Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_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: 3674400
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 15
Found at i:433969 original size:35 final size:35
Alignment explanation
Indices: 433898--434007 Score: 141
Period size: 35 Copynumber: 3.1 Consensus size: 35
433888 ATAAGATACT
*
433898 ACCTA-AACATCACCATCTTTCATCACCATTTTCAC
1 ACCTATAACATCACCATCTTCCATCACCA-TTTCAC
* *
433933 ACCTATAACATCACCATCTTCCATTACCATTGCAC
1 ACCTATAACATCACCATCTTCCATCACCATTTCAC
* * *
433968 ACCTATATCATTACCATCTTCTATCACCATTTCAC
1 ACCTATAACATCACCATCTTCCATCACCATTTCAC
*
434003 GCCTA
1 ACCTA
434008 AATAACCACC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
35 44 0.68
36 21 0.32
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.32
Consensus pattern (35 bp):
ACCTATAACATCACCATCTTCCATCACCATTTCAC
Found at i:434915 original size:15 final size:15
Alignment explanation
Indices: 434895--434926 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
434885 TTGATAACAT
434895 TTCTTTCCATTTCAA
1 TTCTTTCCATTTCAA
434910 TTCTTTCCATTTCAA
1 TTCTTTCCATTTCAA
434925 TT
1 TT
434927 TCCTTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (15 bp):
TTCTTTCCATTTCAA
Found at i:435164 original size:20 final size:21
Alignment explanation
Indices: 435126--435169 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
435116 GTGCTGCAAC
*
435126 AAAAGAGAAAAAGAAAGAATA
1 AAAAGAGAAAAAGAAAGAAGA
435147 AAAAG-GAAAAA-AATAGAAGA
1 AAAAGAGAAAAAGAA-AGAAGA
435167 AAA
1 AAA
435170 GGCTCCTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 14 0.67
21 5 0.24
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (21 bp):
AAAAGAGAAAAAGAAAGAAGA
Found at i:435430 original size:18 final size:19
Alignment explanation
Indices: 435386--435452 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 19
435376 TTTTTCTTAC
*
435386 TATTTCATTTCATATTTCT
1 TATTTCATTTCATCTTTCT
*
435405 T-TCATC-TTTCATCTTTCT
1 TAT-TTCATTTCATCTTTCT
*
435423 TATTTC-TTTCATCTTTTAT
1 TATTTCATTTCATC-TTTCT
435442 TATTTCATTTC
1 TATTTCATTTC
435453 CTTATCCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 22 0.55
19 14 0.35
20 4 0.10
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTCATTTCATCTTTCT
Found at i:437426 original size:19 final size:20
Alignment explanation
Indices: 437402--437441 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
437392 TATCCTTTCT
437402 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
437421 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
437441 T
1 T
437442 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:438746 original size:15 final size:16
Alignment explanation
Indices: 438726--438756 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
438716 AGAATATGAA
438726 ATAAGAAAA-GAAATG
1 ATAAGAAAAGGAAATG
438741 ATAAGAAAAGGAAATG
1 ATAAGAAAAGGAAATG
438757 GATAGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.13
Consensus pattern (16 bp):
ATAAGAAAAGGAAATG
Found at i:442554 original size:17 final size:17
Alignment explanation
Indices: 442532--442566 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
442522 CAGCTTAAAA
442532 AAATGGATAGGGTATAG
1 AAATGGATAGGGTATAG
* *
442549 AAATGGTTATGGTATAG
1 AAATGGATAGGGTATAG
442566 A
1 A
442567 GGTGGGATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (17 bp):
AAATGGATAGGGTATAG
Found at i:446504 original size:35 final size:35
Alignment explanation
Indices: 446438--446527 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
446428 ACTACATAAA
*
446438 AATCACCATTTTCACGCCTATAACATCACCATCTTC
1 AATCACCA-TTGCACGCCTATAACATCACCATCTTC
* * *
446474 AATTACCATTGCACGCCTATATCATTACCATCTTC
1 AATCACCATTGCACGCCTATAACATCACCATCTTC
* *
446509 TATCACCATTTCACGCCTA
1 AATCACCATTGCACGCCTA
446528 AATAACCATC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 40 0.85
36 7 0.15
ACGTcount: A:0.29, C:0.34, G:0.04, T:0.32
Consensus pattern (35 bp):
AATCACCATTGCACGCCTATAACATCACCATCTTC
Found at i:450470 original size:13 final size:13
Alignment explanation
Indices: 450452--450509 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
450442 ACTACCTAAA
450452 CATCACCATCTTC
1 CATCACCATCTTC
*
450465 CATCACCAT-TTT
1 CATCACCATCTTC
* **
450477 CA-CACC-TATAA
1 CATCACCATCTTC
450488 CATCACCATCTTC
1 CATCACCATCTTC
*
450501 CATTACCAT
1 CATCACCAT
450510 TGCACGCCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 1 0.03
11 7 0.20
12 8 0.23
13 19 0.54
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (13 bp):
CATCACCATCTTC
Found at i:450531 original size:35 final size:35
Alignment explanation
Indices: 450446--450554 Score: 139
Period size: 35 Copynumber: 3.1 Consensus size: 35
450436 TAAGATACTA
*
450446 CCTA-AACATCACCATCTTCCATCACCATTTTCACA
1 CCTATAACATCACCATCTTCCATCACCA-TTTCACG
* *
450481 CCTATAACATCACCATCTTCCATTACCATTGCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
* * * *
450516 CCTATATCATTACCATCATCTATCACCATTTCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
450551 CCTA
1 CCTA
450555 AATAACCACT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 42 0.66
36 22 0.34
ACGTcount: A:0.29, C:0.38, G:0.03, T:0.30
Consensus pattern (35 bp):
CCTATAACATCACCATCTTCCATCACCATTTCACG
Found at i:451267 original size:6 final size:6
Alignment explanation
Indices: 451256--451296 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
451246 TGTAGGAGTA
*
451256 TTTTCT TTTTCT TTTTGT TTTTCT TCTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTT
451297 GTTGCTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:451287 original size:19 final size:18
Alignment explanation
Indices: 451256--451296 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
451246 TGTAGGAGTA
*
451256 TTTTCTTTTTCTTTTTGT
1 TTTTCTTTTTCTTTTTCT
451274 TTTTCTTCTTTCTTTTTCT
1 TTTTCTT-TTTCTTTTTCT
451293 TTTT
1 TTTT
451297 GTTGCTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTCT
Found at i:451716 original size:35 final size:35
Alignment explanation
Indices: 451684--451797 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
451674 TGATTGGTAG
* *
451684 TTATATAGGCATGAAATGGTGATAGAAGTTGGTGA
1 TTATATAGGCATGAAATGGTGATGGAAGATGGTGA
* *
451719 TGATATAGGCATGCAATGGTGATGGAAGATGGTGA
1 TTATATAGGCATGAAATGGTGATGGAAGATGGTGA
451754 TGT-TATAGGC-TGAAAATGGTGATGGAAGATGGTGA
1 T-TATATAGGCATG-AAATGGTGATGGAAGATGGTGA
451789 TGT-TATAGG
1 T-TATATAGG
451798 TAGTATCTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 2 0.03
35 69 0.97
ACGTcount: A:0.32, C:0.04, G:0.35, T:0.30
Consensus pattern (35 bp):
TTATATAGGCATGAAATGGTGATGGAAGATGGTGA
Found at i:452909 original size:48 final size:48
Alignment explanation
Indices: 452838--452934 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
452828 ATTAGCTCCA
452838 ATGATGTGGCTGAACATGTACCTAGAAAAAGAAAGCATATAATAAGCT
1 ATGATGTGGCTGAACATGTACCTAGAAAAAGAAAGCATATAATAAGCT
452886 ATGATGTGGCTGAACATGTACCTAGAAAAAGAAAGCATATAATAAGCT
1 ATGATGTGGCTGAACATGTACCTAGAAAAAGAAAGCATATAATAAGCT
452934 A
1 A
452935 AATAATATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (48 bp):
ATGATGTGGCTGAACATGTACCTAGAAAAAGAAAGCATATAATAAGCT
Found at i:455408 original size:20 final size:21
Alignment explanation
Indices: 455356--455408 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
455346 AGCTAGCTGA
**
455356 ATTCAGCTCACCTT-AGCTCC
1 ATTCAGCTCAATTTCAGCTCC
* *
455376 GTTCAGCTTAATTTCAGCTCC
1 ATTCAGCTCAATTTCAGCTCC
455397 ATT-AGCTCAATT
1 ATTCAGCTCAATT
455409 CAAGCTAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (21 bp):
ATTCAGCTCAATTTCAGCTCC
Found at i:469133 original size:17 final size:15
Alignment explanation
Indices: 469072--469137 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
469062 AAAAATAAAG
469072 AAAGAAATGATTA-AA
1 AAAGAAATGA-TAGAA
* *
469087 ATAGAATATGAAAGAATA
1 AAAGAA-ATGATAG-A-A
469105 AAAGAAATGATAAGAA
