-TA-TATTTTAAACTATTT
1 TATATATTATTATTTTAAACTATTT
* *
4539058 TATATATTATCTATTTT-AATTTTTT
1 TATATATTAT-TATTTTAAACTATTT
* * * * *
4539083 TATATGTTATTTAGTTTATATTGTTT
1 TATATATTA-TTATTTTAAACTATTT
* *
4539109 TATATGTTAATTGTTTTAAA-T-TCTT
1 TATATATT-ATTATTTTAAACTAT-TT
*
4539134 T-T-TATTATTCATTGTAAACCT-TTT
1 TATATATTATT-ATTTTAAA-CTATTT
* *
4539158 TAT-TATTATTTATTTTTAGA-T-TTCA
1 TATATATTA-TTA-TTTTAAACTATT-T
* *
4539183 TATATATTATTTTTATTAAACCATTT
1 TATATATTATTATT-TTAAACTATTT
4539209 TATAT
1 TATAT
4539214 GTATATTTAT
Statistics
Matches: 174, Mismatches: 31, Indels: 46
0.69 0.12 0.18
Matches are distributed among these distances:
20 9 0.05
21 7 0.04
22 5 0.03
23 11 0.06
24 12 0.07
25 45 0.26
26 80 0.46
27 5 0.03
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (25 bp):
TATATATTATTATTTTAAACTATTT
Found at i:4539092 original size:25 final size:26
Alignment explanation
Indices: 4539055--4539117 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
4539045 TTTTAAACTA
* * *
4539055 TTTTATATATTATCTATTTTA-ATTT
1 TTTTATATGTTATCTAGTTTATATTG
*
4539080 TTTTATATGTTATTTAGTTTATATTG
1 TTTTATATGTTATCTAGTTTATATTG
4539106 TTTTATATGTTA
1 TTTTATATGTTA
4539118 ATTGTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (26 bp):
TTTTATATGTTATCTAGTTTATATTG
Found at i:4539373 original size:24 final size:24
Alignment explanation
Indices: 4539289--4539481 Score: 148
Period size: 26 Copynumber: 8.0 Consensus size: 24
4539279 ATGTTAGTTG
4539289 AAATTGTTTTATAAATTATTTATTTT
1 AAATTGTTTTAT--ATTATTTATTTT
* * *
4539315 ACATTGCTCTATA-TA-TTATTTT
1 AAATTGTTTTATATTATTTATTTT
* *
4539337 --ATTGTTTTGTATATTAATGATTTT
1 AAATTG-TTT-TATATTATTTATTTT
* * *
4539361 AAATTGTTTTATACTATTTACTTC
1 AAATTGTTTTATATTATTTATTTT
* *
4539385 AAATTGCTTTTTATAGTATCTATTTT
1 AAATTG--TTTTATATTATTTATTTT
*
4539411 AAACCTT-TTTATATATTATTTATTTA
1 AAA--TTGTTT-TATATTATTTATTTT
*
4539437 AAATT-TTCT-TATTATTTATTTT
1 AAATTGTTTTATATTATTTATTTT
4539459 AAATTGTTTTATATTATTTATTT
1 AAATTGTTTTATATTATTTATTT
4539482 CATTTTTCTT
Statistics
Matches: 133, Mismatches: 21, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.03
21 1 0.01
22 28 0.21
23 8 0.06
24 39 0.29
25 6 0.05
26 45 0.34
28 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (24 bp):
AAATTGTTTTATATTATTTATTTT
Found at i:4539449 original size:22 final size:24
Alignment explanation
Indices: 4539422--4539481 Score: 88
Period size: 22 Copynumber: 2.6 Consensus size: 24
4539412 AACCTTTTTA
4539422 TATATTATTTATTTAAAATT-TTC
1 TATATTATTTATTTAAAATTGTTC
* *
4539445 T-TATTATTTATTTTAAATTGTTT
1 TATATTATTTATTTAAAATTGTTC
4539468 TATATTATTTATTT
1 TATATTATTTATTT
4539482 CATTTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 17 0.52
23 4 0.12
24 12 0.36
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTATTTATTTAAAATTGTTC
Found at i:4541440 original size:27 final size:29
Alignment explanation
Indices: 4541379--4541440 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
4541369 TAAAAAATAC
*
4541379 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
4541408 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
4541435 AAATAT
1 AAATAT
4541441 GTGCAAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:4541592 original size:14 final size:14
Alignment explanation
Indices: 4541573--4541624 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
4541563 AGTAATATAA
4541573 AATATAATAAAAAT
1 AATATAATAAAAAT
*
4541587 AATATAATGAATAAT
1 AATATAAT-AAAAAT
*
4541602 ATATATAGT-AAAAT
1 A-ATATAATAAAAAT
*
4541616 GATATAATA
1 AATATAATA
4541625 TATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 6 0.20
16 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATATAATAAAAAT
Found at i:4541627 original size:20 final size:19
Alignment explanation
Indices: 4541597--4541641 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
4541587 AATATAATGA
4541597 ATAATATATATAGTAAAATGAT
1 ATAATATAT-TA-TAAAAT-AT
4541619 ATAATATATTATAAAATAT
1 ATAATATATTATAAAATAT
4541638 ATAA
1 ATAA
4541642 ATAAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAATATATTATAAAATAT
Found at i:4541644 original size:20 final size:22
Alignment explanation
Indices: 4541574--4541641 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
4541564 GTAATATAAA
* * * *
4541574 ATATAATAAAAATAATATAATG
1 ATATAATATATATAGTAAAATG
4541596 A-ATAATATATATAGTAAAATG
1 ATATAATATATATAGTAAAATG
4541617 ATATAATATAT-TA-TAAAAT-
1 ATATAATATATATAGTAAAATG
4541636 ATATAA
1 ATATAA
4541642 ATAAAACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATATATAGTAAAATG
