Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 6 of 325
Found at i:1603991 original size:18 final size:18
Alignment explanation
Indices: 1603956--1604035 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
1603946 TTTTTTTTAT
* *
1603956 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
1603975 TTTATATTATTATTATT-
1 TTTATATTATTATTATTA
* *
1603992 TCTCAT-GTATATATTATTA
1 T-TTATATTAT-TATTATTA
1604011 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
1604028 TTATATAT
1 TT-TATAT
1604036 ACCCTCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.16
18 34 0.68
19 8 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:1604018 original size:12 final size:12
Alignment explanation
Indices: 1603951--1604031 Score: 78
Period size: 12 Copynumber: 6.8 Consensus size: 12
1603941 TTTTATTTTT
*
1603951 TTTATTTTATTA
1 TTTATATTATTA
* *
1603963 TTTTTACTATTA
1 TTTATATTATTA
1603975 TTTATATTATTA
1 TTTATATTATTA
* *
1603987 -TTAT-TTCTCA
1 TTTATATTATTA
1603997 TGTATATATTATTA
1 T-T-TATATTATTA
1604011 TTTATATTATTA
1 TTTATATTATTA
1604023 -TTATATTAT
1 TTTATATTAT
1604032 ATATACCCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.23
12 30 0.54
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:1625433 original size:21 final size:20
Alignment explanation
Indices: 1625375--1625451 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
1625365 CGTATTTTCT
*
1625375 TTTGAGATTTAAAATTTA-G
1 TTTGAAATTTAAAATTTAGG
* **
1625394 TTTATAAGATTTATTATTTAGG
1 TTT-GAA-ATTTAAAATTTAGG
1625416 ATTTGAAATTTAAAATTTAGAG
1 -TTTGAAATTTAAAATTTAG-G
*
1625438 TTTAGAATTTTAAA
1 TTT-GAAATTTAAA
1625452 TTCCAACATT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.07
20 1 0.02
21 24 0.55
22 13 0.30
23 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTGAAATTTAAAATTTAGG
Found at i:1630682 original size:13 final size:13
Alignment explanation
Indices: 1630664--1630690 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1630654 ATTAGCCCTT
1630664 ATACATTAAATTA
1 ATACATTAAATTA
1630677 ATACATTAAATTA
1 ATACATTAAATTA
1630690 A
1 A
1630691 AGAACATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATACATTAAATTA
Found at i:1641544 original size:19 final size:19
Alignment explanation
Indices: 1641514--1641558 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
1641504 AGTATTGTGA
1641514 AATTTATAATTTAATCTATTT
1 AATTT-TAATTTAATCT-TTT
1641535 -ATTTTAATTTAATCTTTT
1 AATTTTAATTTAATCTTTT
1641553 AATTTT
1 AATTTT
1641559 TTAAAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.13
19 16 0.70
20 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTAATTTAATCTTTT
Found at i:1647478 original size:25 final size:26
Alignment explanation
Indices: 1647435--1647483 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
1647425 AAGTCTTATA
1647435 TTTTTTTATATATTTAG-AATTTAGT
1 TTTTTTTATATATTTAGAAATTTAGT
*
1647460 TTTTTTTTTAT-TTTAAGAAATTTA
1 TTTTTTTATATATTT-AGAAATTTA
1647484 AATTGTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 12 0.57
26 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTTTTATATATTTAGAAATTTAGT
Found at i:1652382 original size:33 final size:32
Alignment explanation
Indices: 1652317--1652382 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
1652307 ATATTCAAAA
* *
1652317 CATGTTAGGAATAGCTCTTGTTAAGAACAACT
1 CATGTTAGGAATAGATCTTATTAAGAACAACT
* * *
1652349 CATGTTTGGAGTAGATCTTATTCAAGAATAACT
1 CATGTTAGGAATAGATCTTATT-AAGAACAACT
1652382 C
1 C
1652383 TTATTCAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (32 bp):
CATGTTAGGAATAGATCTTATTAAGAACAACT
Found at i:1657118 original size:27 final size:27
Alignment explanation
Indices: 1657070--1657227 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
1657060 GCGAGGTTGC
* *
1657070 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
1657097 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
1657123 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
1657150 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
1657177 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
1657204 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
1657228 AGACGCTTCC
Statistics
Matches: 116, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:1657163 original size:54 final size:54
Alignment explanation
Indices: 1657088--1657227 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
1657078 GTGACGAAGT
*
1657088 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
1657142 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1657196 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
1657228 AGACGCTTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:1657359 original size:26 final size:26
Alignment explanation
Indices: 1657330--1657406 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
1657320 GTCAAAATTA
* *
1657330 ACCTTGGGGTATAACGGTAATTTTAC
1 ACCTAGGGGTATAACAGTAATTTTAC
*
1657356 ACCTAGGGGTATAACAGTAATTTTCCAT
1 ACCTAGGGGTATAACAGTAATTTT--AC
* * *
1657384 ACATAGGGGTATTATAGTAATTT
1 ACCTAGGGGTATAACAGTAATTT
1657407 AGCTGCTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.51
28 21 0.49
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (26 bp):
ACCTAGGGGTATAACAGTAATTTTAC
Found at i:1658887 original size:26 final size:26
Alignment explanation
Indices: 1658852--1658959 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
1658842 TGAAATGCCC
1658852 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
1658878 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
1658904 ATAATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
1658930 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
1658956 ATCA
1 ATCA
1658960 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 3 0.04
26 69 0.96
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:1659778 original size:49 final size:50
Alignment explanation
Indices: 1659681--1659779 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 50
1659671 ATCTCAAACA
* *
1659681 AATTTACACATAATAAAAAATCACAAGTCTAACAAAATAACTACTATGCAT
1 AATTTACACA-AATAAAAAATCACAACTATAACAAAATAACTACTATGCAT
* * *
1659732 AATTTACAC-AATAAAAAATTACAACTATAATAAAGTAAC-ACTTATGCA
1 AATTTACACAAATAAAAAATCACAACTATAACAAAATAACTAC-TATGCA
1659780 CACAAAACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 2 0.05
49 31 0.74
51 9 0.21
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (50 bp):
AATTTACACAAATAAAAAATCACAACTATAACAAAATAACTACTATGCAT
Found at i:1661292 original size:15 final size:14
Alignment explanation
Indices: 1661267--1661300 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
1661257 ATCCAAAGTT
*
1661267 AGTGATGATGCATG
1 AGTGATGATGCACG
1661281 AGTGATTGATGCACG
1 AGTGA-TGATGCACG
1661296 AGTGA
1 AGTGA
1661301 AACATGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.26
Consensus pattern (14 bp):
AGTGATGATGCACG
Found at i:1662913 original size:27 final size:27
Alignment explanation
Indices: 1662883--1662940 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1662873 TCAGATTATT
1662883 TCAACCACGAATCATTTCAAATTCAAG
1 TCAACCACGAATCATTTCAAATTCAAG
*****
1662910 TCAATTTTTAATCATTTCAAATTCAAG
1 TCAACCACGAATCATTTCAAATTCAAG
1662937 TCAA
1 TCAA
1662941 TTCTTACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (27 bp):
TCAACCACGAATCATTTCAAATTCAAG
Found at i:1665036 original size:110 final size:110
Alignment explanation
Indices: 1664843--1665082 Score: 324
Period size: 110 Copynumber: 2.2 Consensus size: 110
1664833 CATTTTTTAA
1664843 ATTAGTTGCCTTGGACATATGCCGCTATGCAATAGCTAATTTATATCCGTTTGTTGATTTTTCCA
1 ATTAGTTGCCTTGGACATATGCCGCTATGCAATAGCTAATTTATATCCGTTTGTTGATTTTTCCA
** **
1664908 TTGGGAATCATCGTTTCATTCTTGAAACCCCCA-TTCTGTATACTG
66 TAAGGAATCATCGTTTCATTCTTGAAA-CCCCATTTCCATATACTG
* * * * * * *
1664953 ATTAGATGCCTTGGGCTTATGCTG-TCATGCAATTGCTTATTTAT-TTCGATTTGTTGATTTTTC
1 ATTAGTTGCCTTGGACATATGCCGCT-ATGCAATAGCTAATTTATATCCG-TTTGTTGATTTTTC
*
1665016 CGTAAGGAATCATCGTTTCATTCTTGAAACCCCATTTCCATATACTG
64 CATAAGGAATCATCGTTTCATTCTTGAAACCCCATTTCCATATACTG
1665063 ATTAGTTGCCTTGGACATAT
1 ATTAGTTGCCTTGGACATAT
1665083 ATCAAAGCTA
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
109 9 0.08
110 103 0.92
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (110 bp):
ATTAGTTGCCTTGGACATATGCCGCTATGCAATAGCTAATTTATATCCGTTTGTTGATTTTTCCA
TAAGGAATCATCGTTTCATTCTTGAAACCCCATTTCCATATACTG
Found at i:1675490 original size:20 final size:20
Alignment explanation