1 AAAGAAATGAT-AGAA
469121 AAAGAAATGGATAGAA
1 AAAGAAAT-GATAGAA
469137 A
1 A
469138 TGTTATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.15
16 18 0.44
17 9 0.22
18 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.17
Consensus pattern (15 bp):
AAAGAAATGATAGAA
Found at i:469137 original size:16 final size:16
Alignment explanation
Indices: 469072--469129 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
469062 AAAAATAAAG
*
469072 AAAGAAATGATTA-AA
1 AAAGAAATGATAAGAA
*
469087 ATAGAATATGA-AAGAATA
1 AAAGAA-ATGATAAG-A-A
469105 AAAGAAATGATAAGAA
1 AAAGAAATGATAAGAA
469121 AAAGAAATG
1 AAAGAAATG
469130 GATAGAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
15 6 0.17
16 14 0.40
17 6 0.17
18 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAGAAATGATAAGAA
Found at i:475669 original size:23 final size:25
Alignment explanation
Indices: 475630--475683 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 25
475620 TCTTTTTCTT
475630 TTTCTTCCTTTTTGAGTGCTTTCAA
1 TTTCTTCCTTTTTGAGTGCTTTCAA
*
475655 TTTCTT-C-TTTTGAGTGCTTTGAA
1 TTTCTTCCTTTTTGAGTGCTTTCAA
475678 TTTCTT
1 TTTCTT
475684 TACTGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 21 0.75
24 1 0.04
25 6 0.21
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.59
Consensus pattern (25 bp):
TTTCTTCCTTTTTGAGTGCTTTCAA
Found at i:480071 original size:11 final size:11
Alignment explanation
Indices: 480055--480079 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
480045 TTTATTTGAC
480055 TTTGCACTTCA
1 TTTGCACTTCA
480066 TTTGCACTTCA
1 TTTGCACTTCA
480077 TTT
1 TTT
480080 TGTATTTTTG
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:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (11 bp):
TTTGCACTTCA
Found at i:492999 original size:23 final size:24
Alignment explanation
Indices: 492962--493014 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
492952 TCTTTTTATT
*
492962 TTTCTTCCTTTTGAGTGCTTTTAA
1 TTTCTTCCTTTTGAGTGCTTTGAA
492986 TTTCTT-CTTTTGAGTGCTTTGAA
1 TTTCTTCCTTTTGAGTGCTTTGAA
493009 TTTCTT
1 TTTCTT
493015 TACTGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.11, C:0.15, G:0.13, T:0.60
Consensus pattern (24 bp):
TTTCTTCCTTTTGAGTGCTTTGAA
Found at i:504258 original size:154 final size:154
Alignment explanation
Indices: 503978--504286 Score: 618
Period size: 154 Copynumber: 2.0 Consensus size: 154
503968 GAGACCTTTC
503978 AAGTGCTATGGACGTTGGCTGAAAAATTCGTTAGTGTAGAGGAAAAAATAGAAAGGTAGAAAGAT
1 AAGTGCTATGGACGTTGGCTGAAAAATTCGTTAGTGTAGAGGAAAAAATAGAAAGGTAGAAAGAT
504043 TAAATAATGAAGGGTGGTCTTATAAAAGGAAGAAAAATAAAGAAATGTTCACTTAATATGCAAAG
66 TAAATAATGAAGGGTGGTCTTATAAAAGGAAGAAAAATAAAGAAATGTTCACTTAATATGCAAAG
504108 ATACTCAGCACCTTCCTTGAAGAA
131 ATACTCAGCACCTTCCTTGAAGAA
504132 AAGTGCTATGGACGTTGGCTGAAAAATTCGTTAGTGTAGAGGAAAAAATAGAAAGGTAGAAAGAT
1 AAGTGCTATGGACGTTGGCTGAAAAATTCGTTAGTGTAGAGGAAAAAATAGAAAGGTAGAAAGAT
504197 TAAATAATGAAGGGTGGTCTTATAAAAGGAAGAAAAATAAAGAAATGTTCACTTAATATGCAAAG
66 TAAATAATGAAGGGTGGTCTTATAAAAGGAAGAAAAATAAAGAAATGTTCACTTAATATGCAAAG
504262 ATACTCAGCACCTTCCTTGAAGAA
131 ATACTCAGCACCTTCCTTGAAGAA
504286 A
1 A
504287 CAATCAAAGG
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 155 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.24
Consensus pattern (154 bp):
AAGTGCTATGGACGTTGGCTGAAAAATTCGTTAGTGTAGAGGAAAAAATAGAAAGGTAGAAAGAT
TAAATAATGAAGGGTGGTCTTATAAAAGGAAGAAAAATAAAGAAATGTTCACTTAATATGCAAAG
ATACTCAGCACCTTCCTTGAAGAA
Found at i:509675 original size:21 final size:23
Alignment explanation
Indices: 509651--509704 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 23
509641 GAATATGATT
509651 AATAAAGGAAAA-AAA-AAATGA
1 AATAAAGGAAAATAAAGAAATGA
*
509672 AATAATAAAGAAAATAAATGAAATGA
1 AAT-A-AAGGAAAATAAA-GAAATGA
509698 AATAAAG
1 AATAAAG
509705 ATGGGATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 3 0.12
22 1 0.04
23 7 0.27
24 5 0.19
25 1 0.04
26 9 0.35
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (23 bp):
AATAAAGGAAAATAAAGAAATGA
Found at i:511002 original size:2 final size:2
Alignment explanation
Indices: 510995--511024 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
510985 AGTTATCATA
510995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
511025 GAAAATAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:515693 original size:24 final size:25
Alignment explanation
Indices: 515658--515712 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
515648 ACTTGGAGCC
*
515658 TCAA-TGATCACAACTTGTGGCACT
1 TCAAGTGATCACAACTTGTGGAACT
* * *
515682 TCAAGTGA-CACATCTTTTTGAACT
1 TCAAGTGATCACAACTTGTGGAACT
515706 TCAAGTG
1 TCAAGTG
515713 GCATAACTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAAGTGATCACAACTTGTGGAACT
Found at i:533031 original size:59 final size:59
Alignment explanation
Indices: 532939--533067 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
532929 CGTAGTGCTA
* **
532939 TCCCGAATATGACACATAAGGTCGTGCCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* * ** *
532998 TCCCGAATATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
533057 TCCCGAATATG
1 TCCCGAATATG
533068 CAGCCTACTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:536860 original size:17 final size:17
Alignment explanation
Indices: 536840--536913 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 17
536830 AGTTAGTCTA
536840 ATAAATGAACTAGTTTG
1 ATAAATGAACTAGTTTG
536857 ATAAATG-ACTA-----
1 ATAAATGAACTAGTTTG
*
536868 ATAAATGAACTAGTTAG
1 ATAAATGAACTAGTTTG
* * *
536885 ATGAATGAAATAGTTTA
1 ATAAATGAACTAGTTTG
*
536902 ATTAATGAACTA
1 ATAAATGAACTA
536914 ACTTTATTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
11 7 0.16
12 4 0.09
16 4 0.09
17 30 0.67
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.32
Consensus pattern (17 bp):
ATAAATGAACTAGTTTG
Found at i:536877 original size:28 final size:28
Alignment explanation
Indices: 536837--536892 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
536827 AATAGTTAGT
*
536837 CTAATAAATGAACTAGTTTGATAAATGA
1 CTAATAAATGAACTAGTTAGATAAATGA
*
536865 CTAATAAATGAACTAGTTAGATGAATGA
1 CTAATAAATGAACTAGTTAGATAAATGA
536893 AATAGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (28 bp):
CTAATAAATGAACTAGTTAGATAAATGA
Found at i:540513 original size:35 final size:36
Alignment explanation
Indices: 540467--540618 Score: 200
Period size: 36 Copynumber: 4.3 Consensus size: 36
540457 TGGTAAGGGA
* *
540467 ATGGTGATGATATAGGCGTG-AAATGATGATAGAAG
1 ATGGTGATGATATAGGCGTGAAAATGGTGATGGAAG
* * *
540502 ATGATGATGATATAGGCATG-CAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTGAAAATGGTGATGGAAG
*
540537 ATGGTGATGTTATAGGCGTGAAAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTGAAAATGGTGATGGAAG
* ***
540573 ATGGTGATGTTATATATGTGAAAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTGAAAATGGTGATGGAAG
540609 ATGGTGATGA
1 ATGGTGATGA
540619 ACAGATAGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 47 0.46
36 56 0.54
ACGTcount: A:0.34, C:0.03, G:0.36, T:0.28
Consensus pattern (36 bp):
ATGGTGATGATATAGGCGTGAAAATGGTGATGGAAG
Found at i:540542 original size:13 final size:13
Alignment explanation
Indices: 540524--540617 Score: 56
Period size: 13 Copynumber: 7.7 Consensus size: 13
540514 TAGGCATGCA
540524 ATGGTGATGGAAG
1 ATGGTGATGGAAG
** *
540537 ATGGTGATGTTAT
1 ATGGTGATGGAAG
* *
540550 A-GGCG-T-GAAA
1 ATGGTGATGGAAG
540560 ATGGTGATGGAAG
1 ATGGTGATGGAAG
** *
540573 ATGGTGATGTTAT
1 ATGGTGATGGAAG
* *
540586 AT-ATG-T-GAAA
1 ATGGTGATGGAAG
540596 ATGGTGATGGAAG
1 ATGGTGATGGAAG
540609 ATGGTGATG
1 ATGGTGATG
540618 AACAGATAGT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
10 5 0.09
11 7 0.12
12 7 0.12
13 38 0.67
ACGTcount: A:0.31, C:0.01, G:0.38, T:0.30
Consensus pattern (13 bp):
ATGGTGATGGAAG
Found at i:540982 original size:19 final size:19
Alignment explanation