Found at i:4546108 original size:17 final size:18
Alignment explanation
Indices: 4546033--4546110 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 18
4546023 TATATAATGA
4546033 AATATAT-AATAAAATAT
1 AATATATAAATAAAATAT
* *
4546050 AATTTATAGATAAAATAT
1 AATATATAAATAAAATAT
*
4546068 ACA-ATAATATAATATAATGGAT
1 A-ATAT-ATA-AATAAAAT--AT
4546090 AATATATAAATAAAA-AT
1 AATATATAAATAAAATAT
4546107 AATA
1 AATA
4546111 GCTAATATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
17 12 0.25
18 11 0.23
19 4 0.08
20 12 0.25
21 4 0.08
22 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (18 bp):
AATATATAAATAAAATAT
Found at i:4546108 original size:24 final size:22
Alignment explanation
Indices: 4546072--4546130 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
4546062 AAATATACAA
* *
4546072 TAATATAATATAATGGATAATAT
1 TAATA-AAAATAATAGATAATAT
*
4546095 ATAAATAAAAATAATAGCTAATAT
1 -T-AATAAAAATAATAGATAATAT
*
4546119 TTATAAAAATAA
1 TAATAAAAATAA
4546131 ATAATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 1 0.03
24 15 0.50
25 4 0.13
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
TAATAAAAATAATAGATAATAT
Found at i:4558030 original size:37 final size:37
Alignment explanation
Indices: 4557989--4558069 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
4557979 TTGAAATACT
* * *
4557989 TGGAAATGATATTTACATGATATATTGAAACGTGACA
1 TGGAAATGATATTTACATAATATATTAAAAAGTGACA
* *
4558026 TGGAAATGGTATTTACTTAATATATTAAAAAGTGACA
1 TGGAAATGATATTTACATAATATATTAAAAAGTGACA
*
4558063 TGTAAAT
1 TGGAAAT
4558070 ATGTGATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (37 bp):
TGGAAATGATATTTACATAATATATTAAAAAGTGACA
Found at i:4561708 original size:27 final size:27
Alignment explanation
Indices: 4561671--4561874 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
4561661 TAAATTGTAC
*
4561671 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
4561698 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
4561725 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
4561751 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
4561779 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
4561807 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
4561833 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
4561860 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4561875 GACTCAATAT
Statistics
Matches: 156, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
26 25 0.16
27 108 0.69
28 23 0.15
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:4565968 original size:21 final size:21
Alignment explanation
Indices: 4565942--4565987 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4565932 TTACACGAGT
*
4565942 GTGTCCCA-AGTCCACATGGGC
1 GTGTCCCAGA-TCCACACGGGC
*
4565963 GTGTCCCAGATTCACACGGGC
1 GTGTCCCAGATCCACACGGGC
4565984 GTGT
1 GTGT
4565988 GCGCCCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.22
Consensus pattern (21 bp):
GTGTCCCAGATCCACACGGGC
Found at i:4567410 original size:11 final size:11
Alignment explanation
Indices: 4567396--4567470 Score: 114
Period size: 11 Copynumber: 6.8 Consensus size: 11
4567386 TATTTAAACG
4567396 ATAATAATAAA
1 ATAATAATAAA
* *
4567407 ATAATAGTAAT
1 ATAATAATAAA
4567418 ATAATAATAAA
1 ATAATAATAAA
*
4567429 ATAACAATAAA
1 ATAATAATAAA
*
4567440 ATAATAACAAA
1 ATAATAATAAA
4567451 ATAATAATAAA
1 ATAATAATAAA
4567462 ATAATAATA
1 ATAATAATA
4567471 TTTTTTTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 56 1.00
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:4567417 original size:14 final size:14
Alignment explanation
Indices: 4567396--4567470 Score: 93
Period size: 14 Copynumber: 5.4 Consensus size: 14
4567386 TATTTAAACG
4567396 ATAATAATAAAATA
1 ATAATAATAAAATA
* *
4567410 ATAGTAATATAATA
1 ATAATAATAAAATA
4567424 ATAA-AATAACAATA
1 ATAATAATAA-AATA
4567438 A-AATAATAACAA-A
1 ATAATAATAA-AATA
4567451 ATAATAATAAAATA
1 ATAATAATAAAATA
4567465 ATAATA
1 ATAATA
4567471 TTTTTTTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.19
14 43 0.81
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (14 bp):
ATAATAATAAAATA
Found at i:4567431 original size:19 final size:20
Alignment explanation
Indices: 4567396--4567471 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 20
4567386 TATTTAAACG
*
4567396 ATAATAATAA-AATAATAGTA
1 ATAATAATAATAACAATA-TA
*
4567416 AT-ATAATAATAA-AATAACA
1 ATAATAATAATAACAAT-ATA
*
4567435 ATAA-AATAATAACAAAATA
1 ATAATAATAATAACAATATA
*
4567454 ATAATAA-AATAATAATAT
1 ATAATAATAATAACAATAT
