Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, 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: 5289199
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 23
Found at i:3423331 original size:30 final size:30
Alignment explanation
Indices: 3423297--3423358 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
3423287 AAGATTATAT
*
3423297 CAACACTATAGTGTGTAAAGACACTTAGTG
1 CAACACTATAGTGTGTAAAGACACTAAGTG
* * *
3423327 CAACATTATAGTGTGTAAGGGCACTAAGTG
1 CAACACTATAGTGTGTAAAGACACTAAGTG
3423357 CA
1 CA
3423359 TATGGTGGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (30 bp):
CAACACTATAGTGTGTAAAGACACTAAGTG
Found at i:3434473 original size:138 final size:138
Alignment explanation
Indices: 3434196--3434456 Score: 387
Period size: 138 Copynumber: 1.9 Consensus size: 138
3434186 AGAGTGTTAC
** * *
3434196 AAACCCAATATATTTCAAAAGACTCTTCCAATGTCCGTACAAAAATATATATACAGTTGAAACCT
1 AAACCCAATATATTTCAAAAGACAATTCCAATGCCCGTACAAAAATATATATACAGCTGAAACCT
*
3434261 CAAAAGTTACAAATATCCAAAAAGGACACGGATGAAGCTATTAAAGAGGTGGAAGGGGCATATAT
66 CAAAAGTTACAAAGATCCAAAAAGGACACGGATGAAGCTATTAAAGAGGTGGAAGGGGCATATAT
3434326 ACCTCTCA
131 ACCTCTCA
* * * * *
3434334 AAACCCAATATATTTCAAAAGACAATTCGAATGCCCTTATAAAAATATATCTATAGCTGAAACCT
1 AAACCCAATATATTTCAAAAGACAATTCCAATGCCCGTACAAAAATATATATACAGCTGAAACCT
* * * * *
3434399 CAAAAGTTACAAAGATTCAAAAAGGACATGGATGAAGTTATTAAGGAGGTGGGAGGGG
66 CAAAAGTTACAAAGATCCAAAAAGGACACGGATGAAGCTATTAAAGAGGTGGAAGGGG
3434457 TCGTTGCTCC
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (138 bp):
AAACCCAATATATTTCAAAAGACAATTCCAATGCCCGTACAAAAATATATATACAGCTGAAACCT
CAAAAGTTACAAAGATCCAAAAAGGACACGGATGAAGCTATTAAAGAGGTGGAAGGGGCATATAT
ACCTCTCA
Found at i:3434759 original size:20 final size:19
Alignment explanation
Indices: 3434734--3434771 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3434724 ATTTCATAAG
3434734 ATTTATTATATAAAATAAAT
1 ATTTATT-TATAAAATAAAT
*
3434754 ATTTATTTATTAAATAAA
1 ATTTATTTATAAAATAAA
3434772 AAACTCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTATTTATAAAATAAAT
Found at i:3438087 original size:21 final size:22
Alignment explanation
Indices: 3438063--3438113 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
3438053 TGTTATTTAA
3438063 AAAAAT-TATT-TTTATATTATT
1 AAAAATATATTATTTA-ATTATT
3438084 -AAAATATATTATTTAATTATT
1 AAAAATATATTATTTAATTATT
3438105 AAAAATATA
1 AAAAATATA
3438114 AAAATGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 12 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAAATATATTATTTAATTATT
Found at i:3438166 original size:42 final size:39
Alignment explanation
Indices: 3438078--3438175 Score: 94
Period size: 41 Copynumber: 2.4 Consensus size: 39
3438068 TTATTTTTAT
*
3438078 ATTATTAAAATATATT-ATTTAATTATTAAAAATATAAAA
1 ATTA-TAAAATATATTAATTTAAGTATTAAAAATATAAAA
3438117 ATGTTATAAAATATATTAATTTAACCGT-TTAAAAATAATAAATA
1 A--TTATAAAATATATTAATTTAA--GTATTAAAAAT-ATAAA-A
*
3438161 ATTAT-AAGTATATTA
1 ATTATAAAATATATTA
3438176 TTATATAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
39 1 0.02
40 11 0.22
41 18 0.36
42 12 0.24
43 6 0.12
44 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (39 bp):
ATTATAAAATATATTAATTTAAGTATTAAAAATATAAAA
Found at i:3438189 original size:15 final size:16
Alignment explanation
Indices: 3438163--3438192 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3438153 AATAAATAAT
3438163 TATAAGTATATTATTA
1 TATAAGTATATTATTA
3438179 TATAA-TATATTATT
1 TATAAGTATATTATT
3438193 TTAATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TATAAGTATATTATTA
Found at i:3443410 original size:2 final size:2
Alignment explanation
Indices: 3443403--3443587 Score: 71
Period size: 2 Copynumber: 91.0 Consensus size: 2
3443393 AACAATTAGA
* * *
3443403 AT AT AT AT AT AT AT AT AT -T AT TT AT AA ACT AT AT AGT TT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
* * * *
3443445 A- AT AT AA ACT AT AT AT AA ACT AT AT AGT TT AT AT AT AA AGT AT
1 AT AT AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT
* * * *
3443488 AT AT AT -T AT AT AT AT AG ACT AT AT AT AT AA ACT GT AT AGT TT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT A-T AT
* * *
3443530 AA AT TT AT AT -T AT -T AT AT AT -T AT AT AT AA ACT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
3443570 -T AT GT AT AA ACT AT AT AT
1 AT AT AT AT AT A-T AT AT AT
3443588 TTTATTAATA
Statistics
Matches: 132, Mismatches: 32, Indels: 38
0.65 0.16 0.19
Matches are distributed among these distances:
1 8 0.06
2 114 0.86
3 10 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3443437 original size:20 final size:20
Alignment explanation
Indices: 3443403--3443736 Score: 153
Period size: 20 Copynumber: 16.8 Consensus size: 20
3443393 AACAATTAGA
*
3443403 ATATATATA-TATATATATT
1 ATATATAAACTATATATATT
* *
3443422 ATTTATAAACTATATA-GTT
1 ATATATAAACTATATATATT
*
3443441 -TAT-T-AA-TATA-A-ACT
1 ATATATAAACTATATATATT
3443455 ATATATAAACTATATAGT-TT
1 ATATATAAACTATATA-TATT
*
3443475 ATATATAAAGTATATATATT
1 ATATATAAACTATATATATT
* *
3443495 ATATAT--A-TAGA-CTA-T
1 ATATATAAACTATATATATT
*
3443510 ATATATAAACTGTATAGT-TT
1 ATATATAAACTATATA-TATT
* * * *
3443530 AAATTTATATTATTATATATT
1 ATATATAAACTA-TATATATT
3443551 ATATATAAACTATATATATT
1 ATATATAAACTATATATATT
* *
3443571 ATGTATAAACTATATATTTT
1 ATATATAAACTATATATATT
* *
3443591 ATTAATATAAATTATATATGAACT
1 A-T-ATATAAACTATATAT--ATT
* **
3443615 ATACAGTGTA-TATATAATACTTT
1 ATATA-TAAACTATAT-ATA--TT
* *
3443638 ATATGTACACTATATAGT-TT
1 ATATATAAACTATATA-TATT
* * *
3443658 ATATTTATATTATTATATATT
1 ATATATAAACTA-TATATATT
3443679 ATATATAAACTCTATATATATT
1 ATATATAAA--CTATATATATT
* * **
3443701 ATGTATAAACTATGTATACC
1 ATATATAAACTATATATATT
*
3443721 ATGTATAAACTATATA
1 ATATATAAACTATATA
3443737 GTTTGTATAT
Statistics
Matches: 237, Mismatches: 47, Indels: 61
0.69 0.14 0.18
Matches are distributed among these distances:
14 2 0.01
15 14 0.06
16 5 0.02
17 7 0.03
18 9 0.04
19 11 0.05
20 102 0.43
21 29 0.12
22 39 0.16
23 17 0.07
24 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATATAAACTATATATATT
Found at i:3443450 original size:33 final size:33
Alignment explanation
Indices: 3443425--3443492 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
3443415 ATATATTATT
3443425 TATAAACTATATAGTTTATTAATATAAACTATA
1 TATAAACTATATAGTTTATTAATATAAACTATA
*
3443458 TATAAACTATATAGTTTA-T-ATATAAAGTATA
1 TATAAACTATATAGTTTATTAATATAAACTATA
3443489 TATA
1 TATA
3443493 TTATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 15 0.44
32 1 0.03
33 18 0.53
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (33 bp):
TATAAACTATATAGTTTATTAATATAAACTATA
Found at i:3443525 original size:13 final size:13
Alignment explanation
Indices: 3443446--3443569 Score: 60
Period size: 13 Copynumber: 9.3 Consensus size: 13
3443436 TAGTTTATTA
3443446 ATATAAAC--TAT
1 ATATAAACTATAT
3443457 ATATAAACTATAT
1 ATATAAACTATAT
* *
3443470 AGTTTATATA-TAAAGT
1 A---TATAAACTATA-T
* *
3443486 ATATATATTATAT
1 ATATAAACTATAT
*
3443499 ATATAGACTATAT
1 ATATAAACTATAT
*
3443512 ATATAAACTGTAT
1 ATATAAACTATAT
* *
3443525 AGTTTAAA-TTTAT
1 A-TATAAACTATAT
*
3443538 ATTATTATA-TATTAT
1 A-TA-TAAACTA-TAT
3443553 ATATAAACTATAT
1 ATATAAACTATAT
3443566 ATAT
1 ATAT
3443570 TATGTATAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
11 8 0.09
13 50 0.57
14 16 0.18
15 7 0.08
16 7 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:3443685 original size:11 final size:11
Alignment explanation
Indices: 3443403--3443707 Score: 90
Period size: 11 Copynumber: 28.5 Consensus size: 11
3443393 AACAATTAGA
3443403 ATATATA-TAT
1 ATATATATTAT
3443413 ATATATATTAT
1 ATATATATTAT
* * *
3443424 TTATAAACTAT
1 ATATATATTAT
*
3443435 ATAGTTTATTA-
1 ATA-TATATTAT
* *
3443446 ATATAAACTAT
1 ATATATATTAT
* *
3443457 ATATAAACTAT
1 ATATATATTAT
*
3443468 ATA-GT-TTAT
1 ATATATATTAT
* *
3443477 ATATAAAGTAT
1 ATATATATTAT
3443488 ATATAT-TATAT
1 ATATATAT-TAT
* *
3443499 ATATAGACTAT
1 ATATATATTAT
*
3443510 ATATATA-AACT
1 ATATATATTA-T
* *
3443521 GTATAGT-TTAA
1 ATATA-TATTAT
*
3443532 ATTTATATTAT
1 ATATATATTAT
3443543 -TATATATTAT
1 ATATATATTAT
3443553 ATATA-A--ACT
1 ATATATATTA-T
3443562 ATATATATTAT
1 ATATATATTAT
* * *
3443573 GTATAAACTAT
1 ATATATATTAT
*
3443584 ATATTTTATTA-
1 ATA-TATATTAT
*
3443595 ATATAAATTAT
1 ATATATATTAT
*
3443606 ATATGA-ACTAT
1 ATAT-ATATTAT
* *
3443617 ACAGTGTA-TAT
1 ATA-TATATTAT
3443628 ATA-ATACTT-T
1 ATATATA-TTAT
* *
3443638 ATATGTA-CACT
1 ATATATATTA-T
3443649 ATATAGT-TTAT
1 ATATA-TATTAT
*
3443660 ATTTATATTAT
1 ATATATATTAT
3443671 -TATATATTAT
1 ATATATATTAT
* * *
3443681 ATATAAACTCT
1 ATATATATTAT
3443692 ATATATATTAT
1 ATATATATTAT
*
3443703 GTATA
1 ATATA
3443708 AACTATGTAT
Statistics
Matches: 209, Mismatches: 56, Indels: 59
0.65 0.17 0.18
Matches are distributed among these distances:
8 1 0.00
9 14 0.07
10 43 0.21
11 135 0.65
12 16 0.08
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (11 bp):
ATATATATTAT
Found at i:3443718 original size:22 final size:22
Alignment explanation
Indices: 3443410--3443718 Score: 130
Period size: 22 Copynumber: 14.4 Consensus size: 22
3443400 AGAATATATA
*
3443410 TATATATATATTATTTATAAAC
1 TATATATATATTATATATAAAC
*
3443432 TATATAGTTTATTA-ATATAAAC
1 TATATA-TATATTATATATAAAC
***
3443454 TATATATA-A--ACTATATAGTT
1 TATATATATATTA-TATATAAAC
* * *
3443474 TATATATAAAGTATATATATTA-
1 TATATATATATTATATATA-AAC
*
3443496 TATATATAGACTATATATATAAAC
1 TATATATATA-T-TATATATAAAC
* * * * * *
3443520 TGTATA-GT-TTAAATTTATAT
1 TATATATATATTATATATAAAC
3443540 TAT-TATATATTATATATAAAC
1 TATATATATATTATATATAAAC
*
3443561 --TATATATATTATGTATAAAC
1 TATATATATATTATATATAAAC
* *
3443581 TATATATTTTATTA-ATATAAAT
1 TATATA-TATATTATATATAAAC
* * **
3443603 TATATATGA-ACTATACAGTGTA-
1 TATATAT-ATATTATATA-TAAAC
* *
3443625 TATATA-ATACTTTATATGTACAC