Indices: 540958--541026 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
540948 GAAACCCCTT
540958 TGAAAATACATGTTTTTTA
1 TGAAAATACATGTTTTTTA
540977 TGAAAATACATGATTGTTTTA
1 TGAAAATACATG-TT-TTTTA
* *
540998 TGAAAATACATGATTTTAA
1 TGAAAATACATGTTTTTTA
*
541017 TGAAGATACA
1 TGAAAATACA
541027 AGCTCTTGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 25 0.56
20 3 0.07
21 17 0.38
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (19 bp):
TGAAAATACATGTTTTTTA
Found at i:540998 original size:21 final size:20
Alignment explanation
Indices: 540958--541014 Score: 98
Period size: 21 Copynumber: 2.9 Consensus size: 20
540948 GAAACCCCTT
540958 TGAAAATACATG-TTTTTTA
1 TGAAAATACATGATTTTTTA
540977 TGAAAATACATGATTGTTTTA
1 TGAAAATACATGATT-TTTTA
540998 TGAAAATACATGATTTT
1 TGAAAATACATGATTTT
541015 AATGAAGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 12 0.33
20 4 0.11
21 20 0.56
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (20 bp):
TGAAAATACATGATTTTTTA
Found at i:541237 original size:20 final size:21
Alignment explanation
Indices: 541197--541237 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
541187 TACTTGAATG
541197 ATGCACATGGAAGTCTACTTGA
1 ATGCACATGG-AGTCTACTTGA
*
541219 ATGCACATGG-GTCTTCTTG
1 ATGCACATGGAGTCTACTTG
541238 CAAGGCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (21 bp):
ATGCACATGGAGTCTACTTGA
Found at i:553164 original size:26 final size:26
Alignment explanation
Indices: 553103--553178 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 26
553093 ATCATAAAAC
* *
553103 AAAGTGAAGCACTCAAAAGAAAGGAA
1 AAAGTAAAGCACTCAAAAGAAAGAAA
**
553129 AAA-TCCAGCACTCAAAA-AAAGAATA
1 AAAGTAAAGCACTCAAAAGAAAGAA-A
***
553154 AAAGTAAAGCAAAGAAAAGAAAGAA
1 AAAGTAAAGCACTCAAAAGAAAGAA
553179 GTTGAAGCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 5 0.13
25 16 0.41
26 12 0.31
27 6 0.15
ACGTcount: A:0.63, C:0.12, G:0.17, T:0.08
Consensus pattern (26 bp):
AAAGTAAAGCACTCAAAAGAAAGAAA
Found at i:563078 original size:5 final size:5
Alignment explanation
Indices: 563068--563124 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
563058 TTGGATTACA
*
563068 AAAAG AAAAG AAAAG ACAAA- AAAAG -AAA- AAAAG AAAAG AAAAAA AAAAG
1 AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG
563117 AAAA- AAAA
1 AAAAG AAAA
563125 AAAGTCAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
4 13 0.29
5 25 0.56
6 7 0.16
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:563103 original size:23 final size:23
Alignment explanation
Indices: 563073--563135 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 23
563063 TTACAAAAAG
563073 AAAAGAAAAGACAAAAAAAGAAA
1 AAAAGAAAAGACAAAAAAAGAAA
*
563096 AAAAGAAAAGAAAAAAAAAAGAAA
1 AAAAGAAAAG-ACAAAAAAAGAAA
*
563120 AAAA-AAAAGTCAAAAA
1 AAAAGAAAAGACAAAAA
563136 GAAAGCAAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 16 0.44
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAGACAAAAAAAGAAA
Found at i:563104 original size:16 final size:15
Alignment explanation
Indices: 563085--563127 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
563075 AAGAAAAGAC
563085 AAAAAAAGAAAAAAAG
1 AAAAAAA-AAAAAAAG
563101 AAAAGAAAAAAAAAAG
1 AAAA-AAAAAAAAAAG
563117 AAAAAAAAAAA
1 AAAAAAAAAAA
563128 GTCAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.27
16 16 0.62
17 3 0.12
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:563135 original size:1 final size:1
Alignment explanation
Indices: 563085--563127 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
563075 AAGAAAAGAC
* * * *
563085 AAAAAAAGAAAAAAAGAAAAGAAAAAAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
563128 GTCAAAAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:564679 original size:19 final size:20
Alignment explanation
Indices: 564655--564694 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
564645 TATCATTTCT
564655 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
564674 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
564694 T
1 T
564695 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:564697 original size:19 final size:18
Alignment explanation
Indices: 564651--564697 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
564641 TCTCTATCAT
564651 TTCTT-TATTTCATTTCA
1 TTCTTATATTTCATTTCA
*
564668 TTCTTATTATTTCTTTTCA
1 TTCTTA-TATTTCATTTCA
564687 TTACTTATATT
1 TT-CTTATATT
564698 ATTATTCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
19 17 0.65
20 4 0.15
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCTTATATTTCATTTCA
Found at i:568023 original size:22 final size:21
Alignment explanation
Indices: 567987--568027 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
567977 CATCTCATTT
567987 TCATCATCAACACCATCAACA
1 TCATCATCAACACCATCAACA
*
568008 TCATCTATCAAGACCATCAA
1 TCATC-ATCAACACCATCAA
568028 TTCCGCAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.41, C:0.34, G:0.02, T:0.22
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:588147 original size:7 final size:6
Alignment explanation
Indices: 588118--588150 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
588108 GATGTAGAAG
*
588118 TCTTTT TC-TTT TCTTTT TCTTTT TCGTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
588151 CTTTTTGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (6 bp):
TCTTTT
Found at i:594508 original size:17 final size:17
Alignment explanation
Indices: 594488--594539 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
594478 TTGCTTTTAA
594488 CTTTGCTTTTTTTTTTC
1 CTTTGCTTTTTTTTTTC
* * *
594505 CTTTGATTTTGTCTTTC
1 CTTTGCTTTTTTTTTTC
594522 CTTTTGCTTTCTTTTTTT
1 C-TTTGCTTT-TTTTTTT
594540 ATGTTTCTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 15 0.56
18 7 0.26
19 5 0.19
ACGTcount: A:0.02, C:0.17, G:0.08, T:0.73
Consensus pattern (17 bp):
CTTTGCTTTTTTTTTTC
Found at i:600713 original size:2 final size:2
Alignment explanation
Indices: 600706--600752 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
600696 TGTTATAATC
600706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
600748 AT AT A
1 AT AT A
600753 GCTATTATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:600794 original size:26 final size:27
Alignment explanation
Indices: 600765--600817 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
600755 TATTATGATA
600765 ATAACTTATTCATTA-ATAT-GTCATAT
1 ATAACTTATT-ATTATATATAGTCATAT
*
600791 ATAAGTTATTATTATATATAGTCATAT
1 ATAACTTATTATTATATATAGTCATAT
600818 TATTATATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 13 0.54
27 7 0.29
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (27 bp):
ATAACTTATTATTATATATAGTCATAT
Found at i:600808 original size:15 final size:17
Alignment explanation
Indices: 600787--600825 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
600777 TTAATATGTC
600787 ATATATAAGT-TATTATT
1 ATATAT-AGTATATTATT
600804 ATATATAGTCATATTATT
1 ATATATAGT-ATATTATT
600822 ATAT
1 ATAT
600826 CATACACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 6 0.30
18 11 0.55
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
ATATATAGTATATTATT
Found at i:611717 original size:2 final size:2
Alignment explanation
Indices: 611710--611759 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
611700 TGGTAGCGGA
611710 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
611752 AT AT AT AT
1 AT AT AT AT
611760 GTTGGTGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:617930 original size:6 final size:6
Alignment explanation
Indices: 617919--617970 Score: 61
Period size: 7 Copynumber: 8.2 Consensus size: 6
617909 GATGTAGGAG
617919 TCTTTT TC-TTT TCTTTT TCTTTT TCTTATT TCTTATT TCTTATT CTCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTT-TT TCTT-TT -TCTTTT
617970 T
1 T
617971 GTTACTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.12
6 16 0.37
7 18 0.42
8 4 0.09
