Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 240 of 295
Found at i:82716812 original size:54 final size:54
Alignment explanation
Indices: 82716747--82716907 Score: 173
Period size: 54 Copynumber: 2.9 Consensus size: 54
82716737 CCAAACGAAC
*
82716747 GACACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCAAGACATTCGAAAT
1 GACAC-TAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCAA-ACATCCGAAAT
** * * *
82716803 GACAC-AGTGTATGAGGTATTGATGATGACACTTAATGTGTG-AAACATCCGAAAT
1 GACACTAGTGTGCGAAGTATTGAGGATGGCACTT-A-GTGTGCAAACATCCGAAAT
* * *
82716857 GGCACTTAGTGTGCGAAGTATCGAGGATGGCGCTTAGTGTGCGAAACATCC
1 GACAC-TAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAACATCC
82716908 AGTATAGCAC
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
54 42 0.49
55 4 0.05
56 39 0.46
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (54 bp):
GACACTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCAAACATCCGAAAT
Found at i:82716886 original size:28 final size:27
Alignment explanation
Indices: 82716749--82716901 Score: 96
Period size: 28 Copynumber: 5.6 Consensus size: 27
82716739 AAACGAACGA
*
82716749 CACTTAGTGTGCGAAGTATTGAGGATGG
1 CACTTAGTGTGCGAAGTATCGA-GATGG
* * *
82716777 CACTTAGTGTGC-AAGACATTCGAAATGA
1 CACTTAGTGTGCGAAG-TA-TCGAGATGG
** * * *
82716805 CAC--AGTGTATGAGGTATTGATGATGA
1 CACTTAGTGTGCGAAGTATCGA-GATGG
* * ** *
82716831 CACTTAATGTGTGAAACATCCGAAATGG
1 CACTTAGTGTGCGAAGTAT-CGAGATGG
82716859 CACTTAGTGTGCGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAGTATCGA-GATGG
*
82716887 CGCTTAGTGTGCGAA
1 CACTTAGTGTGCGAA
82716902 ACATCCAGTA
Statistics
Matches: 93, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
25 3 0.03
26 13 0.14
27 8 0.09
28 64 0.69
29 5 0.05
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (27 bp):
CACTTAGTGTGCGAAGTATCGAGATGG
Found at i:82716918 original size:56 final size:54
Alignment explanation
Indices: 82716749--82716926 Score: 155
Period size: 56 Copynumber: 3.2 Consensus size: 54
82716739 AAACGAACGA
* *
82716749 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATTCGAAATG
1 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGATA-G
** * * * * * *
82716804 ACAC--AGTGTATGAGGTATTGATGATGACACTTAATGTGTGAAACATCCGAAATGG
1 -CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG--ATAG
* *
82716859 CACTTAGTGTGCGAAGTATCGAGGATGGCGCTTAGTGTGCGAAACATCCAGTATAG
1 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCC-G-ATAG
*
82716915 CACTTAGCGTGC
1 CACTTAGTGTGC
82716927 AAGACATCGA
Statistics
Matches: 94, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
54 37 0.39
55 3 0.03
56 53 0.56
57 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (54 bp):
CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGATAG
Found at i:82716920 original size:28 final size:28
Alignment explanation
Indices: 82716831--82716934 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 28
82716821 TTGATGATGA
* *
82716831 CACTTAATGTGTGAAACATCC-GAAATGG
1 CACTTAGTGTGCGAAACATCCAG-AATGG
** * *
82716859 CACTTAGTGTGCGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAACATCCAGAATGG
* * *
82716887 CGCTTAGTGTGCGAAACATCCAGTATAG
1 CACTTAGTGTGCGAAACATCCAGAATGG
*
82716915 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
82716935 GATTGTGCAG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
27 2 0.03
28 57 0.95
29 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCAGAATGG
Found at i:82723691 original size:26 final size:26
Alignment explanation
Indices: 82723662--82723769 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
82723652 TGATACAAAT
82723662 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
82723688 TGATAATGGATTCGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82723714 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
82723740 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
82723766 TGAT
1 TGAT
82723770 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:82726488 original size:10 final size:10
Alignment explanation
Indices: 82726465--82726505 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
82726455 TTTACATCAA
82726465 TTTTATAA-T
1 TTTTATAATT
*
82726474 TTTTATGATT
1 TTTTATAATT
82726484 TTTTATAATT
1 TTTTATAATT
*
82726494 TTTTTTAATT
1 TTTTATAATT
82726504 TT
1 TT
82726506 ATAGTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATAATT
Found at i:82727370 original size:3 final size:3
Alignment explanation
Indices: 82727362--82727393 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
82727352 AGTATTGAGT
82727362 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
82727394 TTGAATTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:82734315 original size:25 final size:25
Alignment explanation
Indices: 82734286--82734335 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
82734276 ATAATGTATG
* *
82734286 AGCTTAAAATATATAATATGTAAAA
1 AGCTTAAAACAAATAATATGTAAAA
82734311 AGCTTAAAACAAATAATATGTAAAA
1 AGCTTAAAACAAATAATATGTAAAA
82734336 TAATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (25 bp):
AGCTTAAAACAAATAATATGTAAAA
Found at i:82737705 original size:35 final size:35
Alignment explanation
Indices: 82737659--82737738 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
82737649 TACTCTCTGT
* * *
82737659 TTGGCGTGTTTCGGTTGGATTAGCT-TGTATGAGCA
1 TTGGCATGTTTCAGTTGGATTAACTCT-TATGAGCA
82737694 TTGGCATGTTTCAGTTGGATTAACTCTTATGAGCA
1 TTGGCATGTTTCAGTTGGATTAACTCTTATGAGCA
*
82737729 TTGACATGTT
1 TTGGCATGTT
82737739 ATGTTTGGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.41
Consensus pattern (35 bp):
TTGGCATGTTTCAGTTGGATTAACTCTTATGAGCA
Found at i:82738525 original size:25 final size:25
Alignment explanation
Indices: 82738496--82738548 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
82738486 TTTTTGAGAG
**
82738496 TAAGAACAATTGACTCTAGGTTGAT
1 TAAGAACAACAGACTCTAGGTTGAT
82738521 TAAGAACAACAGACTCTAGGTTGAT
1 TAAGAACAACAGACTCTAGGTTGAT
82738546 TAA
1 TAA
82738549 TTGAAATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (25 bp):
TAAGAACAACAGACTCTAGGTTGAT
Found at i:82739096 original size:13 final size:13
Alignment explanation
Indices: 82739078--82739108 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
82739068 CTGGCCATTT
82739078 CCACACGGGCTAG
1 CCACACGGGCTAG
*
82739091 CCACACGGGCTAT
1 CCACACGGGCTAG
82739104 CCACA
1 CCACA
82739109 TGCCCATGTG
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:0.26, C:0.42, G:0.23, T:0.10
Consensus pattern (13 bp):
CCACACGGGCTAG
Found at i:82740294 original size:25 final size:25
Alignment explanation
Indices: 82740264--82740359 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 25
82740254 CCCTCTCTCA
*
82740264 AGCCATATAACAGGAAGCTCATATG
1 AGCCATATAACAGGAAGCTCATAAG
* * * **
82740289 AGCCATGTAACGGGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATAAG
* ** *
82740314 GGCTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATAAG
* *
82740339 AGCCATA-ATCAAGAAGCTCAT
1 AGCCATATAACAGGAAGCTCAT
82740360 GCAAGCCAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
24 11 0.21
25 42 0.79
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATAAG
Found at i:82740505 original size:26 final size:26
Alignment explanation
Indices: 82740442--82740513 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
82740432 AGCGAGCCAT
* *
82740442 ATCGGGAAGCTCATAAAGAGCCTTTA
1 ATCGGGAAGCTCATAAAGAGCATATA
*
82740468 ATCAGGAAGCTCATAAAGAGACATATA
1 ATCGGGAAGCTCATAAAGAG-CATATA
*
82740495 AT-GGGACGCTCAT-AAGAGC
1 ATCGGGAAGCTCATAAAGAGC
82740514 TGCGGTGTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 5 0.12
26 28 0.70
27 6 0.15
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (26 bp):
ATCGGGAAGCTCATAAAGAGCATATA
Found at i:82741472 original size:13 final size:13
Alignment explanation
Indices: 82741454--82741482 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
82741444 TCTTTATTTT
82741454 TTTATTTTTCATC
1 TTTATTTTTCATC
82741467 TTTATTTTTCATC
1 TTTATTTTTCATC
82741480 TTT
1 TTT
82741483 CTAATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTTTCATC
Found at i:82742894 original size:21 final size:22
Alignment explanation
Indices: 82742868--82742909 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
82742858 CACTTGACAC
82742868 AGGGGCAA-ACGCCCGTGTGAA
1 AGGGGCAACACGCCCGTGTGAA
82742889 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCGTGTGA
82742910 TTAATTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.26, C:0.26, G:0.38, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAA
Found at i:82744073 original size:47 final size:47
Alignment explanation
Indices: 82743999--82744173 Score: 205
Period size: 47 Copynumber: 3.7 Consensus size: 47
82743989 GGAGTAAGGT
*
82743999 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATATCTCGAA
* * * *
82744046 GTCGATGCCATGTCCTAGATATTGTCTTACACTGACTATCATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTAT-ATCTCGAA
* * * *
82744094 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAAGACT-TGTCTCGAT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT--GACTATATCTCGAA
82744140 GTCGATGCCATGTCCCAGACATGGTCTTACACTG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTG
82744174 GCTCACAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
46 25 0.23
47 63 0.58