1 TATATATATA--TTATATATAAAC
* * * *
3443648 TATATA-GT-TTATATTTATAT
1 TATATATATATTATATATAAAC
3443668 TAT-TATATATTATATATAAAC
1 TATATATATATTATATATAAAC
* *
3443689 TCTATATATATTATGTATAAAC
1 TATATATATATTATATATAAAC
*
3443711 TATGTATA
1 TATATATA
3443719 CCATGTATAA
Statistics
Matches: 211, Mismatches: 50, Indels: 52
0.67 0.16 0.17
Matches are distributed among these distances:
18 1 0.00
19 5 0.02
20 55 0.26
21 27 0.13
22 83 0.39
23 27 0.13
24 13 0.06
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
TATATATATATTATATATAAAC
Found at i:3443746 original size:117 final size:113
Alignment explanation
Indices: 3443611--3443822 Score: 264
Period size: 117 Copynumber: 1.8 Consensus size: 113
3443601 ATTATATATG
* * * * **
3443611 AACTATACAGTGTATATAT-AATACTTTATATGTACACTATATAGTTTATATTTATATTATTATA
1 AACTATACAGTGTATATATGAATA-ATTATATATAAACTATACAACTTATATTTATA-TATTATA
* *
3443675 TATTATATATAAACTCTATATATATTATGTATAAACTATGTATACCATGTATA
64 TATAAT-TATAAA-T-TATATATAATATGTATAAACTATGTATACCATGTATA
* * * *
3443728 AACTATATAGTTTGTATATGAATAATTATATATAAACTATACAACTTATATTTATATATTATGTA
1 AACTATACAGTGTATATATGAATAATTATATATAAACTATACAACTTATATTTATATATTATATA
3443793 TAATTATAAATTATATATAATATGTATAAA
66 TAATTATAAATTATATATAATATGTATAAA
3443823 ATATATAGTT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
113 18 0.22
114 1 0.01
115 6 0.07
116 11 0.13
117 42 0.51
118 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.45
Consensus pattern (113 bp):
AACTATACAGTGTATATATGAATAATTATATATAAACTATACAACTTATATTTATATATTATATA
TAATTATAAATTATATATAATATGTATAAACTATGTATACCATGTATA
Found at i:3443794 original size:17 final size:17
Alignment explanation
Indices: 3443774--3443813 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
3443764 CTATACAACT
* * *
3443774 TATATTTATATATTATG
1 TATAATTATAAATTATA
3443791 TATAATTATAAATTATA
1 TATAATTATAAATTATA
3443808 TATAAT
1 TATAAT
3443814 ATGTATAAAA
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:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATAATTATAAATTATA
Found at i:3443842 original size:22 final size:22
Alignment explanation
Indices: 3443817--3443864 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
3443807 ATATAATATG
3443817 TATAAAATATATAGTTTATTAA
1 TATAAAATATATAGTTTATTAA
* *
3443839 TATAAACTATATAGTTTATTTA
1 TATAAAATATATAGTTTATTAA
3443861 TATA
1 TATA
3443865 TATATGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (22 bp):
TATAAAATATATAGTTTATTAA
Found at i:3443868 original size:26 final size:24
Alignment explanation
Indices: 3443812--3443866 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
3443802 ATTATATATA
*
3443812 ATATGTATAAAATATATAGTTTAT
1 ATATATATAAAATATATAGTTTAT
*
3443836 -TA-ATATAAACTATATAGTTTAT
1 ATATATATAAAATATATAGTTTAT
*
3443858 TTATATATA
1 ATATATATA
3443867 TATGGTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 18 0.67
23 4 0.15
24 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (24 bp):
ATATATATAAAATATATAGTTTAT
Found at i:3444010 original size:22 final size:21
Alignment explanation
Indices: 3443916--3444033 Score: 80
Period size: 20 Copynumber: 5.7 Consensus size: 21
3443906 TAGATAGTAG
3443916 TATATAAACTATA-TATAAAC
1 TATATAAACTATATTATAAAC
* ** * *
3443936 CATATATGCCATA-TGTAAAC
1 TATATAAACTATATTATAAAC
* * **
3443956 TATATATACTATATAATTTAC
1 TATATAAACTATATTATAAAC
* *
3443977 -ATATGAATTATATGTATAAAC
1 TATATAAACTATAT-TATAAAC
*
3443998 TATATAAACTATATACATAAAC
1 TATATAAACTATAT-TATAAAC
*
3444020 TATGTAAACTATAT
1 TATATAAACTATAT
3444034 AATATATATG
Statistics
Matches: 72, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 35 0.49
21 7 0.10
22 30 0.42
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.37
Consensus pattern (21 bp):
TATATAAACTATATTATAAAC
Found at i:3444034 original size:22 final size:22
Alignment explanation
Indices: 3443951--3444034 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
3443941 ATGCCATATG
*
3443951 TAAACTATATATACTATATA-A
1 TAAACTATATAAACTATATACA
** * * **
3443972 TTTAC-ATATGAATTATATGTA
1 TAAACTATATAAACTATATACA
3443993 TAAACTATATAAACTATATACA
1 TAAACTATATAAACTATATACA
*
3444015 TAAACTATGTAAACTATATA
1 TAAACTATATAAACTATATA
3444035 ATATATATGA
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
20 10 0.21
21 7 0.15
22 31 0.65
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
TAAACTATATAAACTATATACA
Found at i:3444141 original size:20 final size:20
Alignment explanation
Indices: 3444108--3444187 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
3444098 ATTTATATTG
3444108 TATATACTAC-ATATATAAAT
1 TATATA-TACTATATATAAAT
**
3444128 TATATATACTATATAGTTTAT
1 TATATATACTATATA-TAAAT
3444149 T-TATGA-ACTATATATAAA-
1 TATAT-ATACTATATATAAAT
3444167 -AT-TATA-TATATATAAAT
1 TATATATACTATATATAAAT
3444184 TATA
1 TATA
3444188 ATTTATATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
16 11 0.23
17 2 0.04
18 3 0.06
19 5 0.10
20 22 0.46
21 5 0.10
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (20 bp):
TATATATACTATATATAAAT
Found at i:3444198 original size:18 final size:15
Alignment explanation
Indices: 3444157--3444187 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
3444147 ATTTATGAAC
3444157 TATATATA-AAATTA
1 TATATATATAAATTA
3444171 TATATATATAAATTA
1 TATATATATAAATTA
3444186 TA
1 TA
3444188 ATTTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATATATAAATTA
Found at i:3447894 original size:12 final size:12
Alignment explanation
Indices: 3447877--3447904 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3447867 TACATTTGTC
3447877 AATTGCTTCATA
1 AATTGCTTCATA
3447889 AATTGCTTCATA
1 AATTGCTTCATA
3447901 AATT
1 AATT
3447905 CTATTATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (12 bp):
AATTGCTTCATA
Found at i:3454692 original size:21 final size:21
Alignment explanation
Indices: 3454666--3454710 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
3454656 TTCTCGATTG
3454666 GATACATCGGCTTGACCATTA
1 GATACATCGGCTTGACCATTA
*
3454687 GATACATCGTCTTGACCATTA
1 GATACATCGGCTTGACCATTA
3454708 GAT
1 GAT
3454711 TATGGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (21 bp):
GATACATCGGCTTGACCATTA
Found at i:3468014 original size:59 final size:59
Alignment explanation
Indices: 3467943--3468129 Score: 259
Period size: 59 Copynumber: 3.2 Consensus size: 59
3467933 CAACAGACTG
* *
3467943 CATATTCGGGATTGAACTGAAGTATAACTAGTGCATATGGTGGGCATGATCTTATGTGT
1 CATATTCGGGATTGAACTAAAGTATAACTAGTGCATATGGTGGGCATGACCTTATGTGT
* * ** *
3468002 CATATTCAGGATTGCACTAAAGTATAACTAGTTTATATGGTAGGCATGACCTTATGTGT
1 CATATTCGGGATTGAACTAAAGTATAACTAGTGCATATGGTGGGCATGACCTTATGTGT
* * *
3468061 CATATTCGGGACT-ACACTAAAGTATAACTAGTGCAGATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGATTGA-ACTAAAGTATAACTAGTGCATATGGTGGGCATGACCTTATGTGT
*
3468120 CATACTCGGG
1 CATATTCGGG
3468130 TTAGCGCTAC
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
59 111 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (59 bp):
CATATTCGGGATTGAACTAAAGTATAACTAGTGCATATGGTGGGCATGACCTTATGTGT
Found at i:3475164 original size:9 final size:9
Alignment explanation
Indices: 3475150--3475174 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3475140 ACCAAAATAT
3475150 AAATTTTAG
1 AAATTTTAG
3475159 AAATTTTAG
1 AAATTTTAG
3475168 AAATTTT
1 AAATTTT
3475175 TATCGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (9 bp):
AAATTTTAG
Found at i:3476259 original size:45 final size:45
Alignment explanation
Indices: 3476201--3476293 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
3476191 TATTATTCTC
*
3476201 ACTATGCTTGAGCTATTACCAGCAATATCCAACTTATTTCCTAAG
1 ACTATGCTTGAGCTATTACCAGCAATACCCAACTTATTTCCTAAG
* *
3476246 ACTATG-TTGGAGCTATTACCATCATTACCCAACTTATTTCCTAAG
1 ACTATGCTT-GAGCTATTACCAGCAATACCCAACTTATTTCCTAAG
3476291 ACT
1 ACT
3476294 CTCATTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 2 0.05
45 42 0.95
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (45 bp):
ACTATGCTTGAGCTATTACCAGCAATACCCAACTTATTTCCTAAG
Found at i:3479129 original size:20 final size:20
Alignment explanation
Indices: 3479035--3479403 Score: 460
Period size: 20 Copynumber: 18.4 Consensus size: 20
3479025 GATTTTCCAT
* ** *
3479035 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
3479055 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
3479075 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3479095 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
3479115 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
3479135 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3479155 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3479175 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3479195 AA-CTGCAACGCGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
3479215 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3479235 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3479255 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3479275 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
3479295 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3479315 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
3479335 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
3479355 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
3479375 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
3479395 AATCACAAC
1 AATCGCAAC
3479404 ACTTAAATTT
Statistics
Matches: 307, Mismatches: 32, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 299 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:3480125 original size:24 final size:24
Alignment explanation
Indices: 3480086--3480132 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3480076 AAATTTGGTC
3480086 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
3480110 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