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:617935 original size:11 final size:11
Alignment explanation
Indices: 617919--617952 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
617909 GATGTAGGAG
617919 TCTTTTTCTTT
1 TCTTTTTCTTT
617930 TCTTTTTCTTTT
1 TCTTTTTC-TTT
617942 TCTTATTTCTT
1 TCTT-TTTCTT
617953 ATTTCTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 9 0.43
13 4 0.19
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:618163 original size:80 final size:80
Alignment explanation
Indices: 618025--618185 Score: 259
Period size: 80 Copynumber: 2.0 Consensus size: 80
618015 GATTACCGCT
* * *
618025 TGATGTATGGATAACCGGGCTTCTTCAAAAATGGAGAAGTTGGTAACCTTGTTGTTTCCCGATCT
1 TGATGTATGGATAACCAGGCTTCTTCAAAAATGGAGAAGTTGGCAACCTTGTTATTTCCCGATCT
*
618090 AGGAGATACACCAAA
66 AGGAGAGACACCAAA
* *
618105 TGATGTATGGCTAACCAGGCTTCTTCAATAATGGAGAAGTTGGCAACCTTGTTATTTCCCGATCT
1 TGATGTATGGATAACCAGGCTTCTTCAAAAATGGAGAAGTTGGCAACCTTGTTATTTCCCGATCT
*
618170 ATGAGAGACACCAAA
66 AGGAGAGACACCAAA
618185 T
1 T
618186 ACTACACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (80 bp):
TGATGTATGGATAACCAGGCTTCTTCAAAAATGGAGAAGTTGGCAACCTTGTTATTTCCCGATCT
AGGAGAGACACCAAA
Found at i:619354 original size:16 final size:18
Alignment explanation
Indices: 619312--619362 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
619302 ATTCTTTGGC
619312 CAACTCTTTGTGAAAAGG
1 CAACTCTTTGTGAAAAGG
* *
619330 C-AC-CTTT-TGGAATGG
1 CAACTCTTTGTGAAAAGG
*
619345 CAACTCTTTGCGAAAAGG
1 CAACTCTTTGTGAAAAGG
619363 TACGAATCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
15 7 0.28
16 6 0.24
17 6 0.24
18 6 0.24
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (18 bp):
CAACTCTTTGTGAAAAGG
Found at i:639034 original size:62 final size:61
Alignment explanation
Indices: 638925--639043 Score: 134
Period size: 62 Copynumber: 1.9 Consensus size: 61
638915 GAATACATCC
* * ** *
638925 CTTGGCCGAATTCATCCCACCTTGTGTGAACTTATTGATTTTTCTTCTATGGATGAATGTAT
1 CTTGGCCGAATTCATCCCACCTTGTGTGAACTGACTGATTTGGCTTCT-TGCATGAATGTAT
* *
638987 CTTGGCTGAAATTCTTCCC-CCTTGTGTGAACATGACT-ATTTGGCTTCTTGCATGAAT
1 CTTGGCCG-AATTCATCCCACCTTGTGTGAAC-TGACTGATTTGGCTTCTTGCATGAAT
639044 ATGCACGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
61 8 0.17
62 28 0.58
63 12 0.25
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (61 bp):
CTTGGCCGAATTCATCCCACCTTGTGTGAACTGACTGATTTGGCTTCTTGCATGAATGTAT
Found at i:640527 original size:337 final size:337
Alignment explanation
Indices: 639912--640582 Score: 1342
Period size: 337 Copynumber: 2.0 Consensus size: 337
639902 TTATCGTGAT
639912 ATACATCTTTGATATGTTCAATTCTTGGAATAGTAGTATACTTAAGAGAATACATTCGTGGTAGT
1 ATACATCTTTGATATGTTCAATTCTTGGAATAGTAGTATACTTAAGAGAATACATTCGTGGTAGT
639977 GCATCATATATTATGCTTTGTTTACCAGGGTCTTTGGAGTCTCCTAAATCGTGACTCTTTATTGA
66 GCATCATATATTATGCTTTGTTTACCAGGGTCTTTGGAGTCTCCTAAATCGTGACTCTTTATTGA
640042 TATGTCATAGTGATTAGGGTTTTCTGGTGGTAACCCGTTAGGAGGGTCACCTAGCACTATTCGAT
131 TATGTCATAGTGATTAGGGTTTTCTGGTGGTAACCCGTTAGGAGGGTCACCTAGCACTATTCGAT
640107 AATTCTTGGTGATGGAAGATGGTGTGGGCCAGTCTCGTGTTGCTCTTACTTTCTCATCATTTACA
196 AATTCTTGGTGATGGAAGATGGTGTGGGCCAGTCTCGTGTTGCTCTTACTTTCTCATCATTTACA
640172 TGGATTCCCTGTGCACGGACTATAAAGCATGTGGAGTTGTTCAAGTCATGTTTCGTCATTAAGAT
261 TGGATTCCCTGTGCACGGACTATAAAGCATGTGGAGTTGTTCAAGTCATGTTTCGTCATTAAGAT
640237 GGTGTCATGTAA
326 GGTGTCATGTAA
640249 ATACATCTTTGATATGTTCAATTCTTGGAATAGTAGTATACTTAAGAGAATACATTCGTGGTAGT
1 ATACATCTTTGATATGTTCAATTCTTGGAATAGTAGTATACTTAAGAGAATACATTCGTGGTAGT
640314 GCATCATATATTATGCTTTGTTTACCAGGGTCTTTGGAGTCTCCTAAATCGTGACTCTTTATTGA
66 GCATCATATATTATGCTTTGTTTACCAGGGTCTTTGGAGTCTCCTAAATCGTGACTCTTTATTGA
640379 TATGTCATAGTGATTAGGGTTTTCTGGTGGTAACCCGTTAGGAGGGTCACCTAGCACTATTCGAT
131 TATGTCATAGTGATTAGGGTTTTCTGGTGGTAACCCGTTAGGAGGGTCACCTAGCACTATTCGAT
640444 AATTCTTGGTGATGGAAGATGGTGTGGGCCAGTCTCGTGTTGCTCTTACTTTCTCATCATTTACA
196 AATTCTTGGTGATGGAAGATGGTGTGGGCCAGTCTCGTGTTGCTCTTACTTTCTCATCATTTACA
640509 TGGATTCCCTGTGCACGGACTATAAAGCATGTGGAGTTGTTCAAGTCATGTTTCGTCATTAAGAT
261 TGGATTCCCTGTGCACGGACTATAAAGCATGTGGAGTTGTTCAAGTCATGTTTCGTCATTAAGAT
640574 GGTGTCATG
326 GGTGTCATG
640583 ACTAAGGCTT
Statistics
Matches: 334, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
337 334 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (337 bp):
ATACATCTTTGATATGTTCAATTCTTGGAATAGTAGTATACTTAAGAGAATACATTCGTGGTAGT
GCATCATATATTATGCTTTGTTTACCAGGGTCTTTGGAGTCTCCTAAATCGTGACTCTTTATTGA
TATGTCATAGTGATTAGGGTTTTCTGGTGGTAACCCGTTAGGAGGGTCACCTAGCACTATTCGAT
AATTCTTGGTGATGGAAGATGGTGTGGGCCAGTCTCGTGTTGCTCTTACTTTCTCATCATTTACA
TGGATTCCCTGTGCACGGACTATAAAGCATGTGGAGTTGTTCAAGTCATGTTTCGTCATTAAGAT
GGTGTCATGTAA
Found at i:643928 original size:19 final size:20
Alignment explanation
Indices: 643881--643931 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
643871 GAAACCCCTT
**
643881 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
*
643901 TGCAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
643920 TGAAAATACATG
1 TGAAAATACATG
643932 CTCTTGGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:646226 original size:25 final size:25
Alignment explanation
Indices: 646196--646251 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 25
646186 AAAATCAGCA
646196 AAGAAAAAATCAAGCACTCCAAAAG
1 AAGAAAAAATCAAGCACTCCAAAAG
646221 AAG-AAAAATCAAGCACTCCAAAAG
1 AAGAAAAAATCAAGCACTCCAAAAG
646245 AAGAAAA
1 AAGAAAA
646252 GAAAAGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.07
Consensus pattern (25 bp):
AAGAAAAAATCAAGCACTCCAAAAG
Found at i:647461 original size:24 final size:24
Alignment explanation
Indices: 647412--647462 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
647402 TCACTTCAAG
* *
647412 TTGAAGATTCAAGAAACATGTCTT
1 TTGAAGAATCAAGAAACATGACTT
* *
647436 TTGAAGAATCAATAAACATGAGTT
1 TTGAAGAATCAAGAAACATGACTT
647460 TTG
1 TTG
647463 GTGATCCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (24 bp):
TTGAAGAATCAAGAAACATGACTT
Found at i:656767 original size:18 final size:18
Alignment explanation
Indices: 656689--656757 Score: 93
Period size: 18 Copynumber: 3.7 Consensus size: 18
656679 TTTTTTGAAA
**
656689 TTTTGTCTTTTTTATATTT
1 TTTTGT-TTTTTTACCTTT
656708 TTTTGTTTTTTTGTACCTTT
1 TTTTG-TTTTTT-TACCTTT
656728 TTTTGTTTTTTTACCTTT
1 TTTTGTTTTTTTACCTTT
656746 TTTTGTTTTTTT
1 TTTTGTTTTTTT
656758 TTGTTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.41
19 16 0.35
20 11 0.24
ACGTcount: A:0.06, C:0.07, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTTGTTTTTTTACCTTT
Found at i:660472 original size:17 final size:17
Alignment explanation
Indices: 660430--660479 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
660420 TTAAAAAAAA
*
660430 TTCTTTCTTTTT--CTT
1 TTCTTTTTTTTTGACTT
660445 TTCTTTTTTTTTGACTT
1 TTCTTTTTTTTTGACTT
660462 TT-TTTTATTTTTGA-TT
1 TTCTTTT-TTTTTGACTT
660478 TT
1 TT
660480 GTACTAACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 11 0.35
16 8 0.26
17 12 0.39
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.80
Consensus pattern (17 bp):
TTCTTTTTTTTTGACTT
Found at i:676333 original size:20 final size:20
Alignment explanation
Indices: 676310--676368 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
676300 TCTTTTCTTA
*
676310 TTTTTTTGGAATTTTTAAAT
1 TTTTTTTGGAATTTTCAAAT
**
676330 TTTTTTTTTAATTTTCAAAT
1 TTTTTTTGGAATTTTCAAAT
* *
676350 TTTTTTTGGTACTTTCAAA
1 TTTTTTTGGAATTTTCAAA
676369 GATGAATTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTTTTTGGAATTTTCAAAT
Found at i:677911 original size:8 final size:8
Alignment explanation
Indices: 677898--677945 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
677888 AAAATAGAAT
677898 AAGAAATA
1 AAGAAATA
677906 AAGAAATA
1 AAGAAATA
677914 AATGAAATGA
1 AA-GAAAT-A
677924 TAAGAAATGA
1 -AAGAAAT-A
*
677934 AAGAGATA
1 AAGAAATA
677942 AAGA
1 AAGA
677946 TGTTATCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 15 0.42