Indices: 1675462--1675499 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1675452 TAAAATGATC
*
1675462 TCTGGAAAATGTTTTACTTT
1 TCTGGAAAATGATTTACTTT
*
1675482 TCTGTAAAATGATTTACT
1 TCTGGAAAATGATTTACT
1675500 GAAAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (20 bp):
TCTGGAAAATGATTTACTTT
Found at i:1678528 original size:13 final size:13
Alignment explanation
Indices: 1678510--1678534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1678500 CACACAGACA
1678510 AAAAAGAAAAAGG
1 AAAAAGAAAAAGG
1678523 AAAAAGAAAAAG
1 AAAAAGAAAAAG
1678535 CTGAGTTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:1679740 original size:25 final size:21
Alignment explanation
Indices: 1679713--1679759 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1679703 CATAAACTAA
1679713 TTGAATT-GATAAAAAATTAG
1 TTGAATTGGATAAAAAATTAG
*
1679733 TTGAATTGGATAAAAAATTGG
1 TTGAATTGGATAAAAAATTAG
1679754 TTGAAT
1 TTGAAT
1679760 CAAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (21 bp):
TTGAATTGGATAAAAAATTAG
Found at i:1680365 original size:10 final size:10
Alignment explanation
Indices: 1680350--1680376 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1680340 ATTTTTTAAT
1680350 TAAATAAATA
1 TAAATAAATA
1680360 TAAATAAATA
1 TAAATAAATA
1680370 TAAATAA
1 TAAATAA
1680377 TATTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAATAAATA
Found at i:1680441 original size:42 final size:39
Alignment explanation
Indices: 1680339--1680446 Score: 98
Period size: 42 Copynumber: 2.7 Consensus size: 39
1680329 ATAAAAAACC
*
1680339 AATTTTTT-AATTAA-ATAAATATAAATAAATATAAATA
1 AATTTTTTAAATTAATAAAAATATAAATAAATATAAATA
* * *
1680376 ATATTTTATTTAAAAT-ATGAAAATAATTAATAAATATAAAATA
1 A-A-TTT-TTTAAATTAATAAAAAT-ATAAATAAATAT-AAATA
1680419 AATTTTTTACAATTAATAAAAAT-TAAAT
1 AATTTTTTA-AATTAATAAAAATATAAAT
1680447 GTGTGAGATT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
37 1 0.02
38 1 0.02
39 3 0.05
40 12 0.22
41 13 0.24
42 19 0.35
43 6 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (39 bp):
AATTTTTTAAATTAATAAAAATATAAATAAATATAAATA
Found at i:1681002 original size:20 final size:20
Alignment explanation
Indices: 1680969--1681016 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
1680959 TCTCTCAATT
*
1680969 ATTTT-TTAAAATTA-ATAA
1 ATTTTATTAAAATTAGAGAA
1680987 ATTTTATTACAAATTAGAGAA
1 ATTTTATTA-AAATTAGAGAA
1681008 ATTCTTATT
1 ATT-TTATT
1681017 TAATTAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 3 0.12
20 6 0.24
21 6 0.24
22 5 0.20
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
ATTTTATTAAAATTAGAGAA
Found at i:1702099 original size:32 final size:33
Alignment explanation
Indices: 1702035--1702101 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 33
1702025 AGCTTAAAAT
*
1702035 TTTGTTGTAGAGTAATCTATGTTTTTTTTTTATA
1 TTTGTTGTAGAGTAATATATG-TTTTTTTTTATA
1702069 TTTGTTGTAGAGTAATATATG-TTTTTTTTATA
1 TTTGTTGTAGAGTAATATATGTTTTTTTTTATA
1702101 T
1 T
1702102 GACTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.38
34 20 0.62
ACGTcount: A:0.22, C:0.01, G:0.15, T:0.61
Consensus pattern (33 bp):
TTTGTTGTAGAGTAATATATGTTTTTTTTTATA
Found at i:1704875 original size:23 final size:23
Alignment explanation
Indices: 1704813--1704884 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
1704803 TATTAGAATT
*
1704813 TTTTTAAAAAATTAAAATTAT--
1 TTTTTAAAAATTTAAAATTATAA
* **
1704834 TTTCTCACAAAATAAAAAATTATAA
1 TTT-TTA-AAAATTTAAAATTATAA
1704859 TTTTTAAAAATTTAAAA--ATAA
1 TTTTTAAAAATTTAAAATTATAA
1704880 TTTTT
1 TTTTT
1704885 TAATATAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 12 0.30
22 2 0.05
23 21 0.52
24 2 0.05
25 3 0.08
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTTAAAAATTTAAAATTATAA
Found at i:1705289 original size:11 final size:11
Alignment explanation
Indices: 1705273--1705297 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1705263 GATTTTATAA
1705273 ATTATTTTTAT
1 ATTATTTTTAT
1705284 ATTATTTTTAT
1 ATTATTTTTAT
1705295 ATT
1 ATT
1705298 TTTAAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTATTTTTAT
Found at i:1707478 original size:13 final size:13
Alignment explanation
Indices: 1707457--1707484 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1707447 TAATTAAGTA
1707457 AACTAATTTAATT
1 AACTAATTTAATT
1707470 AACTAATTTAATT
1 AACTAATTTAATT
1707483 AA
1 AA
1707485 GTTTAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AACTAATTTAATT
Found at i:1711106 original size:56 final size:56
Alignment explanation
Indices: 1711006--1711118 Score: 183
Period size: 58 Copynumber: 2.0 Consensus size: 56
1710996 TGAATTTTTG
*
1711006 TTCGCATATTCATGCCATTCAAAGTTGTTAATTTCATTTAAAAAAATAAACTACAA
1 TTCGCAAATTCATGCCATTCAAAGTTGTTAATTTCATTTAAAAAAATAAACTACAA
*
1711062 TTCGCAAATTCATGCCATATTCAAAGTTGTTAATTTCA-TTAAAAAAATGAACTACAA
1 TTCGCAAATTCATGCC--ATTCAAAGTTGTTAATTTCATTTAAAAAAATAAACTACAA
1711119 AAGGTGAGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
56 15 0.28
57 18 0.34
58 20 0.38
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (56 bp):
TTCGCAAATTCATGCCATTCAAAGTTGTTAATTTCATTTAAAAAAATAAACTACAA
Found at i:1713723 original size:14 final size:14
Alignment explanation
Indices: 1713704--1713732 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1713694 TCTTCGATTA
1713704 TTTTCCTATTTCAT
1 TTTTCCTATTTCAT
1713718 TTTTCCTATTTCAT
1 TTTTCCTATTTCAT
1713732 T
1 T
1713733 CTCTGTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCCTATTTCAT
Found at i:1714479 original size:32 final size:32
Alignment explanation
Indices: 1714413--1714480 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
1714403 AACAATAGTC
* *
1714413 TTCTAAACATAGTTGTTCTTGCAACATAATTA
1 TTCTAAACAGAGTTGTTCTTGCAACATAACTA
*
1714445 TTCTAAACAAGAGTTGTTC-T-CAACATGAGCTA
1 TTCTAAAC-AGAGTTGTTCTTGCAACAT-AACTA
1714477 TTCT
1 TTCT
1714481 CAAATGACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 6 0.19
32 16 0.52
33 9 0.29
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (32 bp):
TTCTAAACAGAGTTGTTCTTGCAACATAACTA
Found at i:1714553 original size:15 final size:16
Alignment explanation
Indices: 1714533--1714567 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1714523 CCTTGATTTG
*
1714533 AACATAGCTATTC-CA
1 AACATAACTATTCTCA
1714548 AACATAACTATTCTCA
1 AACATAACTATTCTCA
1714564 AACA
1 AACA
1714568 AAAGTTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (16 bp):
AACATAACTATTCTCA
Found at i:1718318 original size:18 final size:18
Alignment explanation
Indices: 1718287--1718327 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1718277 AATCTCAAAT
* *
1718287 TTTTAGATTATTTTGGAA
1 TTTTAAATTATTTTAGAA
*
1718305 TTTTAAATTTTTTTAGAA
1 TTTTAAATTATTTTAGAA
1718323 TTTTA
1 TTTTA
1718328 TGAATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (18 bp):
TTTTAAATTATTTTAGAA
Found at i:1719106 original size:30 final size:29
Alignment explanation
Indices: 1719068--1719133 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
1719058 GTTAATGATT
1719068 TGTA-AAAATTGAATCAAAGAAAAATTTCA
1 TGTATAAAATTGAATCAAAGAAAAA-TTCA
* * **
1719097 TGTATAAAATTGCATGAAATCAAAATTCA
1 TGTATAAAATTGAATCAAAGAAAAATTCA
1719126 TGTATAAA
1 TGTATAAA
1719134 TTTACACACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (29 bp):
TGTATAAAATTGAATCAAAGAAAAATTCA
Found at i:1719388 original size:26 final size:27
Alignment explanation
Indices: 1719358--1719408 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
1719348 TATTTAAGGG
1719358 TTTAAAAAGAAATA-TAATTATATTAT
1 TTTAAAAAGAAATATTAATTATATTAT
*
1719384 TTTAAAAATAAATATTAATTATATT
1 TTTAAAAAGAAATATTAATTATATT
1719409 TATTAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
TTTAAAAAGAAATATTAATTATATTAT
Found at i:1719414 original size:26 final size:26
Alignment explanation
Indices: 1719359--1719421 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
1719349 ATTTAAGGGT
* *
1719359 TTAAAAAGAAATATAATTATATTATT
1 TTAAAAATAAATATAATTATATTATA
1719385 TTAAAAATAAATATTAATTATATT-TA
1 TTAAAAATAAATA-TAATTATATTATA
*
1719411 TTAAACATAAA
1 TTAAAAATAAA
1719422 AAATCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
TTAAAAATAAATATAATTATATTATA
Found at i:1719551 original size:25 final size:26
Alignment explanation
Indices: 1719498--1719555 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
1719488 TAAATTTTAA
*
1719498 TTATATTTAAATAATTTTAATAGTAT
1 TTATTTTTAAATAATTTTAATAGTAT
* * *
1719524 TTATTTTTAAAT-CTTTTAATATTTT