4567472 TTTTTTATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
19 36 0.78
20 10 0.22
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (20 bp):
ATAATAATAATAACAATATA
Found at i:4573408 original size:26 final size:26
Alignment explanation
Indices: 4573372--4573429 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
4573362 TATAGGATAA
4573372 TATTTGTCATCAACTATTTATCTTTT
1 TATTTGTCATCAACTATTTATCTTTT
4573398 TATTTGTCATCAACTATTTATCTTTT
1 TATTTGTCATCAACTATTTATCTTTT
*
4573424 TCTTTG
1 TATTTG
4573430 CAGAGCTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.59
Consensus pattern (26 bp):
TATTTGTCATCAACTATTTATCTTTT
Found at i:4576597 original size:64 final size:64
Alignment explanation
Indices: 4576524--4576734 Score: 146
Period size: 64 Copynumber: 3.2 Consensus size: 64
4576514 CTGGGCCAGA
*
4576524 GCCCTTTTCAGATTACAATAAACTGGGCATTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCATTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* ** ** *
4576588 GCCCATTTCAAAATACATGCAACATCAGTAAACATATGCA--AG-CCC--ATTTGGGTAACAGTG
1 GCCCATTTC-AGAT---T---ACA--A-TAAAC-TGGGCATTAGCCCCTTATTCAGATAACA---
* *
4576648 GTACTGGGCCAGA-
52 GTA-TGGCCCATAG
* *
4576661 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCATTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
4576725 GCCCATTTCA
1 GCCCATTTCA
4576735 AAATACATGC
Statistics
Matches: 106, Mismatches: 20, Indels: 42
0.63 0.12 0.25
Matches are distributed among these distances:
62 3 0.03
63 12 0.11
64 23 0.22
65 6 0.06
66 3 0.03
67 9 0.08
68 1 0.01
69 1 0.01
70 9 0.08
71 3 0.03
72 6 0.06
73 14 0.13
74 12 0.11
75 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCATTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:4576737 original size:137 final size:137
Alignment explanation
Indices: 4576491--4576776 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 137
4576481 ATTGGGCCAG
**
4576491 AGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCATTA
1 AGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCATTA
4576556 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
4576621 ATATGCA
131 ATATGCA
*
4576628 AGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCATTA
*
4576693 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAATATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
4576758 ATATGCA
131 ATATGCA
4576765 AGCCCATTTGGG
1 AGCCCATTTGGG
4576777 GAGACTATTC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCATTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGCA
Found at i:4578615 original size:26 final size:26
Alignment explanation
Indices: 4578556--4578607 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
4578546 AAAGACATGA
4578556 AACCCATTATCATGAAACATTTACCT
1 AACCCATTATCATGAAACATTTACCT
*
4578582 AACCCATTATCATGGAACATTTACCT
1 AACCCATTATCATGAAACATTTACCT
4578608 GTTTCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
AACCCATTATCATGAAACATTTACCT
Found at i:4578682 original size:26 final size:26
Alignment explanation
Indices: 4578612--4578684 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
4578602 TTACCTGTTT
* *
4578612 CATTTACCTAACCCATTACCATGGAA
1 CATTTACCTAACCTATTATCATGGAA
4578638 CATTTACCTAACCTATTATCATGGAA
1 CATTTACCTAACCTATTATCATGGAA
4578664 CATTTACCTAACCTATTATCA
1 CATTTACCTAACCTATTATCA
4578685 ATTTGTATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (26 bp):
CATTTACCTAACCTATTATCATGGAA
Found at i:4579775 original size:18 final size:18
Alignment explanation
Indices: 4579749--4579783 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4579739 TTCGATATGC
*
4579749 CCTTTTCTTGAGACAAAT
1 CCTTGTCTTGAGACAAAT
4579767 CCTTGTCTTGAGACAAA
1 CCTTGTCTTGAGACAAA
4579784 GGAGATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (18 bp):
CCTTGTCTTGAGACAAAT
Found at i:4581042 original size:22 final size:22
Alignment explanation
Indices: 4581009--4581094 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 22
4580999 AATATCAGGT
*
4581009 ATTTGA-ATTTAATTTTTTTTA
1 ATTTGATATTTAATGTTTTTTA
* *
4581030 ATTTGATATTTAAGGTTTTTCA
1 ATTTGATATTTAATGTTTTTTA
* * *
4581052 ATTTGGTATCTAATTTTTTTTA
1 ATTTGATATTTAATGTTTTTTA
4581074 ATTT-AGTATTTAATGTTTTTT
1 ATTTGA-TATTTAATGTTTTTT
4581095 GGGTTCAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
21 6 0.12
22 46 0.88
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (22 bp):
ATTTGATATTTAATGTTTTTTA
Found at i:4581706 original size:36 final size:36
Alignment explanation
Indices: 4581629--4581706 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 36
4581619 TAATTACTTT