48 21 0.19
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATATCTCGAA
Found at i:82746411 original size:15 final size:15
Alignment explanation
Indices: 82746393--82746447 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
82746383 AGCCATCCCC
82746393 TTTTATTCTATT-TTA
1 TTTTATT-TATTATTA
82746408 TTTTATTTATTATTA
1 TTTTATTTATTATTA
*
82746423 TTTGT-TATATTATTTA
1 TTT-TATTTATTA-TTA
82746439 TTTTTATTT
1 -TTTTATTT
82746448 TACAAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 4 0.12
15 19 0.58
16 5 0.15
17 5 0.15
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTATTTATTATTA
Found at i:82746430 original size:22 final size:22
Alignment explanation
Indices: 82746405--82746447 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
82746395 TTATTCTATT
*
82746405 TTATTTTATTTATTATTATTTG
1 TTATATTATTTATTATTATTTG
*
82746427 TTATATTATTTATTTTTATTT
1 TTATATTATTTATTATTATTT
82746448 TACAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTATATTATTTATTATTATTTG
Found at i:82746540 original size:18 final size:19
Alignment explanation
Indices: 82746501--82746552 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
82746491 ATTTTTAAAT
**
82746501 TTATTTTAAAATT-TTTTG
1 TTATTTTATTATTATTTTG
82746519 TTATTTCTATT-TTATTTT-
1 TTATTT-TATTATTATTTTG
82746537 TTATTTTATTATTATT
1 TTATTTTATTATTATT
82746553 ATTAGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 19 0.66
19 6 0.21
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTATTTTATTATTATTTTG
Found at i:82751584 original size:17 final size:17
Alignment explanation
Indices: 82751514--82751585 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 17
82751504 AAAAATCCCA
82751514 AAAAAATTAAAAT-AAT
1 AAAAAATTAAAATAAAT
* *
82751530 AAAAAATTCAAATTAAT
1 AAAAAATTAAAATAAAT
82751547 AAAATAACTTAAAATTCTAAAT
1 AAAA-AA-TTAAAA---TAAAT
*
82751569 AAAAAATGAAAATAAAT
1 AAAAAATTAAAATAAAT
82751586 GTTCATCTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
16 12 0.26
17 12 0.26
18 2 0.04
19 5 0.11
20 5 0.11
21 2 0.04
22 8 0.17
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (17 bp):
AAAAAATTAAAATAAAT
Found at i:82751826 original size:36 final size:36
Alignment explanation
Indices: 82751749--82751826 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
82751739 AAATCAAACC
82751749 CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
1 CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
* ** *
82751785 AAATAACAAACAAAGAACTTAGAATCTTCACAA-AAG
1 CAATAACAAACAAAGAACACAAAATCTTCA-AAGAAG
82751821 CAATAA
1 CAATAA
82751827 AGAACTCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.60, C:0.18, G:0.08, T:0.14
Consensus pattern (36 bp):
CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
Found at i:82753708 original size:17 final size:17
Alignment explanation
Indices: 82753688--82753725 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
82753678 TATAAAATAT
*
82753688 TTTTATAACTTTATTTA
1 TTTTATAACTTTATTGA
*
82753705 TTTTATAATTTTATTGA
1 TTTTATAACTTTATTGA
82753722 TTTT
1 TTTT
82753726 TTAGATGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATAACTTTATTGA
Found at i:82754516 original size:10 final size:10
Alignment explanation
Indices: 82754501--82754525 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
82754491 TGCTTATAAT
82754501 TCATACCAAA
1 TCATACCAAA
82754511 TCATACCAAA
1 TCATACCAAA
82754521 TCATA
1 TCATA
82754526 AGCCAAAATC
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:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (10 bp):
TCATACCAAA
Found at i:82755813 original size:18 final size:18
Alignment explanation
Indices: 82755787--82755832 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
82755777 CAATTAATCG
*
82755787 ATAACAATCATTTATTCA
1 ATAACAATCAGTTATTCA
*
82755805 ATAATAATCAGTTATTCA
1 ATAACAATCAGTTATTCA
* *
82755823 GTATCAATCA
1 ATAACAATCA
82755833 ATTGATCGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (18 bp):
ATAACAATCAGTTATTCA
Found at i:82755907 original size:19 final size:19
Alignment explanation
Indices: 82755858--82755909 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
82755848 AGTAACAGTC
*
82755858 AATTATTCAGTAAAAATTA
1 AATTATTCAGTAACAATTA
* **
82755877 GA-TACACAGTAACAATTA
1 AATTATTCAGTAACAATTA
82755895 AATTATTCAGTAACA
1 AATTATTCAGTAACA
82755910 GTCGATCTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATTA
Found at i:82756095 original size:53 final size:53
Alignment explanation
Indices: 82756031--82756151 Score: 172
Period size: 53 Copynumber: 2.3 Consensus size: 53
82756021 TCGGAACAGT
** ** *
82756031 AACAGTAACAGTAGTAGTACGGTACACAGAGTACCTCATTGGAACAAATCT-GG
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAAT-TAGA
*
82756084 AACAATAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATTAGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATTAGA
82756137 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
82756152 GGTAACAGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 1 0.02
53 59 0.98
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATTAGA
Found at i:82756157 original size:59 final size:58
Alignment explanation
Indices: 82756024--82756161 Score: 162
Period size: 53 Copynumber: 2.4 Consensus size: 58
82756014 GCCGAAGTCG
** **
82756024 GAACAGTAACAGTAACAGTAGTAGTACGGTACACAGAGTACCTCATTGGAACAAATCT
1 GAACAGTAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCT
*
82756082 G----G-AACAATAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAAT-T
1 GAACAGTAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCT
*
82756134 AGAAACAGTAACAGTAACGGTAACAGTA
1 -G-AACAGTAACAGTAACAGTAACAGTA
82756162 ACAATATCCG
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
52 1 0.02
53 45 0.68
54 1 0.02
58 2 0.03
59 17 0.26
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (58 bp):
GAACAGTAACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCT
Found at i:82756363 original size:16 final size:16
Alignment explanation
Indices: 82756334--82756367 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
82756324 TAATTCACTT
82756334 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
82756350 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
82756366 TT
1 TT
82756368 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:82758157 original size:42 final size:43
Alignment explanation
Indices: 82758092--82758205 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 43
82758082 TATTACATGC
* * * *
82758092 AATCAAATATCAATGCCATTGTCCTAGACAGGGTCTTATACG-A
1 AATCAAATA-CGATGCCAATGTCCCAGACAGGGTCTTACACGTA
*
82758135 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGTA
*
82758178 AATCTCAAAT-CGATGCCAACGTCCCAGA
1 AA--TCAAATACGATGCCAATGTCCCAGA
82758206 TGTGGTCTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 27 0.44
43 12 0.19
44 17 0.27
45 6 0.10
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGTA
Found at i:82758202 original size:44 final size:42
Alignment explanation
Indices: 82758092--82758225 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 42
82758082 TATTACATGC
* ** * * *
82758092 AATCAAATATCAATGCCATTGTCCTAGACAGGGTCTTATACGA
1 AATCAAATA-CGATGCCAACGTCCCAGACATGGTCTTACACGA
*
82758135 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACACG-A
** *
82758178 AATCTCAAAT-CGATGCCAACGTCCCAGATGTGGTCTTACATGA
1 AA--TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGA
82758221 AATCA
1 AATCA
82758226 CATATCGGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
41 3 0.04
42 27 0.34
43 15 0.19
44 28 0.35
45 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGA
Found at i:82758776 original size:27 final size:28
Alignment explanation
Indices: 82758728--82758781 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
82758718 ATTTCATTTA
* * * *
82758728 TTTCACATTTTAGCCCTCAATTTCTCAT
1 TTTCACAATTTAACCCTAAATTACTCAT
82758756 TTTCACAATTTAACCC-AAATTACTCA
1 TTTCACAATTTAACCCTAAATTACTCA
82758782 AATTCATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.41
Consensus pattern (28 bp):
TTTCACAATTTAACCCTAAATTACTCAT
Found at i:82763307 original size:26 final size:26
Alignment explanation
Indices: 82763271--82763381 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
82763261 TGATACAAAT
82763271 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
82763297 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* **
82763323 TGATAATGGGTTAGGTAAATGTTTTAA
1 TGATAATAGGTTAGGTAAATG-TTCCA
* *
82763350 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
82763376 TGATAA
1 TGATAA
82763382 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 56 0.70
27 24 0.30
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:82763371 original size:53 final size:52
Alignment explanation
Indices: 82763271--82763381 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 52
82763261 TGATACAAAT
*
82763271 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
* * * *
82763323 TGATAATGGGTTAGGTAAATGTTTTAATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCAATGATAATAGGTTAGGTAAATGTTCCA
82763376 TGATAA
1 TGATAA
82763382 GAATTTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 20 0.38
53 33 0.62
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
Found at i:82765038 original size:27 final size:27
Alignment explanation