1 TTATTTTTAAATAATTTTAATAGTAT
1719549 TTATTTT
1 TTATTTT
1719556 ACACCAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTATTTTTAAATAATTTTAATAGTAT
Found at i:1721521 original size:27 final size:26
Alignment explanation
Indices: 1721468--1721520 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
1721458 GATTTTATTA
*
1721468 ATATTTATAATGCAAAACTTCAAAAAT
1 ATATTTATAATGAAAAACTT-AAAAAT
1721495 ATATTTATAATGTAAAATACTTAAAA
1 ATATTTATAATG-AAAA-ACTTAAAA
1721521 TTAAATAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 12 0.52
28 7 0.30
29 4 0.17
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (26 bp):
ATATTTATAATGAAAAACTTAAAAAT
Found at i:1724972 original size:29 final size:28
Alignment explanation
Indices: 1724925--1724983 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
1724915 ACGTATATAA
* *
1724925 ATAATTTATTAATTTTTAA-ATAAAAAT
1 ATAATTTATTAATTCTTAATACAAAAAT
1724952 ATAATTTAACTTAATTCTTAATACAAAAAT
1 ATAATTT-A-TTAATTCTTAATACAAAAAT
1724982 AT
1 AT
1724984 TTATAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 1 0.04
29 10 0.37
30 9 0.33
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAATTTATTAATTCTTAATACAAAAAT
Found at i:1732711 original size:38 final size:38
Alignment explanation
Indices: 1732609--1732711 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
1732599 GTGGAATGGA
* * *
1732609 TATCTACTGGTTTTTTGGGGTGACACCATGTTAACGAT
1 TATCTACTGGTTCTTCGGGGTGACACCATATTAACGAT
* * *** *
1732647 TATCTACTGGTCCTTCAGGACAACACCGTATTAAC-AGT
1 TATCTACTGGTTCTTCGGGGTGACACCATATTAACGA-T
1732685 TATCTACTGGTTCTTCGGGGTGACACC
1 TATCTACTGGTTCTTCGGGGTGACACC
1732712 TCAAAAAGGG
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
37 1 0.02
38 49 0.98
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (38 bp):
TATCTACTGGTTCTTCGGGGTGACACCATATTAACGAT
Found at i:1740846 original size:12 final size:13
Alignment explanation
Indices: 1740816--1740846 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1740806 AAATATGTTA
1740816 GAAAAAGTAATTT
1 GAAAAAGTAATTT
1740829 GAAAAAGTAATTT
1 GAAAAAGTAATTT
*
1740842 CAAAA
1 GAAAA
1740847 CATATAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (13 bp):
GAAAAAGTAATTT
Found at i:1748727 original size:5 final size:6
Alignment explanation
Indices: 1748698--1748737 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
1748688 AATAATTTAG
* *
1748698 TTCTTT TT-TTT ATGTTT TTCTTT TTCTTT TTCTTT TTCTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTT
1748738 GAGTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:1759856 original size:29 final size:30
Alignment explanation
Indices: 1759796--1759857 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
1759786 ATTTATTTTA
*
1759796 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1759826 TTGTTAATTTT-TTATTATTTTAGAA-GCAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1759855 TTG
1 TTG
1759858 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:1760444 original size:30 final size:30
Alignment explanation
Indices: 1760408--1760475 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 30
1760398 TTTAAAATAT
1760408 TATAATTGAGTAGTTAAAGTATCGATATTA
1 TATAATTGAGTAGTTAAAGTATCGATATTA
*
1760438 TATAATTGAGTAGTTAAAGTATTGATATTA
1 TATAATTGAGTAGTTAAAGTATCGATATTA
1760468 TATTAATT
1 TA-TAATT
1760476 ATGCTCTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 31 0.86
31 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (30 bp):
TATAATTGAGTAGTTAAAGTATCGATATTA
Found at i:1762837 original size:7 final size:7
Alignment explanation
Indices: 1762825--1762857 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
1762815 CGCTTTGAAA
1762825 TTTTATT
1 TTTTATT
1762832 TTTTATT
1 TTTTATT
1762839 TTTTATT
1 TTTTATT
1762846 TTTTATT
1 TTTTATT
1762853 TTTTA
1 TTTTA
1762858 AAAGGGAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:1762957 original size:19 final size:19
Alignment explanation
Indices: 1762933--1762970 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1762923 GAAATGAATA
1762933 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
1762952 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
1762971 GCAATCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:1763894 original size:19 final size:20
Alignment explanation
Indices: 1763861--1763900 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
1763851 ATATATGTAT
1763861 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
1763880 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
1763900 A
1 A
1763901 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:1768504 original size:14 final size:14
Alignment explanation
Indices: 1768485--1768514 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1768475 AATACCTCCT
1768485 GCAATACCCTATTA
1 GCAATACCCTATTA
1768499 GCAATACCCTATTA
1 GCAATACCCTATTA
1768513 GC
1 GC
1768515 GAGGCACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (14 bp):
GCAATACCCTATTA
Found at i:1772389 original size:17 final size:17
Alignment explanation
Indices: 1772367--1772400 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1772357 TTGAAATCAC
*
1772367 AATTTCATATAATTCTT
1 AATTTCATACAATTCTT
1772384 AATTTCATACAATTCTT
1 AATTTCATACAATTCTT
1772401 TCTCTGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTCATACAATTCTT
Found at i:1772602 original size:32 final size:29
Alignment explanation
Indices: 1772562--1772631 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 29
1772552 GTCCCCTCAT
*
1772562 ATTTTAAAACTTT-TAATTAAGCTCTCTTAAAA
1 ATTTTAAAA-TTTCTAATTAA--TCTC-AAAAA
*
1772594 ATTTTAAAATTTCTCATTAATCTCAAAAA
1 ATTTTAAAATTTCTAATTAATCTCAAAAA
1772623 ATTTTAAAA
1 ATTTTAAAA
1772632 AATATAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 13 0.37
30 4 0.11
31 3 0.09
32 15 0.43
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.43
Consensus pattern (29 bp):
ATTTTAAAATTTCTAATTAATCTCAAAAA
Found at i:1775459 original size:16 final size:16
Alignment explanation
Indices: 1775438--1775469 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1775428 AATTGGTGGT
1775438 ATTAAATTCTGCATAA
1 ATTAAATTCTGCATAA
1775454 ATTAAATTCTGCATAA
1 ATTAAATTCTGCATAA
1775470 GTATTCGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTAAATTCTGCATAA
Found at i:1776117 original size:49 final size:49
Alignment explanation
Indices: 1776060--1776159 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
1776050 ATAACAAGTT
1776060 TAAAGAAATGAGAAATTGTAACTGTTTTCGTTAATGGTTAAGCTTTGTG
1 TAAAGAAATGAGAAATTGTAACTGTTTTCGTTAATGGTTAAGCTTTGTG
1776109 TAAAGAAATGAGAAATTGTAACTGTTTTCGTTAATGGTTAAGCTTTGTG
1 TAAAGAAATGAGAAATTGTAACTGTTTTCGTTAATGGTTAAGCTTTGTG
1776158 TA
1 TA
1776160 GTAACACCCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (49 bp):
TAAAGAAATGAGAAATTGTAACTGTTTTCGTTAATGGTTAAGCTTTGTG
Found at i:1778704 original size:23 final size:24
Alignment explanation
Indices: 1778618--1778741 Score: 116
Period size: 23 Copynumber: 5.2 Consensus size: 24
1778608 AGACTCACCA
*
1778618 CAGCTCGTA-AGAGCTTACTGATATAT
1 CAGCTCGTATAGAGCTTACCG-T-T-T
*
1778644 CAGCTCGTA-AGAGCTTACTGTTTT
1 CAGCTCGTATAGAGCTTACCG-TTT
* *
1778668 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCGTATAGAGCTTACCGTTT
* *
1778691 CAGGTCGTAT-GAGCTTACTGTTT
1 CAGCTCGTATAGAGCTTACCGTTT
1778714 -AGCTCG-ATAGAGCTTACCGTTT
1 CAGCTCGTATAGAGCTTACCGTTT
1778736 CAGCTC
1 CAGCTC
1778742 ATTAGACCTT
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
21 2 0.02
22 17 0.20
23 26 0.31
24 18 0.21
25 1 0.01
26 21 0.25
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (24 bp):
CAGCTCGTATAGAGCTTACCGTTT
Found at i:1778733 original size:45 final size:47
Alignment explanation
Indices: 1778643--1778741 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 47
1778633 TACTGATATA
*
1778643 TCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTT
* *
1778690 TCAGGTCGTATGAGCTTACTG-TTT-AGCTCGA-TAGAGCTTACCGTT
1 TCAGCTCGTAAGAGCTTACTGTTTTCAGCTC-ATTAGAGCTTACCGTT
1778735 TCAGCTC
1 TCAGCTC
1778742 ATTAGACCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
45 24 0.51
46 4 0.09
47 19 0.40
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (47 bp):
TCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTT
Found at i:1778747 original size:23 final size:23
Alignment explanation
Indices: 1778643--1778753 Score: 102
Period size: 23 Copynumber: 4.8 Consensus size: 23
1778633 TACTGATATA