4581629 TTAT-TTAAGTAAAAAGATATTTACTATTTATTATAA
1 TTATATTAAGTAAAAAGATATTTA-TATTTATTATAA
*
4581665 -T-TATTAAGTTAAAAGATA-TT-TATTTATTAAATAA
1 TTATATTAAGTAAAAAGATATTTATATTTATT--ATAA
4581699 TTATATTA
1 TTATATTA
4581707 TAAGATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
32 8 0.22
34 7 0.19
35 16 0.44
36 5 0.14
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (36 bp):
TTATATTAAGTAAAAAGATATTTATATTTATTATAA
Found at i:4581844 original size:3 final size:3
Alignment explanation
Indices: 4581828--4581864 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
4581818 AAATAGATAT
*
4581828 TTA TTA -TA TGA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4581865 GTTGTTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4581906 original size:15 final size:16
Alignment explanation
Indices: 4581888--4581920 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4581878 TTGATGATGT
4581888 TAATTTAT-TAAATTA
1 TAATTTATATAAATTA
*
4581903 TAATTTATATTAATTA
1 TAATTTATATAAATTA
4581919 TA
1 TA
4581921 TTATGAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTTATATAAATTA
Found at i:4582515 original size:17 final size:18
Alignment explanation
Indices: 4582493--4582526 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4582483 TAAATGAGTT
4582493 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
4582510 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
4582527 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:4591989 original size:21 final size:21
Alignment explanation
Indices: 4591959--4591998 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4591949 TTTGTCAAAG
* *
4591959 ATGTGTATTGGATTGAATTTA
1 ATGTGAATTGGATTAAATTTA
*
4591980 ATGTGAATTGTATTAAATT
1 ATGTGAATTGGATTAAATT
4591999 GAGCTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTTA
Found at i:4592511 original size:25 final size:25
Alignment explanation
Indices: 4592398--4592516 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
4592388 TTCCCAAATT
* *
4592398 TGGCTCACATGAGCTTCCCGTT-TA
1 TGGCTCAAAAGAGCTTCCCGTTATA
* ** * *
4592422 TAGCTCGTATGAGCTTCCCGATA-A
1 TGGCTCAAAAGAGCTTCCCGTTATA
*** * *
4592446 TTGGCTTGCAAGAGCTTCCTGTTACA
1 -TGGCTCAAAAGAGCTTCCCGTTATA
*
4592472 TGGCTCACATA-AGCTTCCCGTTATA
1 TGGCTCA-AAAGAGCTTCCCGTTATA
4592497 TGGCTCAAAAGAGCTTCCCG
1 TGGCTCAAAAGAGCTTCCCG
4592517 ATTACATGTT
Statistics
Matches: 73, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
24 21 0.29
25 50 0.68
26 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (25 bp):
TGGCTCAAAAGAGCTTCCCGTTATA
Found at i:4598173 original size:30 final size:30
Alignment explanation
Indices: 4598137--4598198 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
4598127 GTTCTGCAAC
4598137 TTATAGCACTCAGATTTAATGTACCCTTTT
1 TTATAGCACTCAGATTTAATGTACCCTTTT
**
4598167 TTATAGCACTCAGATTTAATGTGTCCTTTT
1 TTATAGCACTCAGATTTAATGTACCCTTTT
4598197 TT
1 TT
4598199 TTACAGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (30 bp):
TTATAGCACTCAGATTTAATGTACCCTTTT
Found at i:4600415 original size:11 final size:11
Alignment explanation
Indices: 4600395--4600451 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
4600385 ACAAAATGGT
* *
4600395 AACAATATAAT
1 AACAAAATAAC
*
4600406 AATAAAATAAC
1 AACAAAATAAC
* *
4600417 AACAAAACAAT
1 AACAAAATAAC
*
4600428 GACAAAATAAC
1 AACAAAATAAC
4600439 AACAAAATAAC
1 AACAAAATAAC
4600450 AA
1 AA
4600452 TTTTTTTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.70, C:0.14, G:0.02, T:0.14
Consensus pattern (11 bp):
AACAAAATAAC
Found at i:4600420 original size:22 final size:22
Alignment explanation
Indices: 4600395--4600448 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
4600385 ACAAAATGGT
* *
4600395 AACAATATAATAATAAAATAAC
1 AACAAAATAATAACAAAATAAC
* *
4600417 AACAAAACAATGACAAAATAAC
1 AACAAAATAATAACAAAATAAC
4600439 AACAAAATAA
1 AACAAAATAA
4600449 CAATTTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.70, C:0.13, G:0.02, T:0.15
Consensus pattern (22 bp):
AACAAAATAATAACAAAATAAC
Found at i:4601770 original size:14 final size:14
Alignment explanation
Indices: 4601751--4601781 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4601741 TACACTGAAT
4601751 CCATAAGGAGTCTA
1 CCATAAGGAGTCTA
4601765 CCATAAGGAGTCTA
1 CCATAAGGAGTCTA
4601779 CCA
1 CCA
4601782 ATCGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (14 bp):
CCATAAGGAGTCTA
Found at i:4609260 original size:6 final size:6
Alignment explanation
Indices: 4609249--4609295 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