Indices: 82765000--82765136 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
82764990 GAAGCGTTCG
*
82765000 GGTGGCTATGCCACAAATATCTGATCT
1 GGTGGCTCTGCCACAAATATCTGATCT
82765027 GGTGGCTCTGCCACAAATATCTGATCT
1 GGTGGCTCTGCCACAAATATCTGATCT
*
82765054 GGTGGCTCTGCCACATATATCT-ATTCT
1 GGTGGCTCTGCCACAAATATCTGA-TCT
* *
82765081 GGTGGCTCTGCCACGATTATCTGTATCT
1 GGTGGCTCTGCCACAAATATCTG-ATCT
* * * *
82765109 GGTGACTCTGTCAC-ATTATCTGTTCT
1 GGTGGCTCTGCCACAAATATCTGATCT
82765135 GG
1 GG
82765137 CAGCCATGTT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.06
27 77 0.78
28 15 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
GGTGGCTCTGCCACAAATATCTGATCT
Found at i:82775606 original size:30 final size:30
Alignment explanation
Indices: 82775572--82775632 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82775562 TCCTTAACTC
82775572 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
82775602 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
82775632 A
1 A
82775633 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:82776769 original size:42 final size:43
Alignment explanation
Indices: 82776667--82776815 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 43
82776657 CAATGCGAAC
* *** *
82776667 ATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATT
1 ATCCCAGACATGGTCTTACACAAAATCAAATATCGATGCCAAT
* *
82776710 GTCCTAGACA-GGATCTTACACAAAATCAAATA-CGATGCCAAT
1 ATCCCAGACATGG-TCTTACACAAAATCAAATATCGATGCCAAT
* ** * *
82776752 ATCCCAGACATAGTCTTACACGTGAATCTCAA-ATCGATGCCAAC
1 ATCCCAGACATGGTCTTACAC-AAAATC-AAATATCGATGCCAAT
* *
82776796 ATCCTAGACGTGGTCTTACA
1 ATCCCAGACATGGTCTTACA
82776816 TGAAATCACA
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
42 27 0.32
43 29 0.35
44 28 0.33
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATCCCAGACATGGTCTTACACAAAATCAAATATCGATGCCAAT
Found at i:82778935 original size:89 final size:90
Alignment explanation
Indices: 82778855--82779035 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 90
82778845 TATGTTTCTT
* * * ** ** *
82778855 TTTTTTTTTTGCACTTATTTGGGTACTTGAACCTTCAAAATG-ATCAAAAAGGCCTTC-AAATCT
1 TTTTTCTTTTGCACTCAATTGAATACTTGAACCTTCAAAATGCATCAAAAAAACCCTCAAAAT-T
82778918 TTTCAAAAAAGGCAATTAAGCCCCTA
65 TTTCAAAAAAGGCAATTAAGCCCCTA
*
82778944 TTTTTCTTTTGCACTCAATTGAATACTTGAACTTTCAAAATGCATCAAAAAAACCCTCAAAATTT
1 TTTTTCTTTTGCACTCAATTGAATACTTGAACCTTCAAAATGCATCAAAAAAACCCTCAAAATTT
82779009 TTCAAAAAA---AATTAAGCCCCTA
66 TTCAAAAAAGGCAATTAAGCCCCTA
*
82779031 ATTTT
1 TTTTT
82779036 ATTAAAAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
87 17 0.21
89 36 0.45
90 23 0.29
91 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (90 bp):
TTTTTCTTTTGCACTCAATTGAATACTTGAACCTTCAAAATGCATCAAAAAAACCCTCAAAATTT
TTCAAAAAAGGCAATTAAGCCCCTA
Found at i:82779055 original size:11 final size:11
Alignment explanation
Indices: 82779039--82779074 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
82779029 TAATTTTATT
*
82779039 AAAAATTAGAA
1 AAAAATTATAA
82779050 AAAAATTATAA
1 AAAAATTATAA
*
82779061 AAAATTTATAA
1 AAAAATTATAA
82779072 AAA
1 AAA
82779075 TCGTACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:82779062 original size:9 final size:9
Alignment explanation
Indices: 82779050--82779220 Score: 59
Period size: 10 Copynumber: 18.0 Consensus size: 9
82779040 AAAATTAGAA
82779050 AAAAATTAT
1 AAAAATTAT
82779059 AAAAAATTTAT
1 -AAAAA-TTAT
**
82779070 AAAAATCGT
1 AAAAATTAT
82779079 ACAAAA-TAT
1 A-AAAATTAT
*
82779088 AAAAAATTGT
1 -AAAAATTAT
*
82779098 AAAATTTTAT
1 AAAA-ATTAT
*
82779108 AAAAAATAT
1 AAAAATTAT
82779117 -AAAATATAT
1 AAAAAT-TAT
*
82779126 AGAAA-TAT
1 AAAAATTAT
82779134 AAATAATTAT
1 AAA-AATTAT
*
82779144 -AAAATTTT
1 AAAAATTAT
*
82779152 ATAAACTCGTA-
1 A-AAAAT--TAT
82779163 AGAAAATTAT
1 A-AAAATTAT
82779173 ACAAAATGTA-
1 A-AAAAT-TAT
*
82779183 AAAAAATAT
1 AAAAATTAT
*
82779192 -AAATTTCAT
1 AAAAATT-AT
82779201 AAAAAAATTAT
1 --AAAAATTAT
82779212 AAAAATTAT
1 AAAAATTAT
82779221 CTTACCAAAA
Statistics
Matches: 119, Mismatches: 22, Indels: 41
0.65 0.12 0.23
Matches are distributed among these distances:
8 20 0.17
9 39 0.33
10 41 0.34
11 13 0.11
12 6 0.05
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:82779062 original size:10 final size:10
Alignment explanation
Indices: 82779034--82779147 Score: 69
Period size: 10 Copynumber: 11.8 Consensus size: 10
82779024 GCCCCTAATT
*
82779034 TTATTAAAAA
1 TTATAAAAAA
*
82779044 TTAGAAAAAAA
1 TTA-TAAAAAA
82779055 TTATAAAAAA
1 TTATAAAAAA
82779065 TT-TATAAAAA
1 TTATA-AAAAA
** *
82779075 TCGTACAAAA
1 TTATAAAAAA
82779085 -TATAAAAAA
1 TTATAAAAAA
* **
82779094 TTGTAAAATT
1 TTATAAAAAA
82779104 TTATAAAAAA
1 TTATAAAAAA
*
82779114 -TATAAAATA
1 TTATAAAAAA
*
82779123 -TAT-AGAAA
1 TTATAAAAAA
*
82779131 -TATAAATAA
1 TTATAAAAAA
82779140 TTATAAAA
1 TTATAAAA
82779148 TTTTATAAAC
Statistics
Matches: 78, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
8 6 0.08
9 22 0.28
10 40 0.51
11 10 0.13
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:82779445 original size:27 final size:26
Alignment explanation
Indices: 82779415--82779466 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
82779405 AAAAAAATTC
82779415 TATTTTTAGTAAATTTAAAATTTTTTA
1 TATTTTTA-TAAATTTAAAATTTTTTA
* **
82779442 TATTTTTATTAATTTTTAATTTTTT
1 TATTTTTATAAATTTAAAATTTTTT
82779467 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTTTATAAATTTAAAATTTTTTA
Found at i:82779466 original size:19 final size:19
Alignment explanation
Indices: 82779433--82779505 Score: 51
Period size: 19 Copynumber: 3.7 Consensus size: 19
82779423 GTAAATTTAA
* *
82779433 AATTTTTTATATTTTTATT
1 AATTTTTAATTTTTTTATT
*
82779452 AATTTTTAATTTTTTCTA-A
1 AATTTTTAATTTTTT-TATT
*
82779471 AATTTATT-ATTTTTATAATT
1 AATTT-TTAATTTTT-TTATT
*
82779491 TATTTTCTAATTTTT
1 AATTTT-TAATTTTT
82779506 AATAAAAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 26 0.62
20 10 0.24
21 6 0.14
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTAATTTTTTTATT
Found at i:82779472 original size:38 final size:40
Alignment explanation
Indices: 82779430--82779505 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
82779420 TTAGTAAATT
*
82779430 TAAAATTTTTTATATTTT-T-ATTAATTTT-TAATTTTTTC
1 TAAAATTTATTAT-TTTTATAATTAATTTTCTAATTTTTTC
*
82779468 TAAAATTTATTATTTTTATAATTTATTTTCTAATTTTT
1 TAAAATTTATTATTTTTATAATTAATTTTCTAATTTTT
82779506 AATAAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 4 0.12
38 13 0.39
39 8 0.24
40 8 0.24
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (40 bp):
TAAAATTTATTATTTTTATAATTAATTTTCTAATTTTTTC
Found at i:82779696 original size:12 final size:13
Alignment explanation
Indices: 82779681--82779713 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
82779671 AATTGAGTGC
82779681 AAAAAAAAAA-AG
1 AAAAAAAAAAGAG
82779693 AAAAAAGAAAAGAG
1 AAAAAA-AAAAGAG
82779707 AAAAAAA
1 AAAAAAA
82779714 GAAGGGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 5 0.26
14 8 0.42
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:82784010 original size:198 final size:198
Alignment explanation
Indices: 82783672--82784269 Score: 1153
Period size: 198 Copynumber: 3.0 Consensus size: 198
82783662 CTAACAAAGC
*
82783672 TAAACTCCATTGTAGATACTCGTTATGGATGAATCATCTACTTACAGACTTGTCTCTTTAAATTA
1 TAAACTCCATTGTAGATACTCATTATGGATGAATCATCTACTTACAGACTTGTCTCTTTAAATTA
*
82783737 AATATTAAATATATTGGTGAAGAGTTGTTAAACTCTAAGCAGCTTCTGTGCTCCTGCTTGTGATG
66 AATATTAAATATATTGGTGAAGATTTGTTAAACTCTAAGCAGCTTCTGTGCTCCTGCTTGTGATG
82783802 CATACATTTCATTATGCCCCAAATCATTTTTTTTTTAAAAACCCACTGATAAAAAATATACAGAT
131 CATACATTTCATTATGCCCCAAATCATTTTTTTTTTAAAAACCCACTGATAAAAAATATACAGAT
82783867 CTA
196 CTA
82783870 TAAACTCCATTGTAGATACTCATTATGGATGAATCATCTACTTACAGACTTGTCTCTTTAAATTA
1 TAAACTCCATTGTAGATACTCATTATGGATGAATCATCTACTTACAGACTTGTCTCTTTAAATTA
82783935 AATATTAAATATATTGGTGAAGATTTGTTAAACTCTAAGCAGCTTCTGTGCTCCTGCTTGTGATG
66 AATATTAAATATATTGGTGAAGATTTGTTAAACTCTAAGCAGCTTCTGTGCTCCTGCTTGTGATG
*
82784000 CATACATTTCATTAGGCCCCAAATCATTTTTTTTTTAAAAACCCACTGATAAAAAATATACAGAT
131 CATACATTTCATTATGCCCCAAATCATTTTTTTTTTAAAAACCCACTGATAAAAAATATACAGAT
82784065 CTA
196 CTA
82784068 TAAACTCCATTGTAGATACTCATTATGGATGAATCATCTACTTACAGACTTGTCTCTTTAAATTA
1 TAAACTCCATTGTAGATACTCATTATGGATGAATCATCTACTTACAGACTTGTCTCTTTAAATTA
82784133 AATATTAAATATATTGGTGAAGATTTGTTAAACTCTAAGCAGCTTCTGTGCTCCTGCTTGTGATG
66 AATATTAAATATATTGGTGAAGATTTGTTAAACTCTAAGCAGCTTCTGTGCTCCTGCTTGTGATG
*
82784198 CATACATTTCATTATGCCCCAAATCA-TTTTTTTTAAAAAACCCACTGATAAAAAATATACAGAT
131 CATACATTTCATTATGCCCCAAATCATTTTTTTTTTAAAAACCCACTGATAAAAAATATACAGAT
82784262 CTA
196 CTA
82784265 TAAAC
1 TAAAC
82784270 AAAACAACAA
Statistics
Matches: 395, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
197 45 0.11
198 350 0.89
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (198 bp):
TAAACTCCATTGTAGATACTCATTATGGATGAATCATCTACTTACAGACTTGTCTCTTTAAATTA
AATATTAAATATATTGGTGAAGATTTGTTAAACTCTAAGCAGCTTCTGTGCTCCTGCTTGTGATG
CATACATTTCATTATGCCCCAAATCATTTTTTTTTTAAAAACCCACTGATAAAAAATATACAGAT
CTA
Found at i:82795320 original size:34 final size:36
Alignment explanation
Indices: 82795265--82795334 Score: 117
Period size: 34 Copynumber: 2.0 Consensus size: 36
82795255 TTTTCATTTG
*
82795265 ACTAAAAAAAGCTATTATATCATCATAATTTTTTAT
1 ACTAAAAAAAGCTATTATATCATCAGAATTTTTTAT
82795301 ACTAAAAAAAGCTA-T-TATCATCAGAATTTTTTAT