* * *
1778643 TCAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCATTAGAGCTTACCG-TT
*
1778667 TCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCATTAGAGCTTACCGTT
* * *
1778690 TCAGGTC-GTATGAGCTTACTGTT
1 TCAGCTCATTA-GAGCTTACCGTT
1778713 T-AGCTCGA-TAGAGCTTACCGTT
1 TCAGCTC-ATTAGAGCTTACCGTT
*
1778735 TCAGCTCATTAGACCTTAC
1 TCAGCTCATTAGAGCTTAC
1778754 TATTCATTAG
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
22 18 0.25
23 36 0.51
24 17 0.24
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (23 bp):
TCAGCTCATTAGAGCTTACCGTT
Found at i:1778753 original size:45 final size:46
Alignment explanation
Indices: 1778643--1778754 Score: 122
Period size: 45 Copynumber: 2.4 Consensus size: 46
1778633 TACTGATATA
* *
1778643 TCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCGTT
1 TCAGCTC-TTAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTT
* *
1778690 TCAGGTCGTATGAGCTTACTG-TTT-AGCTCGA-TAGAGCTTACCGTT
1 TCAGCTCTTA-GAGCTTACTGTTTTCAGCTC-ATTAGAGCTTACCGTT
*
1778735 TCAGCTCATTAGACCTTACT
1 TCAGCTC-TTAGAGCTTACT
1778755 ATTCATTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
45 32 0.58
46 7 0.13
47 16 0.29
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (46 bp):
TCAGCTCTTAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTT
Found at i:1779689 original size:28 final size:29
Alignment explanation
Indices: 1779658--1779735 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
1779648 TATTATTATT
*
1779658 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
1779686 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
1779714 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
1779736 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:1779735 original size:31 final size:28
Alignment explanation
Indices: 1779669--1779736 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
1779659 ATATAAATAT
**
1779669 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
1779697 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
1779728 ATAAATTAA
1 ATAAATTAA
1779737 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:1780634 original size:18 final size:18
Alignment explanation
Indices: 1780611--1780659 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
1780601 ATGTGAGGTA
*
1780611 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
1780629 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
1780647 ATTATTATTATTA
1 AGTATTATTATTA
1780660 TGAGTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:1780639 original size:3 final size:3
Alignment explanation
Indices: 1780613--1780660 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
1780603 GTGAGGTAAG
* * * *
1780613 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1780661 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:1780660 original size:12 final size:12
Alignment explanation
Indices: 1780613--1780660 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
1780603 GTGAGGTAAG
* *
1780613 TATTAATATTAG
1 TATTAGTATTAT
1780625 TATTAGTATTAT
1 TATTAGTATTAT
1780637 TATTAGTATTAT
1 TATTAGTATTAT
*
1780649 TATTATTATTAT
1 TATTAGTATTAT
1780661 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:1781018 original size:37 final size:39
Alignment explanation
Indices: 1780959--1781054 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
1780949 CGGATAGATT
* * * *
1780959 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
1780996 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
1781035 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
1781055 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:1787074 original size:28 final size:29
Alignment explanation
Indices: 1787043--1787120 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
1787033 TATTATTATT
*
1787043 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
1787071 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
1787099 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
1787121 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:1787120 original size:31 final size:28
Alignment explanation
Indices: 1787054--1787121 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
1787044 ATATAAATAT
**
1787054 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
1787082 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
1787113 ATAAATTAA
1 ATAAATTAA
1787122 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:1788019 original size:18 final size:18
Alignment explanation
Indices: 1787996--1788044 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
1787986 ATGTGAGGTA
*
1787996 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
1788014 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
1788032 ATTATTATTATTA
1 AGTATTATTATTA
1788045 TGAGTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:1788024 original size:3 final size:3
Alignment explanation
Indices: 1787998--1788045 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
1787988 GTGAGGTAAG
* * * *
1787998 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1788046 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:1788045 original size:12 final size:12
Alignment explanation
Indices: 1787998--1788045 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
1787988 GTGAGGTAAG
* *
1787998 TATTAATATTAG
1 TATTAGTATTAT
1788010 TATTAGTATTAT
1 TATTAGTATTAT
1788022 TATTAGTATTAT
1 TATTAGTATTAT
*
1788034 TATTATTATTAT
1 TATTAGTATTAT
1788046 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:1788170 original size:17 final size:17
Alignment explanation
Indices: 1788148--1788181 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1788138 GGTATTATGG
*
1788148 AAATGTATGAGTTGTGA
1 AAATGTATGAATTGTGA
*
1788165 AAATGTGTGAATTGTGA
1 AAATGTATGAATTGTGA
1788182 GTTTGAATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (17 bp):
AAATGTATGAATTGTGA
Found at i:1788422 original size:37 final size:39
Alignment explanation
Indices: 1788363--1788458 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
1788353 CGGATAGATT
* * * *
1788363 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
1788400 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
1788439 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
1788459 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:1806438 original size:29 final size:30
Alignment explanation
Indices: 1806398--1806454 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
1806388 TGGTCAAATG
1806398 TGCAATGTTATACAT-AAACTTTGATTTTA
1 TGCAATGTTATACATGAAACTTTGATTTTA
*
1806427 TGCAAT-TCTATACATGAAATTTTGATTT
1 TGCAATGT-TATACATGAAACTTTGATTT
1806455 AATTTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 13 0.52
30 11 0.44
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (30 bp):
TGCAATGTTATACATGAAACTTTGATTTTA
Found at i:1808796 original size:20 final size:21
Alignment explanation
Indices: 1808771--1808809 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1808761 GACAAATTTA
1808771 ACTCAAA-AAACAATAATGGT
1 ACTCAAATAAACAATAATGGT
*
1808791 ACTCAAATAAATAATAATG
1 ACTCAAATAAACAATAATG
1808810 TAAACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (21 bp):
ACTCAAATAAACAATAATGGT
Found at i:1810672 original size:229 final size:229
Alignment explanation
Indices: 1810271--1810729 Score: 918
Period size: 229 Copynumber: 2.0 Consensus size: 229
1810261 TTAGCAACTA
1810271 GAATTAATTTATTAAAGGCATTGAATATTGTGGAGTGTGCCTCACATTTTTGGACTCTTTCAACC
1 GAATTAATTTATTAAAGGCATTGAATATTGTGGAGTGTGCCTCACATTTTTGGACTCTTTCAACC
1810336 ACTTATCGTTACCCGTATCGCTACACAAGGACGTCAAAATCACAACACCTCTAACAAATGACAAC
66 ACTTATCGTTACCCGTATCGCTACACAAGGACGTCAAAATCACAACACCTCTAACAAATGACAAC
1810401 GACGCAATGAGGAGTTTCTTGAGGTCACAACAATGGACAACATCATGACAAGACGATTTGGGACA
131 GACGCAATGAGGAGTTTCTTGAGGTCACAACAATGGACAACATCATGACAAGACGATTTGGGACA
1810466 TTGCGACATGGCAACGTGTTCTCACATAAATCGG
196 TTGCGACATGGCAACGTGTTCTCACATAAATCGG
1810500 GAATTAATTTATTAAAGGCATTGAATATTGTGGAGTGTGCCTCACATTTTTGGACTCTTTCAACC
1 GAATTAATTTATTAAAGGCATTGAATATTGTGGAGTGTGCCTCACATTTTTGGACTCTTTCAACC
1810565 ACTTATCGTTACCCGTATCGCTACACAAGGACGTCAAAATCACAACACCTCTAACAAATGACAAC
66 ACTTATCGTTACCCGTATCGCTACACAAGGACGTCAAAATCACAACACCTCTAACAAATGACAAC
1810630 GACGCAATGAGGAGTTTCTTGAGGTCACAACAATGGACAACATCATGACAAGACGATTTGGGACA
131 GACGCAATGAGGAGTTTCTTGAGGTCACAACAATGGACAACATCATGACAAGACGATTTGGGACA
1810695 TTGCGACATGGCAACGTGTTCTCACATAAATCGG