4609239 CGGCACTTAA
* * *
4609249 GGGAAG GGGAAG GGGAAG GGGAAG GTGAAG GGGAAA GGGAAA GGGAA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAA
4609296 TTAGAGGATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (6 bp):
GGGAAG
Found at i:4609713 original size:21 final size:22
Alignment explanation
Indices: 4609695--4609778 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
4609685 TGGTATTTGA
*
4609695 ATTTAATTTTTTTTAATTTAGT
1 ATTTAATTTTTTTCAATTTAGT
* * * *
4609717 ATTAAAATTTTTTCCATTTGGT
1 ATTTAATTTTTTTCAATTTAGT
4609739 ATTTAA-TTTTTT-AATTTAGT
1 ATTTAATTTTTTTCAATTTAGT
* * *
4609759 ATTTAAGTCTTTTGAATTTA
1 ATTTAATTTTTTTCAATTTA
4609779 TTGTAGTACA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 12 0.24
21 11 0.22
22 28 0.55
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTAATTTTTTTCAATTTAGT
Found at i:4609735 original size:22 final size:20
Alignment explanation
Indices: 4609703--4609761 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
4609693 GAATTTAATT
4609703 TTTTTTAATTTAGTATTAAAA
1 TTTTTTAATTTAGTATT-AAA
* * *
4609724 TTTTTTCCATTTGGTATTTAA
1 TTTTTT-AATTTAGTATTAAA
4609745 TTTTTTAATTTAGTATT
1 TTTTTTAATTTAGTATT
4609762 TAAGTCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTTTTAATTTAGTATTAAA
Found at i:4610238 original size:27 final size:26
Alignment explanation
Indices: 4610143--4610238 Score: 86
Period size: 27 Copynumber: 3.7 Consensus size: 26
4610133 CAAGTTTGGG
*
4610143 TACCAAATT-AAAAAAAAAACTTAAA
1 TACCAAATTAAAAAAAAAAATTTAAA
* * * **
4610168 TTCTAAATTAAAAAAATCAAATTTTGA
1 TACCAAATTAAAAAAA-AAAATTTAAA
* * *
4610195 TAACAAATTAGATAAAAGAAATTTAAA
1 TACCAAATTA-AAAAAAAAAATTTAAA
4610222 TACCAAATTAAAAAAAA
1 TACCAAATTAAAAAAAA
4610239 TTAATATCAT
Statistics
Matches: 52, Mismatches: 16, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
25 7 0.13
26 11 0.21
27 29 0.56
28 5 0.10
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.26
Consensus pattern (26 bp):
TACCAAATTAAAAAAAAAAATTTAAA
Found at i:4611917 original size:36 final size:36
Alignment explanation
Indices: 4611877--4611950 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
4611867 TGCCTGCGTG
4611877 AATGCCCAAATAGAGAGGGAGAGTCTATCATACGTC
1 AATGCCCAAATAGAGAGGGAGAGTCTATCATACGTC
4611913 AATGCCCAAATAGAGAGGGAGAGTCTATCATACGTC
1 AATGCCCAAATAGAGAGGGAGAGTCTATCATACGTC
4611949 AA
1 AA
4611951 ATATAAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (36 bp):
AATGCCCAAATAGAGAGGGAGAGTCTATCATACGTC
Found at i:4612503 original size:25 final size:25
Alignment explanation
Indices: 4612474--4612524 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4612464 TATGTTACAT
4612474 CACTGAATCCATTTTTCCACATCTC
1 CACTGAATCCATTTTTCCACATCTC
4612499 CACTGAATCCATTTTTCCACATCTC
1 CACTGAATCCATTTTTCCACATCTC
4612524 C
1 C
4612525 TGTTTGTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.37, G:0.04, T:0.35
Consensus pattern (25 bp):
CACTGAATCCATTTTTCCACATCTC
Found at i:4616538 original size:15 final size:15
Alignment explanation
Indices: 4616518--4616546 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4616508 ATAAAGAAAG
4616518 ATAAGAGAATAAAAC
1 ATAAGAGAATAAAAC
4616533 ATAAGAGAATAAAA
1 ATAAGAGAATAAAA
4616547 TTTGGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (15 bp):
ATAAGAGAATAAAAC
Found at i:4618562 original size:16 final size:16
Alignment explanation
Indices: 4618518--4618561 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
4618508 TATTATTTTG
*
4618518 AAATTAAAAATATATA
1 AAATTAAAAAAATATA
4618534 AAATTTAAAAAAATAT-
1 AAA-TTAAAAAAATATA
4618550 AAATTAAAAAAA
1 AAATTAAAAAAA
4618562 AAGTTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 6 0.23
17 11 0.42
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATTAAAAAAATATA
Found at i:4628032 original size:2 final size:2
Alignment explanation
Indices: 4628025--4628059 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4628015 ATTTGATGCT
4628025 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4628060 GTATTATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4628064 original size:10 final size:9
Alignment explanation
Indices: 4628024--4628066 Score: 59
Period size: 10 Copynumber: 4.4 Consensus size: 9
4628014 TATTTGATGC
4628024 TTATATATA
1 TTATATATA
4628033 TATATATATA
1 T-TATATATA
4628043 TATATATATA
1 T-TATATATA
4628053 TTATATAGTA
1 TTATATA-TA
4628063 TTAT
1 TTAT
4628067 TAATAGCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TTATATATA
Found at i:4628086 original size:3 final size:3
Alignment explanation