1 ACTAAAAAAAGCTATTATATCATCAGAATTTTTTAT
82795335 TCACATACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 18 0.55
35 1 0.03
36 14 0.42
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (36 bp):
ACTAAAAAAAGCTATTATATCATCAGAATTTTTTAT
Found at i:82796888 original size:49 final size:49
Alignment explanation
Indices: 82796820--82796976 Score: 160
Period size: 49 Copynumber: 3.2 Consensus size: 49
82796810 TGTTGAGTGT
* *
82796820 CAGTGTAAGACTTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
82796869 CAGTGTAAAACCTGTCTAGGACACT-GCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTAGGACA-TGGCATCGACCTCGATAGATGAAAGC
* * * * **
82796918 CAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGC
82796965 CAGTGTAAGACC
1 CAGTGTAAGACC
82796977 ATGTTTGGGA
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
47 16 0.18
48 2 0.02
49 70 0.79
50 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:82803277 original size:134 final size:134
Alignment explanation
Indices: 82803032--82803299 Score: 455
Period size: 134 Copynumber: 2.0 Consensus size: 134
82803022 AAATCGGATC
* *
82803032 CTTCGCATGTAATCGTGCCAACTGAGGTTGAGATTCAGTCAGAAATGACTTATGGTGAAGAGCCA
1 CTTCACATGTAATCGCGCCAACTGAGGTTGAGATTCAGTCAGAAATGACTTATGGTGAAGAGCCA
* *
82803097 GTAAATATTTTGGCTCAGGAGGTTAAACAATTGAGGAATAAGAGTATAACACTTGTTAAAAATTT
66 ATAAATATTTTGGCTCAGGAGGTTAAACAATTGAGGAATAAGAGTATAACAATTGTTAAAAATTT
82803162 GTGG
131 GTGG
* *
82803166 CTTCACATGTAATCGCGCCAACTGAGGTTGAGATTCTGTCAGATATGACTTATGGTGAAGAGCCA
1 CTTCACATGTAATCGCGCCAACTGAGGTTGAGATTCAGTCAGAAATGACTTATGGTGAAGAGCCA
* * *
82803231 ATAAATATTTTGGCTCGGGAGGTTAAACAATTGAGGAATAAGAGTATAGCAATTGTTAAAATTTT
66 ATAAATATTTTGGCTCAGGAGGTTAAACAATTGAGGAATAAGAGTATAACAATTGTTAAAAATTT
82803296 GTGG
131 GTGG
82803300 TATAGAAATG
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 125 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (134 bp):
CTTCACATGTAATCGCGCCAACTGAGGTTGAGATTCAGTCAGAAATGACTTATGGTGAAGAGCCA
ATAAATATTTTGGCTCAGGAGGTTAAACAATTGAGGAATAAGAGTATAACAATTGTTAAAAATTT
GTGG
Found at i:82804751 original size:46 final size:46
Alignment explanation
Indices: 82804618--82804792 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
82804608 TGATATGTGT
* * * * *
82804618 GCTAGTGCAAGACATGTTTGGGACATGCATC-GACTATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGA-GATGAGA
* * * * ** *
82804664 GCCAATGTAATACATGTCTGGGACATGCATCGGTATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGATGAGA
* * * *
82804710 GCTAGTGTAAGACATGTCTGGGGCATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGAT-GA-GA
* *
82804758 GCTAGTGTAAGACCTGCCTGGGACATGACATCAGC
1 GCTAGTGTAAGACATGTCTGGGACATG-CATCAGC
82804793 TTGTTGAGTG
Statistics
Matches: 102, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
46 66 0.65
47 4 0.04
48 25 0.25
49 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGATGAGA
Found at i:82821396 original size:48 final size:48
Alignment explanation
Indices: 82821304--82821398 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
82821294 TCATGTCAGT
* *
82821304 GCCGATGCCATGTCCCAAACATGGTCTTATACTAGCACACATATCATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACAAATATCATC
* *
82821352 GCCGATGCCATGTCCCAGACATGGTCTTACA-TAGGTACAAATATCAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTA-GCACAAATATCAT
82821399 TAATCACAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACAAATATCATC
Found at i:82825149 original size:40 final size:39
Alignment explanation
Indices: 82825065--82825285 Score: 274
Period size: 40 Copynumber: 5.7 Consensus size: 39
82825055 TTGAATGATG
* * *
82825065 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
82825105 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
82825144 TTCCGGGCTAAG--CCGAAGGCATTTGTGCGAG-TACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
82825181 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
82825220 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
82825260 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
82825286 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 9, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
35 4 0.02
36 6 0.04
37 25 0.15
38 23 0.14
39 10 0.06
40 87 0.53
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:82833016 original size:40 final size:39
Alignment explanation
Indices: 82832959--82833145 Score: 170
Period size: 39 Copynumber: 4.7 Consensus size: 39
82832949 TTGAATGATG
*
82832959 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGAT-ACCA-A
* *
82832999 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACCAA
* *
82833038 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACCAA
* * *
82833077 TTCCGG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATAC-CAA
**
82833117 TCCGGGTTAAG-TCCCGAAGGCATTTGTGC
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC
82833146 GAATTACTAT
Statistics
Matches: 134, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
38 1 0.01
39 72 0.54
40 52 0.39
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACCAA
Found at i:82833119 original size:79 final size:78
Alignment explanation
Indices: 82832959--82833182 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 78
82832949 TTGAATGATG
* * * *
82832959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGG-CTAAG-TCCCGAAGGCAT
82833022 TTGTGCGAGATACTAA
63 TTGTGCGAGATACTAA
82833038 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGCTAAGTCCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGCTAAGTCCCGAAGGCAT
*
82833100 TTGTGCGAGTTACTAAA
63 TTGTGCGAGATACT-AA
** * *
82833117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCC-GGCTAAGTCCCGAAGGCATTT
82833182 G
65 G
82833183 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
77 1 0.01
78 31 0.25
79 62 0.49
80 31 0.25
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (78 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAA
Found at i:82833146 original size:40 final size:40
Alignment explanation
Indices: 82832959--82833182 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
82832949 TTGAATGATG
* * * *
82832959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
82832999 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
82833038 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
82833078 TCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
82833117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
82833158 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
82833183 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 72 0.44
40 81 0.49
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:82833204 original size:79 final size:77
Alignment explanation
Indices: 82832966--82833215 Score: 233
Period size: 79 Copynumber: 3.2 Consensus size: 77
82832956 ATGTCCGGGC
* * * *
82832966 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
82833029 AGATACTAATCCGGAC
64 AG-GACTAATCCGG-T
82833045 TAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCC-GGCTAAGTCCCGAAGGCATTTGTGC
1 TAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
82833106 GAGTTACTAAATCCGGGT
63 GAG-GACT-AATCC-GGT
* * **
82833124 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
82833189 GAGCTATATCCGGT
66 GA-CTA-ATCCGGT
* *
82833203 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
82833216 TACGTGATTT
Statistics
Matches: 145, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
77 1 0.01
78 32 0.22
79 68 0.47
80 43 0.30
81 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (77 bp):
TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTAATCCGGT
Found at i:82836475 original size:75 final size:75
Alignment explanation
Indices: 82836345--82836599 Score: 348
Period size: 75 Copynumber: 3.4 Consensus size: 75
82836335 GCAATTACCA
* * * * * * *
82836345 TTGGTTCATCCAGCTAAAGCTGGGCTCACAATTACTATCGTCAGTATACTCGACTAGTATTGGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATACCCGACTAGCACTGGGT
*
82836410 GCAAACATCG
66 GCAAATATCG
* * *
82836420 TTTGTTTATCCAACTAGAGCTGGGCTCACAATTACTATTGTCGGTATACCCGACTAGCACGGGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATACCCGACTAGCACTGGGT
*
82836485 ACAAATATCG
66 GCAAATATCG
* * * *
82836495 TTGGTTTATCCAACTAGAGATGGGCTCACAATTACTATCATCGGAATACCCGACTAGCACTAGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATACCCGACTAGCACTGGGT
*
82836560 GCAAATATTG
66 GCAAATATCG
*
82836570 TTGGTTTATCCAACTAGAGCTAGGCTCACA
1 TTGGTTTATCCAACTAGAGCTGGGCTCACA
82836600 TTTAATACTG
Statistics
Matches: 157, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 157 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (75 bp):
TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATACCCGACTAGCACTGGGT
GCAAATATCG
Found at i:82843027 original size:75 final size:75
Alignment explanation
Indices: 82842934--82843113 Score: 225
Period size: 75 Copynumber: 2.4 Consensus size: 75
82842924 GTAATTACTG
* * * * ** * *
82842934 TTGGTTCATCCAATTAGAGTTGGGCTCACAATTACTATCGTCGGTATTCCCAACTAGAATTGGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCAGTAAACCCAACTAGAACTAGGT
82842999 GCAAACATCA
66 GCAAACATCA
* * *
82843009 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTGTCGTCAGTAAACCCGACTAGCACTAGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCAGTAAACCCAACTAGAACTAGGT