3480133 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:3480324 original size:12 final size:12
Alignment explanation
Indices: 3480307--3480331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3480297 ATATAATCCT
3480307 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3480319 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3480331 G
1 G
3480332 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:3482637 original size:19 final size:19
Alignment explanation
Indices: 3482615--3482907 Score: 365
Period size: 19 Copynumber: 16.4 Consensus size: 19
3482605 CGGAAAATAC
*
3482615 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3482634 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
3482648 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
3482668 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3482682 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3482701 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3482720 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
3482734 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
3482753 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
3482772 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
3482791 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3482810 AATCGCAATGCGAAATGAC
1 AATCGCAATGCGAAATGAA
3482829 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3482848 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
3482862 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3482881 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3482900 AATCGCAA
1 AATCGCAA
3482908 CGAGATAATC
Statistics
Matches: 243, Mismatches: 10, Indels: 42
0.82 0.03 0.14
Matches are distributed among these distances:
14 38 0.16
15 1 0.00
16 14 0.06
17 12 0.05
18 2 0.01
19 163 0.67
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:3482730 original size:52 final size:55
Alignment explanation
Indices: 3482643--3482929 Score: 329
Period size: 52 Copynumber: 5.4 Consensus size: 55
3482633 AAATCCCAAC
*
3482643 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
3482696 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
* * *
3482748 ATTAAAATCGCAATGCGAAATTAAAATCGCAATGCGAAATTAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
3482805 ATGAAAATCGCAATGCGAAATGACAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
3482860 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
3482910 A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAAT
3482930 TATAAACGCA
Statistics
Matches: 216, Mismatches: 8, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
50 2 0.01
52 125 0.58
53 16 0.07
54 6 0.03
55 6 0.03
57 61 0.28
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:3482825 original size:128 final size:128
Alignment explanation
Indices: 3482615--3482929 Score: 435
Period size: 128 Copynumber: 2.6 Consensus size: 128
3482605 CGGAAAATAC
* * *
3482615 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATTAAAATCGCA
* *
3482675 A--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
65 ATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
* *
3482734 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATTAAAATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAAAATCGCAA
*
3482799 TGCGAAATGAAAATCGCAATGCGAAATGACAATCGCAATGCGAAATGAAAATCGCAACGAAAG
66 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
3482862 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA-T--AATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAAAATCGCAA
3482922 TGCGAAAT
66 TGCGAAAT
3482930 TATAAACGCA
Statistics
Matches: 175, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
119 24 0.14
121 1 0.01
123 31 0.18
124 15 0.09
125 3 0.02
126 4 0.02
127 1 0.01
128 96 0.55
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.15
Consensus pattern (128 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAAAATCGCAA
TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:3483045 original size:19 final size:19
Alignment explanation
Indices: 3482936--3483037 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
3482926 AAATTATAAA
3482936 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3482955 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
3482975 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
3482991 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3483008 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3483027 CGCATTGCGAT
1 CGCATTGCGAT
3483038 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:3483163 original size:14 final size:14
Alignment explanation
Indices: 3483144--3483180 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
3483134 CATCAATTAC
3483144 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
3483158 ACAAATCATCTTTT
1 ACAAATCAACTTTT
3483172 ACAAATCAA
1 ACAAATCAA
3483181 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3484200 original size:14 final size:14
Alignment explanation
Indices: 3484181--3484237 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3484171 GCGAAATGAA
*
3484181 AATCGCAACGACAG
1 AATCGCAACGAAAG
3484195 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
3484212 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
3484228 AATCGCAACG
1 AATCGCAACG
3484238 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:3484208 original size:33 final size:33
Alignment explanation
Indices: 3484162--3484254 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
3484152 GCGAAACCAA
*
3484162 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
3484195 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
3484228 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
3484255 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:3484219 original size:19 final size:19
Alignment explanation
Indices: 3484125--3484259 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
3484115 TAGTTTACTT
* *
3484125 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
3484145 TTGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
3484164 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3484183 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
3484197 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
3484216 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
3484230 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3484249 TCGCAATGCGA
1 TCGCAACGCGA
3484260 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 46 0.48
20 11 0.12
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3484277 original size:19 final size:19
Alignment explanation
Indices: 3484255--3484383 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
3484245 AAAATCGCAA
3484255 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3484274 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
3484288 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3484307 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
3484321 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3484340 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
3484359 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
3484379 TGCGA
1 TGCGA
3484384 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:3484297 original size:33 final size:33
Alignment explanation
Indices: 3484255--3484346 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
3484245 AAAATCGCAA
3484255 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
3484288 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
3484321 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
3484347 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:3484718 original size:93 final size:93
Alignment explanation
Indices: 3484427--3484898 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
3484417 TTGAATGGAT
3484427 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3484492 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3484520 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3484584 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3484612 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3484677 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
3484705 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3484769 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3484797 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
3484862 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3484890 AAATTTACT
1 AAATTTACT
3484899 AAGCAATCTA
Statistics
Matches: 374, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
92 183 0.49
93 191 0.51
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:3484739 original size:185 final size:185
Alignment explanation
Indices: 3484427--3484898 Score: 926
Period size: 185 Copynumber: 2.6 Consensus size: 185
3484417 TTGAATGGAT
3484427 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3484492 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
3484557 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
3484612 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3484677 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
3484742 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
3484797 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
3484862 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
3484899 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 285 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:3486624 original size:14 final size:14
Alignment explanation
Indices: 3486605--3486694 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
3486595 TTGAAATGAA
3486605 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3486619 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