9 11 0.31
10 8 0.22
11 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (8 bp):
AAGAAATA
Found at i:677931 original size:15 final size:14
Alignment explanation
Indices: 677896--677937 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
677886 TTAAAATAGA
677896 ATAAGAAAT-AAAG
1 ATAAGAAATGAAAG
*
677909 A-AATAAATGAAATG
1 ATAAGAAATGAAA-G
677923 ATAAGAAATGAAAG
1 ATAAGAAATGAAAG
677937 A
1 A
677938 GATAAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 6 0.25
13 4 0.17
14 4 0.17
15 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (14 bp):
ATAAGAAATGAAAG
Found at i:679871 original size:14 final size:14
Alignment explanation
Indices: 679854--679901 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
679844 AGTGCTTTAA
679854 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
679868 TTTTCTTCTCTTTTTC
1 TTTTCTT-TC-TTTTC
*
679884 TTCTT-TTTGTTTTC
1 TT-TTCTTTCTTTTC
679898 TTTT
1 TTTT
679902 TTTGAGTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 14 0.47
15 3 0.10
16 9 0.30
17 2 0.07
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTTC
Found at i:682289 original size:18 final size:17
Alignment explanation
Indices: 682260--682296 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
682250 GTTGCAACAA
682260 AAGAAAAAAAAAGAAAG
1 AAGAAAAAAAAAGAAAG
*
682277 AAGAAAAACAAAAGGAAG
1 AAGAAAAA-AAAAGAAAG
682295 AA
1 AA
682297 AAGACTCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAGAAAG
Found at i:682294 original size:15 final size:14
Alignment explanation
Indices: 682255--682298 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
682245 CAAGTGTTGC
682255 AACAAAAGAA-AAA
1 AACAAAAGAAGAAA
*
682268 AAAAGAAAGAAGAAA
1 AACA-AAAGAAGAAA
682283 AACAAAAGGAAGAAA
1 AACAAAA-GAAGAAA
682298 A
1 A
682299 GACTCCTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 3 0.12
14 9 0.35
15 14 0.54
ACGTcount: A:0.80, C:0.05, G:0.16, T:0.00
Consensus pattern (14 bp):
AACAAAAGAAGAAA
Found at i:689556 original size:15 final size:15
Alignment explanation
Indices: 689544--689586 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
689534 CATTTCTTTC
689544 CATTTCCTTTCTTAT
1 CATTTCCTTTCTTAT
*
689559 CATTTTCTTTCTTAT
1 CATTTCCTTTCTTAT
689574 CATTTCCTTTCTT
1 CATTTCCTTTCTT
689587 CTTCCATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.63
Consensus pattern (15 bp):
CATTTCCTTTCTTAT
Found at i:714162 original size:11 final size:10
Alignment explanation
Indices: 714123--714187 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
714113 AATGAAGAAT
714123 GAATGAAAAAA
1 GAAT-AAAAAA
* *
714134 TAAAAAAAAA
1 GAATAAAAAA
*
714144 GAAGAAAAAA
1 GAATAAAAAA
*
714154 GAATTAAAAA
1 GAATAAAAAA
714164 GAAATAAAATGAA
1 G-AATAAAA--AA
714177 -AATAAAAAA
1 GAATAAAAAA
714186 GA
1 GA
714188 GGGTTCGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 2 0.05
10 24 0.56
11 15 0.35
13 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (10 bp):
GAATAAAAAA
Found at i:714944 original size:19 final size:19
Alignment explanation
Indices: 714920--714964 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
714910 GGTTATGTTC
714920 TTGTTTCATGCCATGATAT
1 TTGTTTCATGCCATGATAT
714939 TTGTTTCATGCCATGATAT
1 TTGTTTCATGCCATGATAT
714958 TTGTTTC
1 TTGTTTC
714965 TTAATGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (19 bp):
TTGTTTCATGCCATGATAT
Found at i:726339 original size:43 final size:46
Alignment explanation
Indices: 726291--726399 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 46
726281 GTAAGTATGC
726291 AAATAAGCTTACGAGCTTAT-GAA-T-AATGGAAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGAAAGTATATTGATA
* * *
726334 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TTAAATGGAAAGTATATTGATA
726381 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
726400 CTGGTTCTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 20 0.34
44 3 0.05
46 1 0.02
47 35 0.59
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGAAAGTATATTGATA
Found at i:735419 original size:8 final size:8
Alignment explanation
Indices: 735397--735430 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
735387 CTTTTTGAAA
735397 TTCTTC-T
1 TTCTTCTT
735404 TT-TTCTT
1 TTCTTCTT
735411 TTCTTCTT
1 TTCTTCTT
735419 TTCTTCTT
1 TTCTTCTT
735427 TTCT
1 TTCT
735431 GAATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 3 0.12
7 5 0.20
8 17 0.68
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCTTCTT
Found at i:740008 original size:10 final size:10
Alignment explanation
Indices: 739993--740019 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
739983 TGTCCCTCAT
739993 AAGAACTTGA
1 AAGAACTTGA
740003 AAGAACTTGA
1 AAGAACTTGA
740013 AAGAACT
1 AAGAACT
740020 CCAGGAGAAT
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:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (10 bp):
AAGAACTTGA
Found at i:742420 original size:34 final size:34
Alignment explanation
Indices: 742381--742448 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
742371 TTTGATGAAT
*
742381 CTCTAACTCTTCAATGGAATCATCTCCTTTGTGG
1 CTCTAACTCTTCAATGGAATCATATCCTTTGTGG
742415 CTCTAACTCTTCAATGGAATCATATCCTTTGTGG
1 CTCTAACTCTTCAATGGAATCATATCCTTTGTGG
742449 GTGAATAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (34 bp):
CTCTAACTCTTCAATGGAATCATATCCTTTGTGG
Found at i:743392 original size:14 final size:14
Alignment explanation
Indices: 743373--743407 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
743363 CACTTTTCTT
743373 TTCTTTTCT-TTTTC
1 TTCTTTT-TGTTTTC
743387 TTCTTTTTGTTTTC
1 TTCTTTTTGTTTTC
743401 TTCTTTT
1 TTCTTTT
743408 GAATGCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TTCTTTTTGTTTTC
Found at i:745855 original size:18 final size:18
Alignment explanation
Indices: 745834--745879 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
745824 CTACATTTTC
*
745834 TGTCTTTTCACGAATATG
1 TGTCATTTCACGAATATG
745852 TGTCATTTCACGAATATG
1 TGTCATTTCACGAATATG
*
745870 TGTAATTTCA
1 TGTCATTTCA
745880 GGACATGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (18 bp):
TGTCATTTCACGAATATG
Found at i:750268 original size:22 final size:25
Alignment explanation
Indices: 750242--750294 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
750232 GGGGATTTAG
750242 AAATAATG-AAAATAAT-A-AAAAT
1 AAATAATGAAAAATAATGAGAAAAT
*
750264 AAATAATGAAAAATGATGAGAAAAT
1 AAATAATGAAAAATAATGAGAAAAT
750289 AAATAA
1 AAATAA
750295 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.30
23 7 0.26
24 1 0.04
25 11 0.41
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (25 bp):
AAATAATGAAAAATAATGAGAAAAT
Found at i:752405 original size:3 final size:3
Alignment explanation
Indices: 752397--752447 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
752387 TTACAACACA
752397 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
752445 ATT
1 ATT
752448 TTCATAACGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:759568 original size:20 final size:20
Alignment explanation
Indices: 759540--759589 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
759530 CACTCCATGA
* *
759540 TATCAATACTACAACCTTGG
1 TATCGATACCACAACCTTGG
*
759560 TATCGATACCACAATCTTGG
1 TATCGATACCACAACCTTGG
759580 TATCGATACC
1 TATCGATACC
759590 GCATGAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (20 bp):
TATCGATACCACAACCTTGG
Found at i:759767 original size:21 final size:22
Alignment explanation
Indices: 759729--759769 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
759719 AGTAAATAAT
**
759729 AAAAAATATTTTTAATTAATTC
1 AAAAAATATAATTAATTAATTC
759751 AAAAAATATAATT-ATTAAT
1 AAAAAATATAATTAATTAAT
759770 AATTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAAATATAATTAATTAATTC
Found at i:760540 original size:18 final size:18
Alignment explanation
Indices: 760517--760569 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