Indices: 4628080--4628115 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
4628070 TAGCTTTTAA
*
4628080 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
4628116 GTGTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4628101 original size:12 final size:12
Alignment explanation
Indices: 4628051--4628108 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
4628041 TATATATATA
*
4628051 TATTATATAGTAT
1 TATTAT-TACTAT
* *
4628064 TATTAATAGCTTT
1 TATTATTA-CTAT
* *
4628077 TAATATTATTAT
1 TATTATTACTAT
4628089 TATTATTACTAT
1 TATTATTACTAT
4628101 TATTATTA
1 TATTATTA
4628109 TATATTAGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
12 22 0.63
13 13 0.37
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:4628223 original size:3 final size:3
Alignment explanation
Indices: 4628215--4628250 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
4628205 TGTATTTCTA
* *
4628215 TAT TAT TAT TAT AAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4628251 ATAGTAGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4628323 original size:141 final size:138
Alignment explanation
Indices: 4628080--4628335 Score: 318
Period size: 141 Copynumber: 1.8 Consensus size: 138
4628070 TAGCTTTTAA
* * * *
4628080 TATTATTATTATTATTACTATTATTATTATATATTAGTGTATATTTTTATGTACATACACGTATA
1 TATTATAATTATTATCACTATTATTATTATATAGTAGTGTATATTTTCATGTACAT--A-GTATA
* * * *
4628145 TATATATTTATATATGGCATTGCTTTTTCATTATTTAATATTTTTATTATATTTGCTCTTTGTAT
63 TATATATTGATATACGGCATTACTTTTTCATTATTTAATATTATTATTATATTTGCTCTTTGTAT
4628210 TTCTATATTAT
128 TTCTATATTAT
* *
4628221 TATTATAATTATTATCATTATTATTATTATATAGTAGTGTGTATTTTCAT-TACAT-GTATATAT
1 TATTATAATTATTATCACTATTATTATTATATAGTAGTGTATATTTTCATGTACATAGTATATAT
* *
4628284 ATATTGATATACGGGATTACTTTTGTTTACTTTACTTTAATATTATTATTAT
66 ATATTGATATACGGCATTAC--TT-TTT-CATTA-TTTAATATTATTATTAT
4628336 CATCCTTATT
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
136 24 0.24
138 2 0.02
139 3 0.03
140 9 0.09
141 60 0.61
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (138 bp):
TATTATAATTATTATCACTATTATTATTATATAGTAGTGTATATTTTCATGTACATAGTATATAT
ATATTGATATACGGCATTACTTTTTCATTATTTAATATTATTATTATATTTGCTCTTTGTATTTC
TATATTAT
Found at i:4630626 original size:26 final size:23
Alignment explanation
Indices: 4630586--4630662 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 23
4630576 TTATTTTATT
* *
4630586 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAA-ATAA
4630610 TAAATCAAATATATTTAAAAAATAA
1 -AAAT-AAATATATTTAAAAAATAA
*
4630635 AAAT-AA-ATATTAAAACAAATAA
1 AAATAAATATATTTAAA-AAATAA
4630657 AAATAA
1 AAATAA
4630663 TACTAAAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.17
22 12 0.26
23 1 0.02
24 4 0.09
25 8 0.17
26 13 0.28
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (23 bp):
AAATAAATATATTTAAAAAATAA
Found at i:4630654 original size:22 final size:21
Alignment explanation
Indices: 4630616--4630673 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
4630606 ATAATAAATC
*
4630616 AAAT-ATATTTAAA-AAATAA
1 AAATAATATTAAAACAAATAA
4630635 AAATAAATATTAAAACAAATAA
1 AAAT-AATATTAAAACAAATAA
*
4630657 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
4630674 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.12
21 20 0.59
22 10 0.29
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:4640490 original size:27 final size:27
Alignment explanation
Indices: 4640452--4640505 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4640442 ACAAAAGAAG
4640452 ACTACAAATGAGAGAGAGAGCGCCATT
1 ACTACAAATGAGAGAGAGAGCGCCATT
4640479 ACTACAAATGAGAGAGAGAGCGCCATT
1 ACTACAAATGAGAGAGAGAGCGCCATT
4640506 TTCTTGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.15
Consensus pattern (27 bp):
ACTACAAATGAGAGAGAGAGCGCCATT
Found at i:4651802 original size:23 final size:23
Alignment explanation
Indices: 4651777--4651821 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
4651767 ATGTTTCGAA
4651777 TTTTATTAATTATTTTTAAATTAT
1 TTTTATT-ATTATTTTTAAATTAT
*
4651801 TTTTATTTTTATTTTTAAATT
1 TTTTATTATTATTTTTAAATT
4651822 TCCGGAGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTATTATTATTTTTAAATTAT
Found at i:4653635 original size:147 final size:151
Alignment explanation
Indices: 4653468--4653839 Score: 567
Period size: 147 Copynumber: 2.5 Consensus size: 151
4653458 ACCAAATATG
* * * *
4653468 CGCCCACCGTGGGTCCCGAACCCACGACCACAAGGTAAAGAGCCTTGCGCTCTACCGACTGAACT
1 CGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGACTGAGCT
* *
4653533 AGACGGGCCAGTTAATTTTAGA-T-TGTAAATTTCTTACAAATTCAAAACTAATAG-TTACAGTT