196 TTGCGACATGGCAACGTGTTCTCACATAAATCGG
1810729 G
1 G
1810730 TTTCTTTTCC
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 230 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (229 bp):
GAATTAATTTATTAAAGGCATTGAATATTGTGGAGTGTGCCTCACATTTTTGGACTCTTTCAACC
ACTTATCGTTACCCGTATCGCTACACAAGGACGTCAAAATCACAACACCTCTAACAAATGACAAC
GACGCAATGAGGAGTTTCTTGAGGTCACAACAATGGACAACATCATGACAAGACGATTTGGGACA
TTGCGACATGGCAACGTGTTCTCACATAAATCGG
Found at i:1810977 original size:153 final size:153
Alignment explanation
Indices: 1810699--1811006 Score: 553
Period size: 153 Copynumber: 2.0 Consensus size: 153
1810689 GGGACATTGC
*
1810699 GACATGGCAACGTGTTCTCACATAAATCGGGTTTCTTTTCCTAGTTAAACTTTGCTATCTTTTCC
1 GACATGGCAACGTGTTCTCACATAAATCGGGTCTCTTTTCCTAGTTAAACTTTGCTATCTTTTCC
1810764 CAGTTAATATTTAATTATTCTACGAATATTTTAATCATATATTCACACGAATTTCAACCTATAAA
66 CAGTTAATATTTAATTATTCTACGAATATTTTAATCATATATTCACACGAATTTCAACCTATAAA
*
1810829 AGGGCCTTTATAACCTTATAATT
131 AGGGCCTTTATAACCTTACAATT
* *
1810852 GACATGGCGACGTGTTCTCACATAAATCGGGTCTCTTTTCCTAGTTAAACTTTGGTATCTTTTCC
1 GACATGGCAACGTGTTCTCACATAAATCGGGTCTCTTTTCCTAGTTAAACTTTGCTATCTTTTCC
* * *
1810917 CAGTTAATATTTAATTATTCTATGGATATTTTAATTATATATTCACACGAATTTCAACCTATAAA
66 CAGTTAATATTTAATTATTCTACGAATATTTTAATCATATATTCACACGAATTTCAACCTATAAA
1810982 AGGGCCTTTATAACCTTACAATT
131 AGGGCCTTTATAACCTTACAATT
1811005 GA
1 GA
1811007 TATCTTCATC
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 148 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (153 bp):
GACATGGCAACGTGTTCTCACATAAATCGGGTCTCTTTTCCTAGTTAAACTTTGCTATCTTTTCC
CAGTTAATATTTAATTATTCTACGAATATTTTAATCATATATTCACACGAATTTCAACCTATAAA
AGGGCCTTTATAACCTTACAATT
Found at i:1812024 original size:15 final size:15
Alignment explanation
Indices: 1812004--1812033 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1811994 GATGCTTTAT
*
1812004 ATATATTTTTATATA
1 ATATATATTTATATA
1812019 ATATATATTTATATA
1 ATATATATTTATATA
1812034 TAACTTACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATATATTTATATA
Found at i:1812024 original size:17 final size:17
Alignment explanation
Indices: 1812002--1812036 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1811992 TTGATGCTTT
*
1812002 ATATATATTTTTATATA
1 ATATATATTTATATATA
1812019 ATATATATTTATATATA
1 ATATATATTTATATATA
1812036 A
1 A
1812037 CTTACCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATATTTATATATA
Found at i:1817331 original size:14 final size:15
Alignment explanation
Indices: 1817308--1817336 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1817298 TCAATCTTTG
1817308 TTATT-TTTTTAAAA
1 TTATTATTTTTAAAA
1817322 TTATTATTTTTAAAA
1 TTATTATTTTTAAAA
1817337 CAAATTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTTTTAAAA
Found at i:1820311 original size:17 final size:17
Alignment explanation
Indices: 1820291--1820325 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1820281 TGAATTTAAA
1820291 TTTAA-AAAATTTATATT
1 TTTAAGAAAATTT-TATT
1820308 TTTAAGAAAATTTTATT
1 TTTAAGAAAATTTTATT
1820325 T
1 T
1820326 GAATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAGAAAATTTTATT
Found at i:1820913 original size:28 final size:28
Alignment explanation
Indices: 1820873--1820932 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
1820863 TTCTCTTCTG
* *
1820873 TCTATATTGTTATAAAACTTTTT-TTTTA
1 TCTATATTATTATAAAA-TTTTTATTTAA
*
1820901 TCTATTTTATTATAAAATTTTTATTTAA
1 TCTATATTATTATAAAATTTTTATTTAA
1820929 TCTA
1 TCTA
1820933 GTTTCTCGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (28 bp):
TCTATATTATTATAAAATTTTTATTTAA
Found at i:1822323 original size:32 final size:32
Alignment explanation
Indices: 1822287--1822353 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
1822277 TCCTCAACAA
1822287 TTAAATATATTACGATTATCTATAATACTAAT
1 TTAAATATATTACGATTATCTATAATACTAAT
*
1822319 TTAAATATATTATGATTATCTATAATACTAAT
1 TTAAATATATTACGATTATCTATAATACTAAT
1822351 TTA
1 TTA
1822354 CTAACATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (32 bp):
TTAAATATATTACGATTATCTATAATACTAAT
Found at i:1829903 original size:11 final size:11
Alignment explanation
Indices: 1829889--1829913 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1829879 TAAGGACGAA
1829889 ATAATCAAATT
1 ATAATCAAATT
1829900 ATAATCAAATT
1 ATAATCAAATT
1829911 ATA
1 ATA
1829914 GGTGATCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAAATT
Found at i:1831898 original size:123 final size:123
Alignment explanation
Indices: 1831678--1831916 Score: 275
Period size: 123 Copynumber: 1.9 Consensus size: 123
1831668 AAAAATCAAT
* ** * * *
1831678 ACCTTATTTAAAAGGCATTGAACTACTTACCATTTGACTCCAGAGATGAGCAGGTCTAAGCCCAT
1 ACCTTACTTAAAAGGCATCAAACTACTTACCATTTGACCCCAAAGATGAACAGGTCTAAGCCCAT
** * *
1831743 TTCTTCGTACCGTGCACTATCTTTTTGGGGTACATTTATAATTAATTCACATGCATAA
66 TTCTTAATACCATGCACTATCTTTTTGGGGTACATTTATAATTAACTCACATGCATAA
* ** * *
1831801 ACCTTACTTATAAGGCATCAAACTACTTGTCATTTGACCCCATAAGATGAATATGTCTAAGCCCA
1 ACCTTACTTAAAAGGCATCAAACTACTTACCATTTGACCCCA-AAGATGAACAGGTCTAAGCCCA
** * *
1831866 TTTCTTAATATTATGCACTAAT-TTTTT-TGGTACATTTATACTTAACTCACA
65 TTTCTTAATACCATGCACT-ATCTTTTTGGGGTACATTTATAATTAACTCACA
1831917 CACATTGATT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
123 56 0.59
124 37 0.39
125 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (123 bp):
ACCTTACTTAAAAGGCATCAAACTACTTACCATTTGACCCCAAAGATGAACAGGTCTAAGCCCAT
TTCTTAATACCATGCACTATCTTTTTGGGGTACATTTATAATTAACTCACATGCATAA
Found at i:1832050 original size:136 final size:136
Alignment explanation
Indices: 1831805--1832053 Score: 308
Period size: 136 Copynumber: 1.8 Consensus size: 136
1831795 GCATAAACCT
* * *
1831805 TACTTATAAGGCATCAAACTACTTGTCATTTGACCCCATAAGATGAATATGTCTAAGCCCATTTC
1 TACTTAAAAGGCATCAAACCACTTGTCATTTGACCCCATAAGATGAATATGTCTAAACCCATTTC
* * *
1831870 TTAATATTATGCACTAATTTTTTTGGTACATTTATACTTAACTCACACACATTGATTTGAATTTG
66 GTAATATTATGCACTAATTTTTTTGCTACATTTATAATTAACTCACACACATTGATTTGAATTTG
1831935 AGACCA
131 AGACCA
* * *
1831941 TACTTAAAAGGCATCGAACCACTTG-CTATTTGACCTC-TAAAGATGAGTA-GATCTAAACCCAT
1 TACTTAAAAGGCATCAAACCACTTGTC-ATTTGACCCCAT-AAGATGAATATG-TCTAAACCCAT
* * * * *
1832003 TTCGTCATACTTA-GCACTATTTTTTTTTCTACATTTTTAATTGACTCACAC
63 TTCGTAATA-TTATGCACTAATTTTTTTGCTACATTTATAATTAACTCACAC
1832054 GCCTCAAATT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
135 3 0.03
136 89 0.94
137 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (136 bp):
TACTTAAAAGGCATCAAACCACTTGTCATTTGACCCCATAAGATGAATATGTCTAAACCCATTTC
GTAATATTATGCACTAATTTTTTTGCTACATTTATAATTAACTCACACACATTGATTTGAATTTG
AGACCA
Found at i:1852927 original size:21 final size:20
Alignment explanation
Indices: 1852901--1852948 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
1852891 ATATATAAAA
*
1852901 TTTTAATATTATGTTTATAT
1 TTTTAATATTATGTTTATAC
* *
1852921 TGTTTAAGATTATTTTTATAC
1 T-TTTAATATTATGTTTATAC
1852942 TTTTAAT
1 TTTTAAT
1852949 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTAATATTATGTTTATAC
Found at i:1859867 original size:15 final size:16
Alignment explanation
Indices: 1859847--1859876 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1859837 TAAAAAAGGT
1859847 GATTTGAAG-CTAATG
1 GATTTGAAGCCTAATG
1859862 GATTTGAAGCCTAAT
1 GATTTGAAGCCTAAT
1859877 CATTCATCTC
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:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (16 bp):
GATTTGAAGCCTAATG
Found at i:1868423 original size:23 final size:23
Alignment explanation
Indices: 1868396--1868441 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
1868386 TTAACTGGTG
1868396 AATTT-ATGATATAATTTATATCA
1 AATTTAAT-ATATAATTTATATCA
1868419 AATTTGACATATATAATTTATAT
1 AATTT-A-ATATATAATTTATAT
1868442 GAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
25 13 0.65
26 2 0.10
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (23 bp):
AATTTAATATATAATTTATATCA
Found at i:1876418 original size:10 final size:10
Alignment explanation
Indices: 1876403--1876427 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1876393 GTATTTCCAT
1876403 ATATATATAC
1 ATATATATAC
1876413 ATATATATAC
1 ATATATATAC
1876423 ATATA
1 ATATA
1876428 CTCAAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATATAC
Found at i:1876734 original size:21 final size:20
Alignment explanation
Indices: 1876708--1876754 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1876698 TAGCCTAACT
1876708 TATTATTATT-ATTTTGTAATA
1 TATTATTATTCATTTT-T-ATA