760507 AGAATGTTTC
760517 TGAGGGAATTGGAATCTG
1 TGAGGGAATTGGAATCTG
760535 TGAGGGAATTGGAATCTG
1 TGAGGGAATTGGAATCTG
*
760553 TCA-GGAATTGGAATCTG
1 TGAGGGAATTGGAATCTG
760570 AATCTGAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 14 0.41
18 20 0.59
ACGTcount: A:0.28, C:0.08, G:0.36, T:0.28
Consensus pattern (18 bp):
TGAGGGAATTGGAATCTG
Found at i:761633 original size:2 final size:2
Alignment explanation
Indices: 761628--761652 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
761618 TATTTAAAAA
761628 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
761653 AATTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:762151 original size:43 final size:42
Alignment explanation
Indices: 762104--762286 Score: 161
Period size: 44 Copynumber: 4.2 Consensus size: 42
762094 GGTCTTTAAC
* *
762104 TTTTTTGATTTTATTTTTTCTCTTTATAATTGACACCC-TGATAT
1 TTTTTTAATTTTATTTTTTC-CTTTATAATTGAGACCCAT-A-AT
* * * * *
762148 TTTTTCAATCTTATTTTTTACATTTATAGTTGAGGCCCATAAT
1 TTTTTTAATTTTATTTTTT-CCTTTATAATTGAGACCCATAAT
* *
762191 TTTTTTAATTTTACTTTTTACCTTTATAATTGAGACCCCTAAT
1 TTTTTTAATTTTA-TTTTTTCCTTTATAATTGAGACCCATAAT
* * * * * *
762234 TTTTTTCAATCTCACTTTTTACTTTTATAATTGAGGCCCCTAAT
1 TTTTTT-AATTTTA-TTTTTTCCTTTATAATTGAGACCCATAAT
762278 TTTTTTAAT
1 TTTTTTAAT
762287 CCCACTTTTT
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
43 41 0.35
44 74 0.63
45 2 0.02
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (42 bp):
TTTTTTAATTTTATTTTTTCCTTTATAATTGAGACCCATAAT
Found at i:762195 original size:87 final size:87
Alignment explanation
Indices: 762104--762322 Score: 273
Period size: 87 Copynumber: 2.5 Consensus size: 87
762094 GGTCTTTAAC
* * * * *
762104 TTTTTTGATTTTA-TTTTTTCTCTTTATAATTGACA-CCCTGATATTTTTTCAATCTTATTTTTT
1 TTTTTTAATTTTACTTTTTAC-CTTTATAATTGACACCCCTAAT-TTTTTTCAATCTCACTTTTT
*
762167 ACATTTATAGTTGAGGCCCATAAT
64 ACATTTATAATTGAGGCCCATAAT
*
762191 TTTTTTAATTTTACTTTTTACCTTTATAATTGAGACCCCTAATTTTTTTCAATCTCACTTTTTAC
1 TTTTTTAATTTTACTTTTTACCTTTATAATTGACACCCCTAATTTTTTTCAATCTCACTTTTTAC
* *
762256 TTTTATAATTGAGGCCCCTAAT
66 ATTTATAATTGAGGCCCATAAT
*** *
762278 TTTTTTAATCCCACTTTTTACTTTTATAATCT-ACACCCCTAATTT
1 TTTTTTAATTTTACTTTTTACCTTTATAAT-TGACACCCCTAATTT
762323 CATCATTTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
87 102 0.89
88 13 0.11
ACGTcount: A:0.24, C:0.18, G:0.05, T:0.53
Consensus pattern (87 bp):
TTTTTTAATTTTACTTTTTACCTTTATAATTGACACCCCTAATTTTTTTCAATCTCACTTTTTAC
ATTTATAATTGAGGCCCATAAT
Found at i:762317 original size:43 final size:43
Alignment explanation
Indices: 762117--762322 Score: 218
Period size: 43 Copynumber: 4.7 Consensus size: 43
762107 TTTGATTTTA
* * * * *
762117 TTTTTTCTCTTTATAATTGACA-CCCTGATATTTTTTCAATCTTAT
1 TTTTTACT-TTTATAATTGAGACCCCT-A-ATTTTTTTAATCTCAC
* * * * * *
762162 TTTTTACATTTATAGTTGAGGCCCATAATTTTTTTAATTTTAC
1 TTTTTACTTTTATAATTGAGACCCCTAATTTTTTTAATCTCAC
*
762205 TTTTTACCTTTATAATTGAGACCCCTAATTTTTTTCAATCTCAC
1 TTTTTACTTTTATAATTGAGACCCCTAATTTTTTT-AATCTCAC
* *
762249 TTTTTACTTTTATAATTGAGGCCCCTAATTTTTTTAATCCCAC
1 TTTTTACTTTTATAATTGAGACCCCTAATTTTTTTAATCTCAC
*
762292 TTTTTACTTTTATAATCT-ACACCCCTAATTT
1 TTTTTACTTTTATAAT-TGAGACCCCTAATTT
762323 CATCATTTTT
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
43 78 0.57
44 51 0.37
45 9 0.07
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.51
Consensus pattern (43 bp):
TTTTTACTTTTATAATTGAGACCCCTAATTTTTTTAATCTCAC
Found at i:763726 original size:11 final size:12
Alignment explanation
Indices: 763699--763727 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
763689 TCACTATAGA
763699 ATAATAAAATCC
1 ATAATAAAATCC
763711 ATAATAAAAT-C
1 ATAATAAAATCC
763722 ATAATA
1 ATAATA
763728 TTAAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAAATCC
Found at i:763899 original size:2 final size:2
Alignment explanation
Indices: 763892--763926 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
763882 TTACTACAAG
763892 TA TA 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 T
763927 TTAATAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:764776 original size:4 final size:4
Alignment explanation
Indices: 764767--764826 Score: 66
Period size: 4 Copynumber: 15.0 Consensus size: 4
764757 TACTATTTAT
* * * * * *
764767 ATAC ATAC ATGC ATGC ATAC ATAC ATAC ATGC ATGC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764815 ATAC ATAC ATAC
1 ATAC ATAC ATAC
764827 TTGTAGTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:764786 original size:16 final size:16
Alignment explanation
Indices: 764767--764824 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
764757 TACTATTTAT
764767 ATACATACATGCATGC
1 ATACATACATGCATGC
*
764783 ATACATACATACATGC
1 ATACATACATGCATGC
*
764799 ATGCATACATGCATGC
1 ATACATACATGCATGC
764815 ATACATACAT
1 ATACATACAT
764825 ACTTGTAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (16 bp):
ATACATACATGCATGC
Found at i:764787 original size:12 final size:12
Alignment explanation
Indices: 764770--764820 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
764760 TATTTATATA
764770 CATACATGCATG
1 CATACATGCATG
764782 CATACAT--A--
1 CATACATGCATG
764790 CATACATGCATG
1 CATACATGCATG
764802 CATACATGCATG
1 CATACATGCATG
764814 CATACAT
1 CATACAT
764821 ACATACTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.20
10 2 0.06
12 26 0.74
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (12 bp):
CATACATGCATG
Found at i:764826 original size:20 final size:20
Alignment explanation
Indices: 764767--764808 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
764757 TACTATTTAT
764767 ATACATACATGCATGCATAC
1 ATACATACATGCATGCATAC
764787 ATACATACATGCATGCATAC
1 ATACATACATGCATGCATAC
764807 AT
1 AT
764809 GCATGCATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (20 bp):
ATACATACATGCATGCATAC
Found at i:765080 original size:14 final size:14
Alignment explanation
Indices: 765061--765091 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
765051 TTACATCTTC
765061 TGGAAAATGTTTTA
1 TGGAAAATGTTTTA
765075 TGGAAAATGTTTTA
1 TGGAAAATGTTTTA
765089 TGG
1 TGG
765092 TGTTTGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (14 bp):
TGGAAAATGTTTTA
Found at i:765215 original size:22 final size:23
Alignment explanation
Indices: 765175--765217 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
765165 ATCTAATAAA
765175 TAATATTATTTATTATAAAAACT
1 TAATATTATTTATTATAAAAACT
*
765198 TAATATTA-TTATTTTAAAAA
1 TAATATTATTTATTATAAAAA
765218 TATTAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAACT
Found at i:766240 original size:11 final size:12
Alignment explanation
Indices: 766224--766252 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
766214 GACATTTTAA
766224 TATTAT-GATTT
1 TATTATGGATTT
766235 TATTATGGATTT
1 TATTATGGATTT
766247 TATTAT
1 TATTAT
766253 TCTATAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:766316 original size:75 final size:75
Alignment explanation
Indices: 766185--766369 Score: 203
Period size: 75 Copynumber: 2.5 Consensus size: 75
766175 TTTTATAGAC
*
766185 TTAATATTATAGTTTGAGTCTTAAGATTTGACATTTTAATATTATGATTTTATTATGGATTTTAT
1 TTAATATTATAGTTTGAATCTTAAGATTTGACATTTTAATATTATGATTTTATTATGGATTTTAT
766250 TATTCTATAG
66 TATTCTATAG
* * * * *
766260 TTAATATTATGGTTTGAATTTTGAA-ATTTGACATTTTAATATTGTGGTTTGT-TTATGTATTTT
1 TTAATATTATAGTTTGAATCTT-AAGATTTGACATTTTAATATTATGATTT-TATTATGGATTTT
* * * * *
766323 ACTGTTCGAAAC
64 ATTATTCTATAG
* * * *
766335 TTAATATTGTTGTTTGAGTCTTAATATTTGACATT
1 TTAATATTATAGTTTGAATCTTAAGATTTGACATT
766370 ATTTATGATT
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
74 2 0.02
75 87 0.95
76 3 0.03
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (75 bp):
TTAATATTATAGTTTGAATCTTAAGATTTGACATTTTAATATTATGATTTTATTATGGATTTTAT
TATTCTATAG
Found at i:766729 original size:32 final size:32
Alignment explanation