3486636 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
3486652 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3486671 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3486685 AATCGCAACG
1 AATCGCAACG
3486695 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3486642 original size:33 final size:33
Alignment explanation
Indices: 3486597--3486711 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
3486587 TCTTTTGGTT
3486597 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
3486630 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3486663 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3486696 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
3486712 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3486643 original size:19 final size:18
Alignment explanation
Indices: 3486604--3486716 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
3486594 GTTGAAATGA
3486604 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
3486619 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
3486636 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
3486652 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
3486669 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
3486685 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
3486702 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
3486717 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:3486747 original size:14 final size:14
Alignment explanation
Indices: 3486728--3486782 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3486718 TTTGGTTTCG
3486728 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3486742 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
3486761 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3486775 CGTTGCGA
1 CGTTGCGA
3486783 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3486760 original size:33 final size:33
Alignment explanation
Indices: 3486712--3486782 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
3486702 AAAATCGCAA
**
3486712 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
3486745 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
3486778 TGCGA
1 TGCGA
3486783 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:3486790 original size:33 final size:33
Alignment explanation
Indices: 3486723--3486804 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
3486713 GCGATTTTGG
***
3486723 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
3486756 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
3486789 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
3486805 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:3486809 original size:20 final size:20
Alignment explanation
Indices: 3486735--3486823 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
3486725 TCGCGTTGCG
3486735 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
3486755 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
3486768 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
3486788 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
3486808 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
3486824 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:3486945 original size:33 final size:33
Alignment explanation
Indices: 3486903--3486973 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
3486893 AATACTAACT
*
3486903 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
3486936 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
3486969 TGAAA
1 TGAAA
3486974 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:3487207 original size:22 final size:22
Alignment explanation
Indices: 3487155--3487209 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3487145 TGGTTGTGAG
**
3487155 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
3487177 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
3487199 GGATTTCTTCG
1 GGATTTCTTCG
3487210 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:3487380 original size:20 final size:20
Alignment explanation
Indices: 3487355--3487547 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
3487345 CTTTAAATAT
3487355 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3487375 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
3487397 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3487416 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
3487436 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
3487456 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3487476 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3487496 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
3487516 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
3487536 CGCGTTGCGATT
1 CGCGTTGCGATT
3487548 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:3487542 original size:60 final size:60
Alignment explanation
Indices: 3487355--3487547 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
3487345 CTTTAAATAT
**
3487355 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
3487416 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
3487476 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
3487536 CGCGTTGCGATT
1 CGCGTTGCGATT
3487548 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:3487628 original size:20 final size:20
Alignment explanation
Indices: 3487603--3487654 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
3487593 AAGAATCGCG
*
3487603 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
3487623 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
3487643 TTGCGATTCTGG
1 TTGCGATTCTGG
3487655 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:3494132 original size:23 final size:22
Alignment explanation
Indices: 3494102--3494149 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
3494092 TTTTTATGTA
3494102 ATAATTAA-TTAATAATTTAAAT
1 ATAATTAACTTAA-AATTTAAAT
*
3494124 ATAATTTAACTTAAAATTTTAAT
1 ATAA-TTAACTTAAAATTTAAAT
3494147 ATA
1 ATA
3494150 TATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATTAACTTAAAATTTAAAT
Found at i:3494223 original size:17 final size:19
Alignment explanation
Indices: 3494198--3494233 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3494188 AATTTTAAAA
3494198 GAAAGATTG-TTTTTTAGG
1 GAAAGATTGATTTTTTAGG
3494216 GAAA-ATTGATTTTTTAGG
1 GAAAGATTGATTTTTTAGG
3494234 AATTTAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (19 bp):
GAAAGATTGATTTTTTAGG
Found at i:3494365 original size:21 final size:21
Alignment explanation
Indices: 3494323--3494365 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3494313 ACAATCAATG
*
3494323 ATTTTTCTATTTTATTATTTC
1 ATTTTTCTATTTTATTACTTC
*
3494344 ATTTTT-TATTTCTTTTACTTC
1 ATTTTTCTATTT-TATTACTTC
3494365 A
1 A
3494366 GTCATGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTCTATTTTATTACTTC
Found at i:3495205 original size:20 final size:21
Alignment explanation
Indices: 3495180--3495219 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3495170 GTATTGATCG
*
3495180 TTTCTAGCCG-TTGGGGATGA
1 TTTCTAACCGTTTGGGGATGA
3495200 TTTCTAACCGTTTGGGGATG
1 TTTCTAACCGTTTGGGGATG
3495220 TAATCTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.38
Consensus pattern (21 bp):
TTTCTAACCGTTTGGGGATGA
Found at i:3503099 original size:9 final size:9
Alignment explanation
Indices: 3503085--3503118 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3503075 TAAAAGGGAA
3503085 AAATAAAAT
1 AAATAAAAT
3503094 AAATAAAAT
1 AAATAAAAT
3503103 AAAT-AAAT
1 AAATAAAAT
3503111 AAGATAAA
1 AA-ATAAA
3503119 GGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 15 0.65
10 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:3503106 original size:13 final size:13
Alignment explanation
Indices: 3503084--3503118 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
3503074 GTAAAAGGGA
3503084 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
3503098 AAAATAAATAAAT
1 AAAATAAATAAAT
*
3503111 AAGATAAA
1 AAAATAAA
3503119 GGAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:3503473 original size:9 final size:9
Alignment explanation
Indices: 3503452--3503485 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3503442 TTTTTTTTCC
3503452 TTTATCTTA-
1 TTTAT-TTAT
3503461 TTTATTTAT
1 TTTATTTAT
3503470 TTTATTTAT
1 TTTATTTAT
3503479 TTTATTT
1 TTTATTT
3503486 TTTCCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:3503474 original size:13 final size:14
Alignment explanation
Indices: 3503452--3503486 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
3503442 TTTTTTTTCC
*
3503452 TTTATCTTATTTA-
1 TTTATTTTATTTAT
3503465 TTTATTTTATTTAT
1 TTTATTTTATTTAT
3503479 TTTATTTT
1 TTTATTTT
3503487 TTCCTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:3503513 original size:18 final size:17
Alignment explanation
Indices: 3503462--3503517 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
3503452 TTTATCTTAT
**
3503462 TTATTTATTTTATTTATT
1 TTATTT-TTTTATTTACC
3503480 TTATTTTTTCCT-TTTACC
1 TTATTTTTT--TATTTACC
3503498 TTATTTGTTTTATTTACC
1 TTATTT-TTTTATTTACC
3503516 TT
1 TT
3503518 GTTTATCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.12
18 24 0.75
19 4 0.12
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTTTTTATTTACC
Found at i:3507735 original size:182 final size:183
Alignment explanation
Indices: 3507420--3507768 Score: 619
Period size: 182 Copynumber: 1.9 Consensus size: 183
3507410 ATTAAATCCG
3507420 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTAGAAAGCCATGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTAGAAAGCCATGGCTTTATGA
** *
3507485 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACTT
3507550 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* *
3507603 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCT-GCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTAGAAAGCCATGGCTTTATGA
* *
3507667 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACTT
*
3507732 TTGTCAGGCCAAAGACTTTGTGATGATATGAACCCTT
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTT
3507769 TAGTTAAACC
Statistics
Matches: 158, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
182 105 0.66
183 53 0.34
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTAGAAAGCCATGGCTTTATGA
ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:3509111 original size:36 final size:36
Alignment explanation
Indices: 3509056--3509125 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
3509046 CATTGAAAAC
** *
3509056 ATTTCCCTAGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTAGAAACAAATTTCGTCTCCCTTGAGATA
* *
3509092 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA
1 ATTTCCCTAGAAACAAATTTCGTCTCCCTTGAGA
3509126 CAGCTTCTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (36 bp):
ATTTCCCTAGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:3509138 original size:36 final size:36
Alignment explanation
Indices: 3509071--3509142 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
3509061 CCTAGAAATG
* * *
3509071 AATTTCGTCTCTCTTGAGATAATTTCCCTTGAAACA
1 AATTTCGTCTCCCTTGAGACAACTTCCCTTGAAACA
* * *
3509107 AATTTTGTCTCCCTTGAGACAGCTTCTCTTGAAACA
1 AATTTCGTCTCCCTTGAGACAACTTCCCTTGAAACA
3509143 CAAAACCTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (36 bp):
AATTTCGTCTCCCTTGAGACAACTTCCCTTGAAACA
Found at i:3509233 original size:67 final size:67
Alignment explanation
Indices: 3509084--3509242 Score: 214
Period size: 67 Copynumber: 2.4 Consensus size: 67
3509074 TTCGTCTCTC
** * *
3509084 TTGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGCTTCTCTTGAAACACAAAAC
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGCTTCTCTTGAAACAAAAAAC
3509149 CT
66 CT
* * *
3509151 TTGAGATTGTTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACAAAAAAT
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGCTTCTCTTGAAACAAAAAAC
3509216 CT
66 CT
*
3509218 TTGA-ATT-TATCTCCCTTAAAACAAA
1 TTGAGATTGT-T-TCCCTTGAAACAAA
3509243 ATTTCGTTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 76 0.94
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGCTTCTCTTGAAACAAAAAAC
CT
Found at i:3509289 original size:55 final size:53
Alignment explanation
Indices: 3509195--3509297 Score: 125
Period size: 55 Copynumber: 1.9 Consensus size: 53
3509185 CCATGAGACA
* * *
3509195 GTTTCTCTTGAAACAAAAAATCTTTGAATTTATCTCCCTTAAAACAAAATTTC
1 GTTTCTCATGAAACAAAAAATCTTTGAAATCATCTCCCTTAAAACAAAATTTC
* * * *
3509248 GTTTCTCATGAAACAACAGATATCTTTGAAATCGTTTCCCTTGAAACAAA
1 GTTTCTCATGAAACAA-A-AAATCTTTGAAATCATCTCCCTTAAAACAAA
3509298 TTATGTCGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 15 0.37
54 1 0.02
55 25 0.61
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (53 bp):
GTTTCTCATGAAACAAAAAATCTTTGAAATCATCTCCCTTAAAACAAAATTTC
Found at i:3510441 original size:105 final size:104
Alignment explanation
Indices: 3510076--3511148 Score: 1540
Period size: 105 Copynumber: 10.3 Consensus size: 104
3510066 GCCATCTGCG
* * * * * *
3510076 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
3510141 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TTCAGAGCCA
*
3510185 ATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
3510250 ACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAA-CAACAA-CTTCCCAA-TTCAGAGCCA
*
3510292 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
3510357 ACAGCTGGTTGTCAACAACGACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
3510397 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3510462 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
3510502 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3510567 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* *
3510602 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3510667 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
3510707 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3510772 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* * *
3510807 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGTG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
3510872 ACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
3510912 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
3510977 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* * *
3511012 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * **
3511077 ACGGTTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCCA
* *
3511118 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
3511149 TGGAACAATG
Statistics
Matches: 886, Mismatches: 59, Indels: 41
0.90 0.06 0.04
Matches are distributed among these distances:
100 258 0.29
101 12 0.01
102 9 0.01
103 10 0.01
104 12 0.01
105 375 0.42
106 92 0.10
107 97 0.11
109 21 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
Found at i:3510678 original size:205 final size:205
Alignment explanation
Indices: 3510076--3511148 Score: 1610
Period size: 205 Copynumber: 5.2 Consensus size: 205
3510066 GCCATCTGCG
* * * * * *
3510076 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
3510141 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAATG
63 GGGACCGCTGCTTGTCAAC-AA-AA-TT-TC-A-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
3510206 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
122 ATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
* *
3510271 ATTTTCCCAATTTCAGAGCCA
186 ACTTT-CCAATCTCAGAGCCA
*
3510292 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
3510357 ACAGCTGGTTGTCAACAACGACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGCTTGTCAACAA--AATT-TC-AT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
3510422 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
126 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
3510487 CCAATCTCAGAGCCA
191 CCAATCTCAGAGCCA
3510502 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3510567 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
3510632 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
3510697 CTCAGAGCCA
196 CTCAGAGCCA
3510707 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3510772 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
* * *
3510837 TCCAGACAATGCAAGTTCAACTTCACGACGAAGTGACCGCTGTTTGTCAACAACAACTTCCCAAT
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
*
3510902 CCCAGAGCCA
196 CTCAGAGCCA
*
3510912 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
3510977 ACCGCTGCTTGTCAACAAAATTTCATTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
* ** * * * * *
3511042 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAA-TTTCCCG
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTT-CCA
*
3511106 GT-TCCAGAGCCA
194 ATCT-CAGAGCCA
* *
3511118 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
3511149 TGGAACAATG
Statistics
Matches: 806, Mismatches: 46, Indels: 20
0.92 0.05 0.02
Matches are distributed among these distances:
205 485 0.60
206 46 0.06
207 1 0.00
208 3 0.00
210 94 0.12
211 9 0.01
212 94 0.12
213 50 0.06
214 3 0.00
216 21 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (205 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
CTCAGAGCCA
Found at i:3510699 original size:310 final size:312
Alignment explanation
Indices: 3510076--3511148 Score: 1569
Period size: 310 Copynumber: 3.4 Consensus size: 312
3510066 GCCATCTGCG
* * * *
3510076 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACACAAGTTCAACTTCACAACGAA
* * * *
3510141 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAATG
63 GGGACCGCTGCTTGTCAACAAACAATTTC-CAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
3510206 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
126 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
*
3510271 ATTTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
190 ACTTT--CAA-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
* * * *
3510336 GTTCAACTTCACGACGAAGGGACAGCTGGTTGTCAACAACGACTTCCCAATCTCAGAGCCA
252 GTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
** *
3510397 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
3510462 ACCGCTGCTTGTCAAC-AACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATA
66 ACCGCTGCTTGTCAACAAACAA-TTTCCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATA
3510526 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT
129 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTT
*
3510589 TC-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAAC
194 TCAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
3510653 TTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
259 TTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
* *
3510707 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
*
3510772 ACCGCTGCTTGTCAAC-AA-AATTT-C-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
66 ACCGCTGCTTGTCAACAAACAATTTCCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * * *
3510833 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGTGACCGCTGTTTGTCAACAACAACTTCC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTT-T
* * *
3510898 CAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAAC
195 CAAT-TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
**
3510963 TTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TTT-C-AT-TCAGATTCA
259 TTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
*
3511012 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * ** * *
3511077 ACGGTTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATA
66 ACCGCTGCTTGTCAACAAACAATTT-CCAATT-CAGAGCCAATTTCAACTTCACAACGAAGGATA
3511142 TTGGACT
129 TTGGACT
3511149 TGGAACAATG
Statistics
Matches: 699, Mismatches: 40, Indels: 36
0.90 0.05 0.05
Matches are distributed among these distances:
305 170 0.24
306 8 0.01
307 9 0.01
308 7 0.01
309 7 0.01
310 282 0.40
311 37 0.05
312 1 0.00
314 3 0.00
315 2 0.00
316 3 0.00
317 95 0.14
318 50 0.07
319 3 0.00
321 22 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (312 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
ACCGCTGCTTGTCAACAAACAATTTCCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
AATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
Found at i:3512143 original size:14 final size:13
Alignment explanation
Indices: 3512124--3512162 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
3512114 TATATGGATA
3512124 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
3512138 TTTTATTATTTAT
1 TTTTATTATTTAT
3512151 GTTATTATTATT
1 -TT-TTATTATT
3512163 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:3512161 original size:18 final size:17
Alignment explanation
Indices: 3512122--3512164 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
3512112 ATTATATGGA
3512122 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
* *
3512138 TTTTATTATTTATGTTAT
1 TATTATTATTCAT-TTAT
3512156 TATTATTAT
1 TATTATTAT
3512165 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:3512175 original size:2 final size:2
Alignment explanation
Indices: 3512162--3512198 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3512152 TTATTATTAT
*
3512162 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3512199 TTCTTTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3512681 original size:9 final size:9
Alignment explanation
Indices: 3512660--3512693 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3512650 TTTTTTTTCC
3512660 TTTATCTTA-
1 TTTAT-TTAT
3512669 TTTATTTAT
1 TTTATTTAT
3512678 TTTATTTAT
1 TTTATTTAT
3512687 TTTATTT
1 TTTATTT
3512694 TTCCTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:3512682 original size:13 final size:14
Alignment explanation
Indices: 3512660--3512694 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
3512650 TTTTTTTTCC
*
3512660 TTTATCTTATTTA-
1 TTTATTTTATTTAT
3512673 TTTATTTTATTTAT
1 TTTATTTTATTTAT
3512687 TTTATTTT
1 TTTATTTT
3512695 TCCTTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:3512721 original size:18 final size:17
Alignment explanation
Indices: 3512670--3512725 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
3512660 TTTATCTTAT
**
3512670 TTATTTATTTTATTTATT
1 TTATTT-TTTTATTTACC
3512688 TTATTTTTCCTT-TTTACC
1 TTATTTTT--TTATTTACC
3512706 TTATTTGTTTTATTTACC
1 TTATTT-TTTTATTTACC
3512724 TT
1 TT
3512726 GTTTATCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.12
18 24 0.75
19 4 0.12
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTTTTTATTTACC
Found at i:3512730 original size:27 final size:27
Alignment explanation
Indices: 3512679--3512730 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
3512669 TTTATTTATT
*
3512679 TTATTTATTTTATTTTTCCTTTTTACC
1 TTATTTATTTTATTTTACCTTTTTACC
*
3512706 TTATTTGTTTTA-TTTACCTTGTTTA
1 TTATTTATTTTATTTTACCTT-TTTA
3512731 TCTAACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.15, C:0.12, G:0.04, T:0.69
Consensus pattern (27 bp):
TTATTTATTTTATTTTACCTTTTTACC
Found at i:3513667 original size:3 final size:3
Alignment explanation
Indices: 3513659--3513749 Score: 92
Period size: 3 Copynumber: 29.7 Consensus size: 3
3513649 TTCATTTAAA
* * * *
3513659 TAT TAT TAT AAT TAT TAT TAT AAT TAT TAT TAT TAT AAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3513707 TAA TAT AAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
3513750 CAAACGGGCC
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:3513676 original size:12 final size:12
Alignment explanation
Indices: 3513659--3513749 Score: 109
Period size: 12 Copynumber: 7.7 Consensus size: 12
3513649 TTCATTTAAA
3513659 TATTATTATAAT
1 TATTATTATAAT
3513671 TATTATTATAAT
1 TATTATTATAAT
3513683 TATTA-T-T-AT
1 TATTATTATAAT
*
3513692 TATAATTATAAT
1 TATTATTATAAT
*
3513704 TATTAATATAAT
1 TATTATTATAAT
3513716 TATTTATTACTAA-
1 TA-TTATTA-TAAT
3513729 TATTATTATTAAT
1 TATTATTA-TAAT
3513742 TATTATTA
1 TATTATTA
3513750 CAAACGGGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
9 6 0.09
10 2 0.03
11 2 0.03
12 40 0.59
13 15 0.22
14 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTATTATAAT
Found at i:3522925 original size:114 final size:114
Alignment explanation
Indices: 3522585--3522925 Score: 556
Period size: 114 Copynumber: 3.0 Consensus size: 114
3522575 AAGTGCCACG
*
3522585 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
3522650 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTAAAAGATGAATT
*
3522700 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTGCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
3522765 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAAATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
* *
3522814 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
3522879 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
3522926 CTGCATGATC
Statistics
Matches: 211, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
114 130 0.62
115 81 0.38
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:3525133 original size:54 final size:54
Alignment explanation
Indices: 3525044--3525249 Score: 228
Period size: 54 Copynumber: 3.9 Consensus size: 54
3525034 AGAAATCTTG
* * * * *
3525044 GCAGAAGCCAC-AGAAAATGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGA
1 GCAGAAACCACAAG-AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGA
* **
3525098 GCAAAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
1 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGA
*
3525152 GCAGAAGCCAC-AGAAAAGGATGAATGTGTTGTCAAATG-TTT-T--ACATCTCGA
1 GCAGAAACCACAAG-AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCT-GA
* * *
3525203 -CAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTATGAAC
1 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTATGAAC
3525250 CAGTGATTAT
Statistics
Matches: 129, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
50 37 0.29
51 6 0.05
52 1 0.01
53 5 0.04
54 78 0.60
55 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (54 bp):
GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGA
Found at i:3525645 original size:22 final size:22
Alignment explanation
Indices: 3525616--3525670 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
3525606 ATCTACACTC
* *
3525616 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTATT
*
3525638 TTTAAAGATGACAGATTCTATT
1 TTCAAAGATGACAGATTCTATT
3525660 TTCAAAGATGA
1 TTCAAAGATGA
3525671 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTATT
Found at i:3526289 original size:116 final size:116
Alignment explanation
Indices: 3526070--3526726 Score: 1008
Period size: 116 Copynumber: 5.7 Consensus size: 116
3526060 TTAGCAAAGA
* ** * * ***
3526070 TTTAAATCCATCATTCAATGGATCAACAATACCAGTTCGAGTTCATAATGAGAAGAA--C-TCAT
1 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
*
3526132 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * * *
3526183 CTCAAATCCATC-TCTTGATGGATCAGCTTTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCA
1 TTTAAATTCATCAT-TTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCA
3526247 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
65 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
3526299 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
*
3526364 TTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
3526415 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
3526480 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
3526531 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
* * *
3526596 CTGAAGAAGGAAGAAGAAGTCCATAATGAGAAGAACTTGTTCAATCTTTTG
66 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * * **
3526647 CTTGAATTCATCATTTGATGGATCATCATCCCCAGCGGAA-AGTTCATAATGAGAAGAA--C-TC
1 TTTAAATTCATCATTTGATGGATCAACATTGCCA--GGAAGAGTTCATAATGAGAAGAACTCGTC
*
3526708 ATCTGAAGAAAG-AGAAGAA
64 ATCTGAAGAAGGAAGAAGAA
3526727 CTTATTCAAC
Statistics
Matches: 509, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
112 1 0.00
113 51 0.10
114 13 0.03
115 2 0.00
116 419 0.82
117 19 0.04
118 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (116 bp):
TTTAAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:3526869 original size:3 final size:3
Alignment explanation
Indices: 3526861--3526951 Score: 92
Period size: 3 Copynumber: 29.7 Consensus size: 3
3526851 TTCATTTAAA
* * * * *
3526861 TAT TAT TAT AAT TAT TAT TAT AAT AAT TAT TAT TAT AAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
3526909 TAA TAT TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
3526952 CAAACGGGCC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
3 67 0.92
4 6 0.08
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:3526931 original size:19 final size:19
Alignment explanation
Indices: 3526859--3526945 Score: 78
Period size: 19 Copynumber: 4.9 Consensus size: 19
3526849 TTTTCATTTA
3526859 AATATTATTA-TAATTA-T
1 AATATTATTATTAATTACT
* *
3526876 --TATTA-TAATAATTATT
1 AATATTATTATTAATTACT
* * *
3526892 ATTATAATTA-TAATTATT
1 AATATTATTATTAATTACT
*
3526910 AATATTATTATTTATTACT
1 AATATTATTATTAATTACT
3526929 AATATTATTATTAATTA
1 AATATTATTATTAATTA
3526946 TTATTACAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.03
15 11 0.19
16 1 0.02
18 20 0.34
19 24 0.41
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTATTATTAATTACT
Found at i:3534985 original size:3 final size:3
Alignment explanation
Indices: 3534977--3535007 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