*
1876729 TATTATTTTTCATTTTTATA
1 TATTATTATTCATTTTTATA
1876749 TATTAT
1 TATTAT
1876755 GTAATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 10 0.42
22 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTATTATTCATTTTTATA
Found at i:1877371 original size:51 final size:51
Alignment explanation
Indices: 1877295--1877397 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
1877285 CCTCACTTCC
1877295 TATTCTGCACAATTCTATACAAAACCCCAAAACCAAGACAAAAACAATCAA
1 TATTCTGCACAATTCTATACAAAACCCCAAAACCAAGACAAAAACAATCAA
1877346 TATTCTGCACAATTCTATACAAAACCCCAAAACCAAGACAAAAACAATCAA
1 TATTCTGCACAATTCTATACAAAACCCCAAAACCAAGACAAAAACAATCAA
1877397 T
1 T
1877398 CTCAATGTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.50, C:0.27, G:0.04, T:0.18
Consensus pattern (51 bp):
TATTCTGCACAATTCTATACAAAACCCCAAAACCAAGACAAAAACAATCAA
Found at i:1880197 original size:14 final size:14
Alignment explanation
Indices: 1880178--1880211 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1880168 GGCAGCCTCC
1880178 AAGTATATATATAT
1 AAGTATATATATAT
1880192 AAGTATATATATAT
1 AAGTATATATATAT
1880206 AA-TATA
1 AAGTATA
1880212 AAGTCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
AAGTATATATATAT
Found at i:1884777 original size:38 final size:38
Alignment explanation
Indices: 1884734--1884815 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
1884724 TCCCCTCTTC
1884734 TTTATTCCCTTTATAAAC-AATGACATTTATTTAAAGAT
1 TTTATTCCCTTTATAAACTAATG-CATTTATTTAAAGAT
** * *
1884772 TTTATTCCCTTTATAAACTGCTGTATTTATTTAAGGAT
1 TTTATTCCCTTTATAAACTAATGCATTTATTTAAAGAT
1884810 TTTATT
1 TTTATT
1884816 ATAGTGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 37 0.95
39 2 0.05
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (38 bp):
TTTATTCCCTTTATAAACTAATGCATTTATTTAAAGAT
Found at i:1895799 original size:23 final size:24
Alignment explanation
Indices: 1895760--1895845 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 24
1895750 TTTTAAATTG
*
1895760 TATATATAT-TATT-TTATGTA-T
1 TATATATTTATATTATTATGTACT
*
1895781 TATATATTTATATTATTATTTACT
1 TATATATTTATATTATTATGTACT
*
1895805 TATAT-TTTAT-TATATTATATTACT
1 TATATATTTATAT-TATTAT-GTACT
* *
1895829 TCATATTTTTCTATTAT
1 T-ATATATTTATATTAT
1895846 CATATTAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
21 8 0.15
22 5 0.09
23 17 0.31
24 12 0.22
25 4 0.07
26 7 0.13
27 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (24 bp):
TATATATTTATATTATTATGTACT
Found at i:1895826 original size:5 final size:5
Alignment explanation
Indices: 1895760--1895826 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
1895750 TTTTAAATTG
*
1895760 TATA- TATAT TATTT TATGTAT TATA- TAT-T TATAT TATTAT T-TACT
1 TATAT TATAT TATAT TA--TAT TATAT TATAT TATAT TA-TAT TATA-T
*
1895805 TATAT TTTAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TA
1895827 CTTCATATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
4 12 0.24
5 29 0.57
6 6 0.12
7 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:1905734 original size:13 final size:13
Alignment explanation
Indices: 1905716--1905742 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1905706 TAATAGTTAT
1905716 CTACTTTTATGTA
1 CTACTTTTATGTA
1905729 CTACTTTTATGTA
1 CTACTTTTATGTA
1905742 C
1 C
1905743 ATCAATGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (13 bp):
CTACTTTTATGTA
Found at i:1907534 original size:18 final size:18
Alignment explanation
Indices: 1907499--1907532 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1907489 CGGATTTAAA
1907499 AATATAAATTAAAATTTT
1 AATATAAATTAAAATTTT
1907517 AATAT-AATT-AAATTTT
1 AATATAAATTAAAATTTT
1907533 TTTATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATAAATTAAAATTTT
Found at i:1910154 original size:12 final size:13
Alignment explanation
Indices: 1910131--1910194 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
1910121 TGTTTGGCAA
1910131 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
1910144 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* * *
1910157 TGATGTGGAAAAG
1 TGCTTTTGAAAAG
* *
1910170 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
1910183 TACTTTTGAAAA
1 TGCTTTTGAAAA
1910195 TTTTAGGTGT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:1911764 original size:29 final size:29
Alignment explanation
Indices: 1911732--1911797 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
1911722 TTAGATTTAT
* *
1911732 TTAATTTTTTTAATAATATAAAA-ATTAAA
1 TTAATTTATTTAATAATA-AAAATAATAAA
* *
1911761 TTAATCTATTTAATAATAAAAATAATAAT
1 TTAATTTATTTAATAATAAAAATAATAAA
1911790 TTAATTTA
1 TTAATTTA
1911798 ATTCTTCTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAATTTATTTAATAATAAAAATAATAAA
Found at i:1912522 original size:20 final size:20
Alignment explanation
Indices: 1912493--1912531 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1912483 CTTTTGTGTG
*
1912493 TTATTGTTCAATACAAATTA
1 TTATTATTCAATACAAATTA
1912513 TTATTATTCAATACAAATT
1 TTATTATTCAATACAAATT
1912532 TGATCACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATTATTCAATACAAATTA
Found at i:1912816 original size:55 final size:55
Alignment explanation
Indices: 1912727--1913101 Score: 401
Period size: 55 Copynumber: 6.7 Consensus size: 55
1912717 TGATTTTGGA
* * * * * * *
1912727 TTGAATCGATTATTTTTATGTTTAAATCGATTGTCATGCTAGAATATTGCTTCGT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTT
* * *
1912782 TTGAGTCGATTGTTTATATGTTTAAATTGATTGTCT-TGTTAGAATACTGCTTCTT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGT-TATGTTGGAATACTGCTTCTT
* * * *
1912837 TTAAATCGATTGTTTATATGTTTAAATCAATTGTTATGGTGGAATATTGCTTCTTTTTCTT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATA---CTGC---TTCTT
* * * *
1912898 TTGAATAGATTATTTATATGTTTAAATCGATTGTTATGTTGGAATATTGTTTCTT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTT
* * * *
1912953 TTGAATCGATTGTTTATATATTTAAGTCAATTGTTATGTTGGAATACTACTTCTT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTT
* * * * * *
1913008 TTAAATTGATTGTTTATATGTTCAAATTGATTGTTATATTGGAATGCTGCTTCTT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTT
* **
1913063 TTGAATCGGTTGTTTATATGTTTAAATAAATTGTTATGT
1 TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGT
1913102 AGCATGTCTA
Statistics
Matches: 264, Mismatches: 48, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
54 1 0.00
55 213 0.81
58 4 0.02
61 46 0.17
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (55 bp):
TTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTT
Found at i:1913021 original size:171 final size:171
Alignment explanation
Indices: 1912727--1913064 Score: 462
Period size: 171 Copynumber: 2.0 Consensus size: 171
1912717 TGATTTTGGA
* * *
1912727 TTGAATCGATTATTTTTATGTTTAAATCGATTGTCATGCTAGAATATTGCTTCGTTTGAGTCGAT
1 TTGAATAGATTATTTATATGTTTAAATCGATTGTCATGCTAGAATATTGCTTCGTTTGAATCGAT
* ** *
1912792 TGTTTATATGTTTAAATTGATTGTCTTGTTAGAATACTGCTTCTTTTAAATCGATTGTTTATATG
66 TGTTTATATATTTAAATCAATTGTCTTGTTAGAATACTACTTCTTTTAAATCGATTGTTTATATG
* * *
1912857 TTTAAATCAATTGTTATGGTGGAATATTGCTTCTTTTTCTT
131 TTCAAATCAATTGTTATAGTGGAATACTGCTTCTTTTTCTT
* * * * *
1912898 TTGAATAGATTATTTATATGTTTAAATCGATTGTTATGTTGGAATATTGTTTCTTTTGAATCGAT
1 TTGAATAGATTATTTATATGTTTAAATCGATTGTCATGCTAGAATATTGCTTCGTTTGAATCGAT
* * *
1912963 TGTTTATATATTTAAGTCAATTGT-TATGTTGGAATACTACTTCTTTTAAATTGATTGTTTATAT
66 TGTTTATATATTTAAATCAATTGTCT-TGTTAGAATACTACTTCTTTTAAATCGATTGTTTATAT
** * *
1913027 GTTCAAATTGATTGTTATATTGGAATGCTGCTTCTTTT
130 GTTCAAATCAATTGTTATAGTGGAATACTGCTTCTTTT
1913065 GAATCGGTTG
Statistics
Matches: 144, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
170 1 0.01
171 143 0.99
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (171 bp):
TTGAATAGATTATTTATATGTTTAAATCGATTGTCATGCTAGAATATTGCTTCGTTTGAATCGAT
TGTTTATATATTTAAATCAATTGTCTTGTTAGAATACTACTTCTTTTAAATCGATTGTTTATATG
TTCAAATCAATTGTTATAGTGGAATACTGCTTCTTTTTCTT
Found at i:1913914 original size:16 final size:16
Alignment explanation
Indices: 1913895--1913932 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1913885 ATCATTTTAT
1913895 TTTTCTATCCTTT-CAA
1 TTTTCTAT-CTTTGCAA
*
1913911 TTTTTTATCTTTGCAA
1 TTTTCTATCTTTGCAA
1913927 TTTTCT
1 TTTTCT
1913933 TTTCACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.16, C:0.18, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTCTATCTTTGCAA
Found at i:1920705 original size:22 final size:22
Alignment explanation