* *
82843074 GCAAATATCG
66 GCAAACATCA
* *
82843084 TTGGTTTATCCTACTAGAGCTGAGCTCACA
1 TTGGTTTATCCAACTAGAGCTGGGCTCACA
82843114 TTTAATACTG
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (75 bp):
TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCAGTAAACCCAACTAGAACTAGGT
GCAAACATCA
Found at i:82849396 original size:72 final size:72
Alignment explanation
Indices: 82849305--82849492 Score: 243
Period size: 72 Copynumber: 2.6 Consensus size: 72
82849295 TATGTAATGT
* * ** *
82849305 GGGTTCGGGTACTGACTTTGTGTATAAACCTGTGAGTAACTCGCTGAGCAAGCA-TATCATGTTA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCAAGCATTAT-ATGATA
*
82849369 ATGCTTTG
65 ATACTTTG
* **
82849377 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGGGCATTATATGATAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCAAGCATTATATGATAA
82849442 TACTTTG
66 TACTTTG
* * * *
82849449 GGGTCCGGGTGCTGACTTTGTGTACAGACCCGTGAGTAGCTCAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAA
82849493 ATGCGGGCAT
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
72 100 0.97
73 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (72 bp):
GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCAAGCATTATATGATAA
TACTTTG
Found at i:82850028 original size:128 final size:128
Alignment explanation
Indices: 82849800--82850058 Score: 518
Period size: 128 Copynumber: 2.0 Consensus size: 128
82849790 GGACTATGAT
82849800 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
1 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
82849865 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
66 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
82849928 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
1 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
82849993 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
66 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
82850056 ATA
1 ATA
82850059 ATGGAAATTG
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 131 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (128 bp):
ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
Found at i:82853702 original size:25 final size:25
Alignment explanation
Indices: 82853654--82853702 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
82853644 TATAATTGAA
* * *
82853654 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
82853679 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
82853703 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:82854155 original size:43 final size:43
Alignment explanation
Indices: 82854094--82854179 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
82854084 TATGTGATTG
82854094 ATATTGAAATGGCAAATATGATAAATGAATATAAGATGAGAAA
1 ATATTGAAATGGCAAATATGATAAATGAATATAAGATGAGAAA
* *
82854137 ATATTGAAATGGCAAATATGATAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGCAAATATGATAAATGAATATAAGATGAGAAA
82854180 TGAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (43 bp):
ATATTGAAATGGCAAATATGATAAATGAATATAAGATGAGAAA
Found at i:82858985 original size:34 final size:33
Alignment explanation
Indices: 82858919--82858983 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
82858909 AGAAAGAGTG
* * *
82858919 TTTATAATTTTCATGTTCTTGTTACTTTTTTAT
1 TTTATAATTTTAATGTTCTTATAACTTTTTTAT
82858952 TTTATAATTTTAATAGTTCTTATAATCTTTTT
1 TTTATAATTTTAAT-GTTCTTATAA-CTTTTT
82858984 ATAATTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 13 0.48
34 8 0.30
35 6 0.22
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.65
Consensus pattern (33 bp):
TTTATAATTTTAATGTTCTTATAACTTTTTTAT
Found at i:82859035 original size:20 final size:19
Alignment explanation
Indices: 82859012--82859065 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
82859002 ATATTTAGAT
82859012 TTTTAAATAATATTTTACAA
1 TTTTAAATAA-ATTTTACAA
* **
82859032 TTTT-AGTAAATTTTGTAA
1 TTTTAAATAAATTTTACAA
82859050 TTTTAAATAAAATTTT
1 TTTTAAAT-AAATTTT
82859066 TATGATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 11 0.39
19 6 0.21
20 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTAAATAAATTTTACAA
Found at i:82865648 original size:3 final size:3
Alignment explanation
Indices: 82865640--82865666 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
82865630 TCAAGGTGTG
82865640 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
82865667 CTTTAGTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:82879702 original size:3 final size:3
Alignment explanation
Indices: 82879694--82879719 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
82879684 GAATGTATGA
82879694 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
82879720 GTTATAAAGT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:82882730 original size:27 final size:27
Alignment explanation
Indices: 82882700--82882779 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
82882690 AATTCATCAG
82882700 GATAGTAAACACGAGGTAGTCCACCGA
1 GATAGTAAACACGAGGTAGTCCACCGA
* * *
82882727 GATAGTAGAA-ACGGGGTAG-CCTGCCAA
1 GATAGTA-AACACGAGGTAGTCC-ACCGA
* *
82882754 GACAATAAACACGAGGTAGTCCACCG
1 GATAGTAAACACGAGGTAGTCCACCG
82882780 GGATTGACAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.36, C:0.23, G:0.28, T:0.14
Consensus pattern (27 bp):
GATAGTAAACACGAGGTAGTCCACCGA
Found at i:82886905 original size:28 final size:28
Alignment explanation
Indices: 82886842--82886995 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
82886832 ATATTAAGTC
* *
82886842 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
82886869 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
82886897 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
82886925 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
82886953 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
82886981 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82886996 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 102 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:82891018 original size:20 final size:19
Alignment explanation
Indices: 82890976--82891018 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
82890966 AATCGATTCT
* *
82890976 TTTTGTCAAGATTGGTACT
1 TTTTGTCAAGATTGATACA
*
82890995 TTTTGTCAAGTATTGATAGA
1 TTTTGTCAAG-ATTGATACA
82891015 TTTT
1 TTTT
82891019 ATTGAGTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.51
Consensus pattern (19 bp):
TTTTGTCAAGATTGATACA
Found at i:82895442 original size:13 final size:13
Alignment explanation
Indices: 82895424--82895450 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
82895414 TTACTAAAAC
82895424 ATAATATAATATA
1 ATAATATAATATA
82895437 ATAATATAATATA
1 ATAATATAATATA
82895450 A
1 A
82895451 CAGTTAAAAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:82899751 original size:10 final size:10
Alignment explanation
Indices: 82899736--82899769 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
82899726 ATGAAAGGAC
82899736 ATTTTGACGA
1 ATTTTGACGA
82899746 ATTTTGACGA
1 ATTTTGACGA
*
82899756 ATTTTGACAA
1 ATTTTGACGA
82899766 ATTT
1 ATTT
82899770 ATGATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (10 bp):
ATTTTGACGA
Found at i:82902861 original size:14 final size:14
Alignment explanation
Indices: 82902842--82902868 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
82902832 ACCCCAATAA
82902842 CAGATACAGATATT
1 CAGATACAGATATT
82902856 CAGATACAGATAT
1 CAGATACAGATAT
82902869 AATAAATTAA
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:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (14 bp):
CAGATACAGATATT
Found at i:82903161 original size:32 final size:32
Alignment explanation
Indices: 82903109--82903187 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
82903099 GCCCACATGT
* **
82903109 CCGTGTGGCCCACA-AGCCC-AATCTGGCCTTGC
1 CCGTGTGGCCTACACA-CCCAAAT-TGGCCTAAC
*
82903141 CCGTGTGGCGTACACACCCAAATTGGCCTAAC
1 CCGTGTGGCCTACACACCCAAATTGGCCTAAC
*
82903173 TCGTGTGGCCTACAC
1 CCGTGTGGCCTACAC
82903188 GGCCACACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 35 0.90
33 4 0.10
ACGTcount: A:0.19, C:0.37, G:0.24, T:0.20
Consensus pattern (32 bp):
CCGTGTGGCCTACACACCCAAATTGGCCTAAC
Found at i:82907725 original size:40 final size:40
Alignment explanation
Indices: 82907670--82907782 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
82907660 TTATTTGATG
82907670 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
82907710 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
82907750 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
82907783 GTGCTAGATA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 17 0.25
40 52 0.75
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:82915706 original size:40 final size:40
Alignment explanation
Indices: 82915661--82915853 Score: 318
Period size: 40 Copynumber: 4.8 Consensus size: 40
82915651 TTATTTGATG
82915661 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
82915701 TGGAATTGTATCCGGGCTTAAAGACCCGTAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
82915741 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
82915781 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
82915821 TGGAA-TGACATCCGGG-TTAAAAACCAGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
82915854 GTGCTAGATA
Statistics