66 AGACGGGCCAATTAATGTT-GATTGTGTAAATTTCTTACAAA-TCAAAACTAATAGTTTACAGTT
*
4653595 GCTCGG-A-AAAAG-TAAAAAGT
129 GCTCGGAACAAAAGCAAAAAAGT
4653615 CGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGACTGAGCT
1 CGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGACTGAGCT
* * * *
4653680 AGACGGGCCAATTGATGTTGATTGTGTAAATTTTTTACAAATCAAAACTTATAGTTTCCAGTTGC
66 AGACGGGCCAATTAATGTTGATTGTGTAAATTTCTTACAAATCAAAACTAATAGTTTACAGTTGC
*
4653745 TTGGAACTAAAAGCAAAAAAGT
131 TCGGAAC-AAAAGCAAAAAAGT
4653767 CGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGACTGAGCT
1 CGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGACTGAGCT
4653832 AGACGGGC
66 AGACGGGC
4653840 TTGTTGTCGC
Statistics
Matches: 206, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
146 2 0.01
147 90 0.44
148 28 0.14
149 1 0.00
151 5 0.02
152 80 0.39
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (151 bp):
CGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGACTGAGCT
AGACGGGCCAATTAATGTTGATTGTGTAAATTTCTTACAAATCAAAACTAATAGTTTACAGTTGC
TCGGAACAAAAGCAAAAAAGT
Found at i:4659411 original size:45 final size:45
Alignment explanation
Indices: 4659300--4659415 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
4659290 ATCATACCAG
* * *
4659300 AAATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCACGATTC
1 AAATGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTC
* **
4659345 AAACGAGTAAGACCATAGTTGAAAGACGCTATGGCATTGCGATTC
1 AAATGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTC
* *
4659390 AAATGTGTAAGACCATGGTTGAAAGA
1 AAATGAGTAAGACCATAGTTGAAAGA
4659416 TACCATGGCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTC
Found at i:4659424 original size:45 final size:45
Alignment explanation
Indices: 4659300--4659566 Score: 194
Period size: 46 Copynumber: 5.9 Consensus size: 45
4659290 ATCATACCAG
* * * *
4659300 AAATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCACGATTC
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCATCACGATTC
* ** * **
4659345 AAACGAGTAAGACCATAGTTGAAAGACGCTATGGCATTGCGATTC
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCATCACGATTC
* * * * **
4659390 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGG
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCATCACGAT-TC
* * * * ***
4659436 AAATGTA-TAAGATCATGGTTGAAAGATACCATGGCAACATGACAGG
1 AAATG-AGTAAGACCATAGTTGAAAGATACCATGGCATCACGA-TTC
* * * * * * ***
4659482 AAATGAATAAGACTATGGTTGAAAGATACCCTGGCAACATGACAGA
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCATCACGA-TTC
*
4659528 AAATGAGTAAGACCATAGTTGAAAGATACTATGGCATCA
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCATCA
4659567 TGTCGAAGAT
Statistics
Matches: 187, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
45 73 0.39
46 114 0.61
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGTTGAAAGATACCATGGCATCACGATTC
Found at i:4659453 original size:46 final size:46
Alignment explanation
Indices: 4659390--4659568 Score: 252
Period size: 46 Copynumber: 3.9 Consensus size: 46
4659380 ATTGCGATTC
* *
4659390 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGG
1 AAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
*
4659436 AAATGTATAAGATCATGGTTGAAAGATACCATGGCAACATGACAGG
1 AAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
* * * *
4659482 AAATGAATAAGACTATGGTTGAAAGATACCCTGGCAACATGACAGA
1 AAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
* * *
4659528 AAATG-AGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 AAATGTA-TAAGACCATGGTTGAAAGATACCATGGCAACATG
4659569 TCGAAGATAA
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 118 0.99
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
Found at i:4659504 original size:92 final size:92
Alignment explanation
Indices: 4659397--4659590 Score: 259
Period size: 92 Copynumber: 2.1 Consensus size: 92
4659387 TTCAAATGTG
* * * *
4659397 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGTA-TAAGATCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATG-AGTAAGACCATAGTTGAAAG
4659461 ATACCATGGCAACATGACAGGAAATGAA
65 ATACCATGGCAACATGACAGGAAATGAA
* *
4659489 TAAGACTATGGTTGAAAGATACCCTGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
* * * *
4659554 TACTATGGCATCATGTC--GAAGATAAA
66 TACCATGGCAACATGACAGGAA-ATGAA
4659580 TAAGACCATGG
1 TAAGACCATGG
4659591 ATGGGAGACG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
90 3 0.03
91 15 0.17
92 71 0.80
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
TACCATGGCAACATGACAGGAAATGAA
Found at i:4667020 original size:14 final size:15