3534967 TAAAAAACAA
*
3534977 AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
3535008 GAAAAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:3537247 original size:22 final size:22
Alignment explanation
Indices: 3537219--3537260 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
3537209 TAATGAGTTT
3537219 GTATATAAAT-AATTTTTTTTGA
1 GTATAT-AATGAATTTTTTTTGA
3537241 GTATATAATGAATTTTTTTT
1 GTATATAATGAATTTTTTTT
3537261 ACACTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (22 bp):
GTATATAATGAATTTTTTTTGA
Found at i:3538532 original size:45 final size:45
Alignment explanation
Indices: 3538471--3538631 Score: 235
Period size: 41 Copynumber: 3.7 Consensus size: 45
3538461 GATAGACTTG
3538471 TTTTTATTTATTTTGTTTCTTAATGTTTTTTATTTAATTATGGAC
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTTATTTAATTATGGAC
*
3538516 TTTTTATTTATTTTGTTTTTTAATG---TTT-TTTAATTATGGAC
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTTATTTAATTATGGAC
* *
3538557 TTTTTATTTATTTTGTTTCTTATTGTTTTTATTATTTAATTATGAAC
1 TTTTTATTTATTTTGTTTCTTAATG-TTTT-TTATTTAATTATGGAC
3538604 TTTTTATTTA-TTT-TTTCTTAATGTTTTT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTT
3538632 GTTGAGTTAA
Statistics
Matches: 105, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
41 36 0.34
42 3 0.03
43 1 0.01
44 4 0.04
45 34 0.32
46 5 0.05
47 22 0.21
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (45 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTTATTTAATTATGGAC
Found at i:3538598 original size:47 final size:45
Alignment explanation
Indices: 3538471--3538631 Score: 176
Period size: 45 Copynumber: 3.6 Consensus size: 45
3538461 GATAGACTTG
*
3538471 TTTTTATTTATTTTGTTTCTTAATG-TTTT-TTATTTAATTATGGAC
1 TTTTTATTTA-TTT-TTTCTTAATGTTTTTATTATTTAATTATGAAC
* *
3538516 TTTTTATTTATTTTGTTTTTTAATG----T-TT-TTTAATTATGGAC
1 TTTTTATTTA-TTT-TTTCTTAATGTTTTTATTATTTAATTATGAAC
*
3538557 TTTTTATTTATTTTGTTTCTTATTGTTTTTATTATTTAATTATGAAC
1 TTTTTATTTA-TTT-TTTCTTAATGTTTTTATTATTTAATTATGAAC
3538604 TTTTTATTTATTTTTTCTTAATGTTTTT
1 TTTTTATTTATTTTTTCTTAATGTTTTT
3538632 GTTGAGTTAA
Statistics
Matches: 105, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
41 36 0.34
42 3 0.03
45 39 0.37
46 5 0.05
47 22 0.21
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (45 bp):
TTTTTATTTATTTTTTCTTAATGTTTTTATTATTTAATTATGAAC
Found at i:3538625 original size:86 final size:86
Alignment explanation
Indices: 3538471--3538631 Score: 263
Period size: 86 Copynumber: 1.9 Consensus size: 86
3538461 GATAGACTTG
* *
3538471 TTTTTATTTATTTTGTTTCTTAATGTTTTTTATTTAATTATGGACTTTTTATTTATTTTGTTTTT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTTATTTAATTATGAACTTTTTATTTATTTTGTTTCT
3538536 TAATGTTTTTTAATTATGGAC
66 TAATGTTTTTTAATTATGGAC
*
3538557 TTTTTATTTATTTTGTTTCTTATTGTTTTTATTATTTAATTATGAACTTTTTATTTA-TTT-TTT
1 TTTTTATTTATTTTGTTTCTTAATG-TTTT-TTATTTAATTATGAACTTTTTATTTATTTTGTTT
3538620 CTTAATGTTTTT
64 CTTAATGTTTTT
3538632 GTTGAGTTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
86 38 0.54
87 7 0.10
88 25 0.36
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (86 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTTATTTAATTATGAACTTTTTATTTATTTTGTTTCT
TAATGTTTTTTAATTATGGAC
Found at i:3539791 original size:13 final size:13
Alignment explanation
Indices: 3539773--3539805 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3539763 TAAGATTTCC
*
3539773 TTTGAAAATCATT
1 TTTGAAAATCAAT
3539786 TTTG-AAATCAAT
1 TTTGAAAATCAAT
3539798 TTTGAAAA
1 TTTGAAAA
3539806 ATTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:3542573 original size:15 final size:15
Alignment explanation
Indices: 3542538--3542579 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
3542528 TTTTAGTGAC
*
3542538 ATGATCTCTAATGAA
1 ATGATGTCTAATGAA
3542553 ATGATGTCTAATGAA
1 ATGATGTCTAATGAA
*
3542568 ATGATGCCTAAT
1 ATGATGTCTAAT
3542580 TTCAATGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (15 bp):
ATGATGTCTAATGAA
Found at i:3552410 original size:26 final size:26
Alignment explanation
Indices: 3552376--3552436 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
3552366 TGTCCTCTTC
3552376 CTCTTTCACGGGGAACACTCAAAGCT
1 CTCTTTCACGGGGAACACTCAAAGCT
3552402 CTCTTTCACGGGGAACACTCAAAGCT
1 CTCTTTCACGGGGAACACTCAAAGCT
3552428 CTCTTTCAC
1 CTCTTTCAC
3552437 TTTACTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (26 bp):
CTCTTTCACGGGGAACACTCAAAGCT
Found at i:3553036 original size:9 final size:9
Alignment explanation
Indices: 3553022--3553058 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
3553012 TAATAAATAA
3553022 TAAAATATT
1 TAAAATATT
3553031 TAAAATATTT
1 TAAAATA-TT
3553041 TATAAATATT
1 TA-AAATATT
3553051 TAAAATAT
1 TAAAATAT
3553059 CACGGCCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 13 0.50
10 8 0.31
11 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TAAAATATT
Found at i:3553974 original size:32 final size:32
Alignment explanation
Indices: 3553938--3554002 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
3553928 GGCGGTAGAA
*
3553938 AAAAAAAGAGA-AATTACAACTTCAATCCTCTG
1 AAAAAAAGA-ATAATCACAACTTCAATCCTCTG
* *
3553970 AAAAAAGGAATAATCACAACTTTAATCCTCTG
1 AAAAAAAGAATAATCACAACTTCAATCCTCTG
3554002 A
1 A
3554003 TGTAAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 1 0.03
32 28 0.97
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.23
Consensus pattern (32 bp):
AAAAAAAGAATAATCACAACTTCAATCCTCTG
Found at i:3554808 original size:60 final size:61
Alignment explanation
Indices: 3554725--3554841 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 61
3554715 TAGGGTAAAA
* * * ** *
3554725 TACATAAATGGTCCTTCGACTATAGGGTGTTGCTTTATTGAGTCTC-CCGGCTATTAAAATT
1 TACATAAATGATCCATCGACTATAAGACGTTGCTTTATTGAGTC-CGCCGACTATTAAAATT
*
3554786 TACA-AAATGATCCATCGACTATAAGACGTTGCTTTGTTGAGTCCGCCGACTATTAA
1 TACATAAATGATCCATCGACTATAAGACGTTGCTTTATTGAGTCCGCCGACTATTAA
3554842 TAGTTAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.02
60 43 0.90
61 4 0.08
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (61 bp):
TACATAAATGATCCATCGACTATAAGACGTTGCTTTATTGAGTCCGCCGACTATTAAAATT
Found at i:3554853 original size:60 final size:60
Alignment explanation
Indices: 3554730--3554854 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 60
3554720 TAAAATACAT
* * * ** * * *
3554730 AAATGGTCCTTCGACTATAGGGTGTTGCTTTATTGAGTCTCCCGGCTATTAAAATTTACA
1 AAATGATCCATCGACTATAAGACGTTGCTTTATTGAGTCTCCCGACTATTAAAAGTTAAA
* *
3554790 AAATGATCCATCGACTATAAGACGTTGCTTTGTTGAGTC-CGCCGACTATTAATAGTTAAA
1 AAATGATCCATCGACTATAAGACGTTGCTTTATTGAGTCTC-CCGACTATTAAAAGTTAAA
3554850 AAATG
1 AAATG
3554855 GTCACCCGAC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 1 0.02
60 53 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (60 bp):
AAATGATCCATCGACTATAAGACGTTGCTTTATTGAGTCTCCCGACTATTAAAAGTTAAA
Found at i:3554865 original size:60 final size:60
Alignment explanation
Indices: 3554753--3554867 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
3554743 ACTATAGGGT
* * * *
3554753 GTTGCTTTATTGAGTCTCCCGGCTATTAAAATTTACAAAATGATCCATCGACTATAAGAC
1 GTTGCTTTATTGAGTCTCCCGACTATTAAAAGTTAAAAAATGATCCACCGACTATAAGAC
* * *
3554813 GTTGCTTTGTTGAGTC-CGCCGACTATTAATAGTTAAAAAATGGT-CACCCGACTAT
1 GTTGCTTTATTGAGTCTC-CCGACTATTAAAAGTTAAAAAATGATCCA-CCGACTAT
3554868 TTATATGTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.07
60 43 0.93
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (60 bp):
GTTGCTTTATTGAGTCTCCCGACTATTAAAAGTTAAAAAATGATCCACCGACTATAAGAC
Found at i:3557070 original size:31 final size:31
Alignment explanation
Indices: 3557035--3557133 Score: 171
Period size: 31 Copynumber: 3.2 Consensus size: 31
3557025 TCAAAAAACA
3557035 TAAGATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
* * *
3557066 TAAGATACGGTCATTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
3557097 TAAGATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
3557128 TAAGAT
1 TAAGAT
3557134 GTGGTCACCT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (31 bp):
TAAGATATGATCACTTTCGTTTTTATTTAAT
Found at i:3557596 original size:39 final size:39
Alignment explanation
Indices: 3557553--3557627 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
3557543 CAAATTATTT
3557553 CACTATAACATTCTAAAATCCTAATTTCTTAAAATTTGA
1 CACTATAACATTCTAAAATCCTAATTTCTTAAAATTTGA
* * * *
3557592 CACTATAACGTTCTAAATTCTTAATTTTTTAAAATT
1 CACTATAACATTCTAAAATCCTAATTTCTTAAAATT
3557628 ATTTCAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.43
Consensus pattern (39 bp):
CACTATAACATTCTAAAATCCTAATTTCTTAAAATTTGA
Found at i:3557778 original size:2 final size:2
Alignment explanation
Indices: 3557773--3557833 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
3557763 ATGTGTGGAT
3557773 TA TA TA TA 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 TA TA TA TA
3557815 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
3557834 TTTAAATTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3557946 original size:15 final size:16
Alignment explanation
Indices: 3557926--3557956 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
3557916 CGTGACCCGG
3557926 ATTATATATA-ATATA
1 ATTATATATATATATA
3557941 ATTATATATATATATA
1 ATTATATATATATATA
3557957 TATATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTATATATATATATA
Found at i:3557995 original size:25 final size:25
Alignment explanation
Indices: 3557967--3558033 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
3557957 TATATTTAAT
3557967 TTAAAAATATTTT-TATATTAACTTA
1 TTAAAAATATTTTAT-TATTAACTTA
*
3557992 TTAAATATATTTTATTATTAACTTA
1 TTAAAAATATTTTATTATTAACTTA
* *
3558017 TTTTAAAATAATTTATT
1 -TTAAAAATATTTTATT
3558034 TTCATTTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 22 0.61
26 14 0.39