Matches: 146, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 17 0.12
40 129 0.88
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:82924801 original size:25 final size:25
Alignment explanation
Indices: 82924771--82924820 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
82924761 TTCAAGCGAG
82924771 CTATATC-AGGAAGCTCATAAAGAGC
1 CTATATCGA-GAAGCTCATAAAGAGC
*
82924796 CTATATCGAGATGCTCATAAAGAGC
1 CTATATCGAGAAGCTCATAAAGAGC
82924821 TGCGGTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (25 bp):
CTATATCGAGAAGCTCATAAAGAGC
Found at i:82935828 original size:60 final size:61
Alignment explanation
Indices: 82935764--82935939 Score: 192
Period size: 61 Copynumber: 2.9 Consensus size: 61
82935754 TTACATTTCT
* *
82935764 AGAGTTTTGCCACAAAGGC-ATCCTTTACATCCAATACTCGCCATAGAGGATTTCATGTCC
1 AGAGTTTTGCCACAAAGGCTATCCTTTACATCCAATACTCGCCACAAAGGATTTCATGTCC
* * * * * *
82935824 AGAGTTGTGCCACAAAGGCTATCCTTTACTTTCAATACTCGCTACAAAGGTTTTCTTGTCC
1 AGAGTTTTGCCACAAAGGCTATCCTTTACATCCAATACTCGCCACAAAGGATTTCATGTCC
* * * ** * * * *
82935885 AGAGATTTGCCACAAGGGCTGTTATTTACATTCAGTACTTGCCACAAAGGCTTTC
1 AGAGTTTTGCCACAAAGGCTATCCTTTACATCCAATACTCGCCACAAAGGATTTC
82935940 CTTTGACCAA
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 18 0.19
61 78 0.81
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (61 bp):
AGAGTTTTGCCACAAAGGCTATCCTTTACATCCAATACTCGCCACAAAGGATTTCATGTCC
Found at i:82945646 original size:8 final size:8
Alignment explanation
Indices: 82945633--82945676 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
82945623 AAAATAAAAA
82945633 TAAATAAT
1 TAAATAAT
82945641 TAAATAAT
1 TAAATAAT
82945649 TAAATAAT
1 TAAATAAT
*
82945657 TAAACAAT
1 TAAATAAT
*
82945665 TATAT-AT
1 TAAATAAT
82945672 TAAAT
1 TAAAT
82945677 TAAAAAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAATAAT
Found at i:82946262 original size:16 final size:16
Alignment explanation
Indices: 82946241--82946273 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
82946231 AGAGTGCTAG
82946241 CACAACTACCGGCACC
1 CACAACTACCGGCACC
82946257 CACAACTACCGGCACC
1 CACAACTACCGGCACC
82946273 C
1 C
82946274 TCCGCACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.52, G:0.12, T:0.06
Consensus pattern (16 bp):
CACAACTACCGGCACC
Found at i:82952016 original size:31 final size:31
Alignment explanation
Indices: 82951980--82952053 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
82951970 GGATAATTTC
* * * * *
82951980 TTAACCACCCACATCCTACTAAGTCTCATAA
1 TTAACCACCCACACCCCACTAAATCCCACAA
82952011 TTAACCACCCACACCCCACTAAATCCCACAA
1 TTAACCACCCACACCCCACTAAATCCCACAA
82952042 TTAACCACCCAC
1 TTAACCACCCAC
82952054 CAGATTCCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.36, C:0.43, G:0.01, T:0.19
Consensus pattern (31 bp):
TTAACCACCCACACCCCACTAAATCCCACAA
Found at i:82954585 original size:28 final size:28
Alignment explanation
Indices: 82954539--82954674 Score: 109
Period size: 28 Copynumber: 4.9 Consensus size: 28
82954529 CGCTGTACAA
* *
82954539 TCGATGTCTT-GCACGCTAAGTGCTATACC
1 TCGATGT-TTCGCACACTAAGTGCCAT-CC
*
82954568 -GGATGTTTCGCACACTAAGTGCCATCC
1 TCGATGTTTCGCACACTAAGTGCCATCC
** * *
82954595 TCGATACTTCGCACACTAAGTGTCAT-T
1 TCGATGTTTCGCACACTAAGTGCCATCC
*
82954622 TCGAATGTCTT-GCACACTAAGTGTCATCC
1 TCG-ATGT-TTCGCACACTAAGTGCCATCC
* **
82954651 TCAATACTTCGCACACTAAGTGCC
1 TCGATGTTTCGCACACTAAGTGCC
82954675 GTTCGTTTGG
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
27 9 0.10
28 73 0.85
29 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (28 bp):
TCGATGTTTCGCACACTAAGTGCCATCC
Found at i:82955116 original size:68 final size:63
Alignment explanation
Indices: 82954969--82955116 Score: 174
Period size: 63 Copynumber: 2.3 Consensus size: 63
82954959 ATATAGTTCG
** *
82954969 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGATCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACAAATAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
* *
82955032 GCTCTCTTGT-CTACATGGTGTACAAATAGTATCACCCATGTGACCTAGCTACA-TTATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACAAATAGTACCACCCATGTGACCTAGC--CAGTT-T-A--TC
82955095 TCGTA
59 TCGTA
82955100 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
82955117 ATGTGCACTC
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.01
63 42 0.58
64 2 0.03
65 3 0.04
66 1 0.01
68 22 0.31
69 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACAAATAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
Found at i:82966289 original size:21 final size:22
Alignment explanation
Indices: 82966265--82966306 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
82966255 GAAAGGGAAT
*
82966265 CAAACAGAAAGGAA-ACAAAAG
1 CAAAAAGAAAGGAACACAAAAG
*
82966286 CAAAAAGGAAGGAACACAAAA
1 CAAAAAGAAAGGAACACAAAA
82966307 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.67, C:0.14, G:0.19, T:0.00
Consensus pattern (22 bp):
CAAAAAGAAAGGAACACAAAAG
Found at i:82976170 original size:21 final size:21
Alignment explanation
Indices: 82976144--82976228 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
82976134 TGATCAGTAT
*
82976144 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * *
82976165 ACGACACACGAAGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
82976186 ACGGCACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
* *
82976208 TACGACACATAAAGTTCCTAA
1 -ACGACACACAAAGTGCCTAA
82976229 TCAGTAGAGC
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
21 33 0.67
22 3 0.06
23 13 0.27
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:82976210 original size:23 final size:23
Alignment explanation
Indices: 82976142--82976216 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
82976132 CCTGATCAGT
**
82976142 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAAGTGCCTGAA
82976164 A-ACGACACACGAAGTGCCTG--
1 ATACGACACACGAAGTGCCTGAA
* *
82976184 ATACGGCACACGAGGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
82976207 ATACGACACA
1 ATACGACACA
82976217 TAAAGTTCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAAGTGCCTGAA
Found at i:82976368 original size:24 final size:22
Alignment explanation
Indices: 82976324--82976368 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
82976314 TTTCAATTCT
* *
82976324 CAATTCACTTTCATTTCCAATC
1 CAATTCACTTTCAATTACAATC
82976346 CAATATCACTTTTCAATTACAAT
1 CAAT-TCAC-TTTCAATTACAAT
82976369 TTCACATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 11 0.58
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (22 bp):
CAATTCACTTTCAATTACAATC
Found at i:82980430 original size:96 final size:96
Alignment explanation
Indices: 82980320--82980854 Score: 911
Period size: 96 Copynumber: 5.6 Consensus size: 96
82980310 GTGAACATGC
*
82980320 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
82980385 AATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
*
82980416 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
82980481 AATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
*
82980512 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
82980577 AATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
*
82980608 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
82980673 AA--GCCGATGTGATGAATGTGAAAGTG--T
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
82980700 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
82980765 AATAGCCGATGTGATGAATGTGAAAGTG--T
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * * *
82980794 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
82980855 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 15, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
92 67 0.16
94 102 0.24
96 253 0.60
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:82980438 original size:49 final size:47
Alignment explanation
Indices: 82980299--82980854 Score: 893
Period size: 47 Copynumber: 11.7 Consensus size: 47
82980289 TTAGGATTCT
* * *
82980299 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
82980346 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
82980393 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
82980442 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
82980489 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
82980538 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
82980585 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
82980634 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA--GCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
82980679 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
82980726 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
82980773 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
82980820 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
82980855 TCCCGAAGGG
Statistics
Matches: 480, Mismatches: 20, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
45 45 0.09
46 1 0.00
47 296 0.62
49 138 0.29
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:82980544 original size:22 final size:22
Alignment explanation
Indices: 82980516--82980591 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
82980506 GTGTATATAT
82980516 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
82980538 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
82980563 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