Alignment explanation
Indices: 4667001--4667035 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4666991 TTTTTGGAAG
*
4667001 AGGAAAAG-AGAGAA
1 AGGAAAAGAAAAGAA
4667015 AGGAAAAGAAAAGAA
1 AGGAAAAGAAAAGAA
4667030 AGGAAA
1 AGGAAA
4667036 GGGTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
AGGAAAAGAAAAGAA
Found at i:4672176 original size:21 final size:21
Alignment explanation
Indices: 4672150--4672190 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4672140 AGACGAGCAA
* *
4672150 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4672171 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4672191 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4675926 original size:9 final size:9
Alignment explanation
Indices: 4675905--4675990 Score: 68
Period size: 9 Copynumber: 9.1 Consensus size: 9
4675895 TACATTATGG
4675905 AATTATAAAA
1 AATTAT-AAA
4675915 AATTATAAA
1 AATTATAAA
4675924 AATT-TAAA
1 AATTATAAA
* *
4675932 AATCATTAA
1 AATTATAAA
4675941 AATTATAAA
1 AATTATAAA
4675950 AA-TATTAAAA
1 AATTA-T-AAA
*
4675960 AATTATTATA
1 AATTA-TAAA
4675970 AATTAATTAAA
1 AATT-A-TAAA
*
4675981 AATGATAAA
1 AATTATAAA
4675990 A
1 A
4675991 TGATTTACTA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
8 9 0.14
9 25 0.39
10 18 0.28
11 12 0.19
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (9 bp):
AATTATAAA
Found at i:4675934 original size:17 final size:18
Alignment explanation
Indices: 4675905--4675965 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 18
4675895 TACATTATGG
*
4675905 AATTATAAAAAATTATAAA
1 AATTAT-AAAAATCATAAA
*
4675924 AATT-TAAAAATCATTAA
1 AATTATAAAAATCATAAA
4675941 AATTATAAAAAT-ATTAAAA
1 AATTATAAAAATCA-T-AAA
4675960 AATTAT
1 AATTAT
4675966 TATAAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.42
18 9 0.25
19 12 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTATAAAAATCATAAA
Found at i:4675978 original size:11 final size:10
Alignment explanation
Indices: 4675905--4675983 Score: 71
Period size: 10 Copynumber: 8.3 Consensus size: 10
4675895 TACATTATGG
*
4675905 AATTATAAAA
1 AATTATTAAA
4675915 AATTA-TAAA
1 AATTATTAAA
4675924 AA-T-TTAAA
1 AATTATTAAA
*
4675932 AATCATT-AA
1 AATTATTAAA
4675941 AATTA-TAAA
1 AATTATTAAA
4675950 AA-TATTAAAA
1 AATTATT-AAA
*
4675960 AATTATTATA
1 AATTATTAAA
4675970 AATTAATTAAA
1 AATT-ATTAAA
4675981 AAT
1 AAT
4675984 GATAAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
8 10 0.18
9 16 0.29
10 18 0.32
11 12 0.21
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (10 bp):
AATTATTAAA
Found at i:4676149 original size:19 final size:19
Alignment explanation
Indices: 4676125--4676182 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 19
4676115 AAAATATATT
*
4676125 ATTTGTATGGTTTTTAATA
1 ATTTGTATGATTTTTAATA
4676144 ATTTGT-T-ATTTTT-ATAA
1 ATTTGTATGATTTTTAAT-A
*
4676161 ATTT-TATGTTTTTTAATTA
1 ATTTGTATGATTTTTAA-TA
4676180 ATT
1 ATT
4676183 CTAATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
16 3 0.09
17 11 0.34
18 6 0.19
19 11 0.34
20 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (19 bp):
ATTTGTATGATTTTTAATA
Found at i:4676192 original size:18 final size:18
Alignment explanation
Indices: 4676171--4676206 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4676161 ATTTTATGTT
4676171 TTTTAATTAATTCTAATA
1 TTTTAATTAATTCTAATA
* *
4676189 TTTTTATTAATTTTAATA
1 TTTTAATTAATTCTAATA
4676207 AAATTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAATTAATTCTAATA
Found at i:4676194 original size:37 final size:35
Alignment explanation
Indices: 4676125--4676203 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 35
4676115 AAAATATATT
**
4676125 ATTTGTATGGTTTTTAATAATTTGTTATTTTTATAA
1 ATTT-TATGGTTTTTAATAATTTAATATTTTTATAA
* *
4676161 ATTTTATGTTTTTTAATTAATTCTAATATTTTTATTA
1 ATTTTATGGTTTTTAA-TAATT-TAATATTTTTATAA
4676198 ATTTTA
1 ATTTTA
4676204 ATAAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 11 0.30
36 9 0.24
37 17 0.46
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63
Consensus pattern (35 bp):
ATTTTATGGTTTTTAATAATTTAATATTTTTATAA
Found at i:4676202 original size:28 final size:28
Alignment explanation
Indices: 4676171--4676230 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
4676161 ATTTTATGTT
* *
4676171 TTTTAAT-TAATTCTAAT-ATTTTTATTAA
1 TTTTAATAAAATT-TAATGATTTTT-CTAA
4676199 TTTTAATAAAATTTAATGATTTTTCTAA
1 TTTTAATAAAATTTAATGATTTTTCTAA
4676227 TTTT
1 TTTT
4676231 TTAGTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTAATAAAATTTAATGATTTTTCTAA
Done.