Indices: 766661--766733 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
766651 ATTACTTCAT
** *
766661 ATATTTAATATTTATATAAATAAATTTTTAAT
1 ATATTTAATATTTATATAAATAAATTCATAAA
* *
766693 ATATTTAATATTTATAT-AATTACTTCATAGAA
1 ATATTTAATATTTATATAAATAAATTCATA-AA
766725 ATATTTAAT
1 ATATTTAAT
766734 TAATATTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (32 bp):
ATATTTAATATTTATATAAATAAATTCATAAA
Found at i:771045 original size:1 final size:1
Alignment explanation
Indices: 770992--771036 Score: 63
Period size: 1 Copynumber: 45.0 Consensus size: 1
770982 TATTTTTTTC
* * *
770992 AAAAAAACAAAAAAAACAAAAAAAAAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
771037 GCCAAAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:771045 original size:12 final size:10
Alignment explanation
Indices: 770992--771036 Score: 76
Period size: 9 Copynumber: 4.7 Consensus size: 10
770982 TATTTTTTTC
770992 AAAAAAAC-A
1 AAAAAAACAA
771001 AAAAAAACAA
1 AAAAAAACAA
771011 AAAAAAA-AA
1 AAAAAAACAA
771020 AAAAAAACAA
1 AAAAAAACAA
771030 AAAAAAA
1 AAAAAAA
771037 GCCAAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.50
10 17 0.50
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:771045 original size:19 final size:19
Alignment explanation
Indices: 770992--771036 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
770982 TATTTTTTTC
*
770992 AAAAAAACAAAAAAAACAA
1 AAAAAAAAAAAAAAAACAA
771011 AAAAAAAAAAAAAAAACAA
1 AAAAAAAAAAAAAAAACAA
771030 AAAAAAA
1 AAAAAAA
771037 GCCAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAACAA
Found at i:774363 original size:9 final size:9
Alignment explanation
Indices: 774341--774374 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
774331 TATTTAAAAT
*
774341 TTAATTTCGA
1 TTAA-TTCGG
774351 TTAATTCGG
1 TTAATTCGG
774360 TTAATTCGG
1 TTAATTCGG
774369 TTAATT
1 TTAATT
774375 AACCGAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (9 bp):
TTAATTCGG
Found at i:775793 original size:14 final size:14
Alignment explanation
Indices: 775774--775800 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
775764 GGTCAATCAT
775774 TGACCATTGACCGG
1 TGACCATTGACCGG
775788 TGACCATTGACCG
1 TGACCATTGACCG
775801 AAGTTGACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (14 bp):
TGACCATTGACCGG
Found at i:776128 original size:3 final size:3
Alignment explanation
Indices: 776120--776145 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
776110 TAAATAGGGG
776120 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
776146 CATATTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:776151 original size:12 final size:13
Alignment explanation
Indices: 776122--776158 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
776112 AATAGGGGTT
776122 ATTATTATTATT-
1 ATTATTATTATTC
776134 ATTATTATTATTC
1 ATTATTATTATTC
*
776147 A-TATTAGTATTC
1 ATTATTATTATTC
776159 CAATATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 22 0.96
13 1 0.04
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (13 bp):
ATTATTATTATTC
Found at i:780385 original size:38 final size:39
Alignment explanation
Indices: 780304--780386 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 39
780294 GAGTCTAGAG
* * *
780304 TATTCTTTGTGCTTAGGGTAAGTCCTTACCGCATGCTCT
1 TATTCTTTGTGCTTAAGGTAAGTCCTTACCGCAGGCTCA
780343 TATTCTTTGTG-TTAAGGTAAGTCCTTACCGCAGG-TCCA
1 TATTCTTTGTGCTTAAGGTAAGTCCTTACCGCAGGCT-CA
780381 TATTCT
1 TATTCT
780387 ATATGTATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
37 1 0.03
38 28 0.70
39 11 0.28
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (39 bp):
TATTCTTTGTGCTTAAGGTAAGTCCTTACCGCAGGCTCA
Found at i:787020 original size:22 final size:23
Alignment explanation
Indices: 786982--787053 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 23
786972 TTCATTCTTC
786982 ATTTA-TCCCATTTTATTTTATTT
1 ATTTATTCCC-TTTTATTTTATTT
787005 ATTTATTCCCTTTATTTTATTTTATTT
1 ATTTATTCCC----TTTTATTTTATTT
787032 ATTTATTCCC-TTTATTTTATTT
1 ATTTATTCCCTTTTATTTTATTT
787054 TCTTTATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.27
23 5 0.11
24 4 0.09
27 24 0.53
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTATTCCCTTTTATTTTATTT
Found at i:787022 original size:27 final size:27
Alignment explanation
Indices: 786991--787065 Score: 132
Period size: 27 Copynumber: 2.7 Consensus size: 27
786981 CATTTATCCC
786991 ATTTTATTTTATTTATTTATTCCCTTT
1 ATTTTATTTTATTTATTTATTCCCTTT
787018 ATTTTATTTTATTTATTTATTCCCTTT
1 ATTTTATTTTATTTATTTATTCCCTTT
*
787045 ATTTTATTTTCTTTATATTAT
1 ATTTTATTTTATTTAT-TTAT
787066 ATGTTTTCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 42 0.91
28 4 0.09
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (27 bp):
ATTTTATTTTATTTATTTATTCCCTTT
Found at i:787045 original size:13 final size:13
Alignment explanation
Indices: 787002--787048 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
786992 TTTTATTTTA
787002 TTTATTTATTCCC
1 TTTATTTATTCCC
***
787015 TTTATTTTATTTTA
1 TTTA-TTTATTCCC
787029 TTTATTTATTCCC
1 TTTATTTATTCCC
787042 TTTATTT
1 TTTATTT
787049 TATTTTCTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTTATTCCC
Found at i:796106 original size:241 final size:241
Alignment explanation
Indices: 795683--796154 Score: 649
Period size: 241 Copynumber: 2.0 Consensus size: 241
795673 TTAGCATTGC
* * * *
795683 GATGTTTGACTCCATAACGCTGCAGGGCATTATCTACTTGTCTACCAATAAATTGGGATCCTTCA
1 GATGTTTAACTCCATAACACTGCAGGGCATTAACTACTTGTCTACCAATAAATTAGGATCCTTCA
* * *
795748 TCACTAATGAATGCTCTTAGTGTTCCAAAGCGAGTGAAAATGTGCTTGTGGAGAAATCTAAGAAC
66 TCACTAATGAATGCCCTTAGTGTTCCAAAGCGAGTAAAAATGTGCTTGTGGAGAAACCTAAGAAC
* * * * * * *
795813 CTCCTTAGAATCACTTGAGGGTAATGCTATAACCTCGACCTACTTAGACACATAATCAATGACAA
131 CACCTTAGAATCAATTGAGGGTAATGCTACAACCTCAACCCACTTAGACACATAATCAACGAAAA
* * * *
795878 CATGGATGAAAGTGTTACCGTAAAAAGATAGTTAAGGTTCTAATGT
196 CAAGGATAAAAGTGTTACCATAAAAAGATAGGTAAGGTTCTAATGT
* * * *
795924 GATGTTTAACTCTATAGCACTGTAGGGCATTAACTATTTGTCTACCAATAAATTAGGATCCTTCA
1 GATGTTTAACTCCATAACACTGCAGGGCATTAACTACTTGTCTACCAATAAATTAGGATCCTTCA
* * * *
795989 TCACTAATTAATGCCCTTGGTGTTCCAAAGTGAGTAAAAATGTGCTTGTGGAGAAACCTAATAAC
66 TCACTAATGAATGCCCTTAGTGTTCCAAAGCGAGTAAAAATGTGCTTGTGGAGAAACCTAAGAAC
* * *
796054 CACTTTA-ACATCAATTTAGGGTAATGCTACAGCCTCAACCCACTTAGACACATAATCAACGAAA
131 CACCTTAGA-ATCAATTGAGGGTAATGCTACAACCTCAACCCACTTAGACACATAATCAACGAAA
* *
796118 ATAAGGATAAAAGTGTTACCATAAGAAGATAGGTAAG
195 ACAAGGATAAAAGTGTTACCATAAAAAGATAGGTAAG
796155 ATCCGATGAA
Statistics
Matches: 199, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
240 1 0.01
241 198 0.99
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (241 bp):
GATGTTTAACTCCATAACACTGCAGGGCATTAACTACTTGTCTACCAATAAATTAGGATCCTTCA
TCACTAATGAATGCCCTTAGTGTTCCAAAGCGAGTAAAAATGTGCTTGTGGAGAAACCTAAGAAC
CACCTTAGAATCAATTGAGGGTAATGCTACAACCTCAACCCACTTAGACACATAATCAACGAAAA
CAAGGATAAAAGTGTTACCATAAAAAGATAGGTAAGGTTCTAATGT
Found at i:801370 original size:18 final size:20
Alignment explanation
Indices: 801345--801384 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
801335 TGCATTTTTG
801345 TAAG-AGTACTTTGTGCACT
1 TAAGTAGTACTTTGTGCACT
801364 TAGAGTAGTACTTTGTGCACT
1 TA-AGTAGTACTTTGTGCACT
801385 ATGACACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 2 0.11
21 15 0.79
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (20 bp):
TAAGTAGTACTTTGTGCACT
Found at i:802125 original size:17 final size:17
Alignment explanation
Indices: 802059--802125 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
802049 AAGCATCTAT
* *
802059 TTCATTTAATAAAGTTAG
1 TTCATTTATTAAA-CTAG
*
802077 TTCATTAATTAAA-TAG
1 TTCATTTATTAAACTAG
* * * *
802093 CTCAATCATCAAACTAG
1 TTCATTTATTAAACTAG
802110 TTCATTTATTAAACTA
1 TTCATTTATTAAACTA
802126 ACTCTTAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
16 12 0.32
17 15 0.39
18 11 0.29
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (17 bp):
TTCATTTATTAAACTAG
Found at i:804009 original size:10 final size:9
Alignment explanation
Indices: 803987--804032 Score: 56
Period size: 9 Copynumber: 4.7 Consensus size: 9
803977 CCGGGTTAGT
803987 AAAAAATAA
1 AAAAAATAA
803996 AAAAAATAAGA
1 AAAAAAT-A-A
804007 AAAAAATTGAA
1 AAAAAA-T-AA
804018 AAAAAATAA
1 AAAAAATAA
804027 AAAAAA
1 AAAAAA
804033 ATTAAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 15 0.45
10 2 0.06
11 14 0.42
12 2 0.06
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:804038 original size:11 final size:10
Alignment explanation
Indices: 803987--804040 Score: 65
Period size: 11 Copynumber: 5.2 Consensus size: 10
803977 CCGGGTTAGT
803987 AAAAAAT-AA
1 AAAAAATAAA
803996 AAAAAATAAGA
1 AAAAAATAA-A
*
804007 AAAAAATTGAA
1 AAAAAA-TAAA
804018 AAAAAATAAA
1 AAAAAATAAA
804028 AAAAAATTAAA
1 AAAAAA-TAAA
804039 AA
1 AA
804041 TTTAAAGAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 7 0.18
10 10 0.26
11 20 0.51
12 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:805379 original size:17 final size:17
Alignment explanation
Indices: 805313--805379 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
805303 AAGCATCTAT
* *
805313 TTCATTTAATAAAGTTAG
1 TTCATTTATTAAA-CTAG
*
805331 TTCATTAATTAAA-TAG
1 TTCATTTATTAAACTAG
* * * *
805347 CTCAATCATCAAACTAG
1 TTCATTTATTAAACTAG
805364 TTCATTTATTAAACTA
1 TTCATTTATTAAACTA
805380 ACTCTTAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
16 12 0.32
17 15 0.39
18 11 0.29
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (17 bp):
TTCATTTATTAAACTAG
Found at i:806904 original size:10 final size:9
Alignment explanation
Indices: 806882--806932 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 9
806872 CCGGGTTAGT
806882 AAAAAATAA
1 AAAAAATAA
806891 AAAAAATAA
1 AAAAAATAA
**
806900 GAAAAAATTTG
1 -AAAAAA-TAA
806911 AAAAAATAA
1 AAAAAATAA
806920 AATAAAATAA
1 AA-AAAATAA
806930 AAA
1 AAA
806933 TTTAAAGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 13 0.37
10 21 0.60
11 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (9 bp):
AAAAAATAA
Found at i:808272 original size:17 final size:17
Alignment explanation
Indices: 808206--808272 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
808196 AAGCATCTAT
* *
808206 TTCATTTAATAAAGTTAG
1 TTCATTTATTAAA-CTAG
*
808224 TTCATTAATTAAA-TAG
1 TTCATTTATTAAACTAG
* * * *
808240 CTCAATCATCAAACTAG
1 TTCATTTATTAAACTAG
808257 TTCATTTATTAAACTA
1 TTCATTTATTAAACTA
808273 ACTCTTAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
16 12 0.32
17 15 0.39
18 11 0.29
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (17 bp):
TTCATTTATTAAACTAG
Found at i:808993 original size:38 final size:36
Alignment explanation
Indices: 808928--809032 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
808918 AAGAACAATT
808928 ATAAAATATA-GTTATTTA--TTAAAATAATTTTA-A
1 ATAAAATA-AGGTTATTTATTTTAAAATAATTTTATA
*
808961 ATAATTTAATAAGGTTATTTATTTTAAAATAA-TTTATT
1 ATAA---AATAAGGTTATTTATTTTAAAATAATTTTATA
*
808999 ATAAAATATGGATTGATTTATTTTAAAATAATTT
1 ATAAAATAAGG-TT-ATTTATTTTAAAATAATTT
809033 AATTAAAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
33 4 0.07
35 7 0.12
36 14 0.23
37 20 0.33
38 15 0.25
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (36 bp):
ATAAAATAAGGTTATTTATTTTAAAATAATTTTATA
Found at i:809040 original size:14 final size:14
Alignment explanation
Indices: 809021--809047 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
809011 TTGATTTATT
809021 TTAAAATAATTTAA
1 TTAAAATAATTTAA
809035 TTAAAATAATTTA
1 TTAAAATAATTTA
809048 TTAGCGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAAATAATTTAA
Found at i:809112 original size:54 final size:54
Alignment explanation
Indices: 809029--809197 Score: 275
Period size: 54 Copynumber: 3.1 Consensus size: 54
809019 TTTTAAAATA
* * **
809029 ATTTAATTAAAATAATTTATTAGCGTGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
809083 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
809137 ATTTATTTTAAATAATTTATTAGTATGGACTGGTTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
809191 ATTTATT
1 ATTTATT
809198 ATTGTAGTTG
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:809131 original size:22 final size:22
Alignment explanation
Indices: 809106--809148 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
809096 AATTTATTAG
809106 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
809128 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
809149 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:809224 original size:80 final size:80
Alignment explanation
Indices: 809128--809433 Score: 347
Period size: 80 Copynumber: 3.9 Consensus size: 80
809118 TATTTTAAAA
*
809128 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGGTTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTTAAAATATAGATTGAT
809193 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
809208 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTTAAAATATAGATTGAT
809273 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
** ** * * * * * * * *
809288 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAATTAATTTATTAGTATGGAAT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-CTGATTTATTTTA-AAATATAGATT
***
809350 GATTTA-T-TT-TA-AAA
63 GATTTATTATTGTAGTTG
* * *
809364 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTTAAAATATAGATTGAT
809429 TTATT
66 TTATT
809434 TTAAATAATT
Statistics
Matches: 194, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
76 40 0.21
77 16 0.08
78 8 0.04
79 13 0.07
80 117 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTTAAAATATAGATTGAT
TTATTATTGTAGTTG
Found at i:809254 original size:18 final size:18
Alignment explanation
Indices: 809231--809278 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
809221 ATTTTAAATA
*
809231 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
809249 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
809271 ATTTATTA
1 ATTTATTA
809279 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:809265 original size:22 final size:22
Alignment explanation
Indices: 809240--809329 Score: 117
Period size: 22 Copynumber: 3.9 Consensus size: 22
809230 AATTTATTAG
809240 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
809262 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
809288 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
809310 TATGGATTGATTTATTTTAA
1 TATGGATTGATTTATTTTAA
809330 TTAATTTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 34 0.59
23 3 0.05
24 4 0.07
25 3 0.05
26 14 0.24
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:809273 original size:54 final size:54
Alignment explanation
Indices: 809208--809502 Score: 487
Period size: 54 Copynumber: 5.6 Consensus size: 54
809198 ATTGTAGTTG
809208 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
809262 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
* *
809310 TATGGATTGATTTATTTTAATTAATTTATTAGTATGGAATGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
809364 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
809418 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
809472 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
809503 TTATAGTTGT
Statistics
Matches: 224, Mismatches: 9, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
48 40 0.18
49 2 0.01
50 4 0.02
52 3 0.01
53 2 0.01
54 173 0.77
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:809367 original size:22 final size:22
Alignment explanation
Indices: 809342--809384 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
809332 AATTTATTAG
809342 TATGGAATGATTTATTTTAAAA
1 TATGGAATGATTTATTTTAAAA
*
809364 TATGGATTGATTTATTTTAAA
1 TATGGAATGATTTATTTTAAA
809385 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGAATGATTTATTTTAAAA
Done.