82980585 ATGTGAT
1 ATGTGAT
82980592 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:82985642 original size:183 final size:185
Alignment explanation
Indices: 82985333--82985702 Score: 591
Period size: 183 Copynumber: 2.0 Consensus size: 185
82985323 ACACAAACAA
*
82985333 CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCGAA
1 CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
* *
82985398 CCAAATCAACTTGATCAATAGACACATGCACAAATAACATGAGATTGTCGGTAAAGAATAAATGA
66 CCAAATCAACTTGATCAATAGAAACATGCACAAATAACATGAGATTGTCAGTAAAGAATAAATGA
* * *
82985463 G-C-GTCGAGCCATTACGAGAAACCTTAAGAGGTTTCCAAAGGCGATTCGCTTGT
131 GTCAGTCGAACCATTACGAGAAACCTTAAAAGGTTTCCAAAGGCCATTCGCTTGT
*
82985516 CTTTGACTTGTCTAAATTAGCAACCATCCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
1 CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
* * **
82985581 CCAAATCAACTTGATCAATAGAAACATGCATAAATAACGTGAGATTGTCAGTATGGAATAAATGA
66 CCAAATCAACTTGATCAATAGAAACATGCACAAATAACATGAGATTGTCAGTAAAGAATAAATGA
* *
82985646 GTCAAAGTCGAACCATTACGAGAAACGTTAAAAGGTTTCCAAAGTCCATTCGCTTGT
131 GTC--AGTCGAACCATTACGAGAAACCTTAAAAGGTTTCCAAAGGCCATTCGCTTGT
82985703 TTTTCAAGGA
Statistics
Matches: 170, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 123 0.72
184 1 0.01
187 46 0.27
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (185 bp):
CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
CCAAATCAACTTGATCAATAGAAACATGCACAAATAACATGAGATTGTCAGTAAAGAATAAATGA
GTCAGTCGAACCATTACGAGAAACCTTAAAAGGTTTCCAAAGGCCATTCGCTTGT
Found at i:82986532 original size:35 final size:34
Alignment explanation
Indices: 82986410--82986532 Score: 104
Period size: 35 Copynumber: 3.4 Consensus size: 34
82986400 ACTCGCCCCG
82986410 CTCCATTATGGATGTATAATCTTAAAAATCACTAC
1 CTCCATTATGGATGTATAATCTT-AAAATCACTAC
* * ** * **
82986445 CTCCTTTATGGATGT-TAGATGCATCTATACCCGCCCC
1 CTCCATTATGGATGTATA-AT-C-T-TAAAATCACTAC
82986482 GCTCCATTATGGATGTATAATCTTGAAAATCACTAC
1 -CTCCATTATGGATGTATAATCTT-AAAATCACTAC
*
82986518 CTCCTTTATGGATGT
1 CTCCATTATGGATGT
82986533 TCCCACACTG
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
34 2 0.03
35 31 0.47
36 7 0.11
37 7 0.11
38 17 0.26
39 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (34 bp):
CTCCATTATGGATGTATAATCTTAAAATCACTAC
Found at i:82988017 original size:19 final size:19
Alignment explanation
Indices: 82987993--82988032 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
82987983 ATTAATTTTG
82987993 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
82988012 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
82988031 AT
1 AT
82988033 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:82988480 original size:62 final size:59
Alignment explanation
Indices: 82988397--82988530 Score: 162
Period size: 62 Copynumber: 2.2 Consensus size: 59
82988387 TCCAAAAATA
* * * * *
82988397 ATATTATTTTAAT-AGATTTAATATTTAATTTAATTTAATGTTCATCTTGTAGATAAATATT
1 ATATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTCATC-T-T-GATAAATATT
* * *
82988458 CTGTTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTCATCTTGATAAATATT
82988517 ATATTAATTTAATA
1 ATATTAATTTAATA
82988531 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 22 0.35
60 1 0.02
61 11 0.18
62 28 0.45
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
ATATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTCATCTTGATAAATATT
Found at i:82990026 original size:31 final size:30
Alignment explanation
Indices: 82989959--82990026 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
82989949 AACTTTCAGC
82989959 TCAGTCACTTAACTTTCAAAAAATAACAAA
1 TCAGTCACTTAACTTTCAAAAAATAACAAA
* * * *
82989989 TTAGTCAC-TAACGTTATCGAAAAGTGACAAA
1 TCAGTCACTTAAC-TT-TCAAAAAATAACAAA
82990020 TCAGTCA
1 TCAGTCA
82990027 TCCTCTAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.13
30 9 0.29
31 18 0.58
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (30 bp):
TCAGTCACTTAACTTTCAAAAAATAACAAA
Found at i:82990134 original size:3 final size:3
Alignment explanation
Indices: 82990126--82990179 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
82990116 AAAACATTAA
* * * *
82990126 AAG AAG AAG CAG -AG AAG AAG AAA AAG AAA AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
82990173 AAG AAG A
1 AAG AAG A
82990180 GAGGAAATGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:82992838 original size:40 final size:38
Alignment explanation
Indices: 82992801--82992977 Score: 162
Period size: 39 Copynumber: 4.5 Consensus size: 38
82992791 ATATCCGGAC
82992801 TAAGATCCGAAGGCATTTGTGCGAG-ATACAAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGTAT-CAAA-TCCGGGT
* * *
82992841 TAAGCCCCGAAGGCCTTTGTGCGAGTATTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGTATCAAATCCGGGT
* *
82992880 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAG-TATCAAATCCGGGT
* * *
82992920 TAAGTCCCGAAGGCA-TTGTGTGAGT-TACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGTAT-C-AAATCCGGGT
*
82992959 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
82992978 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 57 0.48
40 57 0.48
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (38 bp):
TAAGTCCGAAGGCATTTGTGCGAGTATCAAATCCGGGT
Found at i:82992889 original size:39 final size:39
Alignment explanation
Indices: 82992754--82992977 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 39
82992744 TTGAATGCTG
* * *
82992754 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ATTAAA
* *
82992794 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-ATACAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTAT-TAAA
* * *
82992833 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTATTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTATTAAA
* *
82992873 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TATTAAA
* * *
82992913 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TATTAAA
* *
82992952 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
82992978 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 64 0.41
40 82 0.52
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTATTAAA
Found at i:82992894 original size:79 final size:78
Alignment explanation
Indices: 82992754--82992977 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 78
82992744 TTGAATGCTG
* * * *
82992754 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-AATAAATCCGGGCTAAG-TCCCGAAGGCATT
82992818 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * * *
82992833 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
82992898 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * * *
82992913 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
82992978 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 10 0.08
79 80 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTAATAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:82992995 original size:79 final size:79
Alignment explanation
Indices: 82992834--82993010 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 79
82992824 AGATACAAAT
* * * * *
82992834 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
82992899 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
82992913 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
82992977 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
82992992 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
82993011 TACGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 25 0.30
79 57 0.70
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:83000839 original size:39 final size:40
Alignment explanation
Indices: 83000704--83000927 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
83000694 TTGAATGCTG
* * * * *
83000704 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
83000744 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
83000783 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
83000823 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
83000863 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
83000902 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
83000928 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 67 0.43
40 82 0.52
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:83000844 original size:79 final size:78
Alignment explanation
Indices: 83000704--83000927 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
83000694 TTGAATGCTG
* * * * *
83000704 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
83000768 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * *
83000783 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
83000848 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
83000863 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
83000928 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 10 0.08
79 81 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:83000945 original size:79 final size:79
Alignment explanation
Indices: 83000784--83000960 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
83000774 AGATACAAAT
* * * *
83000784 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
83000849 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
83000863 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
83000927 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