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAAAATATTTTATTATTAACTTA
Found at i:3558020 original size:16 final size:17
Alignment explanation
Indices: 3557989--3558021 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3557979 TTATATTAAC
3557989 TTATTAAATATATTTTA
1 TTATTAAATATATTTTA
*
3558006 TTATTAACT-TATTTTA
1 TTATTAAATATATTTTA
3558022 AAATAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAATATATTTTA
Found at i:3566134 original size:29 final size:31
Alignment explanation
Indices: 3566100--3566168 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
3566090 AAATTTTTGG
*
3566100 TTAGTGACCAAAATGTAAAATT-TG-AAAGT
1 TTAGTGACCAAAATATAAAATTATGAAAAGT
* *
3566129 TTAGTGGCCAAAGTATAAAATTATGAAAAGT
1 TTAGTGACCAAAATATAAAATTATGAAAAGT
*
3566160 TTAGGGACC
1 TTAGTGACC
3566169 TAAGTGGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 19 0.58
30 2 0.06
31 12 0.36
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (31 bp):
TTAGTGACCAAAATATAAAATTATGAAAAGT
Found at i:3568498 original size:31 final size:32
Alignment explanation
Indices: 3568445--3568562 Score: 156
Period size: 32 Copynumber: 3.8 Consensus size: 32
3568435 GTTCTACGGA
3568445 ACATATGGACATAATTACCTATGTCTTTCGAG
1 ACATATGGACATAATTACCTATGTCTTTCGAG
*
3568477 ACATATGGACAGT-A-TACCTATGT-TCTAC-AG
1 ACATATGGACA-TAATTACCTATGTCT-TTCGAG
3568507 AACATATGGACATAATTACCTATGTCTTTCGAG
1 -ACATATGGACATAATTACCTATGTCTTTCGAG
*
3568540 ACATATGGACATTA-TACCTATGT
1 ACATATGGACATAATTACCTATGT
3568563 TCTAAGGAAC
Statistics
Matches: 76, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
30 4 0.05
31 32 0.42
32 36 0.47
33 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (32 bp):
ACATATGGACATAATTACCTATGTCTTTCGAG
Found at i:3568527 original size:63 final size:63
Alignment explanation
Indices: 3568428--3568581 Score: 274
Period size: 63 Copynumber: 2.4 Consensus size: 63
3568418 GAGTCGAGGG
*
3568428 TACCTATGTTCTACGGAACATATGGACATAATTACCTATGTCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTACAGAACATATGGACATAATTACCTATGTCTTTCGAGACATATGGACAGTA
*
3568491 TACCTATGTTCTACAGAACATATGGACATAATTACCTATGTCTTTCGAGACATATGGACATTA
1 TACCTATGTTCTACAGAACATATGGACATAATTACCTATGTCTTTCGAGACATATGGACAGTA
3568554 TACCTATGTTCTA-AGGAACATATGGACA
1 TACCTATGTTCTACA-GAACATATGGACA
3568582 GTTCACCTAG
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
62 1 0.01
63 87 0.99
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (63 bp):
TACCTATGTTCTACAGAACATATGGACATAATTACCTATGTCTTTCGAGACATATGGACAGTA
Found at i:3568575 original size:31 final size:31
Alignment explanation
Indices: 3568428--3568612 Score: 153
Period size: 31 Copynumber: 5.9 Consensus size: 31
3568418 GAGTCGAGGG
* *
3568428 TACCTATGTTCTACGGAACATATGGACATAA
1 TACCTATGTTCTAAGGAACATATGGACATTA
*** *
3568459 TTACCTATG-TCTTTCGAGACATATGGACAGTA
1 -TACCTATGTTCTAAGGA-ACATATGGACATTA
*
3568491 TACCTATGTTCTACA-GAACATATGGACATAA
1 TACCTATGTTCTA-AGGAACATATGGACATTA
***
3568522 TTACCTATG-TCTTTCGAGACATATGGACATTA
1 -TACCTATGTTCTAAGGA-ACATATGGACATTA
3568554 TACCTATGTTCTAAGGAACATATGGACAGTT-
1 TACCTATGTTCTAAGGAACATATGGACA-TTA
* * ** *
3568585 CACCTAGGTTCTTCGGAACCTATGGACA
1 TACCTATGTTCTAAGGAACATATGGACA
3568613 GTTGCCGAGG
Statistics
Matches: 125, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
31 72 0.58
32 53 0.42
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACATTA
Found at i:3568658 original size:30 final size:30
Alignment explanation
Indices: 3568602--3568673 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
3568592 GTTCTTCGGA
* * * *
3568602 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAAGATCTTTATG
3568632 ACCTCTGGATAGTTACCGAAGATCTTTATG
1 ACCTCTGGATAGTTACCGAAGATCTTTATG
3568662 ACCTCTGGATAG
1 ACCTCTGGATAG
3568674 GTCTTACGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAAGATCTTTATG
Found at i:3569675 original size:20 final size:20
Alignment explanation
Indices: 3569647--3569684 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3569637 TTTTGTAGAA
3569647 AAATAATCCCCAACGACTCC
1 AAATAATCCCCAACGACTCC
*
3569667 AAATCATCCCCAACGACT
1 AAATAATCCCCAACGACT
3569685 AGAAACAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.39, G:0.05, T:0.16
Consensus pattern (20 bp):
AAATAATCCCCAACGACTCC
Found at i:3570211 original size:60 final size:61
Alignment explanation
Indices: 3570107--3570227 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 61
3570097 CTTTCAAAAC
* * * * *
3570107 CATTTCACCCCCTCTTGGTAATTCATTCGGTTGTTTAATTGAGCTTCATAAAAAATCCCAA
1 CATTTCACCCCCTCTTGGCAATTCATTCGATTATTCAATGGAGCTTCATAAAAAATCCCAA
**
3570168 CATTTCA-CCCCTCTTGGCAATTCATTCGATTATTCAATGGAGCTTCATCGAAAATCCCAA
1 CATTTCACCCCCTCTTGGCAATTCATTCGATTATTCAATGGAGCTTCATAAAAAATCCCAA
3570228 TAATTGGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 46 0.87
61 7 0.13
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (61 bp):
CATTTCACCCCCTCTTGGCAATTCATTCGATTATTCAATGGAGCTTCATAAAAAATCCCAA
Found at i:3571052 original size:12 final size:12
Alignment explanation
Indices: 3571037--3571068 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
3571027 AAGATTCAAG
3571037 TGAAGATGTGGA
1 TGAAGATGTGGA
3571049 TGAAGATGTGGA
1 TGAAGATGTGGA
3571061 TGAAGATG
1 TGAAGATG
3571069 AAGAAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.41, T:0.25
Consensus pattern (12 bp):
TGAAGATGTGGA
Found at i:3571501 original size:20 final size:20
Alignment explanation
Indices: 3571473--3571515 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3571463 TTTTCTCTTG
*
3571473 AAAGCAAAATTG-GATTTTGA
1 AAAGCAAAA-TGAAATTTTGA
*
3571493 AAAGTAAAATGAAATTTTGA
1 AAAGCAAAATGAAATTTTGA
3571513 AAA
1 AAA
3571516 ATAATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.28
Consensus pattern (20 bp):
AAAGCAAAATGAAATTTTGA
Found at i:3576988 original size:30 final size:29
Alignment explanation
Indices: 3576954--3577030 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 29
3576944 TTTAAATGAA
3576954 AATAAAAATAATTTTTTAAATTAAGTTAAT
1 AATAAAAAT-ATTTTTTAAATTAAGTTAAT
* *
3576984 AAT-AAAAT-TTATTT-AA-TATGTTAAT
1 AATAAAAATATTTTTTAAATTAAGTTAAT
*
3577009 -ATAAAAATATTTTTTAAGTTAA
1 AATAAAAATATTTTTTAAATTAA
3577031 CATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
24 2 0.05
25 13 0.34
26 7 0.18
27 6 0.16
28 2 0.05
29 5 0.13
30 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (29 bp):
AATAAAAATATTTTTTAAATTAAGTTAAT
Found at i:3576998 original size:27 final size:24
Alignment explanation
Indices: 3576954--3577025 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 24
3576944 TTTAAATGAA
*
3576954 AATAAAAATAATTTTTTAAATTAAGTT
1 AATAATAA-AATTTTTT-AA-TAAGTT
*
3576981 AATAATAAAATTTATTTAATATGTT
1 AATAATAAAATTT-TTTAATAAGTT
*
3577006 AATATAAAAATATTTTTTAA
1 AATA-ATAAA-ATTTTTTAA
3577026 GTTAACATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 9 0.23
26 16 0.41
27 14 0.36
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (24 bp):
AATAATAAAATTTTTTAATAAGTT
Found at i:3585447 original size:21 final size:21
Alignment explanation
Indices: 3585423--3585475 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
3585413 CTCATTAAAT
*
3585423 TTTAATTTATTTTTTATTTTA
1 TTTAATTTATTTTTAATTTTA
* * * *
3585444 TTTACTGTATCTTTAATTTTT
1 TTTAATTTATTTTTAATTTTA
*
3585465 TTTAACTTATT
1 TTTAATTTATT
3585476 AATTAAATTT
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTAATTTATTTTTAATTTTA
Found at i:3590114 original size:22 final size:22
Alignment explanation
Indices: 3590088--3590135 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
3590078 TTATTTTTTC
*
3590088 CCTAGTGAGTATCTTCTCATTT
1 CCTAGTGAGTATCTTCTAATTT
*
3590110 CCTAGTGAGTATCTTGTAATTT
1 CCTAGTGAGTATCTTCTAATTT
3590132 CCTA
1 CCTA
3590136 TTGTTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (22 bp):
CCTAGTGAGTATCTTCTAATTT
Found at i:3596279 original size:44 final size:44
Alignment explanation
Indices: 3596212--3596317 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
3596202 AGAAGTATTA
* * *
3596212 AGAATGAGCAT-AG-AAA-TTATGTTGTGACATATAAATTATTT
1 AGAATGAGCATCGGAAAATTTATGTTGTGACATAGAAATTATAT
*
3596253 AGAATGAGTATCGGAAAATTTATGTTGTGACATAGAAATTATAT
1 AGAATGAGCATCGGAAAATTTATGTTGTGACATAGAAATTATAT
3596297 AGAATGAGCATCGGAAAATTT
1 AGAATGAGCATCGGAAAATTT
3596318 GTTAAGAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
41 10 0.18
42 1 0.02
43 3 0.05
44 43 0.75
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.33
Consensus pattern (44 bp):
AGAATGAGCATCGGAAAATTTATGTTGTGACATAGAAATTATAT
Found at i:3597308 original size:28 final size:28
Alignment explanation
Indices: 3597273--3597331 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
3597263 TATGATTTAT
*
3597273 AAATTTTCAGTATGGAATATTTCTATAA
1 AAATTTTCAGTATGAAATATTTCTATAA
3597301 AAATTTTCAGTATGAAATATTTCTATAA
1 AAATTTTCAGTATGAAATATTTCTATAA
3597329 AAA
1 AAA
3597332 AATTTCATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (28 bp):
AAATTTTCAGTATGAAATATTTCTATAA
Found at i:3597462 original size:35 final size:35
Alignment explanation
Indices: 3597416--3597484 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
3597406 TGTGTACAAT
* * *
3597416 TATCAAATGATTTTCAGTTATCAGATA-TTTACAGA
1 TATCAAATGA-TTACAATTATAAGATATTTTACAGA
*
3597451 TATCATATGATTACAATTATAAGATATTTTACAG
1 TATCAAATGATTACAATTATAAGATATTTTACAG
3597485 GTATTAGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (35 bp):
TATCAAATGATTACAATTATAAGATATTTTACAGA
Found at i:3597603 original size:14 final size:14
Alignment explanation
Indices: 3597584--3597613 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3597574 CCATTTAGTG
*
3597584 ATTACTTGTCAGTT
1 ATTACTTATCAGTT
3597598 ATTACTTATCAGTT
1 ATTACTTATCAGTT
3597612 AT
1 AT
3597614 CAGTTTAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (14 bp):
ATTACTTATCAGTT
Done.