Indices: 1920680--1920721 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1920670 TTTTTAATTT
* *
1920680 TTTTTACATTTTTGGGTTTGGC
1 TTTTGACATTTTTGGATTTGGC
*
1920702 TTTTGACTTTTTTGGATTTG
1 TTTTGACATTTTTGGATTTG
1920722 AGCCTATTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.21, T:0.62
Consensus pattern (22 bp):
TTTTGACATTTTTGGATTTGGC
Found at i:1921028 original size:17 final size:19
Alignment explanation
Indices: 1921006--1921048 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1920996 TCTAAATGGG
*
1921006 ATTAAAATAAA-TT-CTTA
1 ATTAAAATAAATTTAATTA
1921023 ATTAAAA-AAATTTAATTA
1 ATTAAAATAAATTTAATTA
1921041 ATTAAAAT
1 ATTAAAAT
1921049 TTTCAAACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAAATAAATTTAATTA
Found at i:1921258 original size:16 final size:17
Alignment explanation
Indices: 1921237--1921269 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1921227 AGGTTTAGGT
1921237 TTAAAA-TTTTAATTAA
1 TTAAAATTTTTAATTAA
1921253 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
1921270 AAATCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:1922993 original size:153 final size:153
Alignment explanation
Indices: 1922612--1923096 Score: 394
Period size: 153 Copynumber: 3.1 Consensus size: 153
1922602 GAGAGAAACG
** * ** *
1922612 GTTCCTATTCATGCTCGTTCTCGCAAGATAGAAGTGTCGTTGGGATCGGATCTTA-CCTATAA-T
1 GTTCCTATTCACACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCCTATCC-ATAATT
** * * * * *
1922675 CTGGAAAAAGAAATGG-TTCCTATTCACACTCATTCTCACAAGATAGAAGTGTCGTCAGGACTGG
65 CT-CCAAGAGAAA-GGATTCCTATGCACACTCGTTCTCGCAAGATAGAAGTGCCGT-A-GACTGG
*
1922739 ATACTATCCATAATCCGTTGAAAAAATA
126 ATACTATCCATAATCCGTTCAAAAAATA
* * * * * * * * *
1922767 GTTCCTATTCACACTTGTTCTTGTAAGATAGAAGTGCCATCAAGAGT-GAATCCAATCCGTAATC
1 GTTCCTATTCACACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGA-TCGGATCCTATCCATAATT
* * * * * *
1922831 CTTCGAGAGAAAGGATTCCTATGCACACTTGTTCTCGCAAGTTAGATGTGCCGT-GACTGGATTC
65 CTCCAAGAGAAAGGATTCCTATGCACACTCGTTCTCGCAAGATAGAAGTGCCGTAGACTGGATAC
*
1922895 TATCCATGATCC-TTCAAAAGAA-A
130 TATCCATAATCCGTTCAAAA-AATA
* *
1922918 GGTTTCTTATTCACACTCGTTCTCGCAAGATAGAAATGCCGTCAGGATCGGATCCTATCCATAAT
1 -G-TTCCTATTCACACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCCTATCCATAAT
* * * * * *
1922983 TCTCCAAGAGAAACGATTCCTAAGCACACTCGTTCTCGCAAAATAAAAGTGCCTTTAGGACTGAA
64 TCTCCAAGAGAAAGGATTCCTATGCACACTCGTTCTCGCAAGATAGAAGTGCC-GTA-GACTGGA
* * *
1923048 TCCTATTCATAATTCG-TCAAGAAAAATTA
127 TACTATCCATAATCCGTTC-A-AAAAA-TA
* *
1923077 -TTCCTATTTACACTTGTTCT
1 GTTCCTATTCACACTCGTTCT
1923097 TTTAAGATCA
Statistics
Matches: 256, Mismatches: 58, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
151 7 0.03
152 24 0.09
153 93 0.36
154 3 0.01
155 81 0.32
156 41 0.16
157 3 0.01
158 3 0.01
159 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (153 bp):
GTTCCTATTCACACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGATCGGATCCTATCCATAATTC
TCCAAGAGAAAGGATTCCTATGCACACTCGTTCTCGCAAGATAGAAGTGCCGTAGACTGGATACT
ATCCATAATCCGTTCAAAAAATA
Found at i:1923011 original size:78 final size:78
Alignment explanation
Indices: 1922545--1923137 Score: 368
Period size: 78 Copynumber: 7.6 Consensus size: 78
1922535 TCTTATTTAT
* * * * * ** * ** *
1922545 ACTCATTCTCGTAAGATAGAAGTGCCATCGGGATTTTATCCTATCCATAATCTTTTTGAGAGAAA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACTGGATCCTATCCATAATC-CTTCAAAAGAAA
*
1922610 CGG-TTCCTATTCAT
65 -GGATTCCTATTCAC
* * ** * **
1922624 GCTCGTTCTCGCAAGATAGAAGTGTCGTTGGGA-TCGGATCTTA-CCTATAAT-CTGGAAAAAGA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACT-GGATCCTATCC-ATAATCCT-TCAAAAGA
1922686 AATGG-TTCCTATTCAC
63 AA-GGATTCCTATTCAC
* * * * *
1922702 ACTCATTCTCACAAGATAGAAGTGTCGTCAGGACTGGATACTATCCATAATCCGTTGAAAA-AAT
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACTGGATCCTATCCATAATCC-TTCAAAAGAA-
1922766 A-G-TTCCTATTCAC
64 AGGATTCCTATTCAC
* * * * * * * * * * *
1922779 ACTTGTTCTTGTAAGATAGAAGTGCCATCAAGAGTGAATCCAATCCGTAATCCTTCGAGAGAAAG
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACTGGATCCTATCCATAATCCTTCAAAAGAAAG
*
1922844 GATTCCTATGCAC
66 GATTCCTATTCAC
* * * * *
1922857 ACTTGTTCTCGCAAGTTAGATGTGCCGT---GACTGGATTCTATCCATGATCCTTCAAAAGAAAG
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACTGGATCCTATCCATAATCCTTCAAAAGAAAG
* *
1922919 GTTTCTTATTCAC
66 GATTCCTATTCAC
* * * *
1922932 ACTCGTTCTCGCAAGATAGAAATGCCGTCAGGA-TCGGATCCTATCCATAATTCTCCAAGAGAAA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACT-GGATCCTATCCATAATCCTTCAAAAGAAA
* **
1922996 CGATTCCTAAGCAC
65 GGATTCCTATTCAC
* * * * * * * *
1923010 ACTCGTTCTCGCAAAATAAAAGTGCCTTTAGGACTGAATCCTATTCATAATTCGTCAAGAA-AAA
1 ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACTGGATCCTATCCATAATCCTTCAA-AAGAAA
** *
1923074 TTATTCCTATTTAC
65 GGATTCCTATTCAC
* *** * * * *
1923088 ACTTGTTCTTTTAAGATCA-AAGTACCATCAAGACTGAATCCTATCCATAA
1 ACTCGTTCTCGCAAGAT-AGAAGTGCCGTCAGGACTGGATCCTATCCATAA
1923138 CCGGCTGAAT
Statistics
Matches: 399, Mismatches: 97, Indels: 37
0.75 0.18 0.07
Matches are distributed among these distances:
75 60 0.15
76 5 0.01
77 57 0.14
78 227 0.57
79 49 0.12
80 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (78 bp):
ACTCGTTCTCGCAAGATAGAAGTGCCGTCAGGACTGGATCCTATCCATAATCCTTCAAAAGAAAG
GATTCCTATTCAC
Found at i:1926149 original size:32 final size:32
Alignment explanation
Indices: 1926113--1926175 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1926103 AATTTGACTT
*
1926113 TTTTTTAAAAGATTAATG-GTTAAATTTAATTC
1 TTTTTTAAAAGATTAA-GAATTAAATTTAATTC
*
1926145 TTTTTTAAAAGATTGAGAATTAAATTTAATT
1 TTTTTTAAAAGATTAAGAATTAAATTTAATT
1926176 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.49
Consensus pattern (32 bp):
TTTTTTAAAAGATTAAGAATTAAATTTAATTC
Found at i:1941774 original size:28 final size:27
Alignment explanation
Indices: 1941738--1941790 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
1941728 GATATACATA
1941738 AATAATAATATTCTTAA-T-GATAAAATC
1 AATAATAAT-TT-TTAATTAGATAAAATC
1941765 AATAATTAATTTTTAATTAGATAAAA
1 AATAA-TAATTTTTAATTAGATAAAA
1941791 ATTATATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 4 0.17
27 8 0.35
28 11 0.48
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (27 bp):
AATAATAATTTTTAATTAGATAAAATC
Found at i:1944393 original size:20 final size:22
Alignment explanation
Indices: 1944354--1944399 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
1944344 ACTCTGTCAA
*
1944354 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
1944375 ACTCCACCTG-TGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
1944396 ACTC
1 ACTC
1944400 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:1946623 original size:21 final size:22
Alignment explanation
Indices: 1946597--1946643 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
1946587 CTCTGCTCAA
*
1946597 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
1946618 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
1946640 ACTC
1 ACTC
1946644 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:1948865 original size:21 final size:22
Alignment explanation
Indices: 1948839--1948885 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
1948829 CTCTGCTCAA
*
1948839 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
1948860 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
1948882 ACTC
1 ACTC
1948886 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:1953101 original size:69 final size:67
Alignment explanation
Indices: 1953019--1953146 Score: 175
Period size: 69 Copynumber: 1.9 Consensus size: 67
1953009 TCCAAATAAG
** *
1953019 AAAAGGCAAAACTACGTCATTTTGATAAATGTTTACCTTTTTAAAGTTAAAAGTCAAAACCATTA
1 AAAAGGCAAAACTACGTCATTTTGATAAATGTTTA-CTAATT-AAGTTAAAAGGCAAAACCATTA
1953084 AGTT
64 AGTT
* * **
1953088 AAAAGGTAAAACTATGTTGTTTTGATAAATGTTTACTAATTAAGTTAAAAGGCAAAACC
1 AAAAGGCAAAACTACGTCATTTTGATAAATGTTTACTAATTAAGTTAAAAGGCAAAACC
1953147 CTTATATTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
67 17 0.33
68 4 0.08
69 31 0.60
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (67 bp):
AAAAGGCAAAACTACGTCATTTTGATAAATGTTTACTAATTAAGTTAAAAGGCAAAACCATTAAG
TT
Found at i:1956020 original size:19 final size:18
Alignment explanation
Indices: 1955992--1956027 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1955982 TTTATCATCA
*
1955992 ATCAAGTTGAATTAAATTC
1 ATCAAATTGAA-TAAATTC
1956011 ATCAAATTGAATAAATT
1 ATCAAATTGAATAAATT
1956028 GAGTTCGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (18 bp):
ATCAAATTGAATAAATTC
Found at i:1958483 original size:77 final size:77
Alignment explanation
Indices: 1958337--1958485 Score: 244
Period size: 77 Copynumber: 1.9 Consensus size: 77
1958327 AAAGAACTCG
** *
1958337 ACACCAAAAAATCAATTAATCTGATTGAGTATTAAATCAGCGATTTTTTTATTGTTATAATAACA
1 ACACCAAAAAATCAATTAATCCAATTGAGTATTAAATCAGCGACTTTTTTATTGTTATAATAACA
1958402 AAAAAAAGTCTA
66 AAAAAAAGTCTA
* *
1958414 ACACCAAAAAATTAATTAATCCAATTGAGTATTAATTCAGGCGACTTTTTTATTGTTATAATAAC
1 ACACCAAAAAATCAATTAATCCAATTGAGTATTAAATCA-GCGACTTTTTTATTGTTATAATAAC
1958479 AAAAAAA
65 AAAAAAA
1958486 TATGACTTAG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 35 0.53
78 31 0.47
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (77 bp):
ACACCAAAAAATCAATTAATCCAATTGAGTATTAAATCAGCGACTTTTTTATTGTTATAATAACA
AAAAAAAGTCTA
Found at i:1960895 original size:130 final size:133
Alignment explanation
Indices: 1960565--1960899 Score: 466
Period size: 130 Copynumber: 2.6 Consensus size: 133
1960555 AAACCGAATT
* * * *** * *
1960565 AACCCAGCACAGTAGGGCATGATTCCTCGAATTTTTAAACATTGAGCATTGCCTT-ATTTT--AG
1 AACCCAGCACAATAGGGCACGATTCCCCGAATTCCCAAACATCGAACATTGCCTTCATTTTAAAG
* ** * *
1960627 GATTTAGAAGACATGAGTGAAATATTTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAGAT
66 AATTTTTAAAACATGAGTGAAATATTTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
1960692 TGC
131 TGC
* * *
1960695 AACCCAGCACGATAGGGCACGATTCCCCGAATTCCCAAACATCGAACATTACTTTCATTTTAAAG
1 AACCCAGCACAATAGGGCACGATTCCCCGAATTCCCAAACATCGAACATTGCCTTCATTTTAAAG
*
1960760 AATTTTTAAAACATGAGTG-AA-A-TTCTAAAGGAATATTTGATTATTTTGAACAAACGGGAAAT
66 AATTTTTAAAACATGAGTGAAATATTTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
1960822 TGC
131 TGC
*
1960825 AACCCAGCACAATAGGGCACGATTCCCCGAATTCCCAAACATCGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACAATAGGGCACGATTCCCCGAATTCCCAAACATCGAACATTGCCTTCATTTTAAAG
1960890 AATTTTTAAA
66 AATTTTTAAA
1960900 TGAATAATCA
Statistics
Matches: 181, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
130 156 0.86
131 6 0.03
132 2 0.01
133 17 0.09
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (133 bp):
AACCCAGCACAATAGGGCACGATTCCCCGAATTCCCAAACATCGAACATTGCCTTCATTTTAAAG
AATTTTTAAAACATGAGTGAAATATTTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
TGC
Found at i:1969143 original size:16 final size:16
Alignment explanation
Indices: 1969124--1969234 Score: 80
Period size: 17 Copynumber: 6.3 Consensus size: 16
1969114 TTTTTTTAAG
1969124 ACACGAGAA-TTTTGAA
1 ACACGA-AATTTTTGAA
*
1969140 ACACGAAATTTTTTTTAA
1 ACACGAAA--TTTTTGAA
1969158 ACACGGAAATTTTTGAA
1 ACAC-GAAATTTTTGAA
1969175 ACACGAAATTTTTTTGAAA
1 ACACGAAA--TTTTTG-AA
* **
1969194 ATACGAAGATTTTTTTTTA
1 ACACGAA-A--TTTTTGAA
1969213 ACACGGAAATTTTTGAA
1 ACAC-GAAATTTTTGAA
1969230 ACACG
1 ACACG
1969235 GTCATTTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
15 2 0.03
16 11 0.14
17 21 0.27
18 16 0.21
19 17 0.22
20 11 0.14
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (16 bp):
ACACGAAATTTTTGAA
Found at i:1969155 original size:19 final size:19
Alignment explanation
Indices: 1969133--1969264 Score: 93
Period size: 19 Copynumber: 7.1 Consensus size: 19
1969123 GACACGAGAA
1969133 TTTTGAAACACGAAATTTT
1 TTTTGAAACACGAAATTTT
1969152 TTTT-AAACACGGAAA---T
1 TTTTGAAACAC-GAAATTTT
1969168 TTTTGAAACACGAAA-TTT
1 TTTTGAAACACGAAATTTT
*
1969186 TTTTGAAAATACGAAGATTTT
1 TTTTG-AAACACGAA-ATTTT
*
1969207 TTTT-TAACACGGAAA---T
1 TTTTGAAACAC-GAAATTTT
* *
1969223 TTTTGAAACACGGTCATTTTT
1 TTTTGAAACAC-G-AAATTTT
*
1969244 TTTTAAAACACGAAAATTTT
1 TTTTGAAACACG-AAATTTT
1969264 T
1 T
1969265 GAAAGACATG
Statistics
Matches: 90, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
16 14 0.16
17 13 0.14
18 13 0.14
19 21 0.23
20 11 0.12
21 18 0.20
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
TTTTGAAACACGAAATTTT
Found at i:1969172 original size:35 final size:35
Alignment explanation
Indices: 1969114--1969189 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
1969104 ATATGAAAAC
1969114 TTTTTTTAAGACACGAGAATTTTGAAACACGAAAT
1 TTTTTTTAAGACACGAGAATTTTGAAACACGAAAT
1969149 TTTTTTTAA-ACACG-GAAATTTTTGAAACACGAAAT
1 TTTTTTTAAGACACGAG-AA-TTTTGAAACACGAAAT
1969184 TTTTTT
1 TTTTTT
1969190 GAAAATACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.03
34 7 0.18
35 31 0.79
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (35 bp):
TTTTTTTAAGACACGAGAATTTTGAAACACGAAAT
Found at i:1969264 original size:55 final size:54
Alignment explanation
Indices: 1969133--1969264 Score: 174
Period size: 55 Copynumber: 2.4 Consensus size: 54
1969123 GACACGAGAA
*
1969133 TTTTGAAACACGAAATTTTTTTTAAACACGGAAATTTTTGAAACACGAAATTTT
1 TTTTAAAACACGAAATTTTTTTTAAACACGGAAATTTTTGAAACACGAAATTTT
* * * * *
1969187 TTTGAAAATACGAAGATTTTTTTTTAACACGGAAATTTTTGAAACACGGTCATTTTT
1 TTTTAAAACACGAA-ATTTTTTTTAAACACGGAAATTTTTGAAACAC-G-AAATTTT
*
1969244 TTTTAAAACACGAAAATTTTT
1 TTTTAAAACACGAAATTTTTT
1969265 GAAAGACATG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 11 0.17
55 31 0.47
56 7 0.11
57 17 0.26
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (54 bp):
TTTTAAAACACGAAATTTTTTTTAAACACGGAAATTTTTGAAACACGAAATTTT
Found at i:1969281 original size:38 final size:37
Alignment explanation
Indices: 1969167--1969345 Score: 137
Period size: 38 Copynumber: 4.8 Consensus size: 37
1969157 AACACGGAAA
* * * *
1969167 TTTTTGAAACACGAAATTTTTTTGAAAATACGAAGATTT
1 TTTTTTAAACACGAAA-ATTTTTG-AAACACGATGATTT
* * *
1969206 TTTTTT-AACACGGAAATTTTTGAAACACGGTCATTT
1 TTTTTTAAACACGAAAATTTTTGAAACACGATGATTT
*
1969242 TTTTTTAAAACACGAAAATTTTTGAAAGAC-ATGATTT
1 TTTTTT-AAACACGAAAATTTTTGAAACACGATGATTT
** * * * * **
1969279 TTTTGAAAATACGGAAATTTATAAAACACGAAAATTT
1 TTTTTTAAACACGAAAATTTTTGAAACACGATGATTT
** *
1969316 TTTCTGAAAACAAGAAAATTTTTGAAACAC
1 TTT-TTTAAACACGAAAATTTTTGAAACAC
1969346 TAGAATTTTG
Statistics
Matches: 111, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
36 34 0.31
37 23 0.21
38 49 0.44
39 5 0.05
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (37 bp):
TTTTTTAAACACGAAAATTTTTGAAACACGATGATTT
Found at i:1969353 original size:38 final size:36
Alignment explanation
Indices: 1969133--1969354 Score: 132
Period size: 38 Copynumber: 6.0 Consensus size: 36
1969123 GACACGAGAA
* * * *
1969133 TTTTG-AAACACGAAATTTTTTTTAAACACGGAA-AT
1 TTTTGAAAACACGAAA-ATTTTTGAAACACAGAATTT
* *
1969168 TTTTG-AAACACGAAATTTTTTTGAAA-ATACGAAGATTT
1 TTTTGAAAACACGAAA-ATTTTTGAAACACA-G-A-ATTT
** * * *
1969206 TTTT-TTAACACGGAAATTTTTGAAACACGGTCATTTT
1 TTTTGAAAACACGAAAATTTTTGAAACACAG--AATTT
* *
1969243 TTTTTAAAACACGAAAATTTTTGAAAGACATG-ATTT
1 TTTTGAAAACACGAAAATTTTTGAAACACA-GAATTT
* * * * *
1969279 TTTTGAAAATACGGAAATTTATAAAACACGAAAATTT
1 TTTTGAAAACACGAAAATTTTTGAAACAC-AGAATTT
*
1969316 TTTCTGAAAACAAGAAAATTTTTGAAACACTAGAATTT
1 TTT-TGAAAACACGAAAATTTTTGAAACAC-AGAATTT
1969354 T
1 T
1969355 GAAACACGAT
Statistics
Matches: 144, Mismatches: 31, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
34 1 0.01
35 26 0.18
36 27 0.19
37 26 0.18
38 63 0.44
39 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.38
Consensus pattern (36 bp):
TTTTGAAAACACGAAAATTTTTGAAACACAGAATTT
Found at i:1969960 original size:10 final size:11
Alignment explanation
Indices: 1969935--1969961 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1969925 TGTTTTTATT
1969935 TTTTTAATTAC
1 TTTTTAATTAC
1969946 TTTTTAATTAC
1 TTTTTAATTAC
1969957 TTTTT
1 TTTTT
1969962 TCTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:1969971 original size:10 final size:10
Alignment explanation
Indices: 1969958--1970011 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
1969948 TTTAATTACT
1969958 TTTTTCTTTC
1 TTTTTCTTTC
1969968 TTTTTCTTTC
1 TTTTTCTTTC
1969978 TCTTTT-TTTC
1 T-TTTTCTTTC
*
1969988 TTTCTTTTTTC
1 TTT-TTCTTTC
*
1969999 TTCTTCTCTTC
1 TTTTTCT-TTC
1970010 TT
1 TT
1970012 CTTGTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 21 0.55
11 15 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:1969985 original size:14 final size:14
Alignment explanation
Indices: 1969968--1970008 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
1969958 TTTTTCTTTC
1969968 TTTTTCTTTCTCTT
1 TTTTTCTTTCTCTT
1969982 TTTTTCTTTCT-TT
1 TTTTTCTTTCTCTT
1969995 TTTCTTC-TTCTCTT
1 TTT-TTCTTTCTCTT
1970009 CTTCTTGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTCTCTT
Done.