83000942 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
83000961 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 25 0.30
79 58 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:83003268 original size:19 final size:20
Alignment explanation
Indices: 83003244--83003294 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
83003234 ATATTAAGAA
*
83003244 TATTATTAAAATTCAAA-TT
1 TATTATTAAAATTAAAATTT
83003263 TATTATTAAAA-TAAAATTT
1 TATTATTAAAATTAAAATTT
*
83003282 TAATATTAAAATT
1 TATTATTAAAATT
83003295 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 23 0.82
20 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTATTAAAATTAAAATTT
Found at i:83004450 original size:26 final size:26
Alignment explanation
Indices: 83004417--83004470 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
83004407 CATGCTCACA
83004417 TTTTTTTCTCAATGCTTTCCCAAATT
1 TTTTTTTCTCAATGCTTTCCCAAATT
*
83004443 TTTTTTTCTCAATGCTTTCTCAAATT
1 TTTTTTTCTCAATGCTTTCCCAAATT
83004469 TT
1 TT
83004471 CTCAATGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.20, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTTTTCTCAATGCTTTCCCAAATT
Found at i:83004638 original size:21 final size:21
Alignment explanation
Indices: 83004612--83004656 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
83004602 TCTGTTTAGT
83004612 TGGTGAGAAAACTAAAGAAAA
1 TGGTGAGAAAACTAAAGAAAA
*
83004633 TGGTGAGAAAACTGAAGAAAA
1 TGGTGAGAAAACTAAAGAAAA
83004654 TGG
1 TGG
83004657 ATTTCATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.29, T:0.16
Consensus pattern (21 bp):
TGGTGAGAAAACTAAAGAAAA
Found at i:83015070 original size:19 final size:20
Alignment explanation
Indices: 83015046--83015084 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
83015036 TCTCATTATT
83015046 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
83015065 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
83015085 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:83015102 original size:25 final size:23
Alignment explanation
Indices: 83015046--83015110 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
83015036 TCTCATTATT
*
83015046 TATTTATTTTT-TGTTTT-AA--
1 TATTTATTTTTATATTTTAAATG
*
83015065 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
83015088 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
83015111 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:83015891 original size:39 final size:39
Alignment explanation
Indices: 83015848--83015930 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
83015838 AATCAGTCGT
83015848 AATGAATAATTAGATGTTTGGAATCAGTTAGGCAAAGGG
1 AATGAATAATTAGATGTTTGGAATCAGTTAGGCAAAGGG
83015887 AATGAATAATTAGATGTTTGGAATCAGTTAGGCAAAGGG
1 AATGAATAATTAGATGTTTGGAATCAGTTAGGCAAAGGG
83015926 AATGA
1 AATGA
83015931 GTAGAGGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (39 bp):
AATGAATAATTAGATGTTTGGAATCAGTTAGGCAAAGGG
Found at i:83021219 original size:17 final size:17
Alignment explanation
Indices: 83021199--83021245 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
83021189 TAAATTTTAT
83021199 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
83021216 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
83021234 A-TATTTATATTA
1 ATTATTTATATTA
83021246 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:83021708 original size:5 final size:5
Alignment explanation
Indices: 83021695--83021736 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
83021685 AAATTTTTTC
* *
83021695 ATTCA ATTCG ATTCG ATTCG ATTCG ATTCT ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
83021737 CGAACGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (5 bp):
ATTCG
Found at i:83024345 original size:17 final size:17
Alignment explanation
Indices: 83024323--83024356 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
83024313 TTCAAAACAA
83024323 GTTTATTGTATTTGAGG
1 GTTTATTGTATTTGAGG
83024340 GTTTATTGTATTTGAGG
1 GTTTATTGTATTTGAGG
83024357 TTGTGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (17 bp):
GTTTATTGTATTTGAGG
Found at i:83024722 original size:22 final size:22
Alignment explanation
Indices: 83024680--83024723 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
83024670 GTTTTTTTTT
* *
83024680 AAAAATATTTTATTTATATAAA
1 AAAAATATTTTATATAAATAAA
83024702 AAAAATCATTTTA-ATAAATAAA
1 AAAAAT-ATTTTATATAAATAAA
83024724 TTTCATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATATTTTATATAAATAAA
Found at i:83024847 original size:25 final size:24
Alignment explanation
Indices: 83024813--83024861 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
83024803 TTATCGAAAA
* *
83024813 ATAAACTTTTAAATATTTTTATTTT
1 ATAAAATTTTAAAT-TTTTAATTTT
*
83024838 ATAAAATTTTTAATTTTTAATTTT
1 ATAAAATTTTAAATTTTTAATTTT
83024862 TAAGAATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
ATAAAATTTTAAATTTTTAATTTT
Found at i:83024848 original size:16 final size:18
Alignment explanation
Indices: 83024822--83024854 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
83024812 AATAAACTTT
83024822 TAAATATTTTT-ATTTTA
1 TAAATATTTTTAATTTTA
83024839 TAAA-ATTTTTAATTTT
1 TAAATATTTTTAATTTT
83024855 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAAATATTTTTAATTTTA
Found at i:83028021 original size:25 final size:24
Alignment explanation
Indices: 83027977--83028052 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
83027967 TACAAGATGT
*
83027977 AAACGGTAAGCTTC-TTTGAGCTGA
1 AAACGGTAAGC-TCATATGAGCTGA
*
83028001 ATAACGGTAAGCTCATGTGAGCTGA
1 A-AACGGTAAGCTCATATGAGCTGA
** *
83028026 GAATTGGTAAGCTCATACGAGCTGA
1 -AAACGGTAAGCTCATATGAGCTGA
83028051 AA
1 AA
83028053 TTGGTAACCT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.11
25 38 0.86
26 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (24 bp):
AAACGGTAAGCTCATATGAGCTGA
Found at i:83028059 original size:24 final size:25
Alignment explanation
Indices: 83028006--83028059 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
83027996 GCTGAATAAC
**
83028006 GGTAAGCTCATGTGAGCTGAGAATT
1 GGTAAGCTCATACGAGCTGAGAATT
83028031 GGTAAGCTCATACGAGCTGA-AATT
1 GGTAAGCTCATACGAGCTGAGAATT
83028055 GGTAA
1 GGTAA
83028060 CCTTAATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAGAATT
Found at i:83032768 original size:22 final size:22
Alignment explanation
Indices: 83032743--83032788 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
83032733 AGGGTCACAG
83032743 GCCCGTGAGAGACA-AGGGACAC
1 GCCCGTGAGAGACAGA-GGACAC
*
83032765 GCCCGTGTGAGACAGAGGACAC
1 GCCCGTGAGAGACAGAGGACAC
83032787 GC
1 GC
83032789 TCATGTCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.28, C:0.28, G:0.37, T:0.07
Consensus pattern (22 bp):
GCCCGTGAGAGACAGAGGACAC
Found at i:83034194 original size:46 final size:47
Alignment explanation
Indices: 83034127--83034235 Score: 123
Period size: 46 Copynumber: 2.3 Consensus size: 47
83034117 TATCCCAGAT
* * * *
83034127 ATGGTCTTATACGAGACCTCATACGACG-CAGATG-CAGGTCCTAGAC
1 ATGGTCTTATACGGGACCTCATACGACGCCA-ATGCCAAGTCCCAAAC
** *
83034173 ATGGTCTTATACGGGGTCTCATACGATGCCAATGCCAAGTCCCAAAC
1 ATGGTCTTATACGGGACCTCATACGACGCCAATGCCAAGTCCCAAAC
*
83034220 GTGGTCTTATACGGGA
1 ATGGTCTTATACGGGA
83034236 TCGTATCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
46 27 0.52
47 25 0.48
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (47 bp):
ATGGTCTTATACGGGACCTCATACGACGCCAATGCCAAGTCCCAAAC
Found at i:83034279 original size:48 final size:46
Alignment explanation
Indices: 83034164--83034333 Score: 126
Period size: 48 Copynumber: 3.6 Consensus size: 46
83034154 GCAGATGCAG
* * * * * *
83034164 GTCCTAGACATGGTCTTATACGGGGTC-TCATACGATGCCAATGCCAA
1 GTCCTAAACATGCTCTTATACGGGATCGT-AT-CGATACCGATGCCAT
* * * * * *
83034211 GTCCCAAACGTGGTCTTATACGGGATCGTATCATGGTGCTGATGCCAT
1 GTCCTAAACATGCTCTTATACGGGATCGTATC--GATACCGATGCCAT
* * *
83034259 GTGCTAGACATGCTCTTATACAGGACCTCGTATCGATACCGATGCCAT
1 GTCCTAAACATGCTCTTATACGGGA--TCGTATCGATACCGATGCCAT
* *
83034307 GTCCTAAACATGGTCTTATACGAGATC
1 GTCCTAAACATGCTCTTATACGGGATC
83034334 ATAATAACCC
Statistics
Matches: 96, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
46 3 0.03
47 25 0.26
48 61 0.64
50 7 0.07
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (46 bp):
GTCCTAAACATGCTCTTATACGGGATCGTATCGATACCGATGCCAT
Found at i:83041726 original size:43 final size:43
Alignment explanation
Indices: 83041666--83041785 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
83041656 TTAGGACTTC
* * * **
83041666 CGATATGTGATTTCGTGTAAGACCATGTTTGGGACATTGGCAT
1 CGATATGTGATTACGTGTAAGACCATATCTGGGACAGAGGCAT
* *
83041709 CGATATGAGATTACGTGTAAGACCCTATCTGGGACAGAGGCAT
1 CGATATGTGATTACGTGTAAGACCATATCTGGGACAGAGGCAT
* * *
83041752 CGATATGTGATAACATGTAATACCATATCTGGGA
1 CGATATGTGATTACGTGTAAGACCATATCTGGGA
83041786 TATGACATTG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCATATCTGGGACAGAGGCAT
Found at i:83045429 original size:20 final size:20
Alignment explanation
Indices: 83045383--83045437 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
83045373 TACATAGTGA
83045383 AAGGTATCGATACTTTCTTC
1 AAGGTATCGATACTTTCTTC
*
83045403 AAAGTATCGATACTTTCTT-
1 AAGGTATCGATACTTTCTTC
*
83045422 AAGGGTATTGATACTT
1 AA-GGTATCGATACTT
83045438 CTGACTAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (20 bp):
AAGGTATCGATACTTTCTTC